Citrus Sinensis ID: 021660

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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-------31
Protein Sequence
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTM
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccEEEEccccccHHHHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHHHccccccccccEEEEEEcccccccHHHHHHHHHHHHHcccccEEEEEEcccccccHHHHccccEEEEccccHHHHHHHHHHHHHHccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccEEEccccccccccccccccccccccccccccccccccccEEEcccccHHHHcccHHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHHHHHcHHHHHHHHHHcccccccHHHHHHHHHHHHcccccccccccccEEEEEccHHHHcHHHHHHHHHHHHHHHcccHEEEEEccHHHccHHHHcccEEEEEccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHcccccHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccHHHHHHHccc
Coil and Loop (DISEMBL)
maeaetvslmdfdedenqnlkpkdngknvivsgtppdikaspwvekyrpqsladvaaHRDIVDTIdrltsenrlphlllygppgtgktSTILAVARKLYGAQYHNMILElnasddrgIDVVRQQIQDfastqsfsfgvKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPalqsrctrfrfaplepvhvTERLKHVIeaegldvteGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLctgnplpkdIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTM
Flexible Loop (DISEMBL)
maeaetvslmdfdedenqnlkpkdngknvivsgtppdikaspwVEKYRPQSLADVAAHRDIVDTidrltsenrlphlllygppgtgkTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFastqsfsfgvKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIeaegldvtegGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEmkmrkglalvdivREVTM
Low Complexity Region (SEG)
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTM
Disordered region (IsUnstruct)
*****************************************PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIV*****
Disordered Region (DISOPRED)
******************************************WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS*****KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTM
Disordered Region (DISEMBL)
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTM
Disordered Region (DISPRO)
**************************************KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTM
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTM
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	309	2.2.26 [Sep-21-2011]
Q9D0F6	339	Replication factor C subu	yes	no	0.857	0.781	0.628	4e-96
P40937	340	Replication factor C subu	yes	no	0.870	0.791	0.608	2e-95
Q54ST4	347	Probable replication fact	yes	no	0.844	0.752	0.616	5e-90
O14003	342	Replication factor C subu	yes	no	0.841	0.760	0.562	1e-86
O74111	338	Replication factor C subu	N/A	no	0.838	0.766	0.543	2e-79
P38629	340	Replication factor C subu	yes	no	0.847	0.770	0.496	1e-74
P34429	368	Probable replication fact	yes	no	0.851	0.714	0.507	1e-73
A6VJ61	315	Replication factor C smal	yes	no	0.851	0.834	0.433	3e-63
Q6M044	315	Replication factor C smal	yes	no	0.851	0.834	0.425	2e-62
Q9HN27	322	Replication factor C smal	yes	no	0.844	0.810	0.452	5e-62

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

 Score =  351 bits (900), Expect = 4e-96,   Method: Compositional matrix adjust.
 Identities = 169/269 (62%), Positives = 212/269 (78%), Gaps = 4/269 (1%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG- 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 SFADSFKRISEMKMRKGLALVDIVREVTM 309
            F  ++K I E+K  KGLAL DI+ EV +
Sbjct: 257 DFTTAYKNIMELKTLKGLALHDILTEVHL 285

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 =  348 bits (894), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 166/273 (60%), Positives = 214/273 (78%), Gaps = 4/273 (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 LLNESFADSFKRISEMKMRKGLALVDIVREVTM 309
           +LN+ F  +++ I+E+K  KGLAL DI+ E+ +
Sbjct: 254 MLNQDFTTAYRNITELKTLKGLALHDILTEIHL 286

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 =  331 bits (848), Expect = 5e-90,   Method: Compositional matrix adjust.
 Identities = 164/266 (61%), Positives = 197/266 (74%), Gaps = 5/266 (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 NESFADSFKRISEMKMRKGLALVDIV 304
           N  + ++F+ IS++K +KGL+L DI+
Sbjct: 263 NSDYEEAFQNISDLKKKKGLSLNDII 288

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 =  320 bits (819), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 148/263 (56%), Positives = 192/263 (73%), Gaps = 3/263 (1%)

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 FADSFKRISEMKMRKGLALVDIV 304
           F  +F  IS +K +KGLAL DI+
Sbjct: 261 FVIAFNTISSIKQQKGLALQDIL 283

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 =  295 bits (756), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 145/267 (54%), Positives = 190/267 (71%), Gaps = 8/267 (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 LNESFADSFKRISEMKMRKGLALVDIV 304
           L+ S+  +    S +K  KGLAL D++
Sbjct: 254 LDGSWESALHTFSYIKQSKGLALADML 280

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 =  280 bits (715), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 135/272 (49%), Positives = 187/272 (68%), Gaps = 10/272 (3%)

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 WLLNESFADSFKRISEMKMRKGLALVDIVREV 307
            +L + +  +   +++++  KGLAL+D++  +
Sbjct: 250 SILEDDWGTAHYTLNKVRSAKGLALIDLIEGI 281

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 =  276 bits (706), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 137/270 (50%), Positives = 177/270 (65%), Gaps = 7/270 (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 YWLLNESFADSFKRISEMKMRKGLALVDIV 304
             LLN+        I       G AL D++
Sbjct: 270 KTLLNDPSKKCMNTIQTKLFENGYALQDVI 299

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|A6VJ61|RFCS_METM7 Replication factor C small subunit OS=Methanococcus maripaludis (strain C7 / ATCC BAA-1331) GN=rfcS PE=3 SV=1

 Score =  241 bits (616), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 117/270 (43%), Positives = 172/270 (63%), Gaps = 7/270 (2%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRPQ+L++V  H +I+  +     +  +PHLL  G PG GKT+  LA+A+ LYG 
Sbjct: 4   PWVEKYRPQTLSEVVGHHEIIKRLTNYVEKKSMPHLLFSGSPGVGKTTAALALAKDLYGE 63

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            +    LELN+SD+RGIDV+R +++DFA T+       A  K++ LDE+DA+T DAQ AL
Sbjct: 64  TWRENFLELNSSDERGIDVIRTKVKDFARTKPIG---DAPFKVIFLDESDALTSDAQNAL 120

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RR +EKY+   RF L CN  +KIIP +QSRC  FRF+PL+   + E LK + E E L + 
Sbjct: 121 RRTMEKYSDICRFVLSCNYPSKIIPPIQSRCAIFRFSPLKTEDLVENLKEISEKENLTLE 180

Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
           +GG+ A++ +  GDMRKA+N+LQ+    S  +TEE VY       P +I++++   LN  
Sbjct: 181 KGGIDAIIYVSEGDMRKAINVLQTAAAVSDTVTEEIVYKVASKARPDEIKKMTQLALNGK 240

Query: 282 FADSFKRISEMKMRKGLA----LVDIVREV 307
           F +S +++  + +  G++    L+ I REV
Sbjct: 241 FVESREQLYNLMIDWGMSGEDILIQIFREV 270

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

Methanococcus maripaludis (strain C7 / ATCC BAA-1331) (taxid: 426368)

>sp|Q6M044|RFCS_METMP Replication factor C small subunit OS=Methanococcus maripaludis (strain S2 / LL) GN=rfcS PE=3 SV=1

 Score =  239 bits (610), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 115/270 (42%), Positives = 174/270 (64%), Gaps = 7/270 (2%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP++L++V  H +I+  +     +  +PHLL  G PG GKT+  LA+A+ LYG 
Sbjct: 4   PWVEKYRPETLSEVVGHHEIIKRLTNYVEKKSMPHLLFSGSPGVGKTTAALALAKDLYGD 63

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            +    LELN+SD+RGIDV+R +++DFA T+       A  K++ LDE+DA+T DAQ AL
Sbjct: 64  TWRENFLELNSSDERGIDVIRTKVKDFARTKPIG---DAPFKVIFLDESDALTSDAQNAL 120

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RR +EKY+   RF L CN  +KIIP +QSRC  FRF+PL+   + E LK + E E L++ 
Sbjct: 121 RRTMEKYSDICRFILSCNYPSKIIPPIQSRCAIFRFSPLKTEDLVENLKDISEKENLNLE 180

Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
           +GG+ A++ +  GDMRKA+N+LQ+    S +ITEE VY       P +I++++   LN  
Sbjct: 181 KGGIDAIIYVSEGDMRKAINVLQTAAAVSDEITEEIVYKVASKARPDEIKKMTQLALNGK 240

Query: 282 FADSFKRISEMKMRKGLA----LVDIVREV 307
           F ++ +++  + +  G++    L+ + REV
Sbjct: 241 FVEAREQLYNLMIDWGMSGEDILIQVFREV 270

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

Methanococcus maripaludis (strain S2 / LL) (taxid: 267377)

>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 =  238 bits (606), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 120/265 (45%), Positives = 168/265 (63%), Gaps = 4/265 (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 ADSFKRISEMKMRKGLALVDIVREV 307
           A +   + ++   +GLA  DI+ +V
Sbjct: 248 AAARATLDDLLTNRGLAGGDIIDQV 272

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)

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	309
225459599	360	PREDICTED: replication factor C subunit	0.983	0.844	0.885	1e-156
224066809	363	predicted protein [Populus trichocarpa]	0.990	0.842	0.869	1e-156
255558636	360	replication factor C / DNA polymerase II	0.974	0.836	0.867	1e-153
449464168	363	PREDICTED: replication factor C subunit	0.990	0.842	0.850	1e-151
356515902	361	PREDICTED: replication factor C subunit	0.983	0.842	0.856	1e-150
356509405	363	PREDICTED: replication factor C subunit	0.990	0.842	0.850	1e-149
357463515	355	Replication factor C subunit [Medicago t	0.925	0.805	0.885	1e-146
297842523	369	hypothetical protein ARALYDRAFT_476911 [	0.983	0.823	0.798	1e-141
357137885	358	PREDICTED: replication factor C subunit	0.980	0.846	0.783	1e-140
326489719	359	predicted protein [Hordeum vulgare subsp	0.983	0.846	0.779	1e-140

>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 =  558 bits (1438), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 271/306 (88%), Positives = 286/306 (93%), Gaps = 2/306 (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 VREVTM 309
           VREVTM
Sbjct: 300 VREVTM 305

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  555 bits (1431), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 267/307 (86%), Positives = 284/307 (92%), Gaps = 1/307 (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 IVREVTM 309
           IVREVTM
Sbjct: 302 IVREVTM 308

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 =  546 bits (1407), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 268/309 (86%), Positives = 284/309 (91%), Gaps = 8/309 (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 VDIVREVTM 309
           VDIVREVTM
Sbjct: 297 VDIVREVTM 305

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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 =  540 bits (1392), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 261/307 (85%), Positives = 277/307 (90%), Gaps = 1/307 (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 IVREVTM 309
           IVREVT+
Sbjct: 302 IVREVTL 308

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  536 bits (1381), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 263/307 (85%), Positives = 275/307 (89%), Gaps = 3/307 (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 IVREVTM 309
           IVREVTM
Sbjct: 300 IVREVTM 306

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  535 bits (1377), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 261/307 (85%), Positives = 274/307 (89%), Gaps = 1/307 (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 IVREVTM 309
           IVREVT+
Sbjct: 302 IVREVTL 308

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 =  523 bits (1348), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 254/287 (88%), Positives = 265/287 (92%), Gaps = 1/287 (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 GNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTM 309
           GNPLPKDIEQISYWLLNE +++SFKRI +MK RKGLAL+DIVREVTM
Sbjct: 254 GNPLPKDIEQISYWLLNEQYSESFKRIYDMKTRKGLALIDIVREVTM 300

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 =  507 bits (1306), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 250/313 (79%), Positives = 273/313 (87%), Gaps = 9/313 (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 GLALVDIVREVTM 309
           GLA+VDIVREVTM
Sbjct: 302 GLAIVDIVREVTM 314

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357137885|ref|XP_003570529.1| PREDICTED: replication factor C subunit 5-like [Brachypodium distachyon]

 Score =  502 bits (1293), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 242/309 (78%), Positives = 268/309 (86%), Gaps = 6/309 (1%)

Query: 1   MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRD 60
           MA A T + MD D        P   GK  + +     +++SPWVEKYRPQSLADVAAHRD
Sbjct: 1   MAGAATTAPMDIDAAA----PPHSKGKAPLSAAAA--VRSSPWVEKYRPQSLADVAAHRD 54

Query: 61  IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV 120
           IVDTIDRLT ENRLPHLLLYGPPGTGKTSTILAVARK+YG+QY NMILELNASD+RGI V
Sbjct: 55  IVDTIDRLTDENRLPHLLLYGPPGTGKTSTILAVARKIYGSQYGNMILELNASDERGIGV 114

Query: 121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ 180
           VRQQIQDFAS  S SFG K +VKLVLLDEADAMTKDAQFALRRVIEKYT++TRFALICN 
Sbjct: 115 VRQQIQDFASAHSLSFGAKPAVKLVLLDEADAMTKDAQFALRRVIEKYTRSTRFALICNH 174

Query: 181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKAL 240
           VNKIIPALQSRCTRFRFAPL+  HV+ERL+H+I++EGLDV EGGL ALVRL +GDMRKAL
Sbjct: 175 VNKIIPALQSRCTRFRFAPLDGSHVSERLQHIIKSEGLDVDEGGLTALVRLSSGDMRKAL 234

Query: 241 NILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLAL 300
           NILQSTHMASQQITEEAVYLCTGNP+PKDIEQI++WLLNE F+ SFK IS+MKMRKGLAL
Sbjct: 235 NILQSTHMASQQITEEAVYLCTGNPMPKDIEQIAFWLLNEPFSTSFKYISDMKMRKGLAL 294

Query: 301 VDIVREVTM 309
           +DI+REVTM
Sbjct: 295 IDIIREVTM 303

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

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 =  502 bits (1292), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 241/309 (77%), Positives = 268/309 (86%), Gaps = 5/309 (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 VDIVREVTM 309
           +DI+REVTM
Sbjct: 296 IDIIREVTM 304

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	309
TAIR|locus:2204710	369	RFC3 "replication factor C sub	0.983	0.823	0.782	2.7e-123
MGI|MGI:1919401	339	Rfc5 "replication factor C (ac	0.851	0.775	0.632	4.3e-86
RGD|1309280	339	Rfc5 "replication factor C (ac	0.851	0.775	0.632	4.3e-86
UNIPROTKB|Q32PI3	316	RFC5 "Uncharacterized protein"	0.864	0.844	0.616	2.4e-85
UNIPROTKB|F1RKG3	354	RFC5 "Uncharacterized protein"	0.864	0.754	0.616	2.4e-85
ZFIN|ZDB-GENE-040907-1	334	rfc5 "replication factor C (ac	0.883	0.817	0.613	2.4e-85
UNIPROTKB|P40937	340	RFC5 "Replication factor C sub	0.864	0.785	0.612	3e-85
UNIPROTKB|E2RCF4	339	RFC5 "Uncharacterized protein"	0.864	0.787	0.616	1.7e-84
UNIPROTKB|J9NUF8	316	RFC5 "Uncharacterized protein"	0.864	0.844	0.616	1.7e-84
DICTYBASE|DDB_G0282235	347	rfc5 "replication factor C sub	0.844	0.752	0.616	4.1e-81

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

 Score = 1212 (431.7 bits), Expect = 2.7e-123, P = 2.7e-123
 Identities = 245/313 (78%), Positives = 272/313 (86%)

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 GLALVDIVREVTM 309
             GLA+VDIV+E+T+
Sbjct:   302 GLAIVDIVKEITL 314

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 = 861 (308.1 bits), Expect = 4.3e-86, P = 4.3e-86
 Identities = 169/267 (63%), Positives = 211/267 (79%)

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 SFADSFKRISEMKMRKGLALVDIVREV 307
              F  ++K I E+K  KGLAL DI+ EV
Sbjct:   257 DFTTAYKNIMELKTLKGLALHDILTEV 283

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 = 861 (308.1 bits), Expect = 4.3e-86, P = 4.3e-86
 Identities = 169/267 (63%), Positives = 211/267 (79%)

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 SFADSFKRISEMKMRKGLALVDIVREV 307
              F  ++K I E+K  KGLAL DI+ EV
Sbjct:   257 DFTTAYKNIMELKTLKGLALHDILTEV 283

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

 Score = 854 (305.7 bits), Expect = 2.4e-85, P = 2.4e-85
 Identities = 167/271 (61%), Positives = 212/271 (78%)

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 LLNESFADSFKRISEMKMRKGLALVDIVREV 307
             +LN+ F  +++ I E+K  KGLAL DI+ E+
Sbjct:   253 MLNQDFTTAYRNIMELKTLKGLALHDILTEI 283

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

 Score = 854 (305.7 bits), Expect = 2.4e-85, P = 2.4e-85
 Identities = 167/271 (61%), Positives = 212/271 (78%)

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 LLNESFADSFKRISEMKMRKGLALVDIVREV 307
             +LN+ F  +++ I E+K  KGLAL DI+ E+
Sbjct:   268 MLNQDFTTAYRNIMELKTLKGLALNDILTEI 298

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

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

 Score = 854 (305.7 bits), Expect = 2.4e-85, P = 2.4e-85
 Identities = 170/277 (61%), Positives = 210/277 (75%)

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 EQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV 307
               I  W LN+ F  ++ +I E+K  KGLAL DI+ EV
Sbjct:   242 ANILDWALNKDFTTAYNQILELKTLKGLALHDILTEV 278

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

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

 Score = 853 (305.3 bits), Expect = 3.0e-85, P = 3.0e-85
 Identities = 166/271 (61%), Positives = 213/271 (78%)

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 LLNESFADSFKRISEMKMRKGLALVDIVREV 307
             +LN+ F  +++ I+E+K  KGLAL DI+ E+
Sbjct:   254 MLNQDFTTAYRNITELKTLKGLALHDILTEI 284

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

 Score = 846 (302.9 bits), Expect = 1.7e-84, P = 1.7e-84
 Identities = 167/271 (61%), Positives = 211/271 (77%)

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 LLNESFADSFKRISEMKMRKGLALVDIVREV 307
             +LN+ F  +++ I E+K  KGLAL DI+ E+
Sbjct:   253 MLNQDFTTAYRNIMELKTLKGLALHDILTEI 283

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|J9NUF8 RFC5 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 846 (302.9 bits), Expect = 1.7e-84, P = 1.7e-84
 Identities = 167/271 (61%), Positives = 211/271 (77%)

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 LLNESFADSFKRISEMKMRKGLALVDIVREV 307
             +LN+ F  +++ I E+K  KGLAL DI+ E+
Sbjct:   253 MLNQDFTTAYRNIMELKTLKGLALHDILTEI 283

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

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

 Score = 814 (291.6 bits), Expect = 4.1e-81, P = 4.1e-81
 Identities = 164/266 (61%), Positives = 197/266 (74%)

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 NESFADSFKRISEMKMRKGLALVDIV 304
             N  + ++F+ IS++K +KGL+L DI+
Sbjct:   263 NSDYEEAFQNISDLKKKKGLSLNDII 288

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

---

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)
Q8ZWS2	RFCS2_PYRAE	No assigned EC number	0.4113	0.8478	0.8213	yes	no
A2SQT3	RFCS_METLZ	No assigned EC number	0.3949	0.8705	0.8380	yes	no
B0R7H7	RFCS_HALS3	No assigned EC number	0.4528	0.8446	0.8105	yes	no
A6US36	RFCS_METVS	No assigned EC number	0.4022	0.8511	0.8349	yes	no
P40937	RFC5_HUMAN	No assigned EC number	0.6080	0.8705	0.7911	yes	no
O26343	RFCS_METTH	No assigned EC number	0.4	0.8608	0.8286	yes	no
Q54ST4	RFC5_DICDI	No assigned EC number	0.6165	0.8446	0.7521	yes	no
A9A6K6	RFCS_METM6	No assigned EC number	0.4222	0.8511	0.8349	yes	no
Q2NH89	RFCS_METST	No assigned EC number	0.4128	0.8414	0.8099	yes	no
Q9HN27	RFCS_HALSA	No assigned EC number	0.4528	0.8446	0.8105	yes	no
Q4JAB0	RFCS_SULAC	No assigned EC number	0.4264	0.8446	0.8030	yes	no
O14003	RFC3_SCHPO	No assigned EC number	0.5627	0.8414	0.7602	yes	no
A4FZ74	RFCS_METM5	No assigned EC number	0.4222	0.8511	0.8349	yes	no
Q3ITJ2	RFCS_NATPD	No assigned EC number	0.4188	0.8446	0.8030	yes	no
Q9D0F6	RFC5_MOUSE	No assigned EC number	0.6282	0.8576	0.7817	yes	no
O28219	RFCS_ARCFU	No assigned EC number	0.4	0.8478	0.8213	yes	no
P34429	RFC5_CAEEL	No assigned EC number	0.5074	0.8511	0.7146	yes	no
A5UMF3	RFCS_METS3	No assigned EC number	0.3917	0.8543	0.8380	yes	no
A6VJ61	RFCS_METM7	No assigned EC number	0.4333	0.8511	0.8349	yes	no
Q0W037	RFCS_UNCMA	No assigned EC number	0.4301	0.8478	0.8136	yes	no
P60374	RFCS_NANEQ	No assigned EC number	0.3895	0.8478	0.8136	yes	no
Q6M044	RFCS_METMP	No assigned EC number	0.4259	0.8511	0.8349	yes	no
Q9YBS7	RFCS_AERPE	No assigned EC number	0.4150	0.8446	0.8030	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

Your Input:
	GSVIVG00015413001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (360 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00024178001	RecName- Full=Proliferating cell nuclear antigen;; This protein is an auxiliary protein of DNA [...] (266 aa)				•	•	•	•		0.963
	GSVIVG00027060001	SubName- Full=Chromosome chr8 scaffold_41, whole genome shotgun sequence; (354 aa)			•	•	•	•	•	•	0.876
	GSVIVG00006013001	RecName- Full=DNA polymerase; EC=2.7.7.7; (1126 aa)				•	•	•	•		0.864
	GSVIVG00022496001	SubName- Full=Chromosome chr14 scaffold_27, whole genome shotgun sequence; (330 aa)				•			•		0.840
	GSVIVG00022150001	RecName- Full=DNA ligase; EC=6.5.1.1; (783 aa)				•	•		•		0.821
	GSVIVG00015431001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (341 aa)			•	•	•	•	•	•	0.811
	GSVIVG00001122001	SubName- Full=Chromosome chr2 scaffold_112, whole genome shotgun sequence; (326 aa)			•	•	•	•	•	•	0.794
	GSVIVG00017275001	SubName- Full=Chromosome chr6 scaffold_15, whole genome shotgun sequence; (854 aa)					•	•	•	•	0.743
	GSVIVG00002439001	RecName- Full=DNA primase; EC=2.7.7.-; (457 aa)				•		•	•		0.743
	GSVIVG00022048001	RecName- Full=DNA polymerase; EC=2.7.7.7; (2224 aa)				•	•	•	•		0.688

---

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	309
PRK00440	319	PRK00440, rfc, replication factor C small subunit;	1e-106
PLN03025	319	PLN03025, PLN03025, replication factor C subunit;	2e-77
PRK12402	337	PRK12402, PRK12402, replication factor C small sub	2e-62
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	2e-58
PHA02544	316	PHA02544, 44, clamp loader, small subunit; Provisi	6e-42
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	1e-31
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	1e-25
COG2812	515	COG2812, DnaX, DNA polymerase III, gamma/tau subun	4e-25
TIGR02397	355	TIGR02397, dnaX_nterm, DNA polymerase III, subunit	7e-25
PRK14953	486	PRK14953, PRK14953, DNA polymerase III subunits ga	8e-25
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	5e-23
PRK14950	585	PRK14950, PRK14950, DNA polymerase III subunits ga	9e-22
PRK14962	472	PRK14962, PRK14962, DNA polymerase III subunits ga	2e-20
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	9e-20
TIGR00678	188	TIGR00678, holB, DNA polymerase III, delta' subuni	3e-19
PRK07133	725	PRK07133, PRK07133, DNA polymerase III subunits ga	6e-17
PRK14970	367	PRK14970, PRK14970, DNA polymerase III subunits ga	6e-17
COG0470	230	COG0470, HolB, ATPase involved in DNA replication	2e-16
PRK14961	363	PRK14961, PRK14961, DNA polymerase III subunits ga	2e-16
PRK14963	504	PRK14963, PRK14963, DNA polymerase III subunits ga	5e-16
PRK08691	709	PRK08691, PRK08691, DNA polymerase III subunits ga	1e-15
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	2e-15
pfam13177	161	pfam13177, DNA_pol3_delta2, DNA polymerase III, de	2e-15
PRK14965	576	PRK14965, PRK14965, DNA polymerase III subunits ga	3e-15
PRK05896	605	PRK05896, PRK05896, DNA polymerase III subunits ga	1e-14
PRK05563	559	PRK05563, PRK05563, DNA polymerase III subunits ga	4e-14
PRK14959	624	PRK14959, PRK14959, DNA polymerase III subunits ga	5e-14
PRK14969	527	PRK14969, PRK14969, DNA polymerase III subunits ga	1e-12
PRK14951	618	PRK14951, PRK14951, DNA polymerase III subunits ga	2e-12
PRK06305	451	PRK06305, PRK06305, DNA polymerase III subunits ga	2e-12
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	5e-12
TIGR00602	637	TIGR00602, rad24, checkpoint protein rad24	1e-11
PRK08451	535	PRK08451, PRK08451, DNA polymerase III subunits ga	2e-11
smart00382	148	smart00382, AAA, ATPases associated with a variety	2e-11
PRK07471	365	PRK07471, PRK07471, DNA polymerase III subunit del	5e-11
PRK14952	584	PRK14952, PRK14952, DNA polymerase III subunits ga	7e-11
PRK14964	491	PRK14964, PRK14964, DNA polymerase III subunits ga	1e-10
PRK14955	397	PRK14955, PRK14955, DNA polymerase III subunits ga	3e-10
PRK14958	509	PRK14958, PRK14958, DNA polymerase III subunits ga	3e-10
PRK06645	507	PRK06645, PRK06645, DNA polymerase III subunits ga	3e-10
PRK12323	700	PRK12323, PRK12323, DNA polymerase III subunits ga	3e-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	2e-09
PRK14971	614	PRK14971, PRK14971, DNA polymerase III subunits ga	3e-09
pfam03215	490	pfam03215, Rad17, Rad17 cell cycle checkpoint prot	3e-09
PRK14957	546	PRK14957, PRK14957, DNA polymerase III subunits ga	5e-09
PRK05707	328	PRK05707, PRK05707, DNA polymerase III subunit del	7e-08
PRK06647	563	PRK06647, PRK06647, DNA polymerase III subunits ga	7e-08
PRK09112	351	PRK09112, PRK09112, DNA polymerase III subunit del	1e-07
PRK07003	830	PRK07003, PRK07003, DNA polymerase III subunits ga	2e-07
PRK05564	313	PRK05564, PRK05564, DNA polymerase III subunit del	2e-07
PRK14956	484	PRK14956, PRK14956, DNA polymerase III subunits ga	4e-07
PRK14948	620	PRK14948, PRK14948, DNA polymerase III subunits ga	3e-06
PRK06964	342	PRK06964, PRK06964, DNA polymerase III subunit del	4e-06
PRK08769	319	PRK08769, PRK08769, DNA polymerase III subunit del	5e-06
pfam13401	124	pfam13401, AAA_22, AAA domain	5e-06
PRK07993	334	PRK07993, PRK07993, DNA polymerase III subunit del	6e-06
PRK07399	314	PRK07399, PRK07399, DNA polymerase III subunit del	2e-05
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	2e-05
PRK06090	319	PRK06090, PRK06090, DNA polymerase III subunit del	2e-05
pfam08542	89	pfam08542, Rep_fac_C, Replication factor C C-termi	3e-05
COG0714	329	COG0714, COG0714, MoxR-like ATPases [General funct	6e-05
PRK00080	328	PRK00080, ruvB, Holliday junction DNA helicase Ruv	6e-05
PRK08699	325	PRK08699, PRK08699, DNA polymerase III subunit del	7e-05
pfam13173	127	pfam13173, AAA_14, AAA domain	1e-04
PRK14960	702	PRK14960, PRK14960, DNA polymerase III subunits ga	2e-04
pfam13086	220	pfam13086, AAA_11, AAA domain	2e-04
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	2e-04
PRK09111	598	PRK09111, PRK09111, DNA polymerase III subunits ga	4e-04
PRK07132	299	PRK07132, PRK07132, DNA polymerase III subunit del	0.001
pfam05496	231	pfam05496, RuvB_N, Holliday junction DNA helicase	0.002
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	0.002
TIGR03922	557	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPas	0.002
TIGR02902	531	TIGR02902, spore_lonB, ATP-dependent protease LonB	0.002
pfam07726	131	pfam07726, AAA_3, ATPase family associated with va	0.002
TIGR02902	531	TIGR02902, spore_lonB, ATP-dependent protease LonB	0.003
TIGR03345	852	TIGR03345, VI_ClpV1, type VI secretion ATPase, Clp	0.003
TIGR02928	365	TIGR02928, TIGR02928, orc1/cdc6 family replication	0.003
PRK07276	290	PRK07276, PRK07276, DNA polymerase III subunit del	0.003

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

 Score =  312 bits (801), Expect = e-106
 Identities = 119/266 (44%), Positives = 177/266 (66%), Gaps = 3/266 (1%)

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 FADSFKRISEMKMRKGLALVDIVREV 307
           F ++ +++ ++ +  GL+  DI++++
Sbjct: 243 FTEAREKLRDLMIDYGLSGEDIIKQI 268

Length = 319

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

 Score =  238 bits (609), Expect = 2e-77
 Identities = 108/233 (46%), Positives = 146/233 (62%), Gaps = 4/233 (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 TEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQI 273
              GL A++   +GDMR+ALN LQ+TH     + +E V+     P P  ++ I
Sbjct: 179 VPEGLEAIIFTADGDMRQALNNLQATHSGFGFVNQENVFKVCDQPHPLHVKNI 231

Length = 319

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

 Score =  200 bits (512), Expect = 2e-62
 Identities = 95/292 (32%), Positives = 156/292 (53%), Gaps = 31/292 (10%)

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-PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV 307
           A Y   G+    + IE +        F D+ K + ++ + +GL+  +++ E+
Sbjct: 241 AAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLLIDEGLSGGEVLEEL 292

Length = 337

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

 Score =  200 bits (510), Expect = 2e-58
 Identities = 96/224 (42%), Positives = 150/224 (66%), Gaps = 7/224 (3%)

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 KDIEQISYWLLNESFADSFKRISEMKMRKGLA----LVDIVREV 307
           +DI ++    L  +F  + +++ E+ +++GL+    LV + REV
Sbjct: 757 EDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHREV 800

Length = 846

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

 Score =  147 bits (372), Expect = 6e-42
 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 = 1e-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|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed

 Score =  105 bits (264), Expect = 1e-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|225369 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

 Score =  104 bits (261), Expect = 4e-25
 Identities = 65/270 (24%), Positives = 126/270 (46%), Gaps = 30/270 (11%)

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 GNPLPKDIEQISYWLLNESFADSFKRISEM 292
           G    + +  +   +L     ++ + I+E+
Sbjct: 242 GLTDIEKLLSLLEAILKGDAKEALRLINEL 271

Length = 515

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

 Score =  102 bits (256), Expect = 7e-25
 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|237867 PRK14953, PRK14953, DNA polymerase III subunits gamma and tau; Provisional

 Score =  103 bits (258), Expect = 8e-25
 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|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 = 92.2 bits (229), Expect = 5e-23
 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 = 94.9 bits (236), Expect = 9e-22
 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|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau; Provisional

 Score = 90.6 bits (225), Expect = 2e-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 = 9e-20
 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 = 83.1 bits (206), Expect = 3e-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|235943 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau; Validated

 Score = 80.6 bits (199), Expect = 6e-17
 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|184934 PRK14970, PRK14970, DNA polymerase III subunits gamma and tau; Provisional

 Score = 79.9 bits (197), Expect = 6e-17
 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|223546 COG0470, HolB, ATPase involved in DNA replication [DNA replication, recombination, and repair]

 Score = 76.6 bits (188), Expect = 2e-16
 Identities = 44/141 (31%), Positives = 74/141 (52%), Gaps = 17/141 (12%)

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 DSFKRISEMKMRKGLALVDIV 304
           ++ +++  + + +GL   D++
Sbjct: 148 EALEKLWLLLLLEGLLGEDLL 168

Length = 230

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

 Score = 77.9 bits (192), Expect = 2e-16
 Identities = 66/287 (22%), Positives = 124/287 (43%), Gaps = 35/287 (12%)

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------FKRISEMKMRKGLALVDIVR 305
              K    ++  LL     DS        +IS + +     L++++R
Sbjct: 244 LNEKQSFLLTDALLK---KDSKKTMLLLNKISSIGIEWENILIEMLR 287

Length = 363

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

 Score = 78.0 bits (192), Expect = 5e-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 = 77.1 bits (189), 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|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score = 71.1 bits (175), Expect = 2e-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|221959 pfam13177, DNA_pol3_delta2, DNA polymerase III, delta subunit

 Score = 72.2 bits (178), Expect = 2e-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 = 3e-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|235638 PRK05896, PRK05896, DNA polymerase III subunits gamma and tau; Validated

 Score = 74.1 bits (182), Expect = 1e-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|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated

 Score = 72.2 bits (178), Expect = 4e-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|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau; Provisional

 Score = 72.0 bits (176), Expect = 5e-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|237873 PRK14969, PRK14969, DNA polymerase III subunits gamma and tau; Provisional

 Score = 67.9 bits (166), Expect = 1e-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 = 67.4 bits (165), 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|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau; Validated

 Score = 67.1 bits (164), Expect = 2e-12
 Identities = 51/215 (23%), Positives = 96/215 (44%), Gaps = 26/215 (12%)

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 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKA 239
           + ++L  + + EG++ +   L  + R   G +R A
Sbjct: 185 IIDKLALIAKQEGIETSREALLPIARAAQGSLRDA 219

Length = 451

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

 Score = 66.2 bits (162), Expect = 5e-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 = 1e-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 = 2e-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 = 60.5 bits (146), Expect = 2e-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 = 5e-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 = 62.6 bits (152), Expect = 7e-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 = 61.7 bits (150), Expect = 1e-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|184919 PRK14955, PRK14955, DNA polymerase III subunits gamma and tau; Provisional

 Score = 60.3 bits (146), Expect = 3e-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|184922 PRK14958, PRK14958, DNA polymerase III subunits gamma and tau; Provisional

 Score = 60.5 bits (146), 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|180643 PRK06645, PRK06645, DNA polymerase III subunits gamma and tau; Validated

 Score = 60.3 bits (146), Expect = 3e-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|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau; Provisional

 Score = 60.7 bits (147), Expect = 3e-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|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 = 2e-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 = 57.5 bits (139), Expect = 3e-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 = 3e-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 = 5e-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 = 52.8 bits (127), 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 = 53.2 bits (128), Expect = 7e-08
 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 = 1e-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 = 51.2 bits (123), Expect = 2e-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 = 4e-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 = 48.0 bits (115), Expect = 3e-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 = 47.4 bits (113), 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 = 46.9 bits (111), 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|222104 pfam13401, AAA_22, AAA domain

 Score = 44.6 bits (106), Expect = 5e-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|181190 PRK07993, PRK07993, DNA polymerase III subunit delta'; Validated

 Score = 47.0 bits (112), Expect = 6e-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|236011 PRK07399, PRK07399, DNA polymerase III subunit delta'; Validated

 Score = 44.9 bits (107), Expect = 2e-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|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 43.3 bits (102), Expect = 2e-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|180394 PRK06090, PRK06090, DNA polymerase III subunit delta'; Validated

 Score = 45.2 bits (107), Expect = 2e-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|203973 pfam08542, Rep_fac_C, Replication factor C C-terminal domain

 Score = 41.7 bits (99), Expect = 3e-05
 Identities = 12/46 (26%), Positives = 29/46 (63%), Gaps = 1/46 (2%)

Query: 263 GNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT 308
           G P P+DI++I   +L   F ++ + + E+ + +G++  DI++++ 
Sbjct: 1   GWPPPEDIKEILDSILKGDFDEARETLYEL-LVEGISAEDILKQLH 45

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

 Score = 44.0 bits (104), Expect = 6e-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|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed

 Score = 43.6 bits (104), Expect = 6e-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|181538 PRK08699, PRK08699, DNA polymerase III subunit delta'; Validated

 Score = 43.3 bits (102), 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|221955 pfam13173, AAA_14, AAA domain

 Score = 41.0 bits (97), Expect = 1e-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|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau; Provisional

 Score = 42.7 bits (100), Expect = 2e-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|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 = 42.3 bits (100), Expect = 2e-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 = 4e-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|180855 PRK07132, PRK07132, DNA polymerase III subunit delta'; Validated

 Score = 39.3 bits (92), Expect = 0.001
 Identities = 32/142 (22%), Positives = 59/142 (41%), Gaps = 12/142 (8%)

Query: 65  IDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNM--------ILELNASDD 115
           +D   ++N++ H  LL           IL    K    Q  N+        I+  +  D 
Sbjct: 8   LDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDK 67

Query: 116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFA 175
              D+ + +     +   FS  V++  K++++   +  +     AL + IE+  K+T F 
Sbjct: 68  ---DLSKSEFLSAINKLYFSSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFL 124

Query: 176 LICNQVNKIIPALQSRCTRFRF 197
           L    +NK++P + SRC  F  
Sbjct: 125 LTTKNINKVLPTIVSRCQVFNV 146

Length = 299

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

 Score = 39.4 bits (92), 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|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB

 Score = 39.0 bits (91), Expect = 0.002
 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|116340 pfam07726, AAA_3, ATPase family associated with various cellular activities (AAA)

 Score = 37.1 bits (87), 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|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB

 Score = 39.0 bits (91), Expect = 0.003
 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 = 0.003
 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 = 0.003
 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

>gnl|CDD|180916 PRK07276, PRK07276, DNA polymerase III subunit delta'; Validated

 Score = 38.1 bits (89), Expect = 0.003
 Identities = 32/129 (24%), Positives = 62/129 (48%), Gaps = 13/129 (10%)

Query: 119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC 178
           D +R+ +++F+ +     G +   ++ ++ +AD M  +A  +L +VIE+        L+ 
Sbjct: 87  DTIRELVKNFSQS-----GYEGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLT 141

Query: 179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRK 238
           N  NK++P ++SR   F F   E       L  ++E +GL  T+  L  L +L      +
Sbjct: 142 NDENKVLPTIKSRTQIFHFPKNEAY-----LIQLLEQKGLLKTQAEL--LAKLAQ-STSE 193

Query: 239 ALNILQSTH 247
           A  + Q+  
Sbjct: 194 AEKLAQNKK 202

Length = 290

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	309
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	100.0
PLN03025	319	replication factor C subunit; Provisional	100.0
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	100.0
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK00440	319	rfc replication factor C small subunit; Reviewed	100.0
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	100.0
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	100.0
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	100.0
COG2256	436	MGS1 ATPase related to the helicase subunit of the	100.0
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	100.0
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	100.0
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12402	337	replication factor C small subunit 2; Reviewed	100.0
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK13342	413	recombination factor protein RarA; Reviewed	100.0
PRK04195	482	replication factor C large subunit; Provisional	100.0
PRK13341	725	recombination factor protein RarA/unknown domain f	100.0
PHA02544	316	44 clamp loader, small subunit; Provisional	99.97
KOG2028	554	consensus ATPase related to the helicase subunit o	99.97
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	99.97
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.97
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	99.97
PRK04132	846	replication factor C small subunit; Provisional	99.96
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.95
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.95
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.94
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.94
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.94
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.93
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.93
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.92
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.92
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.92
PRK07993	334	DNA polymerase III subunit delta'; Validated	99.91
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.9
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.9
PRK08084	235	DNA replication initiation factor; Provisional	99.9
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.9
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.89
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.89
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.89
PRK06893	229	DNA replication initiation factor; Validated	99.88
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.88
PRK08727	233	hypothetical protein; Validated	99.88
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.87
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.87
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.87
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.87
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.86
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.85
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.85
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.84
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.84
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.84
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	99.84
PRK05642	234	DNA replication initiation factor; Validated	99.83
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.83
PRK09087	226	hypothetical protein; Validated	99.82
PRK06620	214	hypothetical protein; Validated	99.82
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.82
CHL00181	287	cbbX CbbX; Provisional	99.81
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.81
PRK05629	318	hypothetical protein; Validated	99.81
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	99.8
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.8
PRK12422	445	chromosomal replication initiation protein; Provis	99.8
PRK05907	311	hypothetical protein; Provisional	99.8
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.8
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.8
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.79
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.79
CHL00195	489	ycf46 Ycf46; Provisional	99.79
PRK07452	326	DNA polymerase III subunit delta; Validated	99.79
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.79
PRK05917	290	DNA polymerase III subunit delta'; Validated	99.79
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.79
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.79
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.78
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.78
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.78
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.78
PRK07914	320	hypothetical protein; Reviewed	99.78
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.78
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.78
PRK08487	328	DNA polymerase III subunit delta; Validated	99.77
PRK07132	299	DNA polymerase III subunit delta'; Validated	99.77
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.77
PRK08699	325	DNA polymerase III subunit delta'; Validated	99.77
PRK07276	290	DNA polymerase III subunit delta'; Validated	99.77
CHL00176	638	ftsH cell division protein; Validated	99.77
PRK06585	343	holA DNA polymerase III subunit delta; Reviewed	99.76
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.76
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.75
PRK05818	261	DNA polymerase III subunit delta'; Validated	99.74
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.73
TIGR01128	302	holA DNA polymerase III, delta subunit. subunit ar	99.72
PRK05574	340	holA DNA polymerase III subunit delta; Reviewed	99.72
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.72
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.71
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.71
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.7
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.7
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.69
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.69
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.69
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.69
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.68
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.68
PRK10865	857	protein disaggregation chaperone; Provisional	99.67
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.67
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.66
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.66
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.65
CHL00095	821	clpC Clp protease ATP binding subunit	99.64
COG1466	334	HolA DNA polymerase III, delta subunit [DNA replic	99.64
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.64
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.63
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.63
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.63
CHL00206	2281	ycf2 Ycf2; Provisional	99.62
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.61
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.61
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	99.61
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.61
PF00004	132	AAA: ATPase family associated with various cellula	99.61
PRK14700	300	recombination factor protein RarA; Provisional	99.61
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.61
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.6
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.6
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.59
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	99.59
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.59
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.58
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.58
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.58
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.57
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.57
PRK06581	263	DNA polymerase III subunit delta'; Validated	99.57
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.56
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.56
PRK13531	498	regulatory ATPase RavA; Provisional	99.54
COG2204	464	AtoC Response regulator containing CheY-like recei	99.53
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.53
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.53
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.53
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.52
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.52
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	99.51
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.51
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.5
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.5
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.5
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.5
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.5
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.5
PRK10865	857	protein disaggregation chaperone; Provisional	99.5
KOG1514	767	consensus Origin recognition complex, subunit 1, a	99.5
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.49
CHL00095	821	clpC Clp protease ATP binding subunit	99.49
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.49
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.48
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.48
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	99.48
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.47
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	99.46
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.46
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.45
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	99.44
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.44
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.44
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.44
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.41
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.41
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.39
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.39
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.38
COG0714	329	MoxR-like ATPases [General function prediction onl	99.37
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.36
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.36
KOG0482	721	consensus DNA replication licensing factor, MCM7 c	99.35
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.34
PHA02244	383	ATPase-like protein	99.34
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.34
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.34
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.33
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.33
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.33
PRK08485	206	DNA polymerase III subunit delta'; Validated	99.32
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.32
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.32
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.3
PRK15115	444	response regulator GlrR; Provisional	99.3
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.28
PF07726	131	AAA_3: ATPase family associated with various cellu	99.27
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.27
smart00350	509	MCM minichromosome maintenance proteins.	99.27
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.27
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.27
PRK13765	637	ATP-dependent protease Lon; Provisional	99.23
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.23
PF06144	172	DNA_pol3_delta: DNA polymerase III, delta subunit;	99.2
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.19
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.19
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	99.18
PF13173	128	AAA_14: AAA domain	99.17
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	99.17
PRK04841	903	transcriptional regulator MalT; Provisional	99.16
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	99.16
PRK12377	248	putative replication protein; Provisional	99.15
PRK08181	269	transposase; Validated	99.15
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	99.13
PRK06526	254	transposase; Provisional	99.13
PRK08116	268	hypothetical protein; Validated	99.11
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.11
PF05729	166	NACHT: NACHT domain	99.1
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.1
PF14516	331	AAA_35: AAA-like domain	99.1
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.1
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	99.07
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.06
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.03
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	99.03
PRK07952	244	DNA replication protein DnaC; Validated	99.02
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	99.02
smart00382	148	AAA ATPases associated with a variety of cellular	98.97
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.97
COG1241	682	MCM2 Predicted ATPase involved in replication cont	98.96
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.96
PRK09183	259	transposase/IS protein; Provisional	98.95
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.95
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.94
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.94
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.93
PRK09862	506	putative ATP-dependent protease; Provisional	98.92
PRK06835	329	DNA replication protein DnaC; Validated	98.92
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.91
PRK06921	266	hypothetical protein; Provisional	98.9
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.89
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	98.89
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.86
KOG0736	953	consensus Peroxisome assembly factor 2 containing	98.85
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.84
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.83
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.82
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	98.82
PRK08939	306	primosomal protein DnaI; Reviewed	98.81
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	98.8
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.74
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.71
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.7
PHA02774	613	E1; Provisional	98.66
PHA00729	226	NTP-binding motif containing protein	98.61
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.58
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.57
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	98.55
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.52
COG3899	849	Predicted ATPase [General function prediction only	98.52
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.51
COG4650	531	RtcR Sigma54-dependent transcription regulator con	98.5
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.5
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.48
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.47
PRK04132	846	replication factor C small subunit; Provisional	98.44
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.44
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	98.43
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.42
PTZ00202	550	tuzin; Provisional	98.39
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.39
PRK10536	262	hypothetical protein; Provisional	98.38
PRK04296	190	thymidine kinase; Provisional	98.38
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	98.32
PHA02624	647	large T antigen; Provisional	98.31
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	98.28
KOG0481	729	consensus DNA replication licensing factor, MCM5 c	98.27
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	98.26
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	98.2
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	98.18
PRK13695	174	putative NTPase; Provisional	98.18
cd03216	163	ABC_Carb_Monos_I This family represents the domain	98.17
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	98.17
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	98.16
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.16
) 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	98.12
KOG0479	818	consensus DNA replication licensing factor, MCM3 c	98.12
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	98.1
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.07
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	98.05
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	98.04
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	98.04
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	98.02
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.02
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.02
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	98.02
COG2884	223	FtsE Predicted ATPase involved in cell division [C	98.0
COG1485	367	Predicted ATPase [General function prediction only	98.0
PRK14974	336	cell division protein FtsY; Provisional	97.99
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.99
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.99
PRK08118	167	topology modulation protein; Reviewed	97.97
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.97
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.96
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.96
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.95
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.94
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.94
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	97.93
PRK15455	644	PrkA family serine protein kinase; Provisional	97.92
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.92
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	97.92
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	97.9
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.9
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.89
PRK10875	615	recD exonuclease V subunit alpha; Provisional	97.88
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.88
cd01128	249	rho_factor Transcription termination factor rho is	97.88
cd03246	173	ABCC_Protease_Secretion This family represents the	97.88
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.88
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	97.87
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.87
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.87
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.86
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.85
PRK14532	188	adenylate kinase; Provisional	97.83
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.83
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.83
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.82
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.82
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	97.81
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.8
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.8
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.8
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.8
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.78
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	97.78
PRK06067	234	flagellar accessory protein FlaH; Validated	97.78
PF13245	76	AAA_19: Part of AAA domain	97.78
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.77
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.76
PRK07261	171	topology modulation protein; Provisional	97.76
PRK09376	416	rho transcription termination factor Rho; Provisio	97.74
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.74
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	97.73
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	97.73
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.73
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.72
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	97.71
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	97.71
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.69
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.69
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.69
smart00487	201	DEXDc DEAD-like helicases superfamily.	97.68
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.68
PRK11823	446	DNA repair protein RadA; Provisional	97.67
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.67
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	97.67
PRK13889	988	conjugal transfer relaxase TraA; Provisional	97.66
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.65
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.65
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.64
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.63
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.63
PRK14528	186	adenylate kinase; Provisional	97.62
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	97.62
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	97.62
KOG3928	461	consensus Mitochondrial ribosome small subunit com	97.62
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.61
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.61
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.61
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.6
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	97.6
cd03215	182	ABC_Carb_Monos_II This family represents domain II	97.6
PRK12608	380	transcription termination factor Rho; Provisional	97.6
PRK06762	166	hypothetical protein; Provisional	97.59
TIGR02533	486	type_II_gspE general secretory pathway protein E.	97.57
COG4178	604	ABC-type uncharacterized transport system, permeas	97.57
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	97.56
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.56
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.56
TIGR00767	415	rho transcription termination factor Rho. Members	97.56
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.56
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.55
KOG1808	1856	consensus AAA ATPase containing von Willebrand fac	97.53
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.53
PRK06547	172	hypothetical protein; Provisional	97.52
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.52
CHL00195	489	ycf46 Ycf46; Provisional	97.51
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	97.5
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.49
PLN02840	421	tRNA dimethylallyltransferase	97.49
PRK14531	183	adenylate kinase; Provisional	97.49
PHA02530	300	pseT polynucleotide kinase; Provisional	97.48
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	97.48
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.48
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	97.48
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	97.48
PRK04328	249	hypothetical protein; Provisional	97.47
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	97.47
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.47
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.47
PRK13833	323	conjugal transfer protein TrbB; Provisional	97.46
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	97.46
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	97.46
PRK00131	175	aroK shikimate kinase; Reviewed	97.46
PRK06696	223	uridine kinase; Validated	97.45
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.44
PRK13826	1102	Dtr system oriT relaxase; Provisional	97.44
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.44
PRK10436	462	hypothetical protein; Provisional	97.43
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.43
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.43
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	97.43
COG0324	308	MiaA tRNA delta(2)-isopentenylpyrophosphate transf	97.43
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	97.42
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.42
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	97.42
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.42
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	97.41
PRK04040	188	adenylate kinase; Provisional	97.41
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	97.41
PRK13764	602	ATPase; Provisional	97.41
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	97.41
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	97.41
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	97.41
PRK00279	215	adk adenylate kinase; Reviewed	97.4
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.4
PF09439	181	SRPRB: Signal recognition particle receptor beta s	97.39
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.38
PRK14737	186	gmk guanylate kinase; Provisional	97.38
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.37
PRK05973	237	replicative DNA helicase; Provisional	97.37
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.37
PRK13947	171	shikimate kinase; Provisional	97.37
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	97.37
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	97.36
PRK03839	180	putative kinase; Provisional	97.36
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	97.36
KOG2383	467	consensus Predicted ATPase [General function predi	97.36
cd03269	210	ABC_putative_ATPase This subfamily is involved in	97.36
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	97.35
PRK02496	184	adk adenylate kinase; Provisional	97.35
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	97.34
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	97.34
PRK07667	193	uridine kinase; Provisional	97.33
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	97.33
PRK14729	300	miaA tRNA delta(2)-isopentenylpyrophosphate transf	97.33
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	97.32
TIGR00959	428	ffh signal recognition particle protein. This mode	97.3
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.3
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.3
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	97.3
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	97.29
PRK00625	173	shikimate kinase; Provisional	97.28
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.28
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	97.28
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	97.28
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	97.27
COG1100	219	GTPase SAR1 and related small G proteins [General	97.27
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.27
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.27
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	97.26
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	97.26
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.26
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.25
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.25
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	97.25
PRK10416	318	signal recognition particle-docking protein FtsY;	97.24
COG3378	517	Phage associated DNA primase [General function pre	97.24
PLN02348	395	phosphoribulokinase	97.24
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.24
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	97.23
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	97.23
PRK10867	433	signal recognition particle protein; Provisional	97.23

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

Probab=100.00  E-value=3.8e-43  Score=282.60  Aligned_cols=269  Identities=37%  Similarity=0.656  Sum_probs=243.6

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC-cccccEEEEecCCCcc
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNASDDRG  117 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~~~~~  117 (309)
                      ....|.++|+|+++++++||+.++..|.+.+.+...|++|||||||||||+++.+++++++++ -+...+.+.+.++.++
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            556799999999999999999999999999999888999999999999999999999999884 4566677888888888


Q ss_pred             hHHHHHHHHHhhhcccccc---C-CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhccee
Q 021660          118 IDVVRQQIQDFASTQSFSF---G-VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (309)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~---~-~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~  193 (309)
                      ...++..+..+.......-   + .-...+++||||+|.|+.++++.|.+.|++.+..++||++||....++..+.+||.
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            8888888887766544321   1 11245899999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcC-HHHHHhhhCCCChHHHHH
Q 021660          194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQIT-EEAVYLCTGNPLPKDIEQ  272 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~-~~~v~~~~~~~~~~~~~~  272 (309)
                      .+.|++++.+.+...|+.++.++|+.++++++..|++.++|++|.++..||.++..++.|+ ...++.+.+...++.+.+
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            9999999999999999999999999999999999999999999999999999999989999 445556666899999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          273 ISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       273 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +++....+|........++++ +.|.+|.+++++|.
T Consensus       262 lle~a~S~d~~~~v~~~Rei~-~sg~~~~~lmsQLa  296 (346)
T KOG0989|consen  262 LLELALSADTPNTVKRVREIM-RSGYSPLQLMSQLA  296 (346)
T ss_pred             HHHHHHccChHHHHHHHHHHH-HhccCHHHHHHHHH
Confidence            999999999999999999999 99999999999885

>PLN03025 replication factor C subunit; Provisional

Probab=100.00  E-value=9.1e-42  Score=292.94  Aligned_cols=265  Identities=43%  Similarity=0.696  Sum_probs=240.1

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHH
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (309)
                      .||.+||||.++++++|+++++..|..++..+..++++|+||||+|||++++.+++++.+.++...+.+++..+..+.+.
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            37999999999999999999999999999999889999999999999999999999998877777788888887777777


Q ss_pred             HHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCC
Q 021660          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL  200 (309)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~  200 (309)
                      ++..+..+...... +. ..+.++++|||+|.++...++.|.+.++.++..+++|+++|...++.+.+++||..+.|.++
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            77777766543221 11 12578999999999999999999999999888899999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHHHHHhcC
Q 021660          201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNE  280 (309)
Q Consensus       201 ~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~  280 (309)
                      +.+++..++..+++++|+.+++++++.+++.++||+|.+++.|+.+....+.|+.+++.+.++......++.+++++..+
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            99999999999999999999999999999999999999999999766544679999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          281 SFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       281 ~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +...++..+.+++ ..|++|.+|+..|.
T Consensus       239 ~~~~a~~~l~~ll-~~g~~~~~Il~~l~  265 (319)
T PLN03025        239 KFDDACDGLKQLY-DLGYSPTDIITTLF  265 (319)
T ss_pred             CHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            9999999999999 88999999998874

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

Probab=100.00  E-value=2.3e-41  Score=261.92  Aligned_cols=268  Identities=41%  Similarity=0.663  Sum_probs=253.6

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      -..+|.++|||..+.|+||+++.++.+.-....+.+|+++|.||||+||||.+.++|+++.+..+...+.+++.++.++.
T Consensus        13 ~~l~wVeKYrP~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGI   92 (333)
T KOG0991|consen   13 YQLPWVEKYRPSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGI   92 (333)
T ss_pred             ccchHHHhhCchHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCcccccc
Confidence            44669999999999999999999999999999999999999999999999999999999998888889999999999999


Q ss_pred             HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021660          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (309)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~  198 (309)
                      +.++..++.+++.....-..  +.+++|+||+|.+....+.+|...|+-++..++|.++||...++.+.+.+||..+.|.
T Consensus        93 DvVRn~IK~FAQ~kv~lp~g--rhKIiILDEADSMT~gAQQAlRRtMEiyS~ttRFalaCN~s~KIiEPIQSRCAiLRys  170 (333)
T KOG0991|consen   93 DVVRNKIKMFAQKKVTLPPG--RHKIIILDEADSMTAGAQQALRRTMEIYSNTTRFALACNQSEKIIEPIQSRCAILRYS  170 (333)
T ss_pred             HHHHHHHHHHHHhhccCCCC--ceeEEEeeccchhhhHHHHHHHHHHHHHcccchhhhhhcchhhhhhhHHhhhHhhhhc
Confidence            99999999988765542222  6789999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHHHHHh
Q 021660          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (309)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~  278 (309)
                      .+++.++...+...++.+++.++++.++.+.-.+.||+|.++|.||......+.++.+.|...++.+....+.+++....
T Consensus       171 klsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiifta~GDMRQalNnLQst~~g~g~Vn~enVfKv~d~PhP~~v~~ml~~~~  250 (333)
T KOG0991|consen  171 KLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFTAQGDMRQALNNLQSTVNGFGLVNQENVFKVCDEPHPLLVKKMLQACL  250 (333)
T ss_pred             ccCHHHHHHHHHHHHHHhCCCCCcchHHHhhhhccchHHHHHHHHHHHhccccccchhhhhhccCCCChHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999998889999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHhcCCCHHHHHHHhhC
Q 021660          279 NESFADSFKRISEMKMRKGLALVDIVREVTM  309 (309)
Q Consensus       279 ~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~~  309 (309)
                      ..+.+.+++.++++- +.|+||.+|+..++|
T Consensus       251 ~~~~~~A~~il~~lw-~lgysp~Dii~~~FR  280 (333)
T KOG0991|consen  251 KRNIDEALKILAELW-KLGYSPEDIITTLFR  280 (333)
T ss_pred             hccHHHHHHHHHHHH-HcCCCHHHHHHHHHH
Confidence            999999999999988 999999999998875

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.8e-40  Score=287.13  Aligned_cols=264  Identities=19%  Similarity=0.331  Sum_probs=233.9

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc---------------
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ---------------  102 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~---------------  102 (309)
                      +..+|+++|||.+|++++||++++..|..++..++.++ ++|+||+|+|||++|+.+++.+.+..               
T Consensus         4 ~~~~L~~KyRP~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~   83 (484)
T PRK14956          4 THEVLSRKYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLE   83 (484)
T ss_pred             CcchhHHHhCCCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHH
Confidence            45679999999999999999999999999999999887 89999999999999999999998742               


Q ss_pred             ----ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021660          103 ----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       103 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                          ....+.+++.....+.+.++...........     ...++|+||||+|.++.+.++.|++.+++++.++.||++|
T Consensus        84 i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~-----~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaT  158 (484)
T PRK14956         84 ITKGISSDVLEIDAASNRGIENIRELRDNVKFAPM-----GGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILAT  158 (484)
T ss_pred             HHccCCccceeechhhcccHHHHHHHHHHHHhhhh-----cCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeec
Confidence                2335677777666677777766555432211     1257899999999999999999999999999999999999


Q ss_pred             cCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHh-hcCCcCHHH
Q 021660          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEA  257 (309)
Q Consensus       179 ~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~  257 (309)
                      +...++.+++++||+.+.|.+++.+++.+++++++..+|+.++++++..|++.++|++|.+++.|+.+.. ..+.++.+.
T Consensus       159 te~~kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~Gd~RdAL~lLeq~i~~~~~~it~~~  238 (484)
T PRK14956        159 TEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSFMEQAIVFTDSKLTGVK  238 (484)
T ss_pred             CChhhccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCChHHHHHHHHHHHHHhCCCCcCHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999977553 346799999


Q ss_pred             HHhhhCCCChHHHHHHHHHHhcCCH-HHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          258 VYLCTGNPLPKDIEQISYWLLNESF-ADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       258 v~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      |.+.++...++.++++++++.++|. ..++.++++++ ..|++|.+++..|.
T Consensus       239 V~~~lg~~~~~~~~~l~~si~~~d~~~~al~~l~~l~-~~G~d~~~~~~~l~  289 (484)
T PRK14956        239 IRKMIGYHGIEFLTSFIKSLIDPDNHSKSLEILESLY-QEGQDIYKFLWDSI  289 (484)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            9999999999999999999999875 58999999999 99999999988764

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.1e-39  Score=288.89  Aligned_cols=262  Identities=20%  Similarity=0.351  Sum_probs=237.0

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..+|.+||||.+|+++|||+++++.|.+++..++.++ +||+||+|+|||++|+.+++.++|..                
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            4579999999999999999999999999999999888 79999999999999999999998742                


Q ss_pred             ---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                         ...++++++.....+.+.++..+........     ..+.+|+||||+|.++.+..+.|++.|+++++++.||++|+
T Consensus        83 ~~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~-----~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlatt  157 (509)
T PRK14958         83 DEGRFPDLFEVDAASRTKVEDTRELLDNIPYAPT-----KGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATT  157 (509)
T ss_pred             hcCCCceEEEEcccccCCHHHHHHHHHHHhhccc-----cCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEEC
Confidence               2345888888777888888877766543322     12578999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v  258 (309)
                      +..+++..+.+||..++|.+++.+++..++.++++++|+.++++++..|++.++|++|.+++.++.+..++ +.|+.++|
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            99999999999999999999999999999999999999999999999999999999999999998776554 68999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      ..+++......++++++++..+|...++..+++++ ..|.++..++..|
T Consensus       238 ~~~lg~~~~~~i~~ll~al~~~d~~~~l~~~~~l~-~~g~~~~~il~~l  285 (509)
T PRK14958        238 KTMLGTIEPLLLFDILEALAAKAGDRLLGCVTRLV-EQGVDFSNALADL  285 (509)
T ss_pred             HHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHH
Confidence            99999999999999999999999999999999999 9999998777655

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.1e-38  Score=284.10  Aligned_cols=265  Identities=22%  Similarity=0.339  Sum_probs=237.5

Q ss_pred             CCCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc--------------
Q 021660           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ--------------  102 (309)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~--------------  102 (309)
                      .+..+|.++|||.+|++++||+++++.+.+.+..++.++ ++|+||+|+|||++|+.+++.++|..              
T Consensus         6 ~~y~~la~kyRP~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C   85 (507)
T PRK06645          6 NQYIPFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQC   85 (507)
T ss_pred             ccccchhhhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCC
Confidence            356789999999999999999999999999988887665 99999999999999999999998742              


Q ss_pred             ---------ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCce
Q 021660          103 ---------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTR  173 (309)
Q Consensus       103 ---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~  173 (309)
                               ....+.+++.....+.+.++..+......+   +.  ..++++||||+|.++...++.|++.++++++.+.
T Consensus        86 ~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P---~~--~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~v  160 (507)
T PRK06645         86 TNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKP---LQ--GKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHII  160 (507)
T ss_pred             hHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhcc---cc--CCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEE
Confidence                     234677888777778888888776654332   12  2689999999999999999999999999999999


Q ss_pred             EEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc---
Q 021660          174 FALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS---  250 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~---  250 (309)
                      ||++++...++++++.+||..++|.+++.+++..+++.+++++|+.+++++++.|++.++|++|.+++.|+++...+   
T Consensus       161 fI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~~  240 (507)
T PRK06645        161 FIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAKS  240 (507)
T ss_pred             EEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999886544   


Q ss_pred             -CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          251 -QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       251 -~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                       +.||.++|.++++......++++++++..++...++..+.+++ ..|.+|..++..|.
T Consensus       241 ~~~It~~~V~~llg~~~~~~if~L~~ai~~~d~~~Al~~l~~L~-~~g~~~~~~l~~l~  298 (507)
T PRK06645        241 DNIISPQVINQMLGLVDSSVIIEFVEYIIHRETEKAINLINKLY-GSSVNLEIFIESVS  298 (507)
T ss_pred             CCCcCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence             2699999999999999999999999999999999999999999 99999999886553

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=8.8e-39  Score=288.85  Aligned_cols=262  Identities=22%  Similarity=0.332  Sum_probs=233.7

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ...|.+||||++|+++|||+++++.|.+++..++.++ +||+||+|+|||++++.+++.++|+.                
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            4568999999999999999999999999999998888 79999999999999999999998742                


Q ss_pred             ---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                         ...++++++.....+.+.++..+........     ..+.+|+||||+|.|+...++.|++.|++++.++.||++|+
T Consensus        83 ~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~-----~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTt  157 (830)
T PRK07003         83 DEGRFVDYVEMDAASNRGVDEMAALLERAVYAPV-----DARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATT  157 (830)
T ss_pred             hcCCCceEEEecccccccHHHHHHHHHHHHhccc-----cCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEEC
Confidence               1235788888777788888877765543211     12578999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh-cCCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (309)
                      +..++.+.+++||+.+.|.+++.+++.++|++++..+++.++++.+..|++.++|++|.++++++.+..+ .+.|+.+.|
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             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      ..+++......++++++.+..++...++..+.+++ ..|.+...++..|
T Consensus       238 ~~~LG~~d~~~i~~ll~aL~~~d~~~~l~~~~~l~-~~g~~~~~~l~dL  285 (830)
T PRK07003        238 SGMLGALDQTYMVRLLDALAAGDGPEILAVADEMA-LRSLSFSTALQDL  285 (830)
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHH
Confidence            99999999999999999999999999999999999 8999877666554

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.1e-38  Score=281.73  Aligned_cols=259  Identities=23%  Similarity=0.356  Sum_probs=234.7

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccC-------------------
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGA-------------------  101 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~-------------------  101 (309)
                      .|+++|||.+|+++|||+.+++.+.+++..++.++ ++|+||+|+||||+|+.+++.++|.                   
T Consensus         2 ~la~KyRP~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~   81 (491)
T PRK14964          2 NLALKYRPSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKN   81 (491)
T ss_pred             ChhHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhc
Confidence            48899999999999999999999999999998886 9999999999999999999998763                   


Q ss_pred             cccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      +...++++++.....+.+.++..+......+.   .  .+++++||||+|.++.+..+.|++.++++++.+.||++++..
T Consensus        82 ~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~---~--~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~  156 (491)
T PRK14964         82 SNHPDVIEIDAASNTSVDDIKVILENSCYLPI---S--SKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEV  156 (491)
T ss_pred             cCCCCEEEEecccCCCHHHHHHHHHHHHhccc---c--CCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCCh
Confidence            24567889998877888888887766543322   2  268999999999999999999999999999999999999999


Q ss_pred             cccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHHh
Q 021660          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYL  260 (309)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~~  260 (309)
                      .++++.+.+||+.++|.+++.+++..++.++++++|+.+++++++.|++.++|++|.+++.|+++..++ +.||.++|.+
T Consensus       157 ~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~GslR~alslLdqli~y~~~~It~e~V~~  236 (491)
T PRK14964        157 KKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSNNKISEKSVRD  236 (491)
T ss_pred             HHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCCHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999887654 6799999999


Q ss_pred             hhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          261 CTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       261 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      +++......++++++++.++|...++..+++++ ..| +|..++..|
T Consensus       237 llg~~~~~~If~L~~aI~~~d~~~Al~~l~~Ll-~~g-~~~~i~~~l  281 (491)
T PRK14964        237 LLGCVDKHILEDLVEAILLGDAQSALNVFRELC-NTS-NPVIILEGM  281 (491)
T ss_pred             HHccCCHHHHHHHHHHHHCCCHHHHHHHHHHHH-hcC-CHHHHHHHH
Confidence            999999999999999999999999999999999 655 788887765

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.5e-38  Score=280.96  Aligned_cols=262  Identities=24%  Similarity=0.395  Sum_probs=232.0

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-----------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------  102 (309)
                      ..|.++|||.+|++++||+++.+.+.+.+..++.++ ++|+||||+||||+|+.+++.+.+..                 
T Consensus         2 ~~l~~kyRP~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~   81 (472)
T PRK14962          2 EALYRKYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSID   81 (472)
T ss_pred             chhHHHHCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHh
Confidence            458999999999999999999999999999998877 89999999999999999999997642                 


Q ss_pred             --ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          103 --YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       103 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                        ....+.+++.....+.+.++.... .....+. +   ..+++++|||+|.+..+.++.|++.+++++..+++|++++.
T Consensus        82 ~g~~~dv~el~aa~~~gid~iR~i~~-~~~~~p~-~---~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn  156 (472)
T PRK14962         82 EGTFMDVIELDAASNRGIDEIRKIRD-AVGYRPM-E---GKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTN  156 (472)
T ss_pred             cCCCCccEEEeCcccCCHHHHHHHHH-HHhhChh-c---CCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCC
Confidence              133677788776677777765443 3332221 1   25789999999999998999999999999888999988887


Q ss_pred             CcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHH
Q 021660          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (309)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~  259 (309)
                      +..+.+++.+||..+.|.+++.+++..++++.+..+++.+++++++.|++.++||+|.+++.|+.+.... +.||.+++.
T Consensus       157 ~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~~~It~e~V~  236 (472)
T PRK14962        157 LEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSEGKITLETVH  236 (472)
T ss_pred             hHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            7889999999999999999999999999999999999999999999999999999999999999877654 569999999


Q ss_pred             hhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .+++....+.++++++++.++|++.+++++++++ ..|.+|..|++.|.
T Consensus       237 ~~l~~~~~~~i~~li~si~~~d~~~Al~~l~~ll-~~Gedp~~i~r~l~  284 (472)
T PRK14962        237 EALGLIPIEVVRDYINAIFNGDVKRVFTVLDDVY-YSGKDYEVLIQQAI  284 (472)
T ss_pred             HHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999 89999999998875

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4e-38  Score=285.36  Aligned_cols=263  Identities=25%  Similarity=0.376  Sum_probs=236.8

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ...|.+||||.+|+++||++++++.|.+++..++.++ +||+||+|+|||++++.+++.++|.+                
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            4579999999999999999999999999999999888 79999999999999999999998742                


Q ss_pred             --------ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceE
Q 021660          103 --------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRF  174 (309)
Q Consensus       103 --------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~  174 (309)
                              ...++++++.....+.+.+++.+........     ..+.+|+||||+|.|+....+.|++.+++++..+.|
T Consensus        83 ~C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~-----~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~f  157 (618)
T PRK14951         83 ACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPV-----QGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKF  157 (618)
T ss_pred             HHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcc-----cCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEE
Confidence                    2346778877766778888877765433222     125889999999999999999999999999999999


Q ss_pred             EEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCc
Q 021660          175 ALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQI  253 (309)
Q Consensus       175 i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i  253 (309)
                      |++|++..+++..+++||..++|.+++.+++..++++++.++|+.++++++..|++.++|++|.+++.++.+...+ +.|
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            9999999999999999999999999999999999999999999999999999999999999999999997665444 679


Q ss_pred             CHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          254 TEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       254 ~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +.+.|.++++......++++++++..++...++..+.++. ..|.++..|+..|.
T Consensus       238 t~~~V~~~Lg~~~~~~i~~LldaL~~~d~~~al~~l~~l~-~~G~~~~~il~~l~  291 (618)
T PRK14951        238 QEAAVRQMLGSVDRSHVFRLIDALAQGDGRTVVETADELR-LNGLSAASTLEEMA  291 (618)
T ss_pred             CHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999 89999999988764

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.5e-38  Score=282.78  Aligned_cols=261  Identities=23%  Similarity=0.340  Sum_probs=235.2

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc------------------
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------  102 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~------------------  102 (309)
                      .|.++|||.+|++++||+++++.|.+++..++.+| ++|+||+|+|||++++.+++.++|..                  
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 79999999999999999999998642                  


Q ss_pred             ---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                         ...++++++.....+.+.+++...........     ..++|+||||+|.++.+.++.|++.|++++..++||++++
T Consensus        82 ~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~-----~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tt  156 (584)
T PRK14952         82 NGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQ-----SRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATT  156 (584)
T ss_pred             ccCCCceEEEeccccccCHHHHHHHHHHHHhhhhc-----CCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeC
Confidence               23567778776666788877665544332211     2688999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc--CCcCHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEA  257 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~--~~i~~~~  257 (309)
                      ...++.+++++||+.++|.+++.+++.+++.++++++|+.++++++..|++.++|++|.+++.|+.+..+.  +.||.++
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            99999999999999999999999999999999999999999999999999999999999999999987764  6899999


Q ss_pred             HHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       258 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +..+++......++++++++..+|...++..+.+++ ..|.++.+|+..|.
T Consensus       237 v~~llg~~~~~~i~~lv~al~~~d~~~al~~l~~l~-~~g~d~~~~l~~L~  286 (584)
T PRK14952        237 ALGLLGATDVALIDDAVDALAADDAAALFGAIESVI-DAGHDPRRFATDLL  286 (584)
T ss_pred             HHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            999999999999999999999999999999999999 99999999888764

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=3.9e-38  Score=281.39  Aligned_cols=262  Identities=23%  Similarity=0.357  Sum_probs=234.6

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..+|.+||||.+|+++|||+++++.|.+++..++.+| +||+||+|+|||++++.+++.++|.+                
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            4679999999999999999999999999999999988 79999999999999999999998732                


Q ss_pred             --------ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceE
Q 021660          103 --------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRF  174 (309)
Q Consensus       103 --------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~  174 (309)
                              ...++++++.....+++.+++.+........     ..+.+|+||||+|.|+....+.|++.||+++.++.|
T Consensus        83 sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~-----~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~F  157 (700)
T PRK12323         83 ACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPT-----AGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKF  157 (700)
T ss_pred             HHHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchh-----cCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceE
Confidence                    1236778887777788888887776544321     126889999999999999999999999999999999


Q ss_pred             EEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh-cCCc
Q 021660          175 ALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQI  253 (309)
Q Consensus       175 i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~-~~~i  253 (309)
                      |++|++..++.++++|||+.+.|.+++.+++.+++++++.++++.++++++..|++.++|++|.++++++.+... .+.+
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            999999999999999999999999999999999999999999999999999999999999999999999764443 3679


Q ss_pred             CHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          254 TEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       254 ~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      +.+.|.++++......+.++++.+..++...++..+.++. +.|.++..++..|
T Consensus       238 t~~~V~~~LG~~d~~~i~~Ll~aL~~~d~~~~l~l~~~l~-~~G~d~~~~L~dL  290 (700)
T PRK12323        238 SEEAVRGMLGAIDQSYLVRLLDALAAEDGAALLAIADEMA-GRSLSFAGALQDL  290 (700)
T ss_pred             CHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999998 9999987766655

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.1e-38  Score=280.34  Aligned_cols=261  Identities=17%  Similarity=0.298  Sum_probs=233.5

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccC------------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGA------------------  101 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~------------------  101 (309)
                      .+|+++|||.+|++++|++++++.|.+++.+++.++ ++|+||+|+|||++|+.+++.++|.                  
T Consensus         3 ~~LarKyRPktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~   82 (702)
T PRK14960          3 QVLARKYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVN   82 (702)
T ss_pred             hhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHh
Confidence            468999999999999999999999999999998877 7999999999999999999999763                  


Q ss_pred             -cccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          102 -QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       102 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                       +...++++++.....+.+.++..+........     ..+++|+||||+|.++....+.|++.+++++..+.||+++++
T Consensus        83 ~g~hpDviEIDAAs~~~VddIReli~~~~y~P~-----~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd  157 (702)
T PRK14960         83 EGRFIDLIEIDAASRTKVEDTRELLDNVPYAPT-----QGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTD  157 (702)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhhhhh-----cCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECC
Confidence             23346788888766777888777665443221     125789999999999999999999999999999999999999


Q ss_pred             CcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHH
Q 021660          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (309)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~  259 (309)
                      ..+++..+++||..+.|.+++.+++.+++.++++++|+.++++++..|++.++|++|.+++.++.+..++ +.|+.++|.
T Consensus       158 ~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~GdLRdALnLLDQaIayg~g~IT~edV~  237 (702)
T PRK14960        158 PQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDALSLTDQAIAYGQGAVHHQDVK  237 (702)
T ss_pred             hHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999997765544 689999999


Q ss_pred             hhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      .+++......++++++++..++...++..+.++. ..|.++..++..|
T Consensus       238 ~lLG~~d~e~IfdLldAI~k~d~~~al~~L~el~-~~g~d~~~~l~~L  284 (702)
T PRK14960        238 EMLGLIDRTIIYDLILAVHQNQREKVSQLLLQFR-YQALDVSLVLDQL  284 (702)
T ss_pred             HHhccCCHHHHHHHHHHHHhcCHHHHHHHHHHHH-HhCCCHHHHHHHH
Confidence            9999999999999999999999999999999999 9999998776655

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.5e-37  Score=270.65  Aligned_cols=263  Identities=24%  Similarity=0.337  Sum_probs=230.1

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..+|+++|||.+|++++||+++++.+.+.+..++.+| ++|+||+|+|||++|+.+++.+.|..                
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            4579999999999999999999999999999988888 79999999999999999999997532                


Q ss_pred             ---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                         ...++.+++.......+.+++.+......+   +  ...++++||||+|.++...++.|++.+++++..+.+|++++
T Consensus        83 ~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p---~--~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~  157 (363)
T PRK14961         83 EKGLCLDLIEIDAASRTKVEEMREILDNIYYSP---S--KSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATT  157 (363)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhcCc---c--cCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcC
Confidence               123455565544455566665554433221   1  12578999999999999889999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v  258 (309)
                      ....+.+++.+||..++|.+++.+++.+++..+++.+|+.+++++++.+++.++|++|.+++.++.+...+ +.|+.++|
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            88899999999999999999999999999999999999999999999999999999999999998876554 67999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .++++......++++++++..++...++..+.+++ ..|.+|.+++..|.
T Consensus       238 ~~~l~~~~~~~i~~l~~ai~~~~~~~~~~~~~~l~-~~g~~~~~il~~l~  286 (363)
T PRK14961        238 TDMLGLLNEKQSFLLTDALLKKDSKKTMLLLNKIS-SIGIEWENILIEML  286 (363)
T ss_pred             HHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999 88999999988764

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.7e-37  Score=277.81  Aligned_cols=260  Identities=25%  Similarity=0.396  Sum_probs=233.2

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc------------------c
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------Y  103 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~------------------~  103 (309)
                      +.++|||.+|++++||++++..|.+++..++.++ ++|+||||+||||+++.+++.+.+.+                  .
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            4599999999999999999999999999999888 59999999999999999999997642                  3


Q ss_pred             cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          104 HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      ..++.+++.....+.+.+++........ +  +.  .+++++||||++.+....++.|++.+++++..+.+|++++...+
T Consensus        84 h~dv~el~~~~~~~vd~iR~l~~~~~~~-p--~~--~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~k  158 (504)
T PRK14963         84 HPDVLEIDAASNNSVEDVRDLREKVLLA-P--LR--GGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEK  158 (504)
T ss_pred             CCceEEecccccCCHHHHHHHHHHHhhc-c--cc--CCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhh
Confidence            4457777776666677776654433322 1  11  26889999999999999999999999999888999999998889


Q ss_pred             cchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhC
Q 021660          184 IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTG  263 (309)
Q Consensus       184 l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~  263 (309)
                      +.+.+.+||..+.|.+++.+++..++.++++++|+.+++++++.|++.++|++|.+++.|+++....+.||.++|..+++
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             CCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          264 NPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       264 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ....+.++++++++..++...++..+++++ ..|.+|..|+..|.
T Consensus       239 ~~~~~~if~Li~al~~~d~~~Al~~l~~Ll-~~G~~~~~Il~~L~  282 (504)
T PRK14963        239 LPPQERLRGIAAALAQGDAAEALSGAAQLY-RDGFAARTLVEGLL  282 (504)
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            999999999999999999999999999999 88999999998875

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.3e-37  Score=278.59  Aligned_cols=263  Identities=23%  Similarity=0.375  Sum_probs=234.2

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc---------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (309)
                      ..+|.++|||.+|++++||+.+++.+.+++..++.++ ++|+||+|+|||++|+.+++.+.|.++               
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            3579999999999999999999999999999888777 999999999999999999999987532               


Q ss_pred             ----cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                          ..++.+++.....+.+.++..+..+...+.   .  .++++++|||+|.+..+.++.|++.+++++..+++|++|+
T Consensus        83 ~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~---~--~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt  157 (605)
T PRK05896         83 NTNQSVDIVELDAASNNGVDEIRNIIDNINYLPT---T--FKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATT  157 (605)
T ss_pred             HcCCCCceEEeccccccCHHHHHHHHHHHHhchh---h--CCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECC
Confidence                245667766555677777776655443222   1  2578999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcC-CcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-QITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~-~i~~~~v  258 (309)
                      ...++.+++++||+.++|.+++..++..++..++.++|+.+++++++.+++.++|++|.+++.|+.++.+.+ .|+.++|
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            999999999999999999999999999999999999999999999999999999999999999999877653 4999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ..+++......++.+++++..++...++..+++++ ..|.+|.+++..|.
T Consensus       238 ~ellg~~~~~~Vf~Ll~AI~~kd~~~al~~l~~Ll-~~ge~~~~il~~L~  286 (605)
T PRK05896        238 NKTFGLVDNNKKINLIELIQKNDIEELRNLINELE-SKGINFEAFCRDLI  286 (605)
T ss_pred             HHHhccCCHHHHHHHHHHHHCCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            99999888888999999999999999999999999 99999999988774

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.5e-37  Score=285.91  Aligned_cols=263  Identities=21%  Similarity=0.330  Sum_probs=232.6

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc---------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (309)
                      ..+|.+||||.+|+++|||++++..|.+++..++.++ +||+||+|+|||++++.+++.++|...               
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            3579999999999999999999999999999999998 699999999999999999999987521               


Q ss_pred             ----cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                          ...+++++.....+.+.++..+..+.....     ..+++|+||||+|.|+.+.++.|++.|++++..++||++|+
T Consensus        83 ~~g~~~DviEidAas~~kVDdIReLie~v~~~P~-----~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTT  157 (944)
T PRK14949         83 AQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPS-----RGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATT  157 (944)
T ss_pred             hcCCCceEEEeccccccCHHHHHHHHHHHHhhhh-----cCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECC
Confidence                234566666545667777776665533221     12678999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh-cCCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (309)
                      ...++.+.+++||.++.|.+++.+++..+|++++..+++.++++++..|++.++|++|.++++|+.+... .+.++.+.|
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            9999999999999999999999999999999999999999999999999999999999999999765543 367999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ..+++......+..+++++.+++...++.++++++ ..|.++..|+..|.
T Consensus       238 ~~llG~iD~~~V~~llksI~~~D~~aaL~~l~~Ll-~~G~D~~~ILr~Ll  286 (944)
T PRK14949        238 QTMLGSIDEQHVIALLKALTDADIGVLMQTCAQVL-AFGADAQEVLRSLL  286 (944)
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            99999888888999999999999999999999999 99999999998874

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=2.5e-37  Score=280.93  Aligned_cols=268  Identities=24%  Similarity=0.372  Sum_probs=238.7

Q ss_pred             CCCCCCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc----------
Q 021660           35 PPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------  103 (309)
Q Consensus        35 ~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~----------  103 (309)
                      +.....++|.++|||.+|++++||+.+++.|.+++..++.++ ++|+||+|+|||++++.+++.+.|.+.          
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            344456789999999999999999999999999999998887 999999999999999999999987532          


Q ss_pred             --------------cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc
Q 021660          104 --------------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT  169 (309)
Q Consensus       104 --------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~  169 (309)
                                    ..++++++.....+.+.+++.+...... +.  .  .+++|+||||+|.++....+.|+++|++++
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 CGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYR-PV--S--ARYKVYIIDEVHMLSTAAFNALLKTLEEPP  160 (598)
T ss_pred             CcccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhc-hh--c--CCcEEEEEEChHhCCHHHHHHHHHHHHhCC
Confidence                          2356677766667788888766654332 21  1  268999999999999999999999999999


Q ss_pred             CCceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Q 021660          170 KNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       170 ~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      ..++||++++..+++.+.+++||+.++|.+++.+++..|+.++++++|+.+++++++.|++.++|++|.+++.|+++...
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            99999999999999999999999999999999999999999999999999999999999999999999999999877654


Q ss_pred             c-CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          250 S-QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       250 ~-~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      + +.||.++|+.+++......++++++++..++...++..+.+++ ..|.+|..++..|.
T Consensus       241 g~g~It~e~V~~llg~~~~~~if~L~~ai~~gd~~~Al~~l~~l~-~~G~~p~~il~~L~  299 (598)
T PRK09111        241 GAGEVTAEAVRDMLGLADRARVIDLFEALMRGDVAAALAEFRAQY-DAGADPVVVLTDLA  299 (598)
T ss_pred             cCCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            4 5799999999999999999999999999999999999999999 99999999988764

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.6e-37  Score=280.64  Aligned_cols=263  Identities=24%  Similarity=0.379  Sum_probs=234.9

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..+|.+||||.+|++++|++++++.|.+++..++.++ +||+||+|+|||++++.+++.++|..                
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            4579999999999999999999999999999998887 89999999999999999999997752                


Q ss_pred             ---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                         ...++++++.....+.+.++..+........  +   .+++|+||||+|.++....+.|++.|++++..+.||++++
T Consensus        83 ~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~--~---gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTt  157 (709)
T PRK08691         83 DAGRYVDLLEIDAASNTGIDNIREVLENAQYAPT--A---GKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATT  157 (709)
T ss_pred             hccCccceEEEeccccCCHHHHHHHHHHHHhhhh--h---CCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeC
Confidence               1235667777666777777776665432211  1   2578999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v  258 (309)
                      +..++...+++||..+.|.+++.+++..+|.+++.++|+.++++++..|++.++|++|.+++.|+.+..++ +.|+.++|
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            99999999999999999999999999999999999999999999999999999999999999998776644 67999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ..+++......++++++++..++...++..+++++ ..|.++..++..|.
T Consensus       238 ~~lLG~~d~~~If~LldAL~~~d~~~al~~l~~L~-~~G~d~~~~l~~L~  286 (709)
T PRK08691        238 RQMIGAVDKQYLYELLTGIINQDGAALLAKAQEMA-ACAVGFDNALGELA  286 (709)
T ss_pred             HHHHcccCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999 99999999988764

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=100.00  E-value=9.1e-37  Score=263.71  Aligned_cols=266  Identities=45%  Similarity=0.795  Sum_probs=237.6

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      ++.+|.++|+|.++++++|+++++..+..++..+..++++|+||+|+|||++++.+++++.+.++...++.++.....+.
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            46789999999999999999999999999999988888999999999999999999999987777777788876665555


Q ss_pred             HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021660          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (309)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~  198 (309)
                      ..+...+..+....+. ..  ..+++|+|||++.+..+.++.|..+++.++..+.+|++++...++.+.+.+|+..++|.
T Consensus        83 ~~~~~~i~~~~~~~~~-~~--~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~  159 (319)
T PRK00440         83 DVIRNKIKEFARTAPV-GG--APFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFS  159 (319)
T ss_pred             HHHHHHHHHHHhcCCC-CC--CCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeC
Confidence            5555556555544332 11  24789999999999988889999999998888999999998888899999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHHHHHh
Q 021660          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (309)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~  278 (309)
                      +++.+++..+++.++++.|+.+++++++.+++.++||+|.+++.|+.++..++.||.++|..++.......++++++++.
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            99999999999999999999999999999999999999999999999988877899999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          279 NESFADSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       279 ~~~~~~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      .++...++..+.+++...|.++.+|+..+
T Consensus       240 ~~~~~~a~~~l~~ll~~~g~~~~~i~~~l  268 (319)
T PRK00440        240 NGDFTEAREKLRDLMIDYGLSGEDIIKQI  268 (319)
T ss_pred             cCCHHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence            99999999999999966899999988765

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=7.4e-37  Score=272.44  Aligned_cols=260  Identities=28%  Similarity=0.418  Sum_probs=232.0

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-----------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------  102 (309)
                      ..|.++|||.+|++++||+++++.+..++..++.++ +||+||+|+|||++++.+++.+.+..                 
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            569999999999999999999999999999999888 79999999999999999999997642                 


Q ss_pred             --ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          103 --YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       103 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                        .+..+.+++.....+.+.+++.+......+.     ...++|+||||+|.++.+.++.|++.++++++.+.||+++++
T Consensus        82 ~~~h~dv~eldaas~~gId~IRelie~~~~~P~-----~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd  156 (535)
T PRK08451         82 ENRHIDIIEMDAASNRGIDDIRELIEQTKYKPS-----MARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTD  156 (535)
T ss_pred             hcCCCeEEEeccccccCHHHHHHHHHHHhhCcc-----cCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECC
Confidence              3456777777666677888877765432211     126899999999999999999999999999999999999999


Q ss_pred             CcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHH
Q 021660          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (309)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~  259 (309)
                      ..++++++.+||..++|.+++.+++..++.+++.++|+.++++++..|++.++|++|.+++.|+.+..++ +.||.+.|.
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            8999999999999999999999999999999999999999999999999999999999999998877665 679999999


Q ss_pred             hhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .+++......++++++++..++...++..+.++.   |.++.+++..|.
T Consensus       237 ~~lg~~~~~~I~~li~ai~~~d~~~a~~~l~~L~---g~~~~~~l~~l~  282 (535)
T PRK08451        237 DMLGLLDPSKLEDFFQAILNQDKEKLFELLKELE---DYEAEMVLDEMM  282 (535)
T ss_pred             HHhCCCCHHHHHHHHHHHHhcCHHHHHHHHHHHH---CCCHHHHHHHHH
Confidence            9999999999999999999999999999999986   788887776653

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=8.8e-37  Score=272.43  Aligned_cols=263  Identities=26%  Similarity=0.417  Sum_probs=232.1

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..+|+++|||.+|.+++|++.++..+.+++..++.++ ++|+||+|+|||++++.+++.+.|..                
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            4589999999999999999999999999999998888 78999999999999999999997521                


Q ss_pred             ---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                         ...++.+++.....+.+.++........ .+.    ...++|+||||+|.++.+..+.|++.++++++.+++|++++
T Consensus        83 ~~g~~~d~~eidaas~~gvd~ir~I~~~~~~-~P~----~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt  157 (486)
T PRK14953         83 DKGSFPDLIEIDAASNRGIDDIRALRDAVSY-TPI----KGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTT  157 (486)
T ss_pred             hcCCCCcEEEEeCccCCCHHHHHHHHHHHHh-Ccc----cCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEEC
Confidence               1234566666555666666654443332 221    12688999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v  258 (309)
                      ....+++++.+||..+.|.+++.+++..|+..+++++|+.+++++++.+++.++|++|.+++.|+.+..++ +.+|.++|
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            88889999999999999999999999999999999999999999999999999999999999999886554 57999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ..+++......++++++++..++...++..+.+++ ..|.++..++..|.
T Consensus       238 ~~~lg~~~~~~vf~Li~ai~~~d~~~al~~l~~L~-~~g~~~~~iL~~L~  286 (486)
T PRK14953        238 EEFLGIVSQESVRKFLNLLLESDVDEAIKFLRTLE-EKGYNLNKFWKQLE  286 (486)
T ss_pred             HHHhCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999 99999999998775

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.3e-37  Score=280.72  Aligned_cols=262  Identities=22%  Similarity=0.393  Sum_probs=235.6

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-----------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------  102 (309)
                      ..|+++|||.+|++++|++++++.|.+++..++.++ +||+||+|+|||++++.+++.+.|..                 
T Consensus         4 ~~l~~k~RP~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~   83 (576)
T PRK14965          4 LVLARKYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEIT   83 (576)
T ss_pred             HHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHh
Confidence            458899999999999999999999999999998888 79999999999999999999998753                 


Q ss_pred             --ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          103 --YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       103 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                        ...++++++.....+.+.++..+......+.     ..+++|+||||+|.++....+.|+++|++++.+++||++|+.
T Consensus        84 ~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~-----~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~  158 (576)
T PRK14965         84 EGRSVDVFEIDGASNTGVDDIRELRENVKYLPS-----RSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTE  158 (576)
T ss_pred             cCCCCCeeeeeccCccCHHHHHHHHHHHHhccc-----cCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCC
Confidence              1445777877666777787776655433221     126899999999999999999999999999999999999999


Q ss_pred             CcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHH
Q 021660          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (309)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~  259 (309)
                      ..++++++++||..++|.+++.+++..++..+++++|+.++++++..+++.++|++|.+++.|+++..+. +.|+.+++.
T Consensus       159 ~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~G~lr~al~~Ldqliay~g~~It~edV~  238 (576)
T PRK14965        159 PHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQVLAFCGDAVGDDDVA  238 (576)
T ss_pred             hhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999998877654 679999999


Q ss_pred             hhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .+++......++++++++..++...++..+.+++ ..|.++..++..|.
T Consensus       239 ~llG~~~~~~l~~ll~al~~~d~~~al~~l~~l~-~~G~~~~~~l~~Ll  286 (576)
T PRK14965        239 ELLGVVDRRLLLDISAAVFGRDTRALLEIVERVD-EFGYNMRQFCQELI  286 (576)
T ss_pred             HHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999 99999999887764

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=7.5e-37  Score=286.02  Aligned_cols=261  Identities=22%  Similarity=0.340  Sum_probs=233.3

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc------------------
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------  102 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~------------------  102 (309)
                      .|.+||||.+|+++|||+++++.|.+++..++.+| +||+||+|||||++++.+++.++|..                  
T Consensus         4 ~l~~KyRP~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~   83 (824)
T PRK07764          4 ALYRRYRPATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAP   83 (824)
T ss_pred             hHHHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHc
Confidence            47899999999999999999999999999999888 89999999999999999999998742                  


Q ss_pred             ---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                         ...++++++.....+++.++..........   .  ...++|+||||+|.|+...++.|+++|++++.+++||++++
T Consensus        84 g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p---~--~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt  158 (824)
T PRK07764         84 GGPGSLDVTEIDAASHGGVDDARELRERAFFAP---A--ESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATT  158 (824)
T ss_pred             CCCCCCcEEEecccccCCHHHHHHHHHHHHhch---h--cCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeC
Confidence               235577777766667788877554433221   1  12689999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc--CCcCHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEA  257 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~--~~i~~~~  257 (309)
                      ..+++.+.|++||+.+.|.+++.+++.+||.++++.+|+.++++++..|++.++|++|.+++.|+++..+.  +.||.++
T Consensus       159 ~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~~IT~e~  238 (824)
T PRK07764        159 EPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEGVTYER  238 (824)
T ss_pred             ChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999988653  5799999


Q ss_pred             HHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       258 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +..+++......++++++++..+|...++..+.+++ ..|+++..|+..|.
T Consensus       239 V~allg~~~~~~I~~lidAL~~~D~a~al~~l~~Li-~~G~dp~~~L~~LL  288 (824)
T PRK07764        239 AVALLGVTDSALIDEAVDALAAGDGAALFGTVDRVI-EAGHDPRRFAEDLL  288 (824)
T ss_pred             HHHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            999999999999999999999999999999999999 89999988876654

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.4e-36  Score=269.76  Aligned_cols=263  Identities=21%  Similarity=0.369  Sum_probs=231.6

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..+|+++|||.+|++++|++.++..+.+++..++.++ ++|+||+|+|||++|+.+++.+.+..                
T Consensus         4 ~~~~~~kyRP~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~   83 (451)
T PRK06305          4 YQVSSRKYRPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKE   83 (451)
T ss_pred             hHHHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHH
Confidence            4679999999999999999999999999999988877 89999999999999999999997642                


Q ss_pred             ----ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021660          103 ----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       103 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                          ....+..++.....+.+.++..........     ....++++||||++.+..+..+.|++++++++..+.+|+++
T Consensus        84 i~~~~~~d~~~i~g~~~~gid~ir~i~~~l~~~~-----~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t  158 (451)
T PRK06305         84 ISSGTSLDVLEIDGASHRGIEDIRQINETVLFTP-----SKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLAT  158 (451)
T ss_pred             HhcCCCCceEEeeccccCCHHHHHHHHHHHHhhh-----hcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEe
Confidence                234566776655556666665444332211     11268999999999999999999999999999899999999


Q ss_pred             cCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh-cCCcCHHH
Q 021660          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEA  257 (309)
Q Consensus       179 ~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~  257 (309)
                      +...++.+.+++||..++|.+++.+++..|+...++++|+.+++++++.|+++++||+|.+++.++++..+ .+.|+.++
T Consensus       159 ~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~gdlr~a~~~Lekl~~~~~~~It~~~  238 (451)
T PRK06305        159 TEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESLYDYVVGLFPKSLDPDS  238 (451)
T ss_pred             CChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCcCHHH
Confidence            98899999999999999999999999999999999999999999999999999999999999999988754 35699999


Q ss_pred             HHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       258 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      |..+++....+.++++++++..++...++.++.+++ ..|.+|..|+..|.
T Consensus       239 V~~l~~~~~~~~vf~L~~ai~~~d~~~al~~l~~L~-~~g~~~~~iL~~L~  288 (451)
T PRK06305        239 VAKALGLLSQDSLYTLDEAITTQNYAQALEPVTDAM-NSGVAPAHFLHDLT  288 (451)
T ss_pred             HHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCcCHHHHHHHHH
Confidence            999999999999999999999999999999999999 88999999987764

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2e-36  Score=271.10  Aligned_cols=263  Identities=19%  Similarity=0.325  Sum_probs=232.4

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..+|+++|||.+|++++|++++++.+.+++..++.++ ++|+||+|+|||++|+.+++.+.|..                
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            4679999999999999999999999999999988888 89999999999999999999997632                


Q ss_pred             ---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                         ....+++++.....+.+.++..+..+.....   .  .+++|+||||+|.++...++.|++.+++++..+.||++|+
T Consensus        83 ~~~~~~dlieidaas~~gvd~ir~ii~~~~~~p~---~--g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Tt  157 (546)
T PRK14957         83 NNNSFIDLIEIDAASRTGVEETKEILDNIQYMPS---Q--GRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATT  157 (546)
T ss_pred             hcCCCCceEEeecccccCHHHHHHHHHHHHhhhh---c--CCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEEC
Confidence               1245666666555667777766655433221   1  2678999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh-cCCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (309)
                      +..++.+++.+||..++|.+++.+++..++.++++++|+.++++++..|++.++||+|.+++.|+.+..+ ++.|+.+++
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            9989998999999999999999999999999999999999999999999999999999999999987755 368999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +++++....+.++++++++..++...++..++++. ..|.+..+++..|.
T Consensus       238 ~~~l~~~~~~~v~~ll~Al~~~d~~~~l~~~~~l~-~~~~~~~~~l~~l~  286 (546)
T PRK14957        238 KQMLGIIDSEEVYSIINAIIDNDPKAILPAIKNLA-LTESSADAVLDRIA  286 (546)
T ss_pred             HHHHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHH
Confidence            99999988888999999999999999999999999 98999988887663

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.7e-36  Score=275.26  Aligned_cols=262  Identities=21%  Similarity=0.359  Sum_probs=232.0

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..+|.++|||.+|+++|||+++++.|.+.+..++.++ ++|+||+|+|||++++.+++.++|..                
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            4679999999999999999999999999999999888 79999999999999999999998742                


Q ss_pred             ---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                         ...++++++.....+.+.++..+..+.....     ..+++|+||||+|.|+...++.|++.|++++.++.||++|+
T Consensus        83 ~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~-----~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt  157 (647)
T PRK07994         83 EQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPA-----RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT  157 (647)
T ss_pred             HcCCCCCceeecccccCCHHHHHHHHHHHHhhhh-----cCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecC
Confidence               2235677777655677777776665443221     12688999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh-cCCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (309)
                      +..++++.+++||..+.|.+++.+++..+|.+++..+++.++++++..|++.++|++|.++++++.+... .+.|+.+++
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 467999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      ..+++....+.+.++++++..++...++.++.+++ ..|.++..++..|
T Consensus       238 ~~~lg~~d~~~~~~ll~al~~~d~~~~l~~~~~l~-~~g~d~~~~L~~l  285 (647)
T PRK07994        238 SAMLGTLDDDQALSLLEALVEGDGERVMALINQLA-ERGPDWEGLLVEL  285 (647)
T ss_pred             HHHHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHH
Confidence            99999887788999999999999999999999998 9999998777655

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=2.2e-36  Score=275.76  Aligned_cols=263  Identities=25%  Similarity=0.421  Sum_probs=233.0

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc---------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (309)
                      ..+|+++|||..|++++||+.+++.+.+++..++.++ +||+||+|+|||++|+.+++.+.|...               
T Consensus         5 y~~l~~KyRP~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~   84 (725)
T PRK07133          5 YKALYRKYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVN   84 (725)
T ss_pred             hhhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhc
Confidence            4579999999999999999999999999999998888 799999999999999999999987432               


Q ss_pred             -cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          104 -HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       104 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                       ...+++++.....+.+.++..+..+...+..     ..++|+||||+|.+....++.|++.|++++..+++|++|+...
T Consensus        85 ~~~Dvieidaasn~~vd~IReLie~~~~~P~~-----g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~  159 (725)
T PRK07133         85 NSLDIIEMDAASNNGVDEIRELIENVKNLPTQ-----SKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVH  159 (725)
T ss_pred             CCCcEEEEeccccCCHHHHHHHHHHHHhchhc-----CCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChh
Confidence             2345556654445667777766554433221     2688999999999999999999999999999999999999999


Q ss_pred             ccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHHhh
Q 021660          183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYLC  261 (309)
Q Consensus       183 ~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~~~  261 (309)
                      ++++++++||+++.|.+++.+++..++..++.++|+.++++++..+++.++|++|.+++.++.++.++ +.|+.+.+..+
T Consensus       160 KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~GslR~AlslLekl~~y~~~~It~e~V~el  239 (725)
T PRK07133        160 KIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFGNNKITLKNVEEL  239 (725)
T ss_pred             hhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999877554 56999999999


Q ss_pred             hCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          262 TGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       262 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ++......++.+++++..++...++..+.+++ ..|.+|..++..|.
T Consensus       240 lg~~~~e~If~Ll~aI~~kd~~~aL~~l~~L~-~~ged~~~iL~~Ll  285 (725)
T PRK07133        240 FGLVSNENLINLLNLLYSKDIKEVLNILNQIK-EQGIDPELLLISLI  285 (725)
T ss_pred             HcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            99999999999999999999999999999999 99999999888764

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=2.5e-36  Score=274.53  Aligned_cols=262  Identities=25%  Similarity=0.425  Sum_probs=235.9

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-----------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------  102 (309)
                      ..|+++|||.+|++++||+++.+.+.+++..++.++ +||+||+|+|||++++.+++.+.|..                 
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            458899999999999999999999999999998888 89999999999999999999998653                 


Q ss_pred             --ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          103 --YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       103 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                        ...++++++.....+.+.++..+......+.     ...++|+||||+|.++....+.|++.+++++.+++||++|+.
T Consensus        84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~-----~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~  158 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPS-----EAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTE  158 (559)
T ss_pred             cCCCCCeEEeeccccCCHHHHHHHHHHHhhCcc-----cCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCC
Confidence              2457788888776777777776665443221     226899999999999999999999999999999999999999


Q ss_pred             CcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHH
Q 021660          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (309)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~  259 (309)
                      ..++++++.+||+.+.|.+++.+++..++..+++++|+.+++++++.+++.++|++|.+++.|+.+..++ +.|+.++|.
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            9999999999999999999999999999999999999999999999999999999999999998776553 679999999


Q ss_pred             hhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .+++......++++++++..+|...++..+.+++ ..|.++..++..|.
T Consensus       239 ~vlg~~~~~~i~~l~~al~~~d~~~al~~l~~l~-~~g~d~~~~l~~L~  286 (559)
T PRK05563        239 EVTGSVSQEALDDLVDAIVEGDVAKALKILEELL-DEGKDPNRFIEDLI  286 (559)
T ss_pred             HHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999 99999999887764

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.3e-36  Score=267.57  Aligned_cols=263  Identities=22%  Similarity=0.307  Sum_probs=231.8

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc---------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (309)
                      ...++++|||.+|++++||+.+++.|.+++.+++.++ ++|+||+|+|||++|+.+++.+.|+..               
T Consensus         3 ~~~l~~k~RP~~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~   82 (397)
T PRK14955          3 YQVIARKYRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCG   82 (397)
T ss_pred             cHHHHHhcCCCcHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCC
Confidence            3457899999999999999999999999999999888 999999999999999999999987421               


Q ss_pred             ------------cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCC
Q 021660          104 ------------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKN  171 (309)
Q Consensus       104 ------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~  171 (309)
                                  ..++..++.....+.+.+++....+...+.  +   ..++++||||+|.+..+.++.|+++++++++.
T Consensus        83 ~c~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~--~---~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~  157 (397)
T PRK14955         83 ECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQ--K---GRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPH  157 (397)
T ss_pred             CCHHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchh--c---CCeEEEEEeChhhCCHHHHHHHHHHHhcCCCC
Confidence                        234566665555556777765555532221  1   26789999999999998999999999999999


Q ss_pred             ceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-
Q 021660          172 TRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-  250 (309)
Q Consensus       172 ~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-  250 (309)
                      +++|++++...++.+++.+||..++|.+++.+++..|+...++++|+.+++++++.+++.++|++|.+++.|+++..+. 
T Consensus       158 t~~Il~t~~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~  237 (397)
T PRK14955        158 AIFIFATTELHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSV  237 (397)
T ss_pred             eEEEEEeCChHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc
Confidence            9999999888899999999999999999999999999999999999999999999999999999999999999887652 


Q ss_pred             -----CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          251 -----QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       251 -----~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                           +.|+.++|..++.....++++++++++..++...++..+.+++ ..|.+|..|+..|.
T Consensus       238 ~~~~~~~It~~~v~~~v~~~~~~~vf~l~~ai~~~~~~~al~~~~~l~-~~~~~~~~iL~ll~  299 (397)
T PRK14955        238 ESEGEGSIRYDKVAELLNYIDDEHFFAVTDAVADGDAVAMLDVAQFVI-RNGYDEQDFLEKLI  299 (397)
T ss_pred             ccCCCCccCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence                 4799999999999999999999999999999999999999999 89999999887764

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=3.3e-36  Score=271.05  Aligned_cols=264  Identities=22%  Similarity=0.371  Sum_probs=230.0

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc---------------
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ---------------  102 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~---------------  102 (309)
                      +..+|+++|||.+|++++|++.+++.|.+++..++.++ +||+||+|+|||++|+.+++.+.|..               
T Consensus         2 s~~~la~KyRP~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~   81 (624)
T PRK14959          2 SHASLTARYRPQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRK   81 (624)
T ss_pred             CcchHHHHhCCCCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHH
Confidence            34689999999999999999999999999999987544 99999999999999999999998742               


Q ss_pred             ----ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021660          103 ----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       103 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                          ...++.+++.....+.+.++.....+... +  +  ...++||||||+|.+..+.++.|++.+++++..+++|++|
T Consensus        82 i~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~-p--~--~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaT  156 (624)
T PRK14959         82 VTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYA-P--M--EGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLAT  156 (624)
T ss_pred             HhcCCCCceEEEecccccCHHHHHHHHHHHHhh-h--h--cCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEec
Confidence                23457777765556667666544333322 1  1  1257899999999999999999999999998899999999


Q ss_pred             cCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHH
Q 021660          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEA  257 (309)
Q Consensus       179 ~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~  257 (309)
                      +...++.+.+++||..++|.+++.+++..+|...+.++++.+++++++.|++.++|++|.+++.|+.+...+ +.|+.++
T Consensus       157 t~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~GdlR~Al~lLeqll~~g~~~It~d~  236 (624)
T PRK14959        157 TEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVLALGESRLTIDG  236 (624)
T ss_pred             CChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999998765433 5799999


Q ss_pred             HHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       258 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      |..+++....+.++++++++...+...++..+.+++ +.|.++..++..|.
T Consensus       237 V~~~lg~~~~e~vfeLl~AL~~~D~~aal~~l~~Ll-~~g~d~~~iL~~Ll  286 (624)
T PRK14959        237 ARGVLGLAGQELFLRLMEALAAQDCLGVANVVRELL-DRGVDMGFFLRELV  286 (624)
T ss_pred             HHHHhCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            999999999999999999999999999999999999 89999988877664

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

Probab=100.00  E-value=4.2e-37  Score=270.59  Aligned_cols=262  Identities=25%  Similarity=0.422  Sum_probs=243.4

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-----------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------  102 (309)
                      ..++.+|||..|++++||+.+.+.|.+.+..++..| ++|+||.|+||||+++.+|+.++|..                 
T Consensus         4 q~L~rKyRP~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~   83 (515)
T COG2812           4 QVLARKYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEIN   83 (515)
T ss_pred             HHHHHHhCcccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhh
Confidence            457899999999999999999999999999999888 99999999999999999999998863                 


Q ss_pred             --ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          103 --YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       103 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                        ..+++++++...+.+++.++..+.+....+..     .+++|.||||+|.++....+.|++.++++|.++.||++|++
T Consensus        84 ~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~-----~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe  158 (515)
T COG2812          84 EGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSE-----GRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTE  158 (515)
T ss_pred             cCCcccchhhhhhhccChHHHHHHHHHhccCCcc-----ccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCC
Confidence              34678888888888999998887776544332     37899999999999999999999999999999999999999


Q ss_pred             CcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHH
Q 021660          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (309)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~  259 (309)
                      ..+++.++++||+.++|..++.+++...|..++.++++.++++++..|++.++|.+|.++.+|+.+...+ +.||.+.++
T Consensus       159 ~~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~Gs~RDalslLDq~i~~~~~~It~~~v~  238 (515)
T COG2812         159 PQKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQAIAFGEGEITLESVR  238 (515)
T ss_pred             cCcCchhhhhccccccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCCChhhHHHHHHHHHHccCCcccHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999998887665 689999999


Q ss_pred             hhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .+++......+..+++++..+|...++..+++++ ..|.++..++..|.
T Consensus       239 ~~lG~~~~~~~~~~~~~i~~~d~~~~~~~~~~l~-~~G~~~~~~l~dl~  286 (515)
T COG2812         239 DMLGLTDIEKLLSLLEAILKGDAKEALRLINELI-EEGKDPEAFLEDLL  286 (515)
T ss_pred             HHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHH-HhCcCHHHHHHHHH
Confidence            9999999999999999999999999999999999 99999999887764

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.7e-36  Score=272.33  Aligned_cols=262  Identities=21%  Similarity=0.319  Sum_probs=233.6

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-----------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------  102 (309)
                      ..++++|||.+|++++||+.+++.|.+++.+++.++ ++|+||+|+|||++|+.+++.+.|..                 
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            357899999999999999999999999999998888 99999999999999999999998742                 


Q ss_pred             ----------ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCc
Q 021660          103 ----------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNT  172 (309)
Q Consensus       103 ----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~  172 (309)
                                ...++..++.....+.+.++..+..+...+.   .  .+++|+||||+|.+.....+.|+++|++++..+
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 CESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQ---K--GRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHA  158 (620)
T ss_pred             CHHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhh---c--CCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCe
Confidence                      1235666665555567777776655543221   1  268999999999999999999999999999999


Q ss_pred             eEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc--
Q 021660          173 RFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--  250 (309)
Q Consensus       173 ~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~--  250 (309)
                      ++|++++...++.+++.+||..++|.+++.+++..|+.++++.+|+.+++++++.|++.++|++|.+++.++++..+.  
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            999999888999999999999999999999999999999999999999999999999999999999999999888764  


Q ss_pred             ----CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          251 ----QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       251 ----~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                          +.|+.++|.+++.....+.++++++++..++...++..+.+++ ..|.+|..|+..|.
T Consensus       239 ~~~~~~It~~~V~~lv~~~~e~~iF~L~dai~~~d~~~al~~l~~Ll-~~ge~p~~iL~lL~  299 (620)
T PRK14954        239 SEAEKVIAYQGVAELLNYIDDEQFFDVTDAIAENDAVKMLEVARFVI-DNGYDEQDFLEKLI  299 (620)
T ss_pred             cccCCccCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHH
Confidence                5799999999999999999999999999999999999999999 99999999988775

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=5.2e-36  Score=271.29  Aligned_cols=262  Identities=21%  Similarity=0.307  Sum_probs=232.5

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-----------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------  102 (309)
                      ..++++|||.+|++++||+.+++.+.+++..++.++ ++|+||+|+|||++++.+++.+.|..                 
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            458899999999999999999999999999998888 99999999999999999999998642                 


Q ss_pred             --ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          103 --YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       103 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                        ...+++.++.....+.+.+++........+   +.  .+++++||||+|.++...++.|++.+++++..+.||++++.
T Consensus        84 ~~~~~dv~~idgas~~~vddIr~l~e~~~~~p---~~--~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte  158 (563)
T PRK06647         84 NDNSLDVIEIDGASNTSVQDVRQIKEEIMFPP---AS--SRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTE  158 (563)
T ss_pred             cCCCCCeEEecCcccCCHHHHHHHHHHHHhch---hc--CCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCC
Confidence              234566676655456677766554433221   11  26899999999999999999999999999999999999998


Q ss_pred             CcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHH
Q 021660          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (309)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~  259 (309)
                      ..++.+++.+||+.++|.+++.+++..++.+.+..+|+.++++++..|++.++|++|.+++.|+++..+. +.++.+++.
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            8899999999999999999999999999999999999999999999999999999999999998876654 679999999


Q ss_pred             hhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .+++......++++++++..+|...++..+++++ ..|.++..++..|.
T Consensus       239 ~llg~~~~~~if~LidaI~~~D~~~al~~l~~Ll-~~G~d~~~iL~~Ll  286 (563)
T PRK06647        239 SKMGLTGDEFLEKLASSILNEDAKELLCVLDSVF-LSGVSVEQFLLDCI  286 (563)
T ss_pred             HHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999 89999999988764

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.2e-36  Score=273.68  Aligned_cols=263  Identities=23%  Similarity=0.356  Sum_probs=235.5

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..+|+++|||.+|++++|++++++.|.+++..++.++ +||+||+|+|||++++.+++.+.|..                
T Consensus         4 ~~~~~~kyRP~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~   83 (614)
T PRK14971          4 YIVSARKYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVA   83 (614)
T ss_pred             hHHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHH
Confidence            4569999999999999999999999999999999888 89999999999999999999997532                


Q ss_pred             ----ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021660          103 ----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       103 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                          ...++..++.....+.+.++..+.++...+..     .+++++||||++.++.+.++.|+++|++++..++||+++
T Consensus        84 ~~~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~-----~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~t  158 (614)
T PRK14971         84 FNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQI-----GKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILAT  158 (614)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhhCccc-----CCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence                24567777776556677777776655332221     268999999999999999999999999999999999999


Q ss_pred             cCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHH
Q 021660          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEA  257 (309)
Q Consensus       179 ~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~  257 (309)
                      +...++.+++++||..+.|.+++.+++..++..++.++|+.+++++++.|++.++||+|.+++.+++++.+. +.|+.+.
T Consensus       159 t~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~gdlr~al~~Lekl~~y~~~~It~~~  238 (614)
T PRK14971        159 TEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGNITYKS  238 (614)
T ss_pred             CCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCccHHH
Confidence            988999999999999999999999999999999999999999999999999999999999999999876554 4699999


Q ss_pred             HHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       258 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +...+.....+.+|++++++..++...++..+.+++ ..|++|..|+..|.
T Consensus       239 V~~~l~~~~~~~iF~L~dai~~~~~~~al~ll~~Ll-~~g~~~~~iL~~L~  288 (614)
T PRK14971        239 VIENLNILDYDYYFRLTDALLAGKVSDSLLLFDEIL-NKGFDGSHFITGLA  288 (614)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            999999999999999999999999999999999999 99999999998775

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

Probab=100.00  E-value=3.7e-36  Score=251.01  Aligned_cols=254  Identities=26%  Similarity=0.369  Sum_probs=215.6

Q ss_pred             cChhhhcCCCCccccccChHHHH---HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~---~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (309)
                      .|++++.||.+++++|||++.+.   -+.+.+..+..++++|||||||||||+++.+++..     +..|..++... .+
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            48999999999999999999985   78899999999999999999999999999999997     78888888887 57


Q ss_pred             hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe--cCCcccchhhhcceeEE
Q 021660          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCTRF  195 (309)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~--~~~~~l~~~l~~r~~~i  195 (309)
                      ..+++..+.........     .++.||+|||+|++++.+++.|+..+|+-  ...+|.+|  |....+.++|++||+++
T Consensus        86 vkdlr~i~e~a~~~~~~-----gr~tiLflDEIHRfnK~QQD~lLp~vE~G--~iilIGATTENPsF~ln~ALlSR~~vf  158 (436)
T COG2256          86 VKDLREIIEEARKNRLL-----GRRTILFLDEIHRFNKAQQDALLPHVENG--TIILIGATTENPSFELNPALLSRARVF  158 (436)
T ss_pred             HHHHHHHHHHHHHHHhc-----CCceEEEEehhhhcChhhhhhhhhhhcCC--eEEEEeccCCCCCeeecHHHhhhhhee
Confidence            77888777766443221     25789999999999999999999999932  33334434  55668899999999999


Q ss_pred             EecCCChHHHHHHHHHHHH--HcCCC-----CCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcC---CcCHHHHHhhhCC-
Q 021660          196 RFAPLEPVHVTERLKHVIE--AEGLD-----VTEGGLAALVRLCNGDMRKALNILQSTHMASQ---QITEEAVYLCTGN-  264 (309)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~--~~~~~-----~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~---~i~~~~v~~~~~~-  264 (309)
                      .|.|++.+++.+.+++-+.  ..++.     +++++++.++..++||.|.++|.|+.+....+   .++.+++.+++.+ 
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  34444     78999999999999999999999999987763   3457888777743 


Q ss_pred             ---------CChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          265 ---------PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       265 ---------~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                               .-++.++.++++++++|++.+++++++|+ +.|.+|.-|.+.|+
T Consensus       239 ~~~~Dk~gD~hYdliSA~hKSvRGSD~dAALyylARmi-~~GeDp~yiARRlv  290 (436)
T COG2256         239 SARFDKDGDAHYDLISALHKSVRGSDPDAALYYLARMI-EAGEDPLYIARRLV  290 (436)
T ss_pred             hhccCCCcchHHHHHHHHHHhhccCCcCHHHHHHHHHH-hcCCCHHHHHHHHH
Confidence                     34677999999999999999999999999 99999999988775

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.5e-36  Score=269.62  Aligned_cols=262  Identities=22%  Similarity=0.368  Sum_probs=231.9

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..+|+++|||.+|++++|++++++.+.+++..++.++ ++|+||+|+|||++|+.+++.++|..                
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            4568999999999999999999999999999998888 79999999999999999999998742                


Q ss_pred             ---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                         ...++++++.....+.+.++..+......+.     ..+++|+||||+|.++.+..+.|++.+++++..+.||++|+
T Consensus        83 ~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~-----~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~  157 (527)
T PRK14969         83 DSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPT-----RGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATT  157 (527)
T ss_pred             hcCCCCceeEeeccccCCHHHHHHHHHHHhhCcc-----cCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeC
Confidence               1235666776655677777766655433221     12688999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v  258 (309)
                      +..+++..+.+||..+.|.+++.+++.+++.++++++|+.++++++..|++.++|++|.+++.++.+..++ +.|+.++|
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            99899889999999999999999999999999999999999999999999999999999999998776554 67999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      ..+++....+.++++++++..++...++..++++. ..|.++..++..|
T Consensus       238 ~~~~~~~~~~~i~~ll~al~~~~~~~~l~~~~~l~-~~~~~~~~~l~~l  285 (527)
T PRK14969        238 RAMLGAIDQDYLFALLEALLAQDGAALLAIADAME-ERSLSFDAALQDL  285 (527)
T ss_pred             HHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHH
Confidence            99999988888999999999999999999999999 8999988887765

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=100.00  E-value=1.8e-35  Score=259.13  Aligned_cols=262  Identities=27%  Similarity=0.437  Sum_probs=229.6

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc----------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------------  103 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~----------------  103 (309)
                      .||.++|+|.++++++|++..++.+.+++..++.++ ++|+||||+|||++++.+++.+.+...                
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            589999999999999999999999999999988777 899999999999999999999876421                


Q ss_pred             ---cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          104 ---HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       104 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                         ...++.++.......+.++..+...... +  +  ..++++|+|||++.+.....+.|++.+++++..+.+|++++.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-p--~--~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  156 (355)
T TIGR02397        82 SGSSLDVIEIDAASNNGVDDIREILDNVKYA-P--S--SGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTE  156 (355)
T ss_pred             cCCCCCEEEeeccccCCHHHHHHHHHHHhcC-c--c--cCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCC
Confidence               3456666665444555555555543322 1  1  126789999999999998899999999998888999999988


Q ss_pred             CcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHH
Q 021660          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (309)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~  259 (309)
                      ..++.+++.+||..+.|.+++.+++..|+..++++.|+.+++++++.+++.++|++|.+.+.++++..+. +.||.++|.
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            8888899999999999999999999999999999999999999999999999999999999999888765 569999999


Q ss_pred             hhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +++.......++++++++..++...++..+.+++ ..|.+|..++..|.
T Consensus       237 ~~~~~~~~~~i~~l~~ai~~~~~~~a~~~~~~l~-~~~~~~~~il~~l~  284 (355)
T TIGR02397       237 ELLGLVDDEKLIELLEAILNKDTAEALKILDEIL-ESGVDPEKFLEDLI  284 (355)
T ss_pred             HHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999 89999999988765

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4e-35  Score=257.24  Aligned_cols=264  Identities=25%  Similarity=0.390  Sum_probs=229.9

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-------ccccEEEE
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------YHNMILEL  110 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------~~~~~~~~  110 (309)
                      +..+|+++|||.++++++|++.+++.+.+++..++.++ ++|+||||+|||++++.+++.+.+.+       ....++++
T Consensus         3 ~~~~~~~k~rP~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l   82 (367)
T PRK14970          3 NFVVSARKYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFEL   82 (367)
T ss_pred             chHHHHHHHCCCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEe
Confidence            34679999999999999999999999999999887764 99999999999999999999987632       24445555


Q ss_pred             ecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhc
Q 021660          111 NASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQS  190 (309)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~  190 (309)
                      +.....+.+.+...+......+.     ..++++|+|||++.+.....+.|++.+++++..+.+|++++...++.+++.+
T Consensus        83 ~~~~~~~~~~i~~l~~~~~~~p~-----~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~s  157 (367)
T PRK14970         83 DAASNNSVDDIRNLIDQVRIPPQ-----TGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILS  157 (367)
T ss_pred             ccccCCCHHHHHHHHHHHhhccc-----cCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHh
Confidence            55444455666665554432211     1257899999999999888999999999988888899999888899999999


Q ss_pred             ceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHHhhhCCCChHH
Q 021660          191 RCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYLCTGNPLPKD  269 (309)
Q Consensus       191 r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~~~~~~~~~~~  269 (309)
                      ||..++|.+++.+++..++...++++|+.+++++++.+++.++||+|.+++.|++++.+. +.||.+++..++.......
T Consensus       158 r~~~v~~~~~~~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~~gdlr~~~~~lekl~~y~~~~it~~~v~~~~~~~~~~~  237 (367)
T PRK14970        158 RCQIFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFDRVVTFCGKNITRQAVTENLNILDYDT  237 (367)
T ss_pred             cceeEecCCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHhCCCCHHH
Confidence            999999999999999999999999999999999999999999999999999999998763 4599999999999999999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          270 IEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ++++++++..++...++..+++++ ..|.+|..|+..|.
T Consensus       238 if~l~~ai~~~~~~~a~~~~~~l~-~~~~~~~~il~~l~  275 (367)
T PRK14970        238 YINVTDLILENKIPELLLAFNEIL-RKGFDGHHFIAGLA  275 (367)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            999999999999999999999999 89999999988774

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=100.00  E-value=7e-35  Score=253.78  Aligned_cols=264  Identities=35%  Similarity=0.604  Sum_probs=223.3

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc----
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR----  116 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~----  116 (309)
                      .+|.++|+|.++++++|++.+++.+.+++..+..++++|+||||+|||++++.+++.+.+.++...++.+++.+..    
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            4799999999999999999999999999999888889999999999999999999999766544455555554310    


Q ss_pred             ----------------------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceE
Q 021660          117 ----------------------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRF  174 (309)
Q Consensus       117 ----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~  174 (309)
                                            ....+...+.......+  +  ...+++|+|||++.+..+.++.|..+++..+..+.+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~--~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~  158 (337)
T PRK12402         83 KYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRP--L--SADYKTILLDNAEALREDAQQALRRIMEQYSRTCRF  158 (337)
T ss_pred             hhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCC--C--CCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeE
Confidence                                  01111111222211111  1  125679999999999988889999999988888889


Q ss_pred             EEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcC
Q 021660          175 ALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQIT  254 (309)
Q Consensus       175 i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~  254 (309)
                      |++++....+.+.+.+|+..+.|.+++.+++..++..++.++|+.+++++++.++++++||+|.+++.++.++...+.||
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            99988888888899999999999999999999999999999999999999999999999999999999999886667899


Q ss_pred             HHHHHhhhCC-CChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          255 EEAVYLCTGN-PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       255 ~~~v~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .+++.+++.. ..+..++++++++..++...++..+.+++...|.++..|+..|.
T Consensus       239 ~~~v~~~~~~~~~~~~i~~l~~ai~~~~~~~a~~~l~~l~~~~g~~~~~i~~~l~  293 (337)
T PRK12402        239 MEAAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLLIDEGLSGGEVLEELL  293 (337)
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            9999999987 56889999999999999999999999997578999999888764

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.8e-35  Score=267.30  Aligned_cols=262  Identities=25%  Similarity=0.414  Sum_probs=231.3

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc----------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------------  103 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~----------------  103 (309)
                      ..|.++|||.+|++++|++++++.|.+++..++.++ ++|+||+|+|||++++.+++.+.|...                
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            348899999999999999999999999999888777 799999999999999999999976432                


Q ss_pred             ----cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                          ..++++++.....+.+.++..+........     ...++|+||||+|.+..+..+.|++++++++..+.||++++
T Consensus        84 ~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~-----~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~  158 (585)
T PRK14950         84 AEGSAVDVIEMDAASHTSVDDAREIIERVQFRPA-----LARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATT  158 (585)
T ss_pred             hcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcc-----cCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeC
Confidence                245666666555666666665544332211     12689999999999999999999999999998999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v  258 (309)
                      ...++.+.+.+||..+.|.+++..++..++..++.++|+.++++++..|++.++||+|.+++.|++++.+. +.|+.+++
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            88899999999999999999999999999999999999999999999999999999999999999987654 67999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ..++.......++++++++..+|...++..+.+++ ..|.++..|+..|.
T Consensus       239 ~~ll~~s~~~~vf~Lidal~~~d~~~al~~l~~L~-~~g~~~~~il~~L~  287 (585)
T PRK14950        239 QSLLGISGDEEVKALAEALLAKDLKAALRTLNAVA-ADGADLRQFTRDLV  287 (585)
T ss_pred             HHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999 89999999988764

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.2e-34  Score=265.15  Aligned_cols=263  Identities=24%  Similarity=0.392  Sum_probs=233.6

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCC-eEEEECCCCCcHHHHHHHHHHHHccCc----------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (309)
                      ..||.++|+|..|++++|+++++..|.+++..++.. ++||+||+|+|||++|+.+++.+.|..                
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            467999999999999999999999999999988764 499999999999999999999998742                


Q ss_pred             -----ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEE
Q 021660          103 -----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALI  177 (309)
Q Consensus       103 -----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~  177 (309)
                           ...++++++.....+++.+++.+........     ...++|+||||+|.|..+..+.|++.+++++..++||++
T Consensus        83 ~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~-----~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~  157 (620)
T PRK14948         83 AIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPV-----QARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLA  157 (620)
T ss_pred             HHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChh-----cCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEE
Confidence                 1235666666555677777777765432221     126789999999999999999999999999999999999


Q ss_pred             ecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHH
Q 021660          178 CNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEA  257 (309)
Q Consensus       178 ~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~  257 (309)
                      +++...+.+++++||..++|.+++.+++..++..++.++++.++++++..+++.++|++|.+++.|+.++.+.+.|+.++
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            99888999999999999999999999999999999999999999999999999999999999999999988878899999


Q ss_pred             HHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       258 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      |.++++......++++++++..++...++..+.+++ +.|.++..++..|.
T Consensus       238 V~~lvg~~~e~~i~~Ll~ai~~~d~~~al~~~~~Ll-~~g~~p~~iL~~L~  287 (620)
T PRK14948        238 VWDLLGAVPEQDLLNLLKALASNDPESLLDSCRQLL-DRGREPLAILQGLA  287 (620)
T ss_pred             HHHHhcCCCHHHHHHHHHHHHCCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            999999988889999999999999999999999999 99999998887764

>PRK13342 recombination factor protein RarA; Reviewed

Probab=100.00  E-value=5.3e-32  Score=239.99  Aligned_cols=253  Identities=26%  Similarity=0.399  Sum_probs=209.4

Q ss_pred             ChhhhcCCCCccccccChHHHHH---HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDT---IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~---l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      ||+++|||.++++++|+++.+..   +.+++..+..++++|+||||||||++++.+++.+     ...+..+++.. .+.
T Consensus         1 pla~~~RP~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~-----~~~~~~l~a~~-~~~   74 (413)
T PRK13342          1 PLAERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT-----DAPFEALSAVT-SGV   74 (413)
T ss_pred             ChhhhhCCCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEeccc-ccH
Confidence            69999999999999999999776   9999999888889999999999999999999987     56677777764 344


Q ss_pred             HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec--CCcccchhhhcceeEEE
Q 021660          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN--QVNKIIPALQSRCTRFR  196 (309)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~--~~~~l~~~l~~r~~~i~  196 (309)
                      ..++..+........     ..++.+|+|||+|.+....++.|+..+++  ....+|.+++  ....+.+++.+||..+.
T Consensus        75 ~~ir~ii~~~~~~~~-----~g~~~vL~IDEi~~l~~~~q~~LL~~le~--~~iilI~att~n~~~~l~~aL~SR~~~~~  147 (413)
T PRK13342         75 KDLREVIEEARQRRS-----AGRRTILFIDEIHRFNKAQQDALLPHVED--GTITLIGATTENPSFEVNPALLSRAQVFE  147 (413)
T ss_pred             HHHHHHHHHHHHhhh-----cCCceEEEEechhhhCHHHHHHHHHHhhc--CcEEEEEeCCCChhhhccHHHhccceeeE
Confidence            555555544432211     11568999999999999999999999985  2344444443  34477899999999999


Q ss_pred             ecCCChHHHHHHHHHHHHHc--CC-CCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCC--------
Q 021660          197 FAPLEPVHVTERLKHVIEAE--GL-DVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNP--------  265 (309)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~--~~-~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~--------  265 (309)
                      |.+++.+++..++.+.+...  ++ .+++++++.+++.++||+|.+++.++.++...+.|+.+++..++...        
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            99999999999999988753  44 89999999999999999999999999887766779999998887642        


Q ss_pred             --ChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          266 --LPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       266 --~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                        .++.+..++++++++|++.++.++..|+ ..|.+|..|.+.|.
T Consensus       228 ~~~~~~isa~~ks~rgsd~~aal~~l~~~l-~~G~d~~~i~rrl~  271 (413)
T PRK13342        228 DEHYDLISALHKSIRGSDPDAALYYLARML-EAGEDPLFIARRLV  271 (413)
T ss_pred             cHHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence              2445778888999999999999999999 99999999998875

>PRK04195 replication factor C large subunit; Provisional

Probab=100.00  E-value=3.3e-31  Score=239.18  Aligned_cols=253  Identities=28%  Similarity=0.407  Sum_probs=208.0

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCC----CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR----LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~----~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (309)
                      .+|.++|+|.++++++|++..+..+..|+....    .++++|+||||+|||++|+++++++     +..+++++.++..
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            479999999999999999999999999987432    4559999999999999999999998     6778888888766


Q ss_pred             chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH----HHHHHHHHHHHHhcCCceEEEEecCCcccch-hhhcc
Q 021660          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK----DAQFALRRVIEKYTKNTRFALICNQVNKIIP-ALQSR  191 (309)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~----~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~-~l~~r  191 (309)
                      ....+...+......... ++  ..+++|||||+|.+..    ...+.|.++++.  ....+|+++|....... .++++
T Consensus        77 ~~~~i~~~i~~~~~~~sl-~~--~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~Lrsr  151 (482)
T PRK04195         77 TADVIERVAGEAATSGSL-FG--ARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLRELRNA  151 (482)
T ss_pred             cHHHHHHHHHHhhccCcc-cC--CCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhhHhcc
Confidence            666666666555443332 22  2578999999999975    456788888874  35678888888877766 88999


Q ss_pred             eeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHH
Q 021660          192 CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIE  271 (309)
Q Consensus       192 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~  271 (309)
                      |..+.|++++..++..++...+..+|+.+++++++.|++.++||+|.+++.|+.++...+.++.+++...........++
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            99999999999999999999999999999999999999999999999999999977656789999999888777888899


Q ss_pred             HHHHHHhc-CCHHHHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          272 QISYWLLN-ESFADSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       272 ~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      ++++.+.. .+...++..+.    ....+|..++..|
T Consensus       232 ~~l~~i~~~k~~~~a~~~~~----~~~~~~~~i~~~l  264 (482)
T PRK04195        232 DALDAVFKARNADQALEASY----DVDEDPDDLIEWI  264 (482)
T ss_pred             HHHHHHHCCCCHHHHHHHHH----cccCCHHHHHHHH
Confidence            99999886 77777765443    3445666665544

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

Probab=100.00  E-value=6.4e-31  Score=243.61  Aligned_cols=257  Identities=23%  Similarity=0.302  Sum_probs=204.3

Q ss_pred             CCcChhhhcCCCCccccccChHHHH---HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~---~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ...||.++|||.++++++|+++.+.   .+.+.+..++.++++|+||||||||++++.+++..     ...+..+++.. 
T Consensus        14 ~~~PLaek~RP~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~-----~~~f~~lna~~-   87 (725)
T PRK13341         14 SEAPLADRLRPRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT-----RAHFSSLNAVL-   87 (725)
T ss_pred             ccCChHHhcCCCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh-----cCcceeehhhh-
Confidence            3458999999999999999999984   78888898888899999999999999999999987     44556666543 


Q ss_pred             cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec--CCcccchhhhccee
Q 021660          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN--QVNKIIPALQSRCT  193 (309)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~--~~~~l~~~l~~r~~  193 (309)
                      .+...++..+.........    ...+.+|+|||+|.++...++.|+..++..  ...+|.+++  ....+.+++.+|+.
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----HGKRTILFIDEVHRFNKAQQDALLPWVENG--TITLIGATTENPYFEVNKALVSRSR  161 (725)
T ss_pred             hhhHHHHHHHHHHHHHhhh----cCCceEEEEeChhhCCHHHHHHHHHHhcCc--eEEEEEecCCChHhhhhhHhhcccc
Confidence            3334444444433221111    114679999999999999999999888742  233333332  33467789999999


Q ss_pred             EEEecCCChHHHHHHHHHHHH-------HcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-----C--CcCHHHHH
Q 021660          194 RFRFAPLEPVHVTERLKHVIE-------AEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----Q--QITEEAVY  259 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~-------~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-----~--~i~~~~v~  259 (309)
                      ++.|++++.+++..++++.+.       ..++.+++++++.|++.++||+|.+++.|+.+....     +  .+|.+.+.
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       456889999999999999999999999999876532     1  26766666


Q ss_pred             hhh----------CCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          260 LCT----------GNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       260 ~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +.+          +...++.++.++++++++|++.+++++++|+ ..|++|..|++.|.
T Consensus       242 e~l~~~~~~ydk~gd~hyd~Isa~~ksirgsD~daAl~~la~ml-~~Gedp~~I~Rrl~  299 (725)
T PRK13341        242 ESIQQRAVLYDKEGDAHFDTISAFIKSLRGSDPDAALYWLARMV-EAGEDPRFIFRRML  299 (725)
T ss_pred             HHHHHhhhhcccCCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            654          3456788999999999999999999999999 99999999998875

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.97  E-value=3.8e-29  Score=215.58  Aligned_cols=252  Identities=31%  Similarity=0.433  Sum_probs=201.3

Q ss_pred             CCCCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           37 DIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        37 ~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      .....+|.++|||.++++++|+++..+.+..++..++.++ ++|+||+|+|||++++.+++++     ...+..+++...
T Consensus         5 ~~~~~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~-----~~~~~~i~~~~~   79 (316)
T PHA02544          5 NPNEFMWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV-----GAEVLFVNGSDC   79 (316)
T ss_pred             CCCCCcceeccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh-----CccceEeccCcc
Confidence            4567889999999999999999999999999999888877 5559999999999999999987     445666776652


Q ss_pred             cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCC-CHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeE
Q 021660          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM-TKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (309)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l-~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~  194 (309)
                       ..+.++..+..+....+.  .  .++++|+|||+|.+ ..+.++.|..+++.++.++.+|++++....+.+++++||..
T Consensus        80 -~~~~i~~~l~~~~~~~~~--~--~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~  154 (316)
T PHA02544         80 -RIDFVRNRLTRFASTVSL--T--GGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRV  154 (316)
T ss_pred             -cHHHHHHHHHHHHHhhcc--c--CCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceE
Confidence             244444545444433221  1  25789999999999 66677888888999888999999999999999999999999


Q ss_pred             EEecCCChHHHHHHHHH-------HHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCCh
Q 021660          195 FRFAPLEPVHVTERLKH-------VIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLP  267 (309)
Q Consensus       195 i~~~~~~~~~~~~~l~~-------~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~  267 (309)
                      +.|+.|+.++...++..       .+..+|+.++++++..+++.+.|+.|.+++.++.++. .+.++.+++....    .
T Consensus       155 i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~i~~~al~~l~~~~~~d~r~~l~~l~~~~~-~~~i~~~~l~~~~----~  229 (316)
T PHA02544        155 IDFGVPTKEEQIEMMKQMIVRCKGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYAS-TGKIDAGILSEVT----N  229 (316)
T ss_pred             EEeCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHc-cCCCCHHHHHHhh----H
Confidence            99999998887766443       3445789999999999999999999999999997764 3678888877655    5


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          268 KDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       268 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      ..++.+++++...+...+.. ....+   +.++.+++..+
T Consensus       230 ~~~~~l~~~l~~~d~~~~~~-~~~~~---~~~~~~~l~~~  265 (316)
T PHA02544        230 SDIDDVVEALKAKDFKAVRA-LAPNY---ANDYASFVGKL  265 (316)
T ss_pred             HHHHHHHHHHHcCCHHHHHH-HHHHh---ccCHHHHHHHH
Confidence            66788888888888777666 33333   77777777664

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

Probab=99.97  E-value=2.3e-30  Score=213.23  Aligned_cols=261  Identities=23%  Similarity=0.301  Sum_probs=211.1

Q ss_pred             CCcChhhhcCCCCccccccChHHHH---HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~---~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ...|++++.||++++|++||++++.   .|+.++..++.++++||||||||||++|+.+++...  .....+++++.+. 
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            3458999999999999999999986   788899999999999999999999999999998863  3346688888776 


Q ss_pred             cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe--cCCcccchhhhccee
Q 021660          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCT  193 (309)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~--~~~~~l~~~l~~r~~  193 (309)
                      .....++..+++.-.....  ..  .+.||+|||++++++.+++.|+..++.-  ...+|.+|  |....+..+|.+||.
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            4555666666554333222  12  5789999999999999999999999832  33444444  455678899999999


Q ss_pred             EEEecCCChHHHHHHHHHHHHHc------C-------CCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc----C-----
Q 021660          194 RFRFAPLEPVHVTERLKHVIEAE------G-------LDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----Q-----  251 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~------~-------~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~----~-----  251 (309)
                      ++-+.+++.+.+..+|.+-..-.      .       +.+++.++++++..+.||.|.++|.|+......    +     
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            99999999999999998854421      1       236788999999999999999999998774322    2     


Q ss_pred             CcCHHHHHhhhC----------CCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhhC
Q 021660          252 QITEEAVYLCTG----------NPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTM  309 (309)
Q Consensus       252 ~i~~~~v~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~~  309 (309)
                      .++.+++.+.+.          ..-++.++.+.++++++|.+.++++|++|+ .-|++|..+.+.|+|
T Consensus       355 ~lSidDvke~lq~s~~~YDr~Ge~HYntISA~HKSmRG~D~nAslY~LaRML-egGEdPLYVARRlvR  421 (554)
T KOG2028|consen  355 LLSIDDVKEGLQRSHILYDRAGEEHYNTISALHKSMRGSDQNASLYWLARML-EGGEDPLYVARRLVR  421 (554)
T ss_pred             eecHHHHHHHHhhccceecccchhHHHHHHHHHHhhcCCccchHHHHHHHHH-ccCCCcHHHHHHHHH
Confidence            588889888774          345778999999999999999999999999 999999999988865

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.97  E-value=3.9e-29  Score=198.75  Aligned_cols=265  Identities=32%  Similarity=0.559  Sum_probs=220.1

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcc------------------
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY------------------  103 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~------------------  103 (309)
                      .|.++|+|++++.++++.+....++.....+..||+++|||+|.||.|.+.++.+++.+.|.                  
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            59999999999999999999999999999888899999999999999999999999977431                  


Q ss_pred             ------cccEEEEecCCCcch--HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEE
Q 021660          104 ------HNMILELNASDDRGI--DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFA  175 (309)
Q Consensus       104 ------~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i  175 (309)
                            +...+++++++....  -.+.+.+++.+++.+.....+...++++|.|+|.+..+++++|...|+.+..++++|
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                  112334444443222  246778888888888877777789999999999999999999999999999999999


Q ss_pred             EEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCH
Q 021660          176 LICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITE  255 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~  255 (309)
                      +++|...++.+.+++||..+.++.|+++|+..++.+.++++|+.++.+.+..|++.++||+|.++-.|+.++......+.
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            99999999999999999999999999999999999999999999999999999999999999999999998876544433


Q ss_pred             HHHHhhhCCCChHHHHHHHHHHhcC-CHH---HHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          256 EAVYLCTGNPLPKDIEQISYWLLNE-SFA---DSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       256 ~~v~~~~~~~~~~~~~~~~~~~~~~-~~~---~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .- .......|...+.++...+... .+.   +....+.+++ ..++.|.-|+..|.
T Consensus       242 ~~-~~i~~~dWe~~i~e~a~~i~~eQs~~~L~~vR~~LYeLL-~~CIPP~~Ilk~Ll  296 (351)
T KOG2035|consen  242 NS-QVIPKPDWEIYIQEIARVILKEQSPAKLLEVRGRLYELL-SHCIPPNTILKELL  296 (351)
T ss_pred             cC-CCCCCccHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHH-hccCChHHHHHHHH
Confidence            32 2233344555566666554433 333   3556688888 89999999888764

>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=3.1e-30  Score=202.40  Aligned_cols=197  Identities=18%  Similarity=0.272  Sum_probs=144.4

Q ss_pred             CCCCcChhhhcCCCCccccccChHHHHHHHHHHh-----cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           37 DIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTS-----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        37 ~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~-----~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      .....++.+++||.+++|+|||++++..+.-++.     +...++++||||||+||||+|+.+|+++     +..+...+
T Consensus         8 ~~~~~~l~~~lRP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~-----~~~~~~~s   82 (233)
T PF05496_consen    8 QEEEAPLAERLRPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL-----GVNFKITS   82 (233)
T ss_dssp             ----S-HHHHTS-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC-----T--EEEEE
T ss_pred             CCcchhhHHhcCCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc-----CCCeEecc
Confidence            4455678899999999999999999998776654     2356789999999999999999999998     66677777


Q ss_pred             cCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCce
Q 021660          112 ASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTR  173 (309)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~  173 (309)
                      ........++...+..+.           .+.||+|||+|++++.+++.|+.+||+..                  +...
T Consensus        83 g~~i~k~~dl~~il~~l~-----------~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FT  151 (233)
T PF05496_consen   83 GPAIEKAGDLAAILTNLK-----------EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFT  151 (233)
T ss_dssp             CCC--SCHHHHHHHHT-------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----E
T ss_pred             chhhhhHHHHHHHHHhcC-----------CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCce
Confidence            655444455555444321           46799999999999999999999999632                  2345


Q ss_pred             EEEEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Q 021660          174 FALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      +|.+|+....+.+.+++|| ...++..++.+++.+++++.+...++.+++++..+|+.++.|.||-+.++|+.+--+
T Consensus       152 ligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrGtPRiAnrll~rvrD~  228 (233)
T PF05496_consen  152 LIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRGTPRIANRLLRRVRDF  228 (233)
T ss_dssp             EEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTTSHHHHHHHHHHHCCC
T ss_pred             EeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCCChHHHHHHHHHHHHH
Confidence            6778888889999999999 556899999999999999999999999999999999999999999999999987543

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.

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=99.97  E-value=9.6e-30  Score=206.41  Aligned_cols=275  Identities=54%  Similarity=0.717  Sum_probs=245.1

Q ss_pred             CCCCCCCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc-CcccccEEEEec
Q 021660           34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG-AQYHNMILELNA  112 (309)
Q Consensus        34 ~~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~-~~~~~~~~~~~~  112 (309)
                      .++.....||.++|+|..+.++++++++...+.+....++.||+|+|||||+|||+.+.+.+..+.+ .++...+.+++.
T Consensus        22 p~~~~~~~pwvekyrP~~l~dv~~~~ei~st~~~~~~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelna  101 (360)
T KOG0990|consen   22 PQSPQYPQPWVEKYRPPFLGIVIKQEPIWSTENRYSGMPGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNA  101 (360)
T ss_pred             CCCcccCCCCccCCCCchhhhHhcCCchhhHHHHhccCCCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhc
Confidence            4445677899999999999999999999999999999999999999999999999999999999987 556667888999


Q ss_pred             CCCcchHHHHHHHHHhhhcccc-ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcc
Q 021660          113 SDDRGIDVVRQQIQDFASTQSF-SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSR  191 (309)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r  191 (309)
                      ++.++.+.++..+..+...... .|+.....+++|+||+|.+..+++++|...++....+.+|++++|...++.+.+.+|
T Consensus       102 Sd~rgid~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~AQnALRRviek~t~n~rF~ii~n~~~ki~pa~qsR  181 (360)
T KOG0990|consen  102 SDDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDAQNALRRVIEKYTANTRFATISNPPQKIHPAQQSR  181 (360)
T ss_pred             cCccCCcchHHHHHHHHhhccceeccccCceeEEEecchhHhhHHHHHHHHHHHHHhccceEEEEeccChhhcCchhhcc
Confidence            9999999888888887766543 233345789999999999999999999999999999999999999999999999999


Q ss_pred             eeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCH-----HHHHhhhCCCC
Q 021660          192 CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITE-----EAVYLCTGNPL  266 (309)
Q Consensus       192 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~-----~~v~~~~~~~~  266 (309)
                      |..+.|.|++..+....+.+++..+....+++....++..+.||+|.++|.|+..+.....+++     +.+..+.+...
T Consensus       182 ctrfrf~pl~~~~~~~r~shi~e~e~~~~~~~~~~a~~r~s~gDmr~a~n~Lqs~~~~~~~~~e~~~~~~~vy~c~g~p~  261 (360)
T KOG0990|consen  182 CTRFRFAPLTMAQQTERQSHIRESEQKETNPEGYSALGRLSVGDMRVALNYLQSILKKVMERKELNNPNDLVYQCKGAPQ  261 (360)
T ss_pred             cccCCCCCCChhhhhhHHHHHHhcchhhcCHHHHHHHHHHhHHHHHHHHHHHHHHHHHhCCCCCCCCchhhHHHhcCCCC
Confidence            9999999999999999999999999999999999999999999999999999988876644444     44899999888


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          267 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       267 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ..++..+++.+...........+.++....|.+-.+++.++.
T Consensus       262 ~~dI~~I~~~il~~~~~~~~~~is~lk~~~gla~~d~i~~l~  303 (360)
T KOG0990|consen  262 PSDIRQIIEKRMNGEDIELMLDDSELKKPKGLARQDRRAELE  303 (360)
T ss_pred             hhHHHHHHHHHhcCchHHHHhhhhhhhhhhhhHHHHHHHHHH
Confidence            889999999999999988888888888777888888887764

>PRK04132 replication factor C small subunit; Provisional

Probab=99.96  E-value=1.3e-27  Score=222.58  Aligned_cols=229  Identities=41%  Similarity=0.729  Sum_probs=209.7

Q ss_pred             EEEEC--CCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC
Q 021660           77 LLLYG--PPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (309)
Q Consensus        77 ~ll~G--~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~  154 (309)
                      -++.|  |.+.||||+|+++++++.++++...++++++++..+.+.++..+..+....+.. +  .+.+|+||||+|.++
T Consensus       567 ~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~-~--~~~KVvIIDEaD~Lt  643 (846)
T PRK04132        567 NFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIG-G--ASFKIIFLDEADALT  643 (846)
T ss_pred             hhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcC-C--CCCEEEEEECcccCC
Confidence            56668  999999999999999998877888999999999889999998888876554331 1  146899999999999


Q ss_pred             HHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC
Q 021660          155 KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (309)
Q Consensus       155 ~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g  234 (309)
                      .++++.|++.|++++.+++||++||...++.+++++||+.+.|.+++.+++...+...+.++|+.++++++..|++.++|
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             CHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          235 DMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       235 ~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      |+|.+++.|+.++...+.||.+.+..+++......+.++++.+..++...++..+.+++...|.++.+++..+.
T Consensus       724 DlR~AIn~Lq~~~~~~~~It~~~V~~~~~~~~~~~I~~il~~~l~~~~~~ar~~l~ell~~~G~~~~~iL~~l~  797 (846)
T PRK04132        724 DMRRAINILQAAAALDDKITDENVFLVASRARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMH  797 (846)
T ss_pred             CHHHHHHHHHHHHHhcCCCCHHHHHHHhCCCCHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            99999999999887667899999999999998889999999999999999999999998789999999998774

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.95  E-value=3.1e-25  Score=191.47  Aligned_cols=207  Identities=18%  Similarity=0.250  Sum_probs=163.5

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ..|-.+|+|.+|++++|+++.++.+..++..     ...++++|+||||+|||++++.+++++     +..+...+....
T Consensus        13 ~~~~~~~rP~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l-----~~~~~~~~~~~~   87 (328)
T PRK00080         13 DEIERSLRPKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM-----GVNIRITSGPAL   87 (328)
T ss_pred             chhhhhcCcCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh-----CCCeEEEecccc
Confidence            3467899999999999999999988877752     334569999999999999999999998     333333333322


Q ss_pred             cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCceEEEE
Q 021660          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALI  177 (309)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~~i~~  177 (309)
                      .....+...+...           ..+.+|+|||+|.++....+.|..+++...                  +...+|++
T Consensus        88 ~~~~~l~~~l~~l-----------~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~a  156 (328)
T PRK00080         88 EKPGDLAAILTNL-----------EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGA  156 (328)
T ss_pred             cChHHHHHHHHhc-----------ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEee
Confidence            2223333322221           146799999999999888888888887532                  23567778


Q ss_pred             ecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-----C
Q 021660          178 CNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----Q  251 (309)
Q Consensus       178 ~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-----~  251 (309)
                      ++....+.+.+++|| ..+.|.+++.+++.+++++.+...++.++++++..|+++++|+||.+.+.++.+...+     +
T Consensus       157 t~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~  236 (328)
T PRK00080        157 TTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDG  236 (328)
T ss_pred             cCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCC
Confidence            888888889999998 7799999999999999999999999999999999999999999999999998765322     5


Q ss_pred             CcCHHHHHhhhC
Q 021660          252 QITEEAVYLCTG  263 (309)
Q Consensus       252 ~i~~~~v~~~~~  263 (309)
                      .|+.+.+..++.
T Consensus       237 ~I~~~~v~~~l~  248 (328)
T PRK00080        237 VITKEIADKALD  248 (328)
T ss_pred             CCCHHHHHHHHH
Confidence            688888877774

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.95  E-value=4.8e-25  Score=189.55  Aligned_cols=237  Identities=21%  Similarity=0.344  Sum_probs=174.4

Q ss_pred             hcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-----c----------------
Q 021660           46 KYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----Y----------------  103 (309)
Q Consensus        46 ~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----~----------------  103 (309)
                      ...|..+.+++|++++...+...+.+++.++ ++|+||+|+|||++++.+++.+.+..     .                
T Consensus        16 ~~~P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i   95 (351)
T PRK09112         16 VPSPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQI   95 (351)
T ss_pred             CCCCCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHH
Confidence            3688899999999999999999999999888 99999999999999999999998721     0                


Q ss_pred             ----cccEEEEecC---------CCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcC
Q 021660          104 ----HNMILELNAS---------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK  170 (309)
Q Consensus       104 ----~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~  170 (309)
                          ..++..+...         ....++.++.....+....     ...+.+|+||||+|.++....+.|++.+++++.
T Consensus        96 ~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~-----~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~  170 (351)
T PRK09112         96 AQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTS-----GDGNWRIVIIDPADDMNRNAANAILKTLEEPPA  170 (351)
T ss_pred             HcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhcc-----ccCCceEEEEEchhhcCHHHHHHHHHHHhcCCC
Confidence                1122323211         1123455554444333221     122688999999999999999999999999999


Q ss_pred             CceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc
Q 021660          171 NTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS  250 (309)
Q Consensus       171 ~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~  250 (309)
                      ++.+|++++.+..+.+++++||..+.|.+++.+++..++.+.....+  ++++.+..+++.++|++|.++++++..... 
T Consensus       171 ~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~--~~~~~~~~i~~~s~G~pr~Al~ll~~~~~~-  247 (351)
T PRK09112        171 RALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG--SDGEITEALLQRSKGSVRKALLLLNYGGLE-  247 (351)
T ss_pred             CceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC--CCHHHHHHHHHHcCCCHHHHHHHHhcCcHH-
Confidence            99999999999999999999999999999999999999998543333  778999999999999999999998643321 


Q ss_pred             CCcCHHHHHhhhC--CCChHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          251 QQITEEAVYLCTG--NPLPKDIEQISYWLLNESFADSFKRISEMK  293 (309)
Q Consensus       251 ~~i~~~~v~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  293 (309)
                        +. ..+...+.  .........+.+.+.+.+....+.++.+++
T Consensus       248 --~~-~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~~~~~~~~l  289 (351)
T PRK09112        248 --II-ATIDQLLAGSGPDARKAHKLADALSGRESEVQFDFFRDHL  289 (351)
T ss_pred             --HH-HHHHHHHhhccCCcchHHHHHHHHhCCChHHHHHHHHHHH
Confidence              11 11222222  112123456666666655555554444444

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.94  E-value=1e-24  Score=187.09  Aligned_cols=232  Identities=19%  Similarity=0.304  Sum_probs=177.4

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc---ccccEEEEec--CCCcchHHHHHH
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ---YHNMILELNA--SDDRGIDVVRQQ  124 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~---~~~~~~~~~~--~~~~~~~~~~~~  124 (309)
                      +|++++|++.+++.+.+++..++.++ ++|+||+|+|||++|+.+++.+.|..   ...++..+..  ......+.++..
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            57899999999999999999998888 79999999999999999999997753   2334444443  233455677766


Q ss_pred             HHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCChHH
Q 021660          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH  204 (309)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~  204 (309)
                      +..+...+.   .  .+++|+|||++|.++.+.++.|++.++++|+.+.+|++++.++.+.+++++||+.+.|.+++.++
T Consensus        82 ~~~~~~~p~---~--~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~  156 (313)
T PRK05564         82 IEEVNKKPY---E--GDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEE  156 (313)
T ss_pred             HHHHhcCcc---c--CCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHH
Confidence            655433221   1  26899999999999999999999999999999999999998999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHH
Q 021660          205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFAD  284 (309)
Q Consensus       205 ~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~  284 (309)
                      +..|+.+.+.    .++++.+..++..++|+++.+...+.....       ..        ....++++++.+..++...
T Consensus       157 ~~~~l~~~~~----~~~~~~~~~l~~~~~g~~~~a~~~~~~~~~-------~~--------~~~~~~~~~~~l~~~~~~~  217 (313)
T PRK05564        157 IEKFISYKYN----DIKEEEKKSAIAFSDGIPGKVEKFIEDDSL-------KN--------IRNMSLEILKDIKKSNINI  217 (313)
T ss_pred             HHHHHHHHhc----CCCHHHHHHHHHHcCCCHHHHHHHhcccHH-------HH--------HHHHHHHHHHHHHcCCHHH
Confidence            9999986542    578888899999999999888766432111       00        1224556666666666666


Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHh
Q 021660          285 SFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       285 ~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                      ++..+..+. ..|..+..++..|
T Consensus       218 ~l~~~~~l~-~~~~~~~~~l~~l  239 (313)
T PRK05564        218 LLKYENFLI-KYKENWEEILTCI  239 (313)
T ss_pred             HHHHHHHHH-HcCccHHHHHHHH
Confidence            666666665 5556665555443

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

Probab=99.94  E-value=5.2e-25  Score=176.29  Aligned_cols=204  Identities=16%  Similarity=0.248  Sum_probs=168.0

Q ss_pred             hhhcCCCCccccccChHHHHHHHHHHh-----cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           44 VEKYRPQSLADVAAHRDIVDTIDRLTS-----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        44 ~~~~~p~~~~~~ig~~~~~~~l~~~~~-----~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      -...||+.+.+++||+++++.+.-.++     +....|+||+||||.||||||..+|+++     +..+...+.......
T Consensus        17 e~~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em-----gvn~k~tsGp~leK~   91 (332)
T COG2255          17 ERSLRPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL-----GVNLKITSGPALEKP   91 (332)
T ss_pred             hcccCcccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh-----cCCeEecccccccCh
Confidence            356899999999999999998887765     3345679999999999999999999998     666666666555555


Q ss_pred             HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCceEEEEecC
Q 021660          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALICNQ  180 (309)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~~i~~~~~  180 (309)
                      ..+...+..+.           .+.|++|||+|++++...+.|+.+|++..                  +...+|.+|+.
T Consensus        92 gDlaaiLt~Le-----------~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr  160 (332)
T COG2255          92 GDLAAILTNLE-----------EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTR  160 (332)
T ss_pred             hhHHHHHhcCC-----------cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccc
Confidence            55555544432           57899999999999999999999999742                  23346777888


Q ss_pred             Ccccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-----CCcC
Q 021660          181 VNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQIT  254 (309)
Q Consensus       181 ~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-----~~i~  254 (309)
                      ...+...|+.|| ...++.-++.+|+.+++.+.+...++.+++++...|++++.|.||-+.++|+.+--.+     ..|+
T Consensus       161 ~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~V~~~~~I~  240 (332)
T COG2255         161 AGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQVKGDGDID  240 (332)
T ss_pred             cccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccCCcHHHHHHHHHHHHHHHHhcCCccc
Confidence            889999999999 7788888999999999999999999999999999999999999999999998776543     5677


Q ss_pred             HHHHHhhhC
Q 021660          255 EEAVYLCTG  263 (309)
Q Consensus       255 ~~~v~~~~~  263 (309)
                      .+....++.
T Consensus       241 ~~ia~~aL~  249 (332)
T COG2255         241 RDIADKALK  249 (332)
T ss_pred             HHHHHHHHH
Confidence            776666653

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.94  E-value=2.6e-24  Score=185.97  Aligned_cols=234  Identities=25%  Similarity=0.369  Sum_probs=174.5

Q ss_pred             cCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc----------------------
Q 021660           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------------------  103 (309)
Q Consensus        47 ~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~----------------------  103 (309)
                      .+|..+.+++||+.+++.+.+.+.+++.+| ++|+||+|+||+++|..+++.+.|+..                      
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            689999999999999999999999999998 999999999999999999999976532                      


Q ss_pred             -------cccEEEEecC---------CCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHH
Q 021660          104 -------HNMILELNAS---------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK  167 (309)
Q Consensus       104 -------~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~  167 (309)
                             ..++..+...         ....++.++.....+....     ...+++|+||||+|.++....+.|++.+++
T Consensus        93 ~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~-----~~~~~kVviIDead~m~~~aanaLLK~LEe  167 (365)
T PRK07471         93 RRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTA-----AEGGWRVVIVDTADEMNANAANALLKVLEE  167 (365)
T ss_pred             HHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCc-----ccCCCEEEEEechHhcCHHHHHHHHHHHhc
Confidence                   1123333321         1123555555544443221     123688999999999999999999999999


Q ss_pred             hcCCceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          168 YTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (309)
Q Consensus       168 ~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~  247 (309)
                      ++..+.+|++|+....+.+.+++||+.+.|.+++.+++..++...    +...+++.+..+++.++|+++.++..++.-.
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    3445566668899999999999999885322


Q ss_pred             hhcCCcCHHHHHhhhC---CCChHHHHHHHHHHhcCC----HHHHHHHHHHHH
Q 021660          248 MASQQITEEAVYLCTG---NPLPKDIEQISYWLLNES----FADSFKRISEMK  293 (309)
Q Consensus       248 ~~~~~i~~~~v~~~~~---~~~~~~~~~~~~~~~~~~----~~~~~~~l~~~~  293 (309)
                      ..   . .+.+...+.   ......+..+.+.+.+.+    +...+.++..|+
T Consensus       244 ~~---~-~~~~~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~l  292 (365)
T PRK07471        244 LA---L-YRRLTALLDTLPRLDRRALHALADAAAGRDRAARFALFLDLLDRWL  292 (365)
T ss_pred             hH---H-HHHHHHHHhccccCCHHHHHHHHHHHHccChHHHHHHHHHHHHHHH
Confidence            11   1 112222222   222333466667666666    454555555555

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.93  E-value=5.4e-24  Score=182.60  Aligned_cols=198  Identities=15%  Similarity=0.229  Sum_probs=154.9

Q ss_pred             CCccccccChHHHHHHHHHHh-----cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHH
Q 021660           50 QSLADVAAHRDIVDTIDRLTS-----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~-----~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (309)
                      ++|++|+|+++.++.+..++.     ....++++|+||||+|||++++.+++++.     ..+.............+...
T Consensus         1 ~~~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~-----~~~~~~~~~~~~~~~~l~~~   75 (305)
T TIGR00635         1 KLLAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMG-----VNLKITSGPALEKPGDLAAI   75 (305)
T ss_pred             CCHHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhC-----CCEEEeccchhcCchhHHHH
Confidence            368899999999999998886     33455699999999999999999999983     33333333322222333333


Q ss_pred             HHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCceEEEEecCCcccch
Q 021660          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALICNQVNKIIP  186 (309)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~~i~~~~~~~~l~~  186 (309)
                      +...           ..+.+|+|||++.+++...+.|+.++++..                  +...+|.+++....+.+
T Consensus        76 l~~~-----------~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~  144 (305)
T TIGR00635        76 LTNL-----------EEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTS  144 (305)
T ss_pred             HHhc-----------ccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCH
Confidence            3221           145799999999999988888888887432                  22566777788888889


Q ss_pred             hhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-----CCcCHHHHHh
Q 021660          187 ALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQITEEAVYL  260 (309)
Q Consensus       187 ~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~  260 (309)
                      .+++|| ..+.|.+++.+++.+++++.+...++.+++++++.|++.++|++|.+.+.++.+...+     ..++.+.+..
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            999999 6789999999999999999999999999999999999999999999999998765332     4588888877


Q ss_pred             hhC
Q 021660          261 CTG  263 (309)
Q Consensus       261 ~~~  263 (309)
                      .+.
T Consensus       225 ~l~  227 (305)
T TIGR00635       225 ALE  227 (305)
T ss_pred             HHH
Confidence            764

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.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.93  E-value=8.5e-24  Score=188.31  Aligned_cols=208  Identities=25%  Similarity=0.432  Sum_probs=176.8

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhc--------------------------------CCCCe--EEEECCCCC
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE--------------------------------NRLPH--LLLYGPPGT   85 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~--------------------------------~~~~~--~ll~G~~G~   85 (309)
                      ...|.++|+|+.|.|++|.+..-+.+..|++.                                ++++.  ++|+||||.
T Consensus       258 ~kLWVdky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGl  337 (877)
T KOG1969|consen  258 DKLWVDKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGL  337 (877)
T ss_pred             cceeecccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCC
Confidence            33799999999999999999999999988851                                12222  899999999


Q ss_pred             cHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHH
Q 021660           86 GKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVI  165 (309)
Q Consensus        86 GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l  165 (309)
                      ||||||+.+|++.     +..+++++.++.+....+.+.+......... +....++.+|||||||.......+.++.++
T Consensus       338 GKTTLAHViAkqa-----GYsVvEINASDeRt~~~v~~kI~~avq~~s~-l~adsrP~CLViDEIDGa~~~~Vdvilslv  411 (877)
T KOG1969|consen  338 GKTTLAHVIAKQA-----GYSVVEINASDERTAPMVKEKIENAVQNHSV-LDADSRPVCLVIDEIDGAPRAAVDVILSLV  411 (877)
T ss_pred             ChhHHHHHHHHhc-----CceEEEecccccccHHHHHHHHHHHHhhccc-cccCCCcceEEEecccCCcHHHHHHHHHHH
Confidence            9999999999998     8899999999999999999999988877666 432337889999999999988889999888


Q ss_pred             HHhc---------------------CCceEEEEecCCcc-cchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHH
Q 021660          166 EKYT---------------------KNTRFALICNQVNK-IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEG  223 (309)
Q Consensus       166 ~~~~---------------------~~~~~i~~~~~~~~-l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~  223 (309)
                      +...                     -.-+||++||+.+. -...|+..+.+++|.+|+..-+.+.|+.+|.++|+..+..
T Consensus       412 ~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLYaPaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~mr~d~~  491 (877)
T KOG1969|consen  412 KATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLYAPALRPLRPFAEIIAFVPPSQSRLVERLNEICHRENMRADSK  491 (877)
T ss_pred             HhhcchhhcCcccchhhhhhhccccccCCEEEEecCccchhhhhcccceEEEEecCCChhHHHHHHHHHHhhhcCCCCHH
Confidence            8311                     12357788887653 3455666779999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhhcCCc
Q 021660          224 GLAALVRLCNGDMRKALNILQSTHMASQQI  253 (309)
Q Consensus       224 ~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i  253 (309)
                      ++..+.+.+.+|+|.++|.||.++...+..
T Consensus       492 aL~~L~el~~~DIRsCINtLQfLa~~~~r~  521 (877)
T KOG1969|consen  492 ALNALCELTQNDIRSCINTLQFLASNVDRR  521 (877)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999999887653

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.92  E-value=9.3e-24  Score=183.96  Aligned_cols=183  Identities=22%  Similarity=0.350  Sum_probs=149.9

Q ss_pred             CccccccChHHHHHHHHHHhcCC---------CCe-EEEECCCCCcHHHHHHHHHHHHccCc------------------
Q 021660           51 SLADVAAHRDIVDTIDRLTSENR---------LPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------  102 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~---------~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~------------------  102 (309)
                      .|++++||+++++.|.+++..++         .++ ++|+||+|+|||++|+.+++.+.|..                  
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            47899999999999999999875         556 99999999999999999999998753                  


Q ss_pred             ccccEEEEecC-CCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          103 YHNMILELNAS-DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       103 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      ...++..+.+. ...+.+.++..+......+.     ..+++|+||||+|.+.+...+.|++.|+++++.+.+|++|+..
T Consensus        83 ~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~-----~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~  157 (394)
T PRK07940         83 THPDVRVVAPEGLSIGVDEVRELVTIAARRPS-----TGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSP  157 (394)
T ss_pred             CCCCEEEeccccccCCHHHHHHHHHHHHhCcc-----cCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECCh
Confidence            12233333332 23456667766655543221     1267899999999999999999999999999999999999999


Q ss_pred             cccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHH
Q 021660          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (309)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l  243 (309)
                      ..+.+++++||+.+.|.+|+.+++..++.+.   .  .++++.+..++..++|+++.++..+
T Consensus       158 ~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~---~--~~~~~~a~~la~~s~G~~~~A~~l~  214 (394)
T PRK07940        158 EDVLPTIRSRCRHVALRTPSVEAVAEVLVRR---D--GVDPETARRAARASQGHIGRARRLA  214 (394)
T ss_pred             HHChHHHHhhCeEEECCCCCHHHHHHHHHHh---c--CCCHHHHHHHHHHcCCCHHHHHHHh
Confidence            9999999999999999999999999888742   1  3678889999999999999887664

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.92  E-value=2.4e-23  Score=189.14  Aligned_cols=227  Identities=22%  Similarity=0.319  Sum_probs=171.9

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC---c--ccccEEEEecC
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA---Q--YHNMILELNAS  113 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~---~--~~~~~~~~~~~  113 (309)
                      -..||.++|||.+|++++|++..++.+...+......+++|+||||||||++|+.+.+.....   .  ....++++++.
T Consensus        51 ~~~~~~~~~rp~~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~  130 (531)
T TIGR02902        51 LTEPLSEKTRPKSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDAT  130 (531)
T ss_pred             hcchHHHhhCcCCHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEccc
Confidence            367899999999999999999999999988877777789999999999999999998764321   1  13567888875


Q ss_pred             CCcc-hHHHH-HHHHH----hhhc-----------cccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh--------
Q 021660          114 DDRG-IDVVR-QQIQD----FAST-----------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY--------  168 (309)
Q Consensus       114 ~~~~-~~~~~-~~~~~----~~~~-----------~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~--------  168 (309)
                      .... ...+. ..+..    ....           .....-..+++++|+|||++.+++..++.|++++++.        
T Consensus       131 ~~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~  210 (531)
T TIGR02902       131 TARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAY  210 (531)
T ss_pred             cccCCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeecccc
Confidence            3110 00010 00100    0000           0000111335789999999999999999999999852        


Q ss_pred             --------------------cCCceEEEEe-cCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHH
Q 021660          169 --------------------TKNTRFALIC-NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAA  227 (309)
Q Consensus       169 --------------------~~~~~~i~~~-~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~  227 (309)
                                          +.+.++|++| +.+..+++++++||..+.|++++.+++..++++.+++.++.+++++++.
T Consensus       211 ~~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrsR~~~I~f~pL~~eei~~Il~~~a~k~~i~is~~al~~  290 (531)
T TIGR02902       211 YNSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRSRCVEIFFRPLLDEEIKEIAKNAAEKIGINLEKHALEL  290 (531)
T ss_pred             ccccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhhhhheeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHH
Confidence                                1234566554 5677899999999999999999999999999999999999999999998


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhhc-----CCcCHHHHHhhhCCCC
Q 021660          228 LVRLCNGDMRKALNILQSTHMAS-----QQITEEAVYLCTGNPL  266 (309)
Q Consensus       228 i~~~~~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~~~~  266 (309)
                      |..++. |.|.+.+.++.++..+     ..|+.+++..++....
T Consensus       291 I~~y~~-n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~~~~  333 (531)
T TIGR02902       291 IVKYAS-NGREAVNIVQLAAGIALGEGRKRILAEDIEWVAENGN  333 (531)
T ss_pred             HHHhhh-hHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhCCcc
Confidence            888775 8999999999887543     3599999998886543

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.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.92  E-value=7.1e-23  Score=173.90  Aligned_cols=187  Identities=21%  Similarity=0.334  Sum_probs=147.4

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-------------ccccEEEEecCC--
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------YHNMILELNASD--  114 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------~~~~~~~~~~~~--  114 (309)
                      .|++++||+.+++.+.+.+..++.++ +||+||+|+||+++|..+++.+.|..             ...++..+.+..  
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            47899999999999999999998766 99999999999999999999997754             122333333210  


Q ss_pred             ---------------------CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCce
Q 021660          115 ---------------------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTR  173 (309)
Q Consensus       115 ---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~  173 (309)
                                           ...++.++.....+ ...+.    ..+++|+|||++|.+.....+.|++.|++++ ++.
T Consensus        82 ~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l-~~~p~----~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~  155 (314)
T PRK07399         82 QGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFL-SRPPL----EAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGT  155 (314)
T ss_pred             cccccchhhhhhccccccccccCcHHHHHHHHHHH-ccCcc----cCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCe
Confidence                                 11233444433333 22221    1268999999999999999999999999999 889


Q ss_pred             EEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHH
Q 021660          174 FALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQST  246 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~  246 (309)
                      ||++++....+.+++++||+.+.|.+++.+++.++|.+.....+   .+.....++..++|+++.+++.++..
T Consensus       156 fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~---~~~~~~~l~~~a~Gs~~~al~~l~~~  225 (314)
T PRK07399        156 LILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI---LNINFPELLALAQGSPGAAIANIEQL  225 (314)
T ss_pred             EEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc---chhHHHHHHHHcCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999998643222   12235788999999999999988754

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=99.91  E-value=2.6e-22  Score=171.71  Aligned_cols=177  Identities=28%  Similarity=0.382  Sum_probs=148.9

Q ss_pred             ChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-------------------ccccEEEEecC---C
Q 021660           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNAS---D  114 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------~~~~~~~~~~~---~  114 (309)
                      +....+.+.+.+..++.+| ++|+||+|+||+++|..+++.+.|..                   ...++..+.+.   .
T Consensus         7 l~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~   86 (334)
T PRK07993          7 LRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKS   86 (334)
T ss_pred             ChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccc
Confidence            4478888999999998888 89999999999999999999998742                   23455555443   2


Q ss_pred             CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeE
Q 021660          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (309)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~  194 (309)
                      ..+++.++.....+......     .+.+|+|||++|.|..+..|.|++.||+||+++.||++|+.+..+.++++|||+.
T Consensus        87 ~I~idqiR~l~~~~~~~~~~-----g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~  161 (334)
T PRK07993         87 SLGVDAVREVTEKLYEHARL-----GGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRL  161 (334)
T ss_pred             cCCHHHHHHHHHHHhhcccc-----CCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcccc
Confidence            35677888776666544332     2689999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      +.|++++.+++..+|...     ..++++.+..++..++|+++.++..++
T Consensus       162 ~~~~~~~~~~~~~~L~~~-----~~~~~~~a~~~~~la~G~~~~Al~l~~  206 (334)
T PRK07993        162 HYLAPPPEQYALTWLSRE-----VTMSQDALLAALRLSAGAPGAALALLQ  206 (334)
T ss_pred             ccCCCCCHHHHHHHHHHc-----cCCCHHHHHHHHHHcCCCHHHHHHHhc
Confidence            999999999999998752     247777788889999999999988874

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.90  E-value=1.1e-21  Score=167.56  Aligned_cols=170  Identities=26%  Similarity=0.390  Sum_probs=137.7

Q ss_pred             HHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-------------------ccccEEEEecC---CCcchHHHH
Q 021660           66 DRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNAS---DDRGIDVVR  122 (309)
Q Consensus        66 ~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------~~~~~~~~~~~---~~~~~~~~~  122 (309)
                      .+++..++.+| ++|+||+|+||+++|+.+++.+.|+.                   ...++..+...   ...+++.++
T Consensus        13 ~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR   92 (328)
T PRK05707         13 QQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVR   92 (328)
T ss_pred             HHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHH
Confidence            33445577777 99999999999999999999998753                   23345555443   235678888


Q ss_pred             HHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCCh
Q 021660          123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP  202 (309)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~  202 (309)
                      +....+......     .+++|+|||++|.++.+..+.|++.+|++++++.||++|+....++++++|||+.+.|.+++.
T Consensus        93 ~l~~~~~~~~~~-----~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~  167 (328)
T PRK05707         93 ELVSFVVQTAQL-----GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSN  167 (328)
T ss_pred             HHHHHHhhcccc-----CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCH
Confidence            766665543322     268899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       203 ~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      +++..++....    ...+++....++..++|+|..++..++
T Consensus       168 ~~~~~~L~~~~----~~~~~~~~~~~l~la~Gsp~~A~~l~~  205 (328)
T PRK05707        168 EESLQWLQQAL----PESDERERIELLTLAGGSPLRALQLHE  205 (328)
T ss_pred             HHHHHHHHHhc----ccCChHHHHHHHHHcCCCHHHHHHHHC
Confidence            99999998653    134666677888999999999987764

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.90  E-value=3.2e-22  Score=159.33  Aligned_cols=166  Identities=29%  Similarity=0.473  Sum_probs=132.3

Q ss_pred             HHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-------------------ccccEEEEecCC-CcchHHH
Q 021660           63 DTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNASD-DRGIDVV  121 (309)
Q Consensus        63 ~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------~~~~~~~~~~~~-~~~~~~~  121 (309)
                      +.+.+.+..++.++ ++|+||+|+|||++++.+++.+.+..                   ...++..+.... ..+.+.+
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            35677788887776 99999999999999999999997641                   111223332221 2345566


Q ss_pred             HHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCC
Q 021660          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLE  201 (309)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~  201 (309)
                      +..+..+.....     ..+++++||||+|.+..+.++.|++.++++++.+.+|++++....+.+++.+|+..++|.+++
T Consensus        82 ~~i~~~~~~~~~-----~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~  156 (188)
T TIGR00678        82 RELVEFLSRTPQ-----ESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLS  156 (188)
T ss_pred             HHHHHHHccCcc-----cCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCC
Confidence            655544432221     126889999999999999999999999999999999999988889999999999999999999


Q ss_pred             hHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHH
Q 021660          202 PVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKA  239 (309)
Q Consensus       202 ~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~  239 (309)
                      .+++..|+.+.    |  +++++++.+++.++|++|.+
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  78999999999999999864

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.

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.90  E-value=9.1e-22  Score=161.52  Aligned_cols=198  Identities=15%  Similarity=0.211  Sum_probs=149.5

Q ss_pred             Cccccc--cChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           51 SLADVA--AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        51 ~~~~~i--g~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      +|++++  .+..++..+.++......++++|+||+|+|||++++++++++...+....+..++.....    ....+..+
T Consensus        20 ~fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~~----~~~~~~~~   95 (235)
T PRK08084         20 TFASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAWF----VPEVLEGM   95 (235)
T ss_pred             CccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhhh----hHHHHHHh
Confidence            466666  367788888888776666679999999999999999999988655555555554432211    11111111


Q ss_pred             hhccccccCCCCccEEEEEeCCCCCC--HHHHHHHHHHHHHhcC--CceEEEEecCCc----ccchhhhcce---eEEEe
Q 021660          129 ASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK--NTRFALICNQVN----KIIPALQSRC---TRFRF  197 (309)
Q Consensus       129 ~~~~~~~~~~~~~~~lliiDe~~~l~--~~~~~~l~~~l~~~~~--~~~~i~~~~~~~----~l~~~l~~r~---~~i~~  197 (309)
                      .           ...+|+|||++.+.  +.....|+.+++....  ...+|++++..+    .+.+.+.+|+   .++.+
T Consensus        96 ~-----------~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l  164 (235)
T PRK08084         96 E-----------QLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKL  164 (235)
T ss_pred             h-----------hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeee
Confidence            1           23589999999986  3446678788876532  346777776443    2578999998   89999


Q ss_pred             cCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh----cCCcCHHHHHhhhC
Q 021660          198 APLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTG  263 (309)
Q Consensus       198 ~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~~  263 (309)
                      .+|+.+++..++++++...|+.++++++++|+++++||+|.+.+.++.+...    ...||.+.+++++.
T Consensus       165 ~~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~~~k~~l~  234 (235)
T PRK08084        165 QPLSDEEKLQALQLRARLRGFELPEDVGRFLLKRLDREMRTLFMTLDQLDRASITAQRKLTIPFVKEILK  234 (235)
T ss_pred             cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHc
Confidence            9999999999999989999999999999999999999999999999887532    36788888887653

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.90  E-value=9.9e-22  Score=168.94  Aligned_cols=181  Identities=27%  Similarity=0.444  Sum_probs=145.0

Q ss_pred             cccccc-ChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc-------------------cccEEEE
Q 021660           52 LADVAA-HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------------HNMILEL  110 (309)
Q Consensus        52 ~~~~ig-~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~-------------------~~~~~~~  110 (309)
                      ++.++| |+.+++.+.+.+..++.+| ++|+||+|+||+++++.+++.+.|...                   ..++..+
T Consensus         4 ~~~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i   83 (329)
T PRK08058          4 WEQLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLV   83 (329)
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEe
Confidence            567888 9999999999999999888 799999999999999999999977531                   2233333


Q ss_pred             ecC-CCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhh
Q 021660          111 NAS-DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQ  189 (309)
Q Consensus       111 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~  189 (309)
                      ... .....+.++..+..+.....     ..+++|+||||++.++.+..+.|++.+|++|+.+.+|++++...++.++++
T Consensus        84 ~~~~~~i~id~ir~l~~~~~~~~~-----~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIr  158 (329)
T PRK08058         84 APDGQSIKKDQIRYLKEEFSKSGV-----ESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTIL  158 (329)
T ss_pred             ccccccCCHHHHHHHHHHHhhCCc-----ccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHH
Confidence            222 22455667766665543321     126899999999999999999999999999999999999999999999999


Q ss_pred             cceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          190 SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       190 ~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      +||..++|.+++.+++..+++.    +|  ++++....++.. .|+++.++..++
T Consensus       159 SRc~~i~~~~~~~~~~~~~L~~----~g--i~~~~~~~l~~~-~g~~~~A~~l~~  206 (329)
T PRK08058        159 SRCQVVEFRPLPPESLIQRLQE----EG--ISESLATLLAGL-TNSVEEALALSE  206 (329)
T ss_pred             hhceeeeCCCCCHHHHHHHHHH----cC--CChHHHHHHHHH-cCCHHHHHHHhc
Confidence            9999999999999999888864    34  566666666655 478998887764

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.89  E-value=4.7e-21  Score=162.28  Aligned_cols=177  Identities=23%  Similarity=0.296  Sum_probs=145.2

Q ss_pred             ChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-------------------ccccEEEEec--CCC
Q 021660           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNA--SDD  115 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------~~~~~~~~~~--~~~  115 (309)
                      +....+.+.+.+..++.+| ++|+||+|+||+++|+.+++.+.|..                   ...++..+..  ...
T Consensus         7 ~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~   86 (325)
T PRK06871          7 LQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKD   86 (325)
T ss_pred             hHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCC
Confidence            4578888999999998888 89999999999999999999998743                   2334555543  234


Q ss_pred             cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEE
Q 021660          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (309)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i  195 (309)
                      .+++.++.....+...+..     .+.+|+|||++|.++.+..+.|++.+|++|+++.||++|+....++++++|||+.+
T Consensus        87 I~id~iR~l~~~~~~~~~~-----g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~  161 (325)
T PRK06871         87 IGVDQVREINEKVSQHAQQ-----GGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTW  161 (325)
T ss_pred             CCHHHHHHHHHHHhhcccc-----CCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEE
Confidence            5677887766655443322     26899999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      .|.+++.+++.++|....     ..+...+..++..++|.+..++..++
T Consensus       162 ~~~~~~~~~~~~~L~~~~-----~~~~~~~~~~~~l~~g~p~~A~~~~~  205 (325)
T PRK06871        162 LIHPPEEQQALDWLQAQS-----SAEISEILTALRINYGRPLLALTFLE  205 (325)
T ss_pred             eCCCCCHHHHHHHHHHHh-----ccChHHHHHHHHHcCCCHHHHHHHhh
Confidence            999999999999998753     23444566778889999998887764

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.89  E-value=4.6e-21  Score=161.95  Aligned_cols=174  Identities=22%  Similarity=0.321  Sum_probs=142.0

Q ss_pred             ChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc------------------ccccEEEEecC---CC
Q 021660           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------YHNMILELNAS---DD  115 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~------------------~~~~~~~~~~~---~~  115 (309)
                      +....+.+.+.+..++.+| ++|+||.|+||+++|..+++.+.|..                  ...++..+.+.   ..
T Consensus         8 l~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~   87 (319)
T PRK06090          8 LVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKS   87 (319)
T ss_pred             HHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCc
Confidence            4578889999999999888 99999999999999999999997753                  23455555543   23


Q ss_pred             cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEE
Q 021660          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (309)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i  195 (309)
                      ..++.++...........     ..+.+|+|||++|.++.+..|.|++.+|++|+++.||++|+.+..+.++++|||+.+
T Consensus        88 I~vdqiR~l~~~~~~~~~-----~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~  162 (319)
T PRK06090         88 ITVEQIRQCNRLAQESSQ-----LNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQW  162 (319)
T ss_pred             CCHHHHHHHHHHHhhCcc-----cCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeE
Confidence            566777765444433222     226899999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      .|.+|+.+++.+++...    ++.    ....+++.++|+|..++..++
T Consensus       163 ~~~~~~~~~~~~~L~~~----~~~----~~~~~l~l~~G~p~~A~~~~~  203 (319)
T PRK06090        163 VVTPPSTAQAMQWLKGQ----GIT----VPAYALKLNMGSPLKTLAMMK  203 (319)
T ss_pred             eCCCCCHHHHHHHHHHc----CCc----hHHHHHHHcCCCHHHHHHHhC
Confidence            99999999999998653    433    235678899999999988764

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=99.89  E-value=1.4e-21  Score=169.45  Aligned_cols=184  Identities=40%  Similarity=0.630  Sum_probs=150.8

Q ss_pred             ccccChHHHHHHHHHHh-cCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-------------------ccccEEEEec
Q 021660           54 DVAAHRDIVDTIDRLTS-ENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNA  112 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~-~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------~~~~~~~~~~  112 (309)
                      ++++++.....+..+.. .++.++ ++|+||||+|||+++.++++.+.+..                   ....+.++++
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~   81 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNP   81 (325)
T ss_pred             CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecc
Confidence            57888888888888877 667888 99999999999999999999998765                   3578899999


Q ss_pred             CCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcce
Q 021660          113 SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      .+....+.....++.+...... .+...+.++++|||+|.+..+.++.+++.++.++.++++|++||....+.+.+++||
T Consensus        82 s~~~~~~i~~~~vr~~~~~~~~-~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~SRc  160 (325)
T COG0470          82 SDLRKIDIIVEQVRELAEFLSE-SPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSRC  160 (325)
T ss_pred             cccCCCcchHHHHHHHHHHhcc-CCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhhcc
Confidence            8876644344445554443333 221236899999999999999999999999999999999999999999999999999


Q ss_pred             eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Q 021660          193 TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      ..+.|.+++......+.+           ++.+..+++.+.|++|.+++.++..+..
T Consensus       161 ~~i~f~~~~~~~~i~~~e-----------~~~l~~i~~~~~gd~r~~i~~lq~~~~~  206 (325)
T COG0470         161 QRIRFKPPSRLEAIAWLE-----------DQGLEEIAAVAEGDARKAINPLQALAAL  206 (325)
T ss_pred             eeeecCCchHHHHHHHhh-----------ccchhHHHHHHHHHHHcCCCHHHHHHHh
Confidence            999999855444433333           6778999999999999999999988875

>PRK06893 DNA replication initiation factor; Validated

Probab=99.88  E-value=4.9e-21  Score=156.69  Aligned_cols=201  Identities=17%  Similarity=0.262  Sum_probs=142.6

Q ss_pred             CCCCccccccChHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           48 RPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~--~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      .+.+|+++++++...  ..+.+.......+.++|+||||+|||+|++++++++...+....++..+......    ...+
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            345788998765442  2233333333345589999999999999999999986666555555543221111    1111


Q ss_pred             HHhhhccccccCCCCccEEEEEeCCCCCC--HHHHHHHHHHHHHhcC-Cce-EEEEecCCc----ccchhhhccee---E
Q 021660          126 QDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK-NTR-FALICNQVN----KIIPALQSRCT---R  194 (309)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~lliiDe~~~l~--~~~~~~l~~~l~~~~~-~~~-~i~~~~~~~----~l~~~l~~r~~---~  194 (309)
                      ..+           .+..+|+|||++.+.  ......|+.+++.... ... +|++++...    ...+.+.+|+.   .
T Consensus        87 ~~~-----------~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~  155 (229)
T PRK06893         87 ENL-----------EQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEI  155 (229)
T ss_pred             hhc-----------ccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCe
Confidence            111           145799999999875  3345578888886543 333 455555432    23478999874   8


Q ss_pred             EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh----cCCcCHHHHHhhhC
Q 021660          195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTG  263 (309)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~~  263 (309)
                      +.+.+|+.++..+++++.+...++.++++++++|+++++||+|.+.+.++.+...    ...+|...+++.+.
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            9999999999999999999999999999999999999999999999999877532    24688888887653

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.88  E-value=1.3e-20  Score=159.35  Aligned_cols=176  Identities=25%  Similarity=0.335  Sum_probs=142.6

Q ss_pred             ChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc----------------cccEEEEe--cCC----
Q 021660           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------------HNMILELN--ASD----  114 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~----------------~~~~~~~~--~~~----  114 (309)
                      +....+.+...+..++.+| ++|+||+|+||+++|..+++.+.|++.                ..++..+.  +..    
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            5588999999999999998 999999999999999999999987541                23344442  211    


Q ss_pred             ---CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcc
Q 021660          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSR  191 (309)
Q Consensus       115 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r  191 (309)
                         ...++.+++....+......     .+.+|+|||++|.++.+..|.|++.+|++++++.||++++....+.++++||
T Consensus        89 ~~~~I~idqIR~l~~~~~~~p~~-----g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSR  163 (319)
T PRK08769         89 LRTEIVIEQVREISQKLALTPQY-----GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSR  163 (319)
T ss_pred             ccccccHHHHHHHHHHHhhCccc-----CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhh
Confidence               13455666555544333221     2689999999999999999999999999999999999999999999999999


Q ss_pred             eeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          192 CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       192 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      |+.+.|.+|+.+++..||...      .+++.....++..++|.|..++..++
T Consensus       164 Cq~i~~~~~~~~~~~~~L~~~------~~~~~~a~~~~~l~~G~p~~A~~~~~  210 (319)
T PRK08769        164 CQRLEFKLPPAHEALAWLLAQ------GVSERAAQEALDAARGHPGLAAQWLR  210 (319)
T ss_pred             heEeeCCCcCHHHHHHHHHHc------CCChHHHHHHHHHcCCCHHHHHHHhc
Confidence            999999999999999999752      35666677889999999999987763

>PRK08727 hypothetical protein; Validated

Probab=99.88  E-value=1.8e-20  Score=153.61  Aligned_cols=199  Identities=21%  Similarity=0.319  Sum_probs=143.9

Q ss_pred             CccccccChH-HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhh
Q 021660           51 SLADVAAHRD-IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (309)
Q Consensus        51 ~~~~~ig~~~-~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (309)
                      +|+.|++.+. .+..+..+..+.....++|+||+|+|||+++.+++.++...+....++.+....    ..+...+..+.
T Consensus        17 ~f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~----~~~~~~~~~l~   92 (233)
T PRK08727         17 RFDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAA----GRLRDALEALE   92 (233)
T ss_pred             ChhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhh----hhHHHHHHHHh
Confidence            5777776543 344444444333334499999999999999999999986666554554432211    11222222211


Q ss_pred             hccccccCCCCccEEEEEeCCCCCC--HHHHHHHHHHHHHhc-CCceEEEEecCCc----ccchhhhcc---eeEEEecC
Q 021660          130 STQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSR---CTRFRFAP  199 (309)
Q Consensus       130 ~~~~~~~~~~~~~~lliiDe~~~l~--~~~~~~l~~~l~~~~-~~~~~i~~~~~~~----~l~~~l~~r---~~~i~~~~  199 (309)
                                 +..+|+|||++.+.  +.....++++++... ....+|++++...    .+.+.+.+|   +..+.|++
T Consensus        93 -----------~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~  161 (233)
T PRK08727         93 -----------GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPV  161 (233)
T ss_pred             -----------cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecC
Confidence                       35699999999886  344567888887643 3445888876543    346889999   68899999


Q ss_pred             CChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHh----hcCCcCHHHHHhhhCC
Q 021660          200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCTGN  264 (309)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~~~  264 (309)
                      |+.+++..++++++...++.++++++++|+++++|++|.+++.|+.+..    ....||.+.+++.+..
T Consensus       162 ~~~e~~~~iL~~~a~~~~l~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~~it~~~~~~~l~~  230 (233)
T PRK08727        162 LDDVARAAVLRERAQRRGLALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKRRVTVPFLRRVLEE  230 (233)
T ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhh
Confidence            9999999999999999999999999999999999999999999987753    2256888888777643

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.87  E-value=7.7e-20  Score=155.99  Aligned_cols=216  Identities=21%  Similarity=0.261  Sum_probs=149.2

Q ss_pred             hHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc--------------------cccEEEEecC----
Q 021660           59 RDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY--------------------HNMILELNAS----  113 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~--------------------~~~~~~~~~~----  113 (309)
                      ....+.+...  .++.++ ++|+||+|+||+++|+.+++.+.|.+.                    ..++..+...    
T Consensus         7 ~~~~~~l~~~--~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~   84 (342)
T PRK06964          7 TDDWNRLQAL--RARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAA   84 (342)
T ss_pred             HHHHHHHHHh--cCCcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccc
Confidence            3566666664  345566 999999999999999999999988542                    1233333221    


Q ss_pred             -------------------------CCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh
Q 021660          114 -------------------------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (309)
Q Consensus       114 -------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~  168 (309)
                                               ....++.++.....+....     ...+.+|+|||++|.+..+..+.|++.+|++
T Consensus        85 ~~~~~~~~~~~~~~~~~~~k~~~~~~~I~idqiR~l~~~~~~~~-----~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEP  159 (342)
T PRK06964         85 EAPGAADEAKEADADEGGKKTKAPSKEIKIEQVRALLDFCGVGT-----HRGGARVVVLYPAEALNVAAANALLKTLEEP  159 (342)
T ss_pred             cccccccccccchhhcccccccccccccCHHHHHHHHHHhccCC-----ccCCceEEEEechhhcCHHHHHHHHHHhcCC
Confidence                                     1234566666554433221     1236899999999999999999999999999


Q ss_pred             cCCceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 021660          169 TKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM  248 (309)
Q Consensus       169 ~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~  248 (309)
                      ++++.||++|+..+.++++++|||+.+.|.+++.+++..+|...    +  +++.  +.++..++|++..++..++.-..
T Consensus       160 p~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~----~--~~~~--~~~l~~~~Gsp~~Al~~~~~~~~  231 (342)
T PRK06964        160 PPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ----G--VADA--DALLAEAGGAPLAALALASDENR  231 (342)
T ss_pred             CcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc----C--CChH--HHHHHHcCCCHHHHHHHHCCChH
Confidence            99999999999999999999999999999999999999999764    3  3332  34577889999999887632110


Q ss_pred             hcCCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          249 ASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMK  293 (309)
Q Consensus       249 ~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  293 (309)
                          -..+.+...+..........+.+.+.+.+....+.++..|+
T Consensus       232 ----~~~~~~~~~l~~~~~~~~~~~~~~~~k~~~~~~l~~l~~~l  272 (342)
T PRK06964        232 ----PLRDWTLGQLAAGAACDAFACAETLQKLPVPAVLGWLQRWL  272 (342)
T ss_pred             ----HHHHHHHHHHhccCchhHHHHHHHHhhcCHHHHHHHHHHHH
Confidence                01111222222223334455556665555555555554444

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.87  E-value=1.7e-20  Score=154.00  Aligned_cols=199  Identities=16%  Similarity=0.253  Sum_probs=147.3

Q ss_pred             CCCCcccccc--ChHHHHHHHHHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHH
Q 021660           48 RPQSLADVAA--HRDIVDTIDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (309)
Q Consensus        48 ~p~~~~~~ig--~~~~~~~l~~~~~~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (309)
                      +|.+|+++++  +...+..+..+.... ...+++|+||+|+|||+++++++++....+....  .+++....      ..
T Consensus        13 ~~~~~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~--~i~~~~~~------~~   84 (227)
T PRK08903         13 PPPTFDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNAR--YLDAASPL------LA   84 (227)
T ss_pred             ChhhhcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEE--EEehHHhH------HH
Confidence            3456888773  466777888877633 3345999999999999999999998755444433  33433211      11


Q ss_pred             HHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCc--eEEEEecCCc---ccchhhhcce---eEEE
Q 021660          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNT--RFALICNQVN---KIIPALQSRC---TRFR  196 (309)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~--~~i~~~~~~~---~l~~~l~~r~---~~i~  196 (309)
                      +.         +..  ...+|+|||++.+....+..|+.+++......  .+|++++..+   .+.+.+.+|+   ..+.
T Consensus        85 ~~---------~~~--~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~  153 (227)
T PRK08903         85 FD---------FDP--EAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYE  153 (227)
T ss_pred             Hh---------hcc--cCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEE
Confidence            10         111  45789999999999888889999998654333  3555554322   2446677775   7899


Q ss_pred             ecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc----CCcCHHHHHhhhCCC
Q 021660          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLCTGNP  265 (309)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~----~~i~~~~v~~~~~~~  265 (309)
                      ++|++.++...++.+.+.+.++.+++++++.+++.++||++.+.+.++.+...+    ..||...+++++..+
T Consensus       154 l~pl~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~~~gn~~~l~~~l~~l~~~~~~~~~~i~~~~~~~~l~~~  226 (227)
T PRK08903        154 LKPLSDADKIAALKAAAAERGLQLADEVPDYLLTHFRRDMPSLMALLDALDRYSLEQKRPVTLPLLREMLAQP  226 (227)
T ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcc
Confidence            999999999999999999999999999999999999999999999998776433    579999998887644

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.87  E-value=7.5e-21  Score=173.54  Aligned_cols=212  Identities=22%  Similarity=0.397  Sum_probs=140.0

Q ss_pred             CCCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-----EEEECCCCCcHHHHHHHHHHHHccCcccc-cEE--E
Q 021660           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-----LLLYGPPGTGKTSTILAVARKLYGAQYHN-MIL--E  109 (309)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-----~ll~G~~G~GKT~l~~~l~~~~~~~~~~~-~~~--~  109 (309)
                      ....+|.++|+|.++++++|+++.++.+..++.....+.     ++|+||+|+|||++++.+++.+....... ..+  .
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            345789999999999999999999999999987653322     99999999999999999999874321110 000  0


Q ss_pred             EecCC--------------CcchHHHHHHHHHhhhcccc-ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHH-Hh--cCC
Q 021660          110 LNASD--------------DRGIDVVRQQIQDFASTQSF-SFGVKASVKLVLLDEADAMTKDAQFALRRVIE-KY--TKN  171 (309)
Q Consensus       110 ~~~~~--------------~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~-~~--~~~  171 (309)
                      .....              ......+...+......... .......+.||+|||++.+.......+..++. ..  ...
T Consensus       149 ~~~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~~  228 (637)
T TIGR00602       149 FQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIGR  228 (637)
T ss_pred             ccccccccchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhhHHHHHHHHHHHhhcCCC
Confidence            00000              01122222222222111000 00012367899999997766433333444443 11  235


Q ss_pred             ceEEEEecCCcc---------------cchhhhc--ceeEEEecCCChHHHHHHHHHHHHHcCCC------C-CHHHHHH
Q 021660          172 TRFALICNQVNK---------------IIPALQS--RCTRFRFAPLEPVHVTERLKHVIEAEGLD------V-TEGGLAA  227 (309)
Q Consensus       172 ~~~i~~~~~~~~---------------l~~~l~~--r~~~i~~~~~~~~~~~~~l~~~~~~~~~~------~-~~~~l~~  227 (309)
                      +++|+++++...               +.+.+.+  |+.+|.|.|++..++.+.|.+++..++..      + +++++..
T Consensus       229 ~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~l~~  308 (637)
T TIGR00602       229 CPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVEL  308 (637)
T ss_pred             ceEEEEecCCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCCHHHHHH
Confidence            566776653211               2257766  56889999999999999999999876432      2 4689999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhh
Q 021660          228 LVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       228 i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      |+..+.||+|.|++.|+.++..
T Consensus       309 I~~~s~GDiRsAIn~LQf~~~~  330 (637)
T TIGR00602       309 LCQGCSGDIRSAINSLQFSSSK  330 (637)
T ss_pred             HHHhCCChHHHHHHHHHHHHhc
Confidence            9999999999999999998654

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

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.87  E-value=1.3e-20  Score=149.18  Aligned_cols=179  Identities=23%  Similarity=0.248  Sum_probs=134.5

Q ss_pred             hcCCCCccccccChHHHHHHH---HHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc
Q 021660           46 KYRPQSLADVAAHRDIVDTID---RLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (309)
Q Consensus        46 ~~~p~~~~~~ig~~~~~~~l~---~~~~~------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (309)
                      -..-..++|+|||+++++...   +++.+      ..+.++|||||||||||++|++++++.     ...+..+..+...
T Consensus       114 ~~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~-----kvp~l~vkat~li  188 (368)
T COG1223         114 IISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA-----KVPLLLVKATELI  188 (368)
T ss_pred             hhccccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc-----CCceEEechHHHH
Confidence            344457999999999988544   44443      356679999999999999999999997     7777777776533


Q ss_pred             ch--HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC------------HHHHHHHHHHHHHhc--CCceEEEEecC
Q 021660          117 GI--DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT------------KDAQFALRRVIEKYT--KNTRFALICNQ  180 (309)
Q Consensus       117 ~~--~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~------------~~~~~~l~~~l~~~~--~~~~~i~~~~~  180 (309)
                      +.  ..-...+.++.+...     +..+++++|||+|.+.            .+..++|+.-|+...  ..++.|.+||.
T Consensus       189 GehVGdgar~Ihely~rA~-----~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~  263 (368)
T COG1223         189 GEHVGDGARRIHELYERAR-----KAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNR  263 (368)
T ss_pred             HHHhhhHHHHHHHHHHHHH-----hcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCC
Confidence            21  122223333332211     1257899999999875            234567777777544  35677788899


Q ss_pred             Ccccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC
Q 021660          181 VNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD  235 (309)
Q Consensus       181 ~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~  235 (309)
                      +..+++++++|| ..|+|.-|+.+|..++++..++..-++++.. ++++++.++|-
T Consensus       264 p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~-~~~~~~~t~g~  318 (368)
T COG1223         264 PELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDAD-LRYLAAKTKGM  318 (368)
T ss_pred             hhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccccC-HHHHHHHhCCC
Confidence            999999999999 8899999999999999999999988888777 88999998763

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.86  E-value=6.2e-20  Score=153.46  Aligned_cols=189  Identities=19%  Similarity=0.247  Sum_probs=132.7

Q ss_pred             ccccccChHHHHHHHHHHh---------------cCCCCeEEEECCCCCcHHHHHHHHHHHHccCc--ccccEEEEecCC
Q 021660           52 LADVAAHRDIVDTIDRLTS---------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ--YHNMILELNASD  114 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~---------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~--~~~~~~~~~~~~  114 (309)
                      +.+++|.+.+++.+..+..               .....+++|+||||||||++|+.+++.+...+  ....++.+++.+
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            5679999999887765432               11334599999999999999999999874333  122445544433


Q ss_pred             Ccch--HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC--------HHHHHHHHHHHHHhcCCceEEEEecCC---
Q 021660          115 DRGI--DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--------KDAQFALRRVIEKYTKNTRFALICNQV---  181 (309)
Q Consensus       115 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~--------~~~~~~l~~~l~~~~~~~~~i~~~~~~---  181 (309)
                      ..+.  ......+......        +.+.+|+|||+|.+.        .+..+.|+..+++.....++|+++...   
T Consensus        85 l~~~~~g~~~~~~~~~~~~--------a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~  156 (261)
T TIGR02881        85 LVGEYIGHTAQKTREVIKK--------ALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMD  156 (261)
T ss_pred             hhhhhccchHHHHHHHHHh--------ccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhH
Confidence            2110  0001111222111        134699999999876        345677888888766566666665332   


Q ss_pred             --cccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh----------cCCHHHHHHHHHHHHh
Q 021660          182 --NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC----------NGDMRKALNILQSTHM  248 (309)
Q Consensus       182 --~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~----------~g~~r~~~~~l~~~~~  248 (309)
                        ..+.+.+.+|| ..++|++++.+++.+++++++...+..++++++..+++..          .||.|.+.|.++.+..
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              23568899999 7799999999999999999999999999999999886653          5899999999988653

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=99.85  E-value=7.1e-20  Score=150.42  Aligned_cols=199  Identities=19%  Similarity=0.262  Sum_probs=144.5

Q ss_pred             CCCcccccc--ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHH
Q 021660           49 PQSLADVAA--HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (309)
Q Consensus        49 p~~~~~~ig--~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  126 (309)
                      +.+|++++.  +...+..+++++......+++|+||+|||||++++.+++.....+.  .+..+++.....  .....+.
T Consensus        11 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~--~~~~i~~~~~~~--~~~~~~~   86 (226)
T TIGR03420        11 DPTFDNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGK--SAIYLPLAELAQ--ADPEVLE   86 (226)
T ss_pred             chhhcCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCC--cEEEEeHHHHHH--hHHHHHh
Confidence            345666763  6678999999877666667999999999999999999998754433  344444433211  1111111


Q ss_pred             HhhhccccccCCCCccEEEEEeCCCCCCHHH--HHHHHHHHHHhc-CCceEEEEecCCc-c--cc-hhhhcce---eEEE
Q 021660          127 DFASTQSFSFGVKASVKLVLLDEADAMTKDA--QFALRRVIEKYT-KNTRFALICNQVN-K--II-PALQSRC---TRFR  196 (309)
Q Consensus       127 ~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~--~~~l~~~l~~~~-~~~~~i~~~~~~~-~--l~-~~l~~r~---~~i~  196 (309)
                      ..           ....+|+|||++.+....  ++.|..+++... ....+|++++... .  .. +.+.+|+   ..+.
T Consensus        87 ~~-----------~~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~  155 (226)
T TIGR03420        87 GL-----------EQADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQ  155 (226)
T ss_pred             hc-----------ccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEe
Confidence            11           134699999999997633  778888887643 2346666665432 2  22 6677775   5799


Q ss_pred             ecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh----cCCcCHHHHHhhh
Q 021660          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCT  262 (309)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~  262 (309)
                      +++++.++...+++.++.+.++.+++++++.|++.++||+|.+.+.++.+...    ++.||.+.+.+++
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            99999999999999998888999999999999999999999999998776542    2568888887664

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.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.85  E-value=2.9e-19  Score=157.29  Aligned_cols=222  Identities=18%  Similarity=0.258  Sum_probs=149.0

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHh----cCCCCeEEEECCCCCcHHHHHHHHHHHHccCc----ccccEEEEec
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTS----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNA  112 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~----~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~----~~~~~~~~~~  112 (309)
                      ..+...|.|.   +++|++..++.+..++.    +...++++|+||||+|||++++.+++++....    ....++.+++
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            3455677775   68999999988888775    34456699999999999999999999874321    2256777787


Q ss_pred             CCCcchHHH-HHHHHHhhh--cccc---------------ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHH-----hc
Q 021660          113 SDDRGIDVV-RQQIQDFAS--TQSF---------------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEK-----YT  169 (309)
Q Consensus       113 ~~~~~~~~~-~~~~~~~~~--~~~~---------------~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~-----~~  169 (309)
                      ........+ ......+..  ....               .+.....+.+|+|||+|.+.......|..+++.     .+
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            654332222 222222210  0000               000112467899999999963333334444432     22


Q ss_pred             -CCceEEEEecCCc---ccchhhhcce--eEEEecCCChHHHHHHHHHHHHH--cCCCCCHHHHHHHHH---HhcCCHHH
Q 021660          170 -KNTRFALICNQVN---KIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVR---LCNGDMRK  238 (309)
Q Consensus       170 -~~~~~i~~~~~~~---~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~l~~i~~---~~~g~~r~  238 (309)
                       ....+|+++|...   .+.+.+.+|+  ..+.|+|++.+++.++++.++..  .+..+++++++.+++   .+.|++|.
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             3456778887764   4566777787  57999999999999999999863  233478887776555   45799999


Q ss_pred             HHHHHHHHHhhc-----CCcCHHHHHhhhCCC
Q 021660          239 ALNILQSTHMAS-----QQITEEAVYLCTGNP  265 (309)
Q Consensus       239 ~~~~l~~~~~~~-----~~i~~~~v~~~~~~~  265 (309)
                      +++.|+.+...+     +.|+.+++..+....
T Consensus       243 al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~  274 (365)
T TIGR02928       243 AIDLLRVAGEIAEREGAERVTEDHVEKAQEKI  274 (365)
T ss_pred             HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            999998776533     469999998877554

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.

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.84  E-value=3.6e-19  Score=163.28  Aligned_cols=215  Identities=20%  Similarity=0.274  Sum_probs=151.4

Q ss_pred             cccccChHHHHHHHHHHhc----CCCCe-EEEECCCCCcHHHHHHHHHHHHccC----c-ccccEEEEecCCCcchHHHH
Q 021660           53 ADVAAHRDIVDTIDRLTSE----NRLPH-LLLYGPPGTGKTSTILAVARKLYGA----Q-YHNMILELNASDDRGIDVVR  122 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~----~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~----~-~~~~~~~~~~~~~~~~~~~~  122 (309)
                      +.|.+++..++.|...+..    ..+.+ ++|+|+||||||++++.+.+++...    . ..+.++.++|........+.
T Consensus       755 D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIY  834 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAY  834 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHH
Confidence            5688999988877776643    33334 5799999999999999999887431    2 23677888886543333322


Q ss_pred             HHHHHhh-hcccc-c----------c----CCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc---CCceEEEEecCC--
Q 021660          123 QQIQDFA-STQSF-S----------F----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---KNTRFALICNQV--  181 (309)
Q Consensus       123 ~~~~~~~-~~~~~-~----------~----~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~---~~~~~i~~~~~~--  181 (309)
                      ..+.... ...+. .          +    .......||+|||+|.|....+..|+.+++.+.   ....+|+++|..  
T Consensus       835 qvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdlDL  914 (1164)
T PTZ00112        835 QVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTMDL  914 (1164)
T ss_pred             HHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCchhc
Confidence            2222111 00000 0          0    011134589999999998767777888887543   234566667653  


Q ss_pred             -cccchhhhcce--eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHH---HhcCCHHHHHHHHHHHHhhc--CCc
Q 021660          182 -NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR---LCNGDMRKALNILQSTHMAS--QQI  253 (309)
Q Consensus       182 -~~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~---~~~g~~r~~~~~l~~~~~~~--~~i  253 (309)
                       ..+.+.+.+|+  ..+.|+|++.+++.+||+.++......+++++++.+++   ...||+|.|+++|+.+....  ..|
T Consensus       915 perLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEikegskV  994 (1164)
T PTZ00112        915 PERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENKRGQKI  994 (1164)
T ss_pred             chhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhcCCCcc
Confidence             45667888887  45899999999999999999987655689999999998   56799999999999887643  468


Q ss_pred             CHHHHHhhhCCCCh
Q 021660          254 TEEAVYLCTGNPLP  267 (309)
Q Consensus       254 ~~~~v~~~~~~~~~  267 (309)
                      +.++|..+......
T Consensus       995 T~eHVrkAleeiE~ 1008 (1164)
T PTZ00112        995 VPRDITEATNQLFD 1008 (1164)
T ss_pred             CHHHHHHHHHHHHh
Confidence            88999888755433

>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=99.84  E-value=1e-19  Score=140.54  Aligned_cols=140  Identities=36%  Similarity=0.609  Sum_probs=109.1

Q ss_pred             cChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc------------------cccEEEEecCCC--
Q 021660           57 AHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY------------------HNMILELNASDD--  115 (309)
Q Consensus        57 g~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~------------------~~~~~~~~~~~~--  115 (309)
                      ||+.+++.|.+.+..++.++ ++|+||+|+||+++|..+++.+.+...                  ..++..+.....  
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            78999999999999999998 899999999999999999999977543                  456677766543  


Q ss_pred             -cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeE
Q 021660          116 -RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (309)
Q Consensus       116 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~  194 (309)
                       ...+.++.....+......     ...+++||||+|.+..+.+++|++.||+++.++.+|++|+....+.+++++||..
T Consensus        81 ~i~i~~ir~i~~~~~~~~~~-----~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~  155 (162)
T PF13177_consen   81 SIKIDQIREIIEFLSLSPSE-----GKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQV  155 (162)
T ss_dssp             SBSHHHHHHHHHHCTSS-TT-----SSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEE
T ss_pred             hhhHHHHHHHHHHHHHHHhc-----CCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceE
Confidence             5667777555544332221     2689999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCC
Q 021660          195 FRFAPLE  201 (309)
Q Consensus       195 i~~~~~~  201 (309)
                      +.|.+++
T Consensus       156 i~~~~ls  162 (162)
T PF13177_consen  156 IRFRPLS  162 (162)
T ss_dssp             EEE----
T ss_pred             EecCCCC
Confidence            9998864

...

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.84  E-value=1.3e-18  Score=154.62  Aligned_cols=255  Identities=20%  Similarity=0.293  Sum_probs=165.9

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHh----cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTS----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~----~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      +...|.|   +.++|++..++.+...+.    +..+++++|+||||+|||++++.+++.+...+....++.+++......
T Consensus        23 l~~~~~P---~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~   99 (394)
T PRK00411         23 LEPDYVP---ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTR   99 (394)
T ss_pred             CCCCCcC---CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCH
Confidence            4444444   568899999888877763    345566999999999999999999999865554567778887654332


Q ss_pred             HHHH-HHHHHhhhccccc---------------cCCCCccEEEEEeCCCCCC----HHHHHHHHHHHHHhcC-CceEEEE
Q 021660          119 DVVR-QQIQDFASTQSFS---------------FGVKASVKLVLLDEADAMT----KDAQFALRRVIEKYTK-NTRFALI  177 (309)
Q Consensus       119 ~~~~-~~~~~~~~~~~~~---------------~~~~~~~~lliiDe~~~l~----~~~~~~l~~~l~~~~~-~~~~i~~  177 (309)
                      ..+. ....++.......               +.....+.+|+|||+|.+.    .+....|+.+++..+. +..+|++
T Consensus       100 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i  179 (394)
T PRK00411        100 YAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGI  179 (394)
T ss_pred             HHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEE
Confidence            2222 2222221100000               0111245789999999986    2334444444444333 4557888


Q ss_pred             ecCCc---ccchhhhcce--eEEEecCCChHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHh---cCCHHHHHHHHHHHH
Q 021660          178 CNQVN---KIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLC---NGDMRKALNILQSTH  247 (309)
Q Consensus       178 ~~~~~---~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~l~~i~~~~---~g~~r~~~~~l~~~~  247 (309)
                      ++...   .+.+.+.+|+  ..+.|+|++.+++.++++.++...  ...+++++++.+++.+   .|++|.++++|..+.
T Consensus       180 ~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~  259 (394)
T PRK00411        180 SSDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAG  259 (394)
T ss_pred             ECCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            87653   3556666666  678999999999999999998653  3368999999999988   799999999998765


Q ss_pred             hhc-----CCcCHHHHHhhhCCCChHHHH-----------HHHHHHh--------cCCHHHHHHHHHHHHHhcCCCH
Q 021660          248 MAS-----QQITEEAVYLCTGNPLPKDIE-----------QISYWLL--------NESFADSFKRISEMKMRKGLAL  300 (309)
Q Consensus       248 ~~~-----~~i~~~~v~~~~~~~~~~~~~-----------~~~~~~~--------~~~~~~~~~~l~~~~~~~g~~~  300 (309)
                      ..+     ..|+.+++..++.........           .++.++.        .-....+++.+..++...|.+|
T Consensus       260 ~~a~~~~~~~I~~~~v~~a~~~~~~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~  336 (394)
T PRK00411        260 LIAEREGSRKVTEEDVRKAYEKSEIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEP  336 (394)
T ss_pred             HHHHHcCCCCcCHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCc
Confidence            432     469999998777544222111           1222221        1134566666666665567765

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=99.84  E-value=3.6e-19  Score=159.88  Aligned_cols=207  Identities=26%  Similarity=0.446  Sum_probs=139.8

Q ss_pred             CCCcChhhhcCCCCccccccChHHHHHHHHHHhcCC-----CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~-----~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      ....+|.++|+|.+.+|++.++..++.++.|+...-     ...++|+||+||||||+++.+++++     +..+.++..
T Consensus         4 ~~~~~W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~n   78 (519)
T PF03215_consen    4 DESEPWVEKYAPKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWIN   78 (519)
T ss_pred             cccCccchhcCCCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEecC
Confidence            456789999999999999999999999999997531     2238999999999999999999998     555555533


Q ss_pred             CCC---c------------chHHHHHH---HHHh-hhcccc-ccC-----CCCccEEEEEeCCCCCCHHHHHHHHHHHHH
Q 021660          113 SDD---R------------GIDVVRQQ---IQDF-ASTQSF-SFG-----VKASVKLVLLDEADAMTKDAQFALRRVIEK  167 (309)
Q Consensus       113 ~~~---~------------~~~~~~~~---~~~~-~~~~~~-~~~-----~~~~~~lliiDe~~~l~~~~~~~l~~~l~~  167 (309)
                      ...   .            ........   +..+ ...... .+.     ....++||+|+|+..+.......|..+|..
T Consensus        79 p~~~~~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~~~~~~f~~~L~~  158 (519)
T PF03215_consen   79 PVSFRESDNQEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFHRDTSRFREALRQ  158 (519)
T ss_pred             CCCccccccccccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccchhHHHHHHHHHH
Confidence            221   0            00001111   2222 111010 010     123688999999988764443555555553


Q ss_pred             h---cCC-ceEEEEecC--------Cc--------ccchhhhcc--eeEEEecCCChHHHHHHHHHHHHHc-----CC-C
Q 021660          168 Y---TKN-TRFALICNQ--------VN--------KIIPALQSR--CTRFRFAPLEPVHVTERLKHVIEAE-----GL-D  219 (309)
Q Consensus       168 ~---~~~-~~~i~~~~~--------~~--------~l~~~l~~r--~~~i~~~~~~~~~~~~~l~~~~~~~-----~~-~  219 (309)
                      .   ... +.||+++..        ..        .+.+.+...  +..|.|.|..+.-+++.|.+++..+     +. .
T Consensus       159 ~l~~~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i~~I~FNpIa~T~mkKaL~rI~~~E~~~~~~~~~  238 (519)
T PF03215_consen  159 YLRSSRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGITRIKFNPIAPTFMKKALKRILKKEARSSSGKNK  238 (519)
T ss_pred             HHHcCCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCceEEEecCCCHHHHHHHHHHHHHHHhhhhcCCcc
Confidence            2   222 444444411        00        234455443  4889999999999999999999887     32 2


Q ss_pred             C--CHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Q 021660          220 V--TEGGLAALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       220 ~--~~~~l~~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      .  ..+.++.|++.+.||+|.|++.||.++..
T Consensus       239 ~p~~~~~l~~I~~~s~GDIRsAIn~LQf~~~~  270 (519)
T PF03215_consen  239 VPDKQSVLDSIAESSNGDIRSAINNLQFWCLK  270 (519)
T ss_pred             CCChHHHHHHHHHhcCchHHHHHHHHHHHhcC
Confidence            2  23468999999999999999999999983

>PRK05642 DNA replication initiation factor; Validated

Probab=99.83  E-value=8e-19  Score=143.93  Aligned_cols=198  Identities=18%  Similarity=0.244  Sum_probs=138.3

Q ss_pred             Ccccccc--ChHHHHHHHHHHhcC---CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           51 SLADVAA--HRDIVDTIDRLTSEN---RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        51 ~~~~~ig--~~~~~~~l~~~~~~~---~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      +|++++.  +..++..+.++....   ....++|+||+|+|||+|++++++++...+..+.++  +.....  ......+
T Consensus        17 tfdnF~~~~~~~a~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~--~~~~~~--~~~~~~~   92 (234)
T PRK05642         17 TFANYYPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYL--PLAELL--DRGPELL   92 (234)
T ss_pred             cccccCcCChHHHHHHHHHHhhccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEe--eHHHHH--hhhHHHH
Confidence            5666663  233344455443321   124499999999999999999999875444443333  322111  0111111


Q ss_pred             HHhhhccccccCCCCccEEEEEeCCCCCC--HHHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhhcce---eEE
Q 021660          126 QDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSRC---TRF  195 (309)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~lliiDe~~~l~--~~~~~~l~~~l~~~~~-~~~~i~~~~~~~----~l~~~l~~r~---~~i  195 (309)
                      ..+.           +..+|+|||++.+.  +.....|+.+++.... +..+|++++..+    ...+.+.+|+   ..+
T Consensus        93 ~~~~-----------~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~  161 (234)
T PRK05642         93 DNLE-----------QYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVF  161 (234)
T ss_pred             Hhhh-----------hCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeee
Confidence            1111           24589999999875  3446779999986543 455666665322    3468899998   889


Q ss_pred             EecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh----cCCcCHHHHHhhhC
Q 021660          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTG  263 (309)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~~  263 (309)
                      .+.+|+.++...+++.++...++.++++++++|+++++||+|.+.+.++.+...    ...||...+++++.
T Consensus       162 ~l~~~~~e~~~~il~~ka~~~~~~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~~~~~~L~  233 (234)
T PRK05642        162 QMRGLSDEDKLRALQLRASRRGLHLTDEVGHFILTRGTRSMSALFDLLERLDQASLQAQRKLTIPFLKETLG  233 (234)
T ss_pred             ecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHhc
Confidence            999999999999999888888999999999999999999999999999877643    25788888887764

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

Probab=99.83  E-value=8.5e-19  Score=145.20  Aligned_cols=198  Identities=23%  Similarity=0.346  Sum_probs=143.5

Q ss_pred             CccccccChHHHHHHHHHHhcC-------------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC--
Q 021660           51 SLADVAAHRDIVDTIDRLTSEN-------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~-------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (309)
                      +.+++-|-++.++.+++.+.-.             ++..+|||||||||||.||+++|++.     +..|+.+..+..  
T Consensus       149 tY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T-----~AtFIrvvgSElVq  223 (406)
T COG1222         149 TYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT-----DATFIRVVGSELVQ  223 (406)
T ss_pred             ChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc-----CceEEEeccHHHHH
Confidence            6788888899999998887521             33449999999999999999999997     778887776642  


Q ss_pred             ----cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----cCCceEE
Q 021660          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRFA  175 (309)
Q Consensus       116 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-----------~~~~~~l~~~l~~~-----~~~~~~i  175 (309)
                          .+...+++.+. ++        ....++||+|||+|.+.           .+.+-.++++|.+.     ..+..+|
T Consensus       224 KYiGEGaRlVRelF~-lA--------rekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI  294 (406)
T COG1222         224 KYIGEGARLVRELFE-LA--------REKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVI  294 (406)
T ss_pred             HHhccchHHHHHHHH-HH--------hhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEE
Confidence                23333333322 22        22357999999999884           34567788888754     4578899


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHH-HHHHhhc-
Q 021660          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMAS-  250 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l-~~~~~~~-  250 (309)
                      ++||..+-++|+|.+  |+ +.|+|+.|+.+...+|++-+.++-.+. ++-.++.|++.+.|.-+.-+..+ ..+...+ 
T Consensus       295 ~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~-~dvd~e~la~~~~g~sGAdlkaictEAGm~Ai  373 (406)
T COG1222         295 MATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLA-DDVDLELLARLTEGFSGADLKAICTEAGMFAI  373 (406)
T ss_pred             EecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCc-cCcCHHHHHHhcCCCchHHHHHHHHHHhHHHH
Confidence            999999999999988  45 779999999999999999887765432 33457888888877555444433 3333222 


Q ss_pred             ----CCcCHHHHHhhhC
Q 021660          251 ----QQITEEAVYLCTG  263 (309)
Q Consensus       251 ----~~i~~~~v~~~~~  263 (309)
                          ..++.+++.++..
T Consensus       374 R~~R~~Vt~~DF~~Av~  390 (406)
T COG1222         374 RERRDEVTMEDFLKAVE  390 (406)
T ss_pred             HhccCeecHHHHHHHHH
Confidence                4577777766653

>PRK09087 hypothetical protein; Validated

Probab=99.82  E-value=9e-19  Score=142.40  Aligned_cols=188  Identities=19%  Similarity=0.204  Sum_probs=136.2

Q ss_pred             Ccccccc---ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHH
Q 021660           51 SLADVAA---HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (309)
Q Consensus        51 ~~~~~ig---~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  127 (309)
                      +|++|+.   +..++..+.++.. ...+.++|+||+|+|||+|++.+++..     ...++...  . ...+.    +..
T Consensus        19 ~~~~Fi~~~~N~~a~~~l~~~~~-~~~~~l~l~G~~GsGKThLl~~~~~~~-----~~~~i~~~--~-~~~~~----~~~   85 (226)
T PRK09087         19 GRDDLLVTESNRAAVSLVDHWPN-WPSPVVVLAGPVGSGKTHLASIWREKS-----DALLIHPN--E-IGSDA----ANA   85 (226)
T ss_pred             ChhceeecCchHHHHHHHHhccc-CCCCeEEEECCCCCCHHHHHHHHHHhc-----CCEEecHH--H-cchHH----HHh
Confidence            5777775   4556666666542 233449999999999999999998774     33333221  0 11111    111


Q ss_pred             hhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhhcce---eEEEecC
Q 021660          128 FASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSRC---TRFRFAP  199 (309)
Q Consensus       128 ~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~----~l~~~l~~r~---~~i~~~~  199 (309)
                      .            ...+|+|||++.+. ..+..|+++++.... ...+|++++...    ...+.+++|+   ..+.+.+
T Consensus        86 ~------------~~~~l~iDDi~~~~-~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~  152 (226)
T PRK09087         86 A------------AEGPVLIEDIDAGG-FDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGE  152 (226)
T ss_pred             h------------hcCeEEEECCCCCC-CCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCC
Confidence            1            12489999999875 345778888886554 455666665332    3467899998   8999999


Q ss_pred             CChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh----cCCcCHHHHHhhhCC
Q 021660          200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTGN  264 (309)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~~~  264 (309)
                      |+.+++..++++.++..++.++++++++|++++.|+++.+...+..+...    ...+|...+++++..
T Consensus       153 pd~e~~~~iL~~~~~~~~~~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~it~~~~~~~l~~  221 (226)
T PRK09087        153 PDDALLSQVIFKLFADRQLYVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSRITRALAAEVLNE  221 (226)
T ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999877666432    357898888887754

>PRK06620 hypothetical protein; Validated

Probab=99.82  E-value=1.5e-18  Score=139.88  Aligned_cols=175  Identities=13%  Similarity=0.141  Sum_probs=124.6

Q ss_pred             ChHHHHHHHHHHhcCC--C--CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccc
Q 021660           58 HRDIVDTIDRLTSENR--L--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS  133 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~--~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  133 (309)
                      +..+...+.++.....  +  +.++||||+|+|||+|++++++..     +..+..  ... . .       .....   
T Consensus        24 N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~-----~~~~~~--~~~-~-~-------~~~~~---   84 (214)
T PRK06620         24 NDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLS-----NAYIIK--DIF-F-N-------EEILE---   84 (214)
T ss_pred             HHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhcc-----CCEEcc--hhh-h-c-------hhHHh---
Confidence            4566777777775321  2  449999999999999999988775     222211  000 0 0       01110   


Q ss_pred             cccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcC-CceEEEEecCCc---ccchhhhccee---EEEecCCChHHHH
Q 021660          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN---KIIPALQSRCT---RFRFAPLEPVHVT  206 (309)
Q Consensus       134 ~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~---~l~~~l~~r~~---~i~~~~~~~~~~~  206 (309)
                             ...+++|||+|.+..   ..|+.+++.... ...++++++..+   .+ +.+++|+.   ++.+.+|+.+++.
T Consensus        85 -------~~d~lliDdi~~~~~---~~lf~l~N~~~e~g~~ilits~~~p~~l~l-~~L~SRl~~gl~~~l~~pd~~~~~  153 (214)
T PRK06620         85 -------KYNAFIIEDIENWQE---PALLHIFNIINEKQKYLLLTSSDKSRNFTL-PDLSSRIKSVLSILLNSPDDELIK  153 (214)
T ss_pred             -------cCCEEEEeccccchH---HHHHHHHHHHHhcCCEEEEEcCCCccccch-HHHHHHHhCCceEeeCCCCHHHHH
Confidence                   346899999997632   456666654432 334555554322   24 88999985   8999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh----cCCcCHHHHHhhh
Q 021660          207 ERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCT  262 (309)
Q Consensus       207 ~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~  262 (309)
                      .++++.+...++.++++++++|+++++||+|.+.+.|+.+...    ...||.+.+++++
T Consensus       154 ~~l~k~~~~~~l~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~~~~~l  213 (214)
T PRK06620        154 ILIFKHFSISSVTISRQIIDFLLVNLPREYSKIIEILENINYFALISKRKITISLVKEVL  213 (214)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHh
Confidence            9999999989999999999999999999999999999887542    2458888877654

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.82  E-value=2.4e-18  Score=158.92  Aligned_cols=226  Identities=22%  Similarity=0.281  Sum_probs=160.9

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCC
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~  114 (309)
                      ..+..+.++|.+|++++|++..++.+.+.+......+++|+||+||||||+++.+.+......     ....++.+++..
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            345677899999999999999999988888777667799999999999999999987763211     134577777654


Q ss_pred             Ccc-hHHHHH------------HHH-Hhhhcc----ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-------
Q 021660          115 DRG-IDVVRQ------------QIQ-DFASTQ----SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------  169 (309)
Q Consensus       115 ~~~-~~~~~~------------~~~-~~~~~~----~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-------  169 (309)
                      ... ...+..            ... .+....    ....-...+.++|+|||++.++...+..|++++++..       
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            210 011100            000 000000    0001112246799999999999999999999998531       


Q ss_pred             -------------------CC--ceEEEEe-cCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHH
Q 021660          170 -------------------KN--TRFALIC-NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAA  227 (309)
Q Consensus       170 -------------------~~--~~~i~~~-~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~  227 (309)
                                         ..  .++|.++ +....+.+.+++||..+.|++++.+++..++++.+.+.++.+++++++.
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                               11  2233323 4556788899999999999999999999999999998888899999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhhc-------------CCcCHHHHHhhhCCCC
Q 021660          228 LVRLCNGDMRKALNILQSTHMAS-------------QQITEEAVYLCTGNPL  266 (309)
Q Consensus       228 i~~~~~g~~r~~~~~l~~~~~~~-------------~~i~~~~v~~~~~~~~  266 (309)
                      |++++. +.|.+++.|+.+....             ..|+.+++.++++...
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            988875 6799999886554321             1477788888777654

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.

>CHL00181 cbbX CbbX; Provisional

Probab=99.81  E-value=2e-18  Score=145.23  Aligned_cols=188  Identities=22%  Similarity=0.282  Sum_probs=131.6

Q ss_pred             cccccChHHHHHHHHHHh---------------cCCCCeEEEECCCCCcHHHHHHHHHHHHccCccc--ccEEEEecCCC
Q 021660           53 ADVAAHRDIVDTIDRLTS---------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILELNASDD  115 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~---------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~--~~~~~~~~~~~  115 (309)
                      .+++|.+.+++.+.+++.               .....+++|+||||||||++|+.+++.+...+..  ..++.++..+.
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            479999999887766642               0123349999999999999999999987543321  23555553321


Q ss_pred             cchH--HHHHHHHHhhhccccccCCCCccEEEEEeCCCCC---------CHHHHHHHHHHHHHhcCCceEEEEecCCc--
Q 021660          116 RGID--VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM---------TKDAQFALRRVIEKYTKNTRFALICNQVN--  182 (309)
Q Consensus       116 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l---------~~~~~~~l~~~l~~~~~~~~~i~~~~~~~--  182 (309)
                      .+..  ............        +.+++|+|||++.+         ..+.++.|+.+|+....+.++|+++....  
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            1000  000011111111        13579999999987         34567888999987766666666654221  


Q ss_pred             ---ccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------hcCCHHHHHHHHHHHHh
Q 021660          183 ---KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL--------CNGDMRKALNILQSTHM  248 (309)
Q Consensus       183 ---~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~--------~~g~~r~~~~~l~~~~~  248 (309)
                         ...+.+.+|| ..+.|++++.+++.+++..++++.+..++++....+.++        ..||.|.+.+.++.+..
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               2348899999 789999999999999999999999999999888777765        24899999999987764

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.81  E-value=9e-18  Score=149.70  Aligned_cols=207  Identities=13%  Similarity=0.206  Sum_probs=145.8

Q ss_pred             CCCccccccC---hHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHH
Q 021660           49 PQSLADVAAH---RDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (309)
Q Consensus        49 p~~~~~~ig~---~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (309)
                      +.+|+.|+..   ..+...+..+.....  ...++|+|++|+|||+|++++++.+.....+..++.+++..  ....+..
T Consensus       111 ~~tFdnFv~g~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~--f~~~~~~  188 (450)
T PRK14087        111 ENTFENFVIGSSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDE--FARKAVD  188 (450)
T ss_pred             ccchhcccCCCcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHH--HHHHHHH
Confidence            4577777742   224555555554322  23499999999999999999999875433344444444432  1111111


Q ss_pred             HH-------HHhhhccccccCCCCccEEEEEeCCCCCC--HHHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhh
Q 021660          124 QI-------QDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQ  189 (309)
Q Consensus       124 ~~-------~~~~~~~~~~~~~~~~~~lliiDe~~~l~--~~~~~~l~~~l~~~~~-~~~~i~~~~~~~----~l~~~l~  189 (309)
                      .+       ..+...    +   ....+|+|||++.+.  ...++.|+.+++.... ...+|++++..+    .+.+.+.
T Consensus       189 ~l~~~~~~~~~~~~~----~---~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~  261 (450)
T PRK14087        189 ILQKTHKEIEQFKNE----I---CQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLI  261 (450)
T ss_pred             HHHHhhhHHHHHHHH----h---ccCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHH
Confidence            11       111110    0   145699999999987  5567888888886543 345777776544    3457888


Q ss_pred             cce---eEEEecCCChHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc------CCcCHHHH
Q 021660          190 SRC---TRFRFAPLEPVHVTERLKHVIEAEGL--DVTEGGLAALVRLCNGDMRKALNILQSTHMAS------QQITEEAV  258 (309)
Q Consensus       190 ~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~------~~i~~~~v  258 (309)
                      +|+   ..+.+.+|+.+++.++|++.++..|.  .++++++++|++.++||+|.+...|..+...+      ..||.+.+
T Consensus       262 SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v  341 (450)
T PRK14087        262 TRFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIV  341 (450)
T ss_pred             HHHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHH
Confidence            887   67999999999999999999998875  69999999999999999999999998775432      46899988


Q ss_pred             HhhhCC
Q 021660          259 YLCTGN  264 (309)
Q Consensus       259 ~~~~~~  264 (309)
                      ++++..
T Consensus       342 ~~~l~~  347 (450)
T PRK14087        342 SDLFRD  347 (450)
T ss_pred             HHHHhh
Confidence            888754

>PRK05629 hypothetical protein; Validated

Probab=99.81  E-value=1.8e-17  Score=142.49  Aligned_cols=223  Identities=13%  Similarity=0.138  Sum_probs=178.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcc-cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l  153 (309)
                      +.++|||+...-.......+.+.+...+. ..++..++..+.. ...+   + ... +.+. |+   ++++|++++.+..
T Consensus         7 ~vyL~~G~e~~l~~~~~~~i~~~~~~~~~~~~n~~~~d~~e~~-~~~l---~-~~~-t~sl-F~---~~rlV~v~~~~~~   76 (318)
T PRK05629          7 PVHLVLGDDEFLAERARLNIVHDIRSSMADSLQVTTLKASEVS-QGEL---L-DAL-SPSL-FG---EDRVIVLTNMEQA   76 (318)
T ss_pred             ceEEEEeCHHHHHHHHHHHHHHHHhccCCCCCceEEeecccCC-HHHH---H-Hhh-CcCc-cC---CceEEEEeChHhc
Confidence            45999998875555555556655544333 4577777766532 2222   2 222 2222 32   6899999998776


Q ss_pred             CHHHHHHHHHHHHHhcCCceEEEEecCCc---ccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 021660          154 TKDAQFALRRVIEKYTKNTRFALICNQVN---KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR  230 (309)
Q Consensus       154 ~~~~~~~l~~~l~~~~~~~~~i~~~~~~~---~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~  230 (309)
                      .+...+.+..++..+++.+++|+++....   ++.+.+...+..+++.++...++..|+.+++++.|..+++++++.+++
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            66667788999998888888888775332   344567777888999999999999999999999999999999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhh-cCCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          231 LCNGDMRKALNILQSTHMA-SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       231 ~~~g~~r~~~~~l~~~~~~-~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .+++|+..+.+.+++++.+ .+.||.++|...+......++|++++++..++...++..+++++ ..|.+|..|++.|.
T Consensus       157 ~~g~dl~~l~~EleKL~~~~~~~It~e~V~~~v~~~~~~~iF~l~dAv~~g~~~~Al~~l~~l~-~~g~~pi~il~~l~  234 (318)
T PRK05629        157 GVGSDLRELASAISQLVEDTQGNVTVEKVRAYYVGVAEVSGFDIADLACAGQVSKAVASTRRAL-QLGVSPVALAAALS  234 (318)
T ss_pred             HHCccHHHHHHHHHHHHhcCCCCcCHHHHHHHhCCCccchHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCcHHHHHHHH
Confidence            9999999999999998865 36799999999999999999999999999999999999999999 99999999988774

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.80  E-value=1.5e-17  Score=144.60  Aligned_cols=209  Identities=21%  Similarity=0.356  Sum_probs=145.3

Q ss_pred             CCCCCcChhhhcCCCCccccccChHHHHHHHHHHh-----cCCCCe--EEEECCCCCcHHHHHHHHHHHHccCcccccEE
Q 021660           36 PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTS-----ENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (309)
Q Consensus        36 ~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~-----~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (309)
                      .......|.++|+|.+.+++.-++..++.++.|+.     ....++  +||+||+||||||.++.+++++     ++.+.
T Consensus        65 ~~d~~elW~eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel-----g~~~~  139 (634)
T KOG1970|consen   65 KEDEFELWVEKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL-----GYQLI  139 (634)
T ss_pred             CccccchhHHhcCcccHHHHhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh-----Cceee
Confidence            34456779999999999999999999999999998     444443  9999999999999999999998     66666


Q ss_pred             EEecCCC-------c----c----hHHHHHHHHHhhhcccc--c-c----CCCCccEEEEEeCCCCCCHH-HHHHHHHHH
Q 021660          109 ELNASDD-------R----G----IDVVRQQIQDFASTQSF--S-F----GVKASVKLVLLDEADAMTKD-AQFALRRVI  165 (309)
Q Consensus       109 ~~~~~~~-------~----~----~~~~~~~~~~~~~~~~~--~-~----~~~~~~~lliiDe~~~l~~~-~~~~l~~~l  165 (309)
                      ++.....       .    +    ...-...++.+......  . .    .....+++|+|||+...+.. ....+.++|
T Consensus       140 Ew~Npi~~~~~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~~d~~~~f~evL  219 (634)
T KOG1970|consen  140 EWSNPINLKEPENLHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFYRDDSETFREVL  219 (634)
T ss_pred             eecCCccccccccccccchhcccchhhHHHHHHHHHHHHHhhchhhhcccccccCceEEEeeccchhhhhhhHHHHHHHH
Confidence            6652211       0    0    11111222222222100  0 0    11124669999998776533 344444444


Q ss_pred             HH---hcCCceEEEEecCCc--------ccchh--hhcceeEEEecCCChHHHHHHHHHHHHHcCCCCC------HHHHH
Q 021660          166 EK---YTKNTRFALICNQVN--------KIIPA--LQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT------EGGLA  226 (309)
Q Consensus       166 ~~---~~~~~~~i~~~~~~~--------~l~~~--l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~------~~~l~  226 (309)
                      ..   ....+.|+++|+...        ..+..  ...|...|.|.|..+.-+++.|++++..++...+      ...++
T Consensus       220 ~~y~s~g~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri~~IsFNPIa~T~MKK~L~ric~~e~~~~s~~k~~~~~~v~  299 (634)
T KOG1970|consen  220 RLYVSIGRCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRISNISFNPIAPTIMKKFLKRICRIEANKKSGIKVPDTAEVE  299 (634)
T ss_pred             HHHHhcCCCcEEEEEeccccCCCcchhhhchhhhhhccCcceEeecCCcHHHHHHHHHHHHHHhcccccCCcCchhHHHH
Confidence            43   333445555553221        22222  3445688999999999999999999999888777      68889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhh
Q 021660          227 ALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       227 ~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      .+++.++||+|.|++.||..+..
T Consensus       300 ~i~~~s~GDIRsAInsLQlsssk  322 (634)
T KOG1970|consen  300 LICQGSGGDIRSAINSLQLSSSK  322 (634)
T ss_pred             HHHHhcCccHHHHHhHhhhhccc
Confidence            99999999999999999998643

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.80  E-value=4.2e-18  Score=143.41  Aligned_cols=187  Identities=17%  Similarity=0.227  Sum_probs=132.6

Q ss_pred             ccccChHHHHHHHHHHhc----------C-----CCCeEEEECCCCCcHHHHHHHHHHHHccCccc--ccEEEEecCCCc
Q 021660           54 DVAAHRDIVDTIDRLTSE----------N-----RLPHLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILELNASDDR  116 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~~----------~-----~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~--~~~~~~~~~~~~  116 (309)
                      +++|.+.+++.+..+...          +     ...+++|+||||||||++|+.+++.+...+..  ..++.+++....
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            689998888877665320          1     12259999999999999999999988543331  245555543211


Q ss_pred             ch--HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC---------HHHHHHHHHHHHHhcCCceEEEEecCC--c-
Q 021660          117 GI--DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT---------KDAQFALRRVIEKYTKNTRFALICNQV--N-  182 (309)
Q Consensus       117 ~~--~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~---------~~~~~~l~~~l~~~~~~~~~i~~~~~~--~-  182 (309)
                      +.  ......+......        ..+.+|+|||++.+.         .+.++.|+..|+....+.++|+++...  + 
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        135799999999772         445788999998776666766665432  2 


Q ss_pred             --ccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------hcCCHHHHHHHHHHHHh
Q 021660          183 --KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL--------CNGDMRKALNILQSTHM  248 (309)
Q Consensus       183 --~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~--------~~g~~r~~~~~l~~~~~  248 (309)
                        .+.+.+.+|+ ..++|++++.+++..++..++++.+..+++++++.+.++        +.||.|.+.+.++.+..
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              2458899999 789999999999999999999999999999999988876        36999999999988765

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.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.80  E-value=5.5e-18  Score=150.56  Aligned_cols=202  Identities=15%  Similarity=0.191  Sum_probs=141.5

Q ss_pred             Cccccc-cC--hHHHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH
Q 021660           51 SLADVA-AH--RDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (309)
Q Consensus        51 ~~~~~i-g~--~~~~~~l~~~~~~------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (309)
                      +|+.|+ |.  ..+...+..+...      .....++||||+|+|||+|++++++.+...+..+  ..++...  ....+
T Consensus       109 tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v--~yi~~~~--f~~~~  184 (445)
T PRK12422        109 TFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKI--LYVRSEL--FTEHL  184 (445)
T ss_pred             cccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCE--EEeeHHH--HHHHH
Confidence            677776 43  2233455555532      1123499999999999999999999986544333  3333221  11111


Q ss_pred             HHHHH-----HhhhccccccCCCCccEEEEEeCCCCCCH--HHHHHHHHHHHHh-cCCceEEEEecCCc----ccchhhh
Q 021660          122 RQQIQ-----DFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKY-TKNTRFALICNQVN----KIIPALQ  189 (309)
Q Consensus       122 ~~~~~-----~~~~~~~~~~~~~~~~~lliiDe~~~l~~--~~~~~l~~~l~~~-~~~~~~i~~~~~~~----~l~~~l~  189 (309)
                      ...+.     .+...    +   ....+|+|||++.+..  ..++.|+.+++.. .....+|++++..+    .+.+.+.
T Consensus       185 ~~~l~~~~~~~f~~~----~---~~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~  257 (445)
T PRK12422        185 VSAIRSGEMQRFRQF----Y---RNVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLI  257 (445)
T ss_pred             HHHHhcchHHHHHHH----c---ccCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHH
Confidence            11111     11100    1   1467999999999864  4567788887754 23456777776542    4567899


Q ss_pred             cce---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHH---hh----cCCcCHHHHH
Q 021660          190 SRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH---MA----SQQITEEAVY  259 (309)
Q Consensus       190 ~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~---~~----~~~i~~~~v~  259 (309)
                      +|+   ..+.+.+|+.+++..+|++.+...++.++++++++|++...+|+|.+.+.|..++   ..    +..+|.+.++
T Consensus       258 SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~~~l~~evl~~la~~~~~dir~L~g~l~~l~~~~a~~~~~~~~i~~~~~~  337 (445)
T PRK12422        258 SRFEWGIAIPLHPLTKEGLRSFLERKAEALSIRIEETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSHQLLYVDDIK  337 (445)
T ss_pred             hhhcCCeEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHH
Confidence            998   7899999999999999999999999999999999999999999999999998885   22    2468888887


Q ss_pred             hhhC
Q 021660          260 LCTG  263 (309)
Q Consensus       260 ~~~~  263 (309)
                      +++.
T Consensus       338 ~~l~  341 (445)
T PRK12422        338 ALLH  341 (445)
T ss_pred             HHHH
Confidence            7775

>PRK05907 hypothetical protein; Provisional

Probab=99.80  E-value=7.2e-17  Score=136.69  Aligned_cols=229  Identities=11%  Similarity=0.095  Sum_probs=174.9

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCc
Q 021660           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKAS  141 (309)
Q Consensus        62 ~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  141 (309)
                      ...+.+.++.++ +.++++|..-   ......+.+.+..++.    ..+++.. ...+.    +....++.++ |+   .
T Consensus         7 ~~~~~~~~~~~~-~~y~~~g~~~---~~~~~~l~~~~~~~~~----~~fdg~~-~~~~~----ii~~aetlPf-Fa---e   69 (311)
T PRK05907          7 FKDFSQYYEEKR-PAVIVIGSSS---EEDKDIFIELLVSGRK----SEFDGQG-LLQQE----LLSWTEHFGL-FA---S   69 (311)
T ss_pred             HHHHHHHHhcCC-ceEEEecCCc---HHHHHHHHHHhCCCcc----ceecCCC-CCHHH----HHHHHhcCCc-cc---C
Confidence            445556677777 8899999887   5566666666533222    2233333 22222    2233333333 33   5


Q ss_pred             cEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEE-EEecCCcc---cchhhhcceeE---EEecCCChHHHHHHHHHHHH
Q 021660          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFA-LICNQVNK---IIPALQSRCTR---FRFAPLEPVHVTERLKHVIE  214 (309)
Q Consensus       142 ~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i-~~~~~~~~---l~~~l~~r~~~---i~~~~~~~~~~~~~l~~~~~  214 (309)
                      +++|++.+.+.+.....+.|..+++++++.+.+| ++. ..++   +.+.+.....+   +.+.++...++..|+.++++
T Consensus        70 rRlV~v~~~~~~~~~~~~~L~~Yl~np~~~~~liv~~~-~~d~~kkl~K~i~k~~~v~~~~e~~~l~e~~L~~Wi~~~~~  148 (311)
T PRK05907         70 QETIGIYQAEKMSSSTQEFLIRYARNPNPHLTLFLFTT-KQECFSSLSKKLSSALCLSLFGEWFADRDKRIAQLLIQRAK  148 (311)
T ss_pred             eEEEEEecccccccccHHHHHHHHhCCCCCeEEEEEEe-cccHHHHHHHHHhhcceeccccccCCCCHHHHHHHHHHHHH
Confidence            8888998887776666789999999999876666 444 2222   23334322233   48999999999999999999


Q ss_pred             HcCCCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc---CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          215 AEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS---QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIS  290 (309)
Q Consensus       215 ~~~~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~---~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  290 (309)
                      +.|..+++++++.+++++ ++|+..+.+.+++++.+.   +.||.++|...+......++|++++++..++...|+..++
T Consensus       149 ~~g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~e~nIF~L~dai~~~~~~~Al~il~  228 (311)
T PRK05907        149 ELGISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKEAASLWKLRDALLRRDRVEGHSLLR  228 (311)
T ss_pred             HcCCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCcccccHHHHHHHHHccCHHHHHHHHH
Confidence            999999999999999999 599999999999999873   5799999999999999999999999999999999999999


Q ss_pred             HHHHhc-CCCHHHHHHHhhC
Q 021660          291 EMKMRK-GLALVDIVREVTM  309 (309)
Q Consensus       291 ~~~~~~-g~~~~~~~~~l~~  309 (309)
                      +++ .. |.+|..|++.|.|
T Consensus       229 ~Ll-~~~ge~p~~ILall~r  247 (311)
T PRK05907        229 SLL-SDMGEDPLGIIAFLRS  247 (311)
T ss_pred             HHH-HhcCCChHHHHHHHHH
Confidence            999 88 9999999998864

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.80  E-value=8e-18  Score=151.34  Aligned_cols=205  Identities=16%  Similarity=0.221  Sum_probs=144.8

Q ss_pred             Cccccc-c--ChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           51 SLADVA-A--HRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        51 ~~~~~i-g--~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      +|+.|+ |  +..+...+..+....  ....++|+||+|+|||+|++++++++........+..+++...  ...+...+
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            577755 3  344566666666543  2234999999999999999999999865544455555555431  11111111


Q ss_pred             H-----HhhhccccccCCCCccEEEEEeCCCCCCH--HHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhhcce-
Q 021660          126 Q-----DFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSRC-  192 (309)
Q Consensus       126 ~-----~~~~~~~~~~~~~~~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~-~~~~i~~~~~~~----~l~~~l~~r~-  192 (309)
                      .     .+...    +   ....+|+|||++.+..  ..+..|+.+++.... ...+|++++..+    .+.+.+.+|+ 
T Consensus       198 ~~~~~~~~~~~----~---~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~  270 (450)
T PRK00149        198 RNNTMEEFKEK----Y---RSVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFE  270 (450)
T ss_pred             HcCcHHHHHHH----H---hcCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhc
Confidence            1     11110    0   1356999999998864  346677887775432 345666665543    2567888998 


Q ss_pred             --eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh----cCCcCHHHHHhhhCC
Q 021660          193 --TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTGN  264 (309)
Q Consensus       193 --~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~~~  264 (309)
                        ..+.+.+|+.+++..++++++...++.++++++++|++++.||+|.+...|..+...    ...+|.+.+.+++..
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              579999999999999999999999999999999999999999999988888776643    256898888887764

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.80  E-value=1.5e-17  Score=147.82  Aligned_cols=204  Identities=15%  Similarity=0.222  Sum_probs=140.9

Q ss_pred             Cccccc-cChH--HHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           51 SLADVA-AHRD--IVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        51 ~~~~~i-g~~~--~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      +|++++ |...  +...+..+.....  ...++|+||+|+|||+|++++++++.....+..++.+++...  ...+...+
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            566644 4332  4445555555422  234899999999999999999999865543445555554321  11111111


Q ss_pred             H-----HhhhccccccCCCCccEEEEEeCCCCCCH--HHHHHHHHHHHHhc-CCceEEEEecCCc----ccchhhhcce-
Q 021660          126 Q-----DFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSRC-  192 (309)
Q Consensus       126 ~-----~~~~~~~~~~~~~~~~~lliiDe~~~l~~--~~~~~l~~~l~~~~-~~~~~i~~~~~~~----~l~~~l~~r~-  192 (309)
                      .     .+...    +   ....+|+|||++.+..  ..+..|+.+++... ....+|++++..+    .+.+.+.+|+ 
T Consensus       186 ~~~~~~~~~~~----~---~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~  258 (405)
T TIGR00362       186 RNNKMEEFKEK----Y---RSVDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFE  258 (405)
T ss_pred             HcCCHHHHHHH----H---HhCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhcc
Confidence            1     11100    0   1356999999998864  34567888887643 3455777776433    3557788887 


Q ss_pred             --eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc----CCcCHHHHHhhhC
Q 021660          193 --TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLCTG  263 (309)
Q Consensus       193 --~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~----~~i~~~~v~~~~~  263 (309)
                        ..+.|.+|+.+++..+++++++..++.++++++++|++++.||+|.+...|..+...+    ..||.+.+.+++.
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              5799999999999999999999999999999999999999999999888877665433    5688888777775

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).

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

Probab=99.79  E-value=4.8e-18  Score=160.80  Aligned_cols=215  Identities=15%  Similarity=0.165  Sum_probs=156.1

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcc-----cccEEEEecCCC
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASDD  115 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-----~~~~~~~~~~~~  115 (309)
                      .+++++.+|..+++++|+++.+..+...+......+++|+||||||||++++.+++.+.....     +..+..++....
T Consensus       170 ~~l~~~~r~~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l  249 (731)
T TIGR02639       170 VDLTEKAKNGKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSL  249 (731)
T ss_pred             hhHHHHHhcCCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHH
Confidence            356777899999999999999999999998888888999999999999999999999844321     334555553221


Q ss_pred             c----chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH---------HHHHHHHHHHHHhcCCceEEEEecCC-
Q 021660          116 R----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------DAQFALRRVIEKYTKNTRFALICNQV-  181 (309)
Q Consensus       116 ~----~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~---------~~~~~l~~~l~~~~~~~~~i~~~~~~-  181 (309)
                      .    ....+.+.+.........     ..+.||+|||+|.+..         +..+.|...+++  ....+|.+|+.. 
T Consensus       250 ~a~~~~~g~~e~~l~~i~~~~~~-----~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~--g~i~~IgaTt~~e  322 (731)
T TIGR02639       250 LAGTKYRGDFEERLKAVVSEIEK-----EPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSS--GKLRCIGSTTYEE  322 (731)
T ss_pred             hhhccccchHHHHHHHHHHHHhc-----cCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhC--CCeEEEEecCHHH
Confidence            1    112333444444332111     1467999999998852         234566666652  345677777642 


Q ss_pred             ----cccchhhhcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHhcC------CHHHHHHHHHHHH
Q 021660          182 ----NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTH  247 (309)
Q Consensus       182 ----~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~~g------~~r~~~~~l~~~~  247 (309)
                          ...++++.+||+.+.+.+|+.++..++++....+    .++.++++++..+++.+.+      -|+.++++++.++
T Consensus       323 ~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~P~kai~lld~a~  402 (731)
T TIGR02639       323 YKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFLPDKAIDVIDEAG  402 (731)
T ss_pred             HHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccCCHHHHHHHHHhh
Confidence                2468899999999999999999999999977654    4678999999999998853      4899999998766


Q ss_pred             hhc---------CCcCHHHHHhhh
Q 021660          248 MAS---------QQITEEAVYLCT  262 (309)
Q Consensus       248 ~~~---------~~i~~~~v~~~~  262 (309)
                      ...         ..++.+++..++
T Consensus       403 a~~~~~~~~~~~~~v~~~~i~~~i  426 (731)
T TIGR02639       403 ASFRLRPKAKKKANVSVKDIENVV  426 (731)
T ss_pred             hhhhcCcccccccccCHHHHHHHH
Confidence            421         237777776665

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.79  E-value=8.1e-18  Score=152.97  Aligned_cols=204  Identities=22%  Similarity=0.236  Sum_probs=139.0

Q ss_pred             hhcCCCCccccccChHHHHHHHHHHh-----------cC-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           45 EKYRPQSLADVAAHRDIVDTIDRLTS-----------EN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        45 ~~~~p~~~~~~ig~~~~~~~l~~~~~-----------~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      +.....+|++++|.++.+..+..++.           +. .+.+++|+||||||||+++++++++.     ...++.++.
T Consensus        47 ~~~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~-----~~~~~~i~~  121 (495)
T TIGR01241        47 EEKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-----GVPFFSISG  121 (495)
T ss_pred             CCCCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc-----CCCeeeccH
Confidence            33445589999999999887776654           12 22349999999999999999999987     555666554


Q ss_pred             CCC------cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHHHHhc--C
Q 021660          113 SDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYT--K  170 (309)
Q Consensus       113 ~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l~~~~--~  170 (309)
                      ...      .+...++..+.....         ..+.||+|||+|.+...              ..+.|+..++...  .
T Consensus       122 ~~~~~~~~g~~~~~l~~~f~~a~~---------~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~  192 (495)
T TIGR01241       122 SDFVEMFVGVGASRVRDLFEQAKK---------NAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNT  192 (495)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHh---------cCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCC
Confidence            421      112233333333221         14689999999987532              1234455554332  2


Q ss_pred             CceEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHH
Q 021660          171 NTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQST  246 (309)
Q Consensus       171 ~~~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~  246 (309)
                      ...+|++||.++.+++++.+  || ..+.++.|+.++..++++.++...... ++..+..+++.+.| +.+.+.++++.+
T Consensus       193 ~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~G~sgadl~~l~~eA  271 (495)
T TIGR01241       193 GVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLA-PDVDLKAVARRTPGFSGADLANLLNEA  271 (495)
T ss_pred             CeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCC-cchhHHHHHHhCCCCCHHHHHHHHHHH
Confidence            45677788999999999987  66 779999999999999999988765443 34557788988876 445555555544


Q ss_pred             Hhh-----cCCcCHHHHHhhhC
Q 021660          247 HMA-----SQQITEEAVYLCTG  263 (309)
Q Consensus       247 ~~~-----~~~i~~~~v~~~~~  263 (309)
                      +..     ...|+.+++..++.
T Consensus       272 ~~~a~~~~~~~i~~~~l~~a~~  293 (495)
T TIGR01241       272 ALLAARKNKTEITMNDIEEAID  293 (495)
T ss_pred             HHHHHHcCCCCCCHHHHHHHHH
Confidence            432     24588888887775

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.79  E-value=2.4e-17  Score=147.34  Aligned_cols=200  Identities=16%  Similarity=0.155  Sum_probs=134.6

Q ss_pred             CCccccccChHHHHHHHHHHh---------c-CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC----
Q 021660           50 QSLADVAAHRDIVDTIDRLTS---------E-NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD----  115 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~---------~-~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~----  115 (309)
                      ..++++.|.+.+++.+.....         + ..+..+||+||||||||.+|+++++++     +..++.++....    
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            468899998888876665321         1 122349999999999999999999998     666666665431    


Q ss_pred             --cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH------------HHHHHHHHHHHhcCCceEEEEecCC
Q 021660          116 --RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD------------AQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       116 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~------------~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                        .+...++..+.....         ..+.||+|||+|.+...            ....|+..+++......+|.+||..
T Consensus       300 vGese~~l~~~f~~A~~---------~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~  370 (489)
T CHL00195        300 VGESESRMRQMIRIAEA---------LSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNI  370 (489)
T ss_pred             cChHHHHHHHHHHHHHh---------cCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCCh
Confidence              112223333222111         15789999999977531            1345666777655566777888999


Q ss_pred             cccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHhcCCHHHHHH-HHHHHHhh----cCC
Q 021660          182 NKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLD-VTEGGLAALVRLCNGDMRKALN-ILQSTHMA----SQQ  252 (309)
Q Consensus       182 ~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~l~~i~~~~~g~~r~~~~-~l~~~~~~----~~~  252 (309)
                      +.+++++.+  || ..+.++.|+.++..++++.++++.+.. .++..++.+++.+.|-.+.-+. .+..+...    ...
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  78 789999999999999999999886543 3456688999998764433333 33333221    244


Q ss_pred             cCHHHHHhhhC
Q 021660          253 ITEEAVYLCTG  263 (309)
Q Consensus       253 i~~~~v~~~~~  263 (309)
                      ++.+++..++.
T Consensus       451 lt~~dl~~a~~  461 (489)
T CHL00195        451 FTTDDILLALK  461 (489)
T ss_pred             cCHHHHHHHHH
Confidence            66666555554

>PRK07452 DNA polymerase III subunit delta; Validated

Probab=99.79  E-value=3.2e-17  Score=141.91  Aligned_cols=224  Identities=18%  Similarity=0.250  Sum_probs=172.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcc-cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l  153 (309)
                      +.++|||+...-+...+..+.+.+..+.. ...+..++..+.   +.+...+.. ..+.+  +..  ++++|+|++++.+
T Consensus         2 ~~yll~G~e~~l~~~~~~~l~~~~~~~~~~~fn~~~~d~~~~---~~~~~~~~~-~~t~p--ff~--~~rlVvv~~~~~~   73 (326)
T PRK07452          2 PIYLYWGEDDFALNQAIEKLIDQVVDPEWKSFNYSRLDGDDA---DQAIQALNE-AMTPP--FGS--GGRLVWLKNSPLC   73 (326)
T ss_pred             CEEEEEcChHHHHHHHHHHHHHHhCCchhhhcchhhcCCccc---hHHHHHHHH-hcCCC--CCC--CceEEEEeCchhh
Confidence            56899999998888888888877643322 334444554332   112233333 22222  222  6899999997654


Q ss_pred             ---CHHHHHHHHHHHHHhcCCceEEEEec-CCc---ccchhhhcceeEEEecCC---ChHHHHHHHHHHHHHcCCCCCHH
Q 021660          154 ---TKDAQFALRRVIEKYTKNTRFALICN-QVN---KIIPALQSRCTRFRFAPL---EPVHVTERLKHVIEAEGLDVTEG  223 (309)
Q Consensus       154 ---~~~~~~~l~~~l~~~~~~~~~i~~~~-~~~---~l~~~l~~r~~~i~~~~~---~~~~~~~~l~~~~~~~~~~~~~~  223 (309)
                         ..+..+.|..+++.+++.+++|+++. ..+   +..+.+...+.+..|.++   +.+++..|+..++++.|+.++++
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               55667889999999888888888653 322   344556666677777655   45679999999999999999999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhh--c--CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCC
Q 021660          224 GLAALVRLCNGDMRKALNILQSTHMA--S--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLA  299 (309)
Q Consensus       224 ~l~~i~~~~~g~~r~~~~~l~~~~~~--~--~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  299 (309)
                      +++.+++.+++|++.+.+.+++++.+  +  +.||.++|..++... ..++|++++++..++...++..++.++ ..|.+
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            99999999999999999999999987  2  369999999999876 468999999999999999999999999 99999


Q ss_pred             HHHHHHHhh
Q 021660          300 LVDIVREVT  308 (309)
Q Consensus       300 ~~~~~~~l~  308 (309)
                      |..|++.|.
T Consensus       232 p~~il~~l~  240 (326)
T PRK07452        232 ALRIVATLT  240 (326)
T ss_pred             HHHHHHHHH
Confidence            999998875

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.79  E-value=1.1e-17  Score=148.59  Aligned_cols=224  Identities=17%  Similarity=0.210  Sum_probs=154.0

Q ss_pred             cCCCCccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC
Q 021660           47 YRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (309)
Q Consensus        47 ~~p~~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (309)
                      ....+|+++-|.++++..+...+..             .++..+|||||||||||++|+++|++.     ..+|+.+...
T Consensus       428 ~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~-----~~nFlsvkgp  502 (693)
T KOG0730|consen  428 MPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA-----GMNFLSVKGP  502 (693)
T ss_pred             CCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh-----cCCeeeccCH
Confidence            3455899999999999999877642             233449999999999999999999998     6667766544


Q ss_pred             C------CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH-----------HHHHHHHHHHHhc--CCceE
Q 021660          114 D------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKYT--KNTRF  174 (309)
Q Consensus       114 ~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~-----------~~~~l~~~l~~~~--~~~~~  174 (309)
                      .      ..+...++..+.+....         .+.||++||+|.+..+           ..+.|+.-|+...  .++.+
T Consensus       503 EL~sk~vGeSEr~ir~iF~kAR~~---------aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~V  573 (693)
T KOG0730|consen  503 ELFSKYVGESERAIREVFRKARQV---------APCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLV  573 (693)
T ss_pred             HHHHHhcCchHHHHHHHHHHHhhc---------CCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEE
Confidence            3      22333444444444332         5689999999988533           2455666666443  45667


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCH-HHHHHHHHHHHhh
Q 021660          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNGDM-RKALNILQSTHMA  249 (309)
Q Consensus       175 i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~l~~i~~~~~g~~-r~~~~~l~~~~~~  249 (309)
                      |.+||.++.+++++.+  |+ ..+++++|+.+...+|++..+++-  +++++ .++.|++.+.|.- ..+..+|+.++..
T Consensus       574 iAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkm--p~~~~vdl~~La~~T~g~SGAel~~lCq~A~~~  651 (693)
T KOG0730|consen  574 IAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKM--PFSEDVDLEELAQATEGYSGAEIVAVCQEAALL  651 (693)
T ss_pred             EeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcC--CCCccccHHHHHHHhccCChHHHHHHHHHHHHH
Confidence            7788999999999999  77 889999999999999999988754  55554 7899999887644 4455566777664


Q ss_pred             c--CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          250 S--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMK  293 (309)
Q Consensus       250 ~--~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  293 (309)
                      +  +.|.       .......++.+.++++...-...-++.++++.
T Consensus       652 a~~e~i~-------a~~i~~~hf~~al~~~r~s~~~~~~~~Ye~fa  690 (693)
T KOG0730|consen  652 ALRESIE-------ATEITWQHFEEALKAVRPSLTSELLEKYEDFA  690 (693)
T ss_pred             HHHHhcc-------cccccHHHHHHHHHhhcccCCHHHHHHHHHHh
Confidence            3  2222       22233344445555555554455555555443

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=99.79  E-value=1.4e-17  Score=138.03  Aligned_cols=158  Identities=18%  Similarity=0.238  Sum_probs=126.7

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-----------ccccEEEEecCC---CcchHHHHHH
Q 021660           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------YHNMILELNASD---DRGIDVVRQQ  124 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------~~~~~~~~~~~~---~~~~~~~~~~  124 (309)
                      ...+.+.+.+..++.+| ++|+||+|+||+++|..+++.+.|..           ...++..+.+..   ..+++.++..
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            45678888999998888 89999999999999999999998842           344555554432   2456777766


Q ss_pred             HHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCChHH
Q 021660          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH  204 (309)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~  204 (309)
                      ...+...+..     .+.+++|||++|.+..+.++.|++.+|++|+++.+|++|+....++++++|||+.+.|+++.   
T Consensus        84 ~~~~~~~p~e-----~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~~~~~~~---  155 (290)
T PRK05917         84 KKQIWIHPYE-----SPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIHIPMEE---  155 (290)
T ss_pred             HHHHhhCccC-----CCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEEEccchh---
Confidence            6555443222     26899999999999999999999999999999999999999999999999999999998762   


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHH
Q 021660          205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMR  237 (309)
Q Consensus       205 ~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r  237 (309)
                                  ...++++.+..++..++|+++
T Consensus       156 ------------~~~i~~~~~~~l~~~~~g~~~  176 (290)
T PRK05917        156 ------------KTLVSKEDIAYLIGYAQGKES  176 (290)
T ss_pred             ------------ccCCCHHHHHHHHHHhCCChh
Confidence                        114677777778888888774

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

Probab=99.79  E-value=1.7e-17  Score=143.51  Aligned_cols=222  Identities=20%  Similarity=0.309  Sum_probs=158.5

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHH----HhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRL----TSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~----~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      +.+.|-|..   +.+++..+..+...    +.+..+.+++++|+||||||.+++.+++++........++.+||......
T Consensus        10 l~~~~iP~~---l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~   86 (366)
T COG1474          10 LLEDYIPEE---LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTP   86 (366)
T ss_pred             cCCCCCccc---ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCH
Confidence            334555544   77787777766554    45667777999999999999999999999977666666888998876555


Q ss_pred             HHHHHHHHHhh-hccccc-------------cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcC---CceEEEEecCC
Q 021660          119 DVVRQQIQDFA-STQSFS-------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK---NTRFALICNQV  181 (309)
Q Consensus       119 ~~~~~~~~~~~-~~~~~~-------------~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~---~~~~i~~~~~~  181 (309)
                      ..+...+.... ..+...             +.......+|++||+|.|.....+.|+.++.....   ...+|+++|..
T Consensus        87 ~~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~  166 (366)
T COG1474          87 YQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDD  166 (366)
T ss_pred             HHHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccH
Confidence            44444433322 111110             11223577999999999987655677777664432   34566667765


Q ss_pred             c---ccchhhhcce--eEEEecCCChHHHHHHHHHHHHHc--CCCCCHHHHHHHHHH---hcCCHHHHHHHHHHHHhhc-
Q 021660          182 N---KIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRL---CNGDMRKALNILQSTHMAS-  250 (309)
Q Consensus       182 ~---~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~l~~i~~~---~~g~~r~~~~~l~~~~~~~-  250 (309)
                      +   .+.+.+.+++  ..|.|+|++.+|+..++..+++..  ...+++++++.+++.   .+||.|.++.+|+.++..+ 
T Consensus       167 ~~~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe  246 (366)
T COG1474         167 KFLDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAE  246 (366)
T ss_pred             HHHHHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHH
Confidence            3   5667777776  558899999999999999999853  345788888777754   4789999999999888765 


Q ss_pred             ----CCcCHHHHHhhhCCCCh
Q 021660          251 ----QQITEEAVYLCTGNPLP  267 (309)
Q Consensus       251 ----~~i~~~~v~~~~~~~~~  267 (309)
                          ..++.++++.+....+.
T Consensus       247 ~~~~~~v~~~~v~~a~~~~~~  267 (366)
T COG1474         247 REGSRKVSEDHVREAQEEIER  267 (366)
T ss_pred             hhCCCCcCHHHHHHHHHHhhH
Confidence                57999999888544433

>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=99.79  E-value=8.3e-18  Score=136.32  Aligned_cols=190  Identities=18%  Similarity=0.296  Sum_probs=128.2

Q ss_pred             Cccccc-c--ChHHHHHHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           51 SLADVA-A--HRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        51 ~~~~~i-g--~~~~~~~l~~~~~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      +|+.++ |  +..+...+.........  ..++||||+|+|||+|++++++++.....+..++.++...  ....+...+
T Consensus         6 tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~--f~~~~~~~~   83 (219)
T PF00308_consen    6 TFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEE--FIREFADAL   83 (219)
T ss_dssp             SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHH--HHHHHHHHH
T ss_pred             ccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHH--HHHHHHHHH
Confidence            466665 4  45556666666555332  3499999999999999999999986544444444444332  111111111


Q ss_pred             H-----HhhhccccccCCCCccEEEEEeCCCCCCHHH--HHHHHHHHHHhc-CCceEEEEecCC----cccchhhhcce-
Q 021660          126 Q-----DFASTQSFSFGVKASVKLVLLDEADAMTKDA--QFALRRVIEKYT-KNTRFALICNQV----NKIIPALQSRC-  192 (309)
Q Consensus       126 ~-----~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~--~~~l~~~l~~~~-~~~~~i~~~~~~----~~l~~~l~~r~-  192 (309)
                      .     .+...    +   ....+|+|||++.+....  +..|+.+++... ....+|++++..    ..+.+.+.+|+ 
T Consensus        84 ~~~~~~~~~~~----~---~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~  156 (219)
T PF00308_consen   84 RDGEIEEFKDR----L---RSADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLS  156 (219)
T ss_dssp             HTTSHHHHHHH----H---CTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHH
T ss_pred             Hcccchhhhhh----h---hcCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHh
Confidence            1     11110    0   146799999999998654  788999998753 345677777443    24567888886 


Q ss_pred             --eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Q 021660          193 --TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       193 --~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                        ..+.+.+|+.++...++++++...|+.+++++++.|+++..+|+|.+...|..+...
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              789999999999999999999999999999999999999999999999999887654

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.78  E-value=2.2e-17  Score=149.05  Aligned_cols=206  Identities=13%  Similarity=0.144  Sum_probs=141.9

Q ss_pred             CccccccCh---HHHHHHHHHHhcC-CC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc--chHHHHH
Q 021660           51 SLADVAAHR---DIVDTIDRLTSEN-RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQ  123 (309)
Q Consensus        51 ~~~~~ig~~---~~~~~l~~~~~~~-~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~  123 (309)
                      +|++|+...   .....+..+.... .. ..++|||++|+|||+|++++++.+.....+..+..++.....  ....+..
T Consensus       286 TFDnFvvG~sN~~A~aaa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~  365 (617)
T PRK14086        286 TFDTFVIGASNRFAHAAAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRD  365 (617)
T ss_pred             CHhhhcCCCccHHHHHHHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHh
Confidence            677777422   2333445544432 12 239999999999999999999998543223334444433210  0111111


Q ss_pred             -HHHHhhhccccccCCCCccEEEEEeCCCCCCH--HHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhhcce---
Q 021660          124 -QIQDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSRC---  192 (309)
Q Consensus       124 -~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~-~~~~i~~~~~~~----~l~~~l~~r~---  192 (309)
                       ....+...    +   ....+|+|||++.+..  ..+..|+.+++.... +..+|++++...    .+.+.|.+|+   
T Consensus       366 ~~~~~f~~~----y---~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~G  438 (617)
T PRK14086        366 GKGDSFRRR----Y---REMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWG  438 (617)
T ss_pred             ccHHHHHHH----h---hcCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcC
Confidence             01111110    1   1467999999999864  346778888886644 456777776543    5678899997   


Q ss_pred             eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc----CCcCHHHHHhhhC
Q 021660          193 TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLCTG  263 (309)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~----~~i~~~~v~~~~~  263 (309)
                      .++.+.+|+.+....+|+++++..++.++++++++|+++..+|+|.+...|..+...+    ..||.+.++.++.
T Consensus       439 Lvv~I~~PD~EtR~aIL~kka~~r~l~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~  513 (617)
T PRK14086        439 LITDVQPPELETRIAILRKKAVQEQLNAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLR  513 (617)
T ss_pred             ceEEcCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHH
Confidence            7799999999999999999999999999999999999999999999999998776433    5688887776664

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.78  E-value=1.2e-17  Score=148.71  Aligned_cols=205  Identities=11%  Similarity=0.192  Sum_probs=141.0

Q ss_pred             Cccccc-cC--hHHHHHHHHHHhcCC-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH-
Q 021660           51 SLADVA-AH--RDIVDTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI-  125 (309)
Q Consensus        51 ~~~~~i-g~--~~~~~~l~~~~~~~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  125 (309)
                      +|+.|+ |.  ..+...+.++..+.. ...++||||+|+|||+|++++++++.....+..+..+++.+  ....+...+ 
T Consensus       103 tFdnFv~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~--f~~~~~~~~~  180 (440)
T PRK14088        103 TFENFVVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEK--FLNDLVDSMK  180 (440)
T ss_pred             cccccccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHH--HHHHHHHHHh
Confidence            577776 42  233445555554332 33499999999999999999999986544444455554432  111111111 


Q ss_pred             ----HHhhhccccccCCCCccEEEEEeCCCCCCH--HHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhhcce--
Q 021660          126 ----QDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSRC--  192 (309)
Q Consensus       126 ----~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~-~~~~i~~~~~~~----~l~~~l~~r~--  192 (309)
                          ..+...    +.  ....+|+|||++.+..  ..+..|+.+++.... ...+|++++..+    .+.+.+.+|+  
T Consensus       181 ~~~~~~f~~~----~~--~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~  254 (440)
T PRK14088        181 EGKLNEFREK----YR--KKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQM  254 (440)
T ss_pred             cccHHHHHHH----HH--hcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhc
Confidence                111110    00  1367999999998753  245677777775443 345666665332    3456788887  


Q ss_pred             -eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc----CCcCHHHHHhhhC
Q 021660          193 -TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLCTG  263 (309)
Q Consensus       193 -~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~----~~i~~~~v~~~~~  263 (309)
                       ..+.+.+|+.+....++++++...++.++++++++|++++.||+|.+...+..+...+    ..+|.+.+.+++.
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             4899999999999999999999999999999999999999999999999998776433    5788888877764

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

Probab=99.78  E-value=4.5e-17  Score=140.42  Aligned_cols=207  Identities=16%  Similarity=0.238  Sum_probs=151.4

Q ss_pred             Ccccccc---ChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc--chHHHHH
Q 021660           51 SLADVAA---HRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQ  123 (309)
Q Consensus        51 ~~~~~ig---~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~  123 (309)
                      +|+.||.   +..+......+....  ..+.++||||.|.|||+|++++++.....+....++.+....-.  ....++.
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            3455444   444455555665543  23349999999999999999999999877777777766655421  1111111


Q ss_pred             -HHHHhhhccccccCCCCccEEEEEeCCCCCCH--HHHHHHHHHHHHhcCCc-eEEEEecCCc----ccchhhhcce---
Q 021660          124 -QIQDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTKNT-RFALICNQVN----KIIPALQSRC---  192 (309)
Q Consensus       124 -~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~~~-~~i~~~~~~~----~l~~~l~~r~---  192 (309)
                       ...++....        +-.+++|||++.+..  ..++.|+..++...... .+|++++..+    .+.+.|++|+   
T Consensus       165 ~~~~~Fk~~y--------~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~G  236 (408)
T COG0593         165 NEMEKFKEKY--------SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWG  236 (408)
T ss_pred             hhHHHHHHhh--------ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhce
Confidence             122222111        246899999999874  45888999998765444 6667775544    3457888886   


Q ss_pred             eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc----CCcCHHHHHhhhCCC
Q 021660          193 TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLCTGNP  265 (309)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~----~~i~~~~v~~~~~~~  265 (309)
                      ..+.+.||+.+....+|.+.+...++.++++++.+++++...|+|.+...|.++...+    ..||.+.+.+++...
T Consensus       237 l~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~~  313 (408)
T COG0593         237 LVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKDL  313 (408)
T ss_pred             eEEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHHHHHHHHHHh
Confidence            7799999999999999999999999999999999999999999999999998777654    468888888877543

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.78  E-value=1.1e-17  Score=146.92  Aligned_cols=179  Identities=23%  Similarity=0.281  Sum_probs=137.6

Q ss_pred             CccccccChHHHHHHHHHHhc-----------CCCC-eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC---
Q 021660           51 SLADVAAHRDIVDTIDRLTSE-----------NRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD---  115 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~-----------~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~---  115 (309)
                      +|.++-|.+..+..+...+..           -.++ .+||+||||||||.||++++.++     .+.++.++.+..   
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            589999999999988887642           1223 39999999999999999999998     777887776542   


Q ss_pred             ---cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH-----------HHHHHHHHHHhc------CCceEE
Q 021660          116 ---RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA-----------QFALRRVIEKYT------KNTRFA  175 (309)
Q Consensus       116 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~-----------~~~l~~~l~~~~------~~~~~i  175 (309)
                         .....+++.+.+....         .++|++|||+|.+.+..           ...|+..|+++.      ..+.+|
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               2334556655555432         57899999999997532           356888888653      345677


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      .+||.++.++++|++  || +.|.+.-|+.....+||+.+++...+.- +-....|++.++|.++.-+..|-
T Consensus       334 gATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g-~~d~~qlA~lTPGfVGADL~AL~  404 (802)
T KOG0733|consen  334 GATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSG-DFDFKQLAKLTPGFVGADLMALC  404 (802)
T ss_pred             ecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCC-CcCHHHHHhcCCCccchhHHHHH
Confidence            788999999999987  56 7799999999999999999998665544 33468899999998887776663

>PRK07914 hypothetical protein; Reviewed

Probab=99.78  E-value=1.3e-16  Score=137.23  Aligned_cols=223  Identities=13%  Similarity=0.112  Sum_probs=179.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHcc-Cc-ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYG-AQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA  152 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~  152 (309)
                      +.++|+|+.-.-....+..+.+.+.. .+ ...++..++..+... .   + +.... +.+  +..  ++++|++++...
T Consensus         6 ~iYll~G~E~~l~~~~~~~i~~~~~~~~~~~~~n~~~~d~~~~~~-~---~-i~~~~-t~p--lF~--~rRlV~v~~~~~   75 (320)
T PRK07914          6 PLHLVLGDEELLVERAVAAVLRSARQRAGTADVPVSRMRAGDVST-Y---E-LAELL-SPS--LFA--EERVVVLEAAAE   75 (320)
T ss_pred             ceEEEEecHHHHHHHHHHHHHHHHhcCcCCCCCceEEeccccCCH-H---H-HHHhc-CCC--CCC--CceEEEEeChHh
Confidence            45999999987777777777776543 23 355667777655322 2   2 33332 222  222  699999999877


Q ss_pred             CCHHHHHHHHHHHHHhcCCceEEEEecCCc---ccchhhhcce-eEEEecCC-ChHHHHHHHHHHHHHcCCCCCHHHHHH
Q 021660          153 MTKDAQFALRRVIEKYTKNTRFALICNQVN---KIIPALQSRC-TRFRFAPL-EPVHVTERLKHVIEAEGLDVTEGGLAA  227 (309)
Q Consensus       153 l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~---~l~~~l~~r~-~~i~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~l~~  227 (309)
                      +..+..+.|..+++.+++.+++|++++...   ++.+.+.... ..+.|.++ +..++..|+..++++.|+.+++++++.
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            766667889999999888888888754222   3345666554 58899998 999999999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhh-cCCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHH
Q 021660          228 LVRLCNGDMRKALNILQSTHMA-SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVRE  306 (309)
Q Consensus       228 i~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~  306 (309)
                      +++++++|+..+.+.++++..+ ++.||.++|..++......++|++++++..++...++..+++++ ..|++|..|++.
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 46899999999999999999999999999999999999999999 999999999887


Q ss_pred             hh
Q 021660          307 VT  308 (309)
Q Consensus       307 l~  308 (309)
                      |.
T Consensus       235 l~  236 (320)
T PRK07914        235 LA  236 (320)
T ss_pred             HH
Confidence            75

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.78  E-value=3.1e-17  Score=144.27  Aligned_cols=203  Identities=20%  Similarity=0.261  Sum_probs=133.6

Q ss_pred             CCccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc
Q 021660           50 QSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (309)
                      ..++++.|.+..++.+...+..             ..+.+++|+||||||||++|+++++++     ...++.+++....
T Consensus       128 ~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~-----~~~~i~v~~~~l~  202 (389)
T PRK03992        128 VTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET-----NATFIRVVGSELV  202 (389)
T ss_pred             CCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh-----CCCEEEeehHHHh
Confidence            3688999999999988887632             223449999999999999999999997     4556666655321


Q ss_pred             c--hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-----------HHHHHHHHHHHHHhc-----CCceEEEEe
Q 021660          117 G--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKYT-----KNTRFALIC  178 (309)
Q Consensus       117 ~--~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-----------~~~~~~l~~~l~~~~-----~~~~~i~~~  178 (309)
                      .  .......+.......     ....+.+|+|||+|.+.           .+.+..+..++....     .+..+|++|
T Consensus       203 ~~~~g~~~~~i~~~f~~a-----~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aT  277 (389)
T PRK03992        203 QKFIGEGARLVRELFELA-----REKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAAT  277 (389)
T ss_pred             HhhccchHHHHHHHHHHH-----HhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEec
Confidence            1  001111122221110     01156899999999884           233445666665432     356788889


Q ss_pred             cCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC-HHHHHHHHHHHHhhc----
Q 021660          179 NQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTHMAS----  250 (309)
Q Consensus       179 ~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~-~r~~~~~l~~~~~~~----  250 (309)
                      |..+.+++++.+  || ..+.|++|+.++..++++.+++...+.- +..+..+++.+.|- .+.+..++..++..+    
T Consensus       278 n~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~-~~~~~~la~~t~g~sgadl~~l~~eA~~~a~~~~  356 (389)
T PRK03992        278 NRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLAD-DVDLEELAELTEGASGADLKAICTEAGMFAIRDD  356 (389)
T ss_pred             CChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCC-cCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcC
Confidence            999999999886  67 7799999999999999998876544321 24467888887663 344444444444322    


Q ss_pred             -CCcCHHHHHhhhC
Q 021660          251 -QQITEEAVYLCTG  263 (309)
Q Consensus       251 -~~i~~~~v~~~~~  263 (309)
                       ..|+.+++.+++.
T Consensus       357 ~~~i~~~d~~~A~~  370 (389)
T PRK03992        357 RTEVTMEDFLKAIE  370 (389)
T ss_pred             CCCcCHHHHHHHHH
Confidence             3466666665553

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.78  E-value=7e-18  Score=160.80  Aligned_cols=201  Identities=15%  Similarity=0.187  Sum_probs=145.9

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCCC-
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD-  115 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~-  115 (309)
                      +++++.+|..+++++|+++.+..+...+.....++++|+||||||||++++.+++.+....     .+..++.++.... 
T Consensus       176 ~L~~~~r~~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~  255 (852)
T TIGR03345       176 DLTAQAREGKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQ  255 (852)
T ss_pred             hHHHHhcCCCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhh
Confidence            3566778999999999999999999998888888899999999999999999999984332     1233443333221 


Q ss_pred             ---cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----H---HHHHHHHHHHHhcCCceEEEEecCC---
Q 021660          116 ---RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----D---AQFALRRVIEKYTKNTRFALICNQV---  181 (309)
Q Consensus       116 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----~---~~~~l~~~l~~~~~~~~~i~~~~~~---  181 (309)
                         .....+...+.........    ...+.||+|||+|.+..     .   ..+.|...+++  ....+|.+|+..   
T Consensus       256 ag~~~~ge~e~~lk~ii~e~~~----~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~--G~l~~IgaTT~~e~~  329 (852)
T TIGR03345       256 AGASVKGEFENRLKSVIDEVKA----SPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR--GELRTIAATTWAEYK  329 (852)
T ss_pred             cccccchHHHHHHHHHHHHHHh----cCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhC--CCeEEEEecCHHHHh
Confidence               1222333344443332111    01468999999999863     1   22356666653  356677777642   


Q ss_pred             --cccchhhhcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHhcC------CHHHHHHHHHHHHh
Q 021660          182 --NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTHM  248 (309)
Q Consensus       182 --~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~~g------~~r~~~~~l~~~~~  248 (309)
                        ...+++|.+||+.|.+++|+.++...+|+.....    .++.++++++..+++.+.+      -|.+++++|+.++.
T Consensus       330 ~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~LPDKAIdlldea~a  408 (852)
T TIGR03345       330 KYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQLPDKAVSLLDTACA  408 (852)
T ss_pred             hhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccccccCccHHHHHHHHHHH
Confidence              3478999999999999999999999997655543    4688999999999999864      69999999988765

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.

>PRK08487 DNA polymerase III subunit delta; Validated

Probab=99.77  E-value=2.4e-16  Score=136.00  Aligned_cols=231  Identities=21%  Similarity=0.238  Sum_probs=175.4

Q ss_pred             HHHHHHhcCCC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCcc
Q 021660           64 TIDRLTSENRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASV  142 (309)
Q Consensus        64 ~l~~~~~~~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  142 (309)
                      .+...++.+.. +.++|+|..-.-....+..+.+.+..++.... ...+.   ..   +.+ +.....+.+. |+   ++
T Consensus         5 ~l~~~lk~~~l~~vyll~GeE~yli~~~~~~i~~~~~~~~~~~~-~~~~~---~~---~~~-i~~~~~t~pl-F~---~~   72 (328)
T PRK08487          5 ELDTLLKQNKLPNAFLLYGEDEFQIELYAKKISEKFKPENELKT-LYFDE---YD---FEQ-AKDFLSQSSL-FG---GK   72 (328)
T ss_pred             HHHHHHhcCCCCceEEEecCchhHHHHHHHHHHHHhcCchHhhh-hchhh---cc---HHH-HHHHHhcccc-cC---Cc
Confidence            45566666644 45999999988888888888777643332221 21221   11   222 3333333332 22   68


Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc---cchhhhcc--eeEEEecCCChHHHHHHHHHHHHHcC
Q 021660          143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK---IIPALQSR--CTRFRFAPLEPVHVTERLKHVIEAEG  217 (309)
Q Consensus       143 ~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~---l~~~l~~r--~~~i~~~~~~~~~~~~~l~~~~~~~~  217 (309)
                      ++|++.+.+.........|..+++.+++..++|++....++   +.+.+...  ...+.|.+++..++..|+..++++.|
T Consensus        73 rlViv~~~~~~~~~~~~~L~~~l~~~~~~~~lv~~~~~~~k~kkl~k~~~~~k~~~~v~~~~~~~~~l~~~i~~~~~~~g  152 (328)
T PRK08487         73 NLLIIKLDKKIPKKELKLLIELCEKNSDNYFIIELYGADSKTKDIEKLFQKKDEAVFVRFFKPNAREALELLQERAKELG  152 (328)
T ss_pred             eEEEEecccccCHHHHHHHHHHHhcCCCCEEEEEecCCcchhHHHHHHhccCCCceEEEeeCCCHHHHHHHHHHHHHHhC
Confidence            99999988776666678889999887766555554443332   22233222  46789999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcC
Q 021660          218 LDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKG  297 (309)
Q Consensus       218 ~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  297 (309)
                      +.+++++++.+++++++|+..+.+.|++++.+.+.||.++|..++......++|++++++..++  .++..+++++ ..|
T Consensus       153 ~~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~~It~edV~~~v~~~~e~~vF~l~dai~~g~--~a~~~l~~L~-~~g  229 (328)
T PRK08487        153 LDIDQNALNHLYFIHNEDLALAANELEKLAILNEPITLKDIQELVFGLGSVSFEDFFEKLLNKK--DIKDDLEKLL-EEG  229 (328)
T ss_pred             CCCCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcCCCCHHHHHHHhcccccccHHHHHHHHHCCC--cHHHHHHHHH-HCC
Confidence            9999999999999999999999999999999988999999999999999999999999999998  5888899999 899


Q ss_pred             CCHHHHHHHhhC
Q 021660          298 LALVDIVREVTM  309 (309)
Q Consensus       298 ~~~~~~~~~l~~  309 (309)
                      .+|..|++.|.+
T Consensus       230 ~~pi~Il~~L~r  241 (328)
T PRK08487        230 FNEIALLNSLER  241 (328)
T ss_pred             CCHHHHHHHHHH
Confidence            999999988753

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=99.77  E-value=7.1e-17  Score=135.70  Aligned_cols=174  Identities=18%  Similarity=0.267  Sum_probs=136.2

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc--------ccccEEEEec-CCCcchHHHHHHHHHhh
Q 021660           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ--------YHNMILELNA-SDDRGIDVVRQQIQDFA  129 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~--------~~~~~~~~~~-~~~~~~~~~~~~~~~~~  129 (309)
                      .+++.+.+.+..++.+| ++|+|+.|+||++++..+++.+.|..        ...++..++. ......+.+++....+.
T Consensus         3 ~~~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir~l~~~~~   82 (299)
T PRK07132          3 NWIKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFLSAINKLY   82 (299)
T ss_pred             hHHHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHHHHHHHhc
Confidence            46778899999988888 88999999999999999999996632        2224444542 22345566665555543


Q ss_pred             hccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHH
Q 021660          130 STQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (309)
Q Consensus       130 ~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (309)
                      ..+.    ...+++++|||+++.+.....+.|++.++++|+.+.+|++++...++.+++.+||+.+.|.+++.+++..++
T Consensus        83 ~~~~----~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l  158 (299)
T PRK07132         83 FSSF----VQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKL  158 (299)
T ss_pred             cCCc----ccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHH
Confidence            2211    112789999999999999999999999999999999999999889999999999999999999999999888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          210 KHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       210 ~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      ...    +  ++++....++..++ +++.++..+.
T Consensus       159 ~~~----~--~~~~~a~~~a~~~~-~~~~a~~~~~  186 (299)
T PRK07132        159 LSK----N--KEKEYNWFYAYIFS-NFEQAEKYIN  186 (299)
T ss_pred             HHc----C--CChhHHHHHHHHcC-CHHHHHHHHh
Confidence            753    3  66666666676666 5988887753

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

Probab=99.77  E-value=3e-17  Score=144.53  Aligned_cols=207  Identities=19%  Similarity=0.264  Sum_probs=135.9

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      +.++..+.++.++.|.+..++.+..++..             ..+.+++|+||||||||++|+++++++     ...++.
T Consensus       173 ~~~~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el-----~~~fi~  247 (438)
T PTZ00361        173 KVDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET-----SATFLR  247 (438)
T ss_pred             ccccCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh-----CCCEEE
Confidence            34566667899999999999988887642             123349999999999999999999997     445565


Q ss_pred             EecCCCc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHh----
Q 021660          110 LNASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY----  168 (309)
Q Consensus       110 ~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~----  168 (309)
                      +......      +...+...+.....         ..+.+|+|||+|.+..           +.+..+..++...    
T Consensus       248 V~~seL~~k~~Ge~~~~vr~lF~~A~~---------~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~  318 (438)
T PTZ00361        248 VVGSELIQKYLGDGPKLVRELFRVAEE---------NAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFD  318 (438)
T ss_pred             EecchhhhhhcchHHHHHHHHHHHHHh---------CCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhc
Confidence            5544321      11112222221111         1578999999987642           1233445555432    


Q ss_pred             -cCCceEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHH
Q 021660          169 -TKNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNIL  243 (309)
Q Consensus       169 -~~~~~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l  243 (309)
                       ..+..+|++||..+.+++++.+  |+ ..|.|++|+.++..++++.++.+..+.- +..++.++..+.| +...+..++
T Consensus       319 ~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~-dvdl~~la~~t~g~sgAdI~~i~  397 (438)
T PTZ00361        319 SRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAE-DVDLEEFIMAKDELSGADIKAIC  397 (438)
T ss_pred             ccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCc-CcCHHHHHHhcCCCCHHHHHHHH
Confidence             3466788899999999999875  66 7899999999999999998877654322 2345666766644 333344444


Q ss_pred             HHHHhhc-----CCcCHHHHHhhhCC
Q 021660          244 QSTHMAS-----QQITEEAVYLCTGN  264 (309)
Q Consensus       244 ~~~~~~~-----~~i~~~~v~~~~~~  264 (309)
                      ..++..+     ..|+.+++..++..
T Consensus       398 ~eA~~~Alr~~r~~Vt~~D~~~A~~~  423 (438)
T PTZ00361        398 TEAGLLALRERRMKVTQADFRKAKEK  423 (438)
T ss_pred             HHHHHHHHHhcCCccCHHHHHHHHHH
Confidence            4443322     45777777766543

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=99.77  E-value=2.4e-16  Score=134.67  Aligned_cols=165  Identities=22%  Similarity=0.342  Sum_probs=124.0

Q ss_pred             hHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc--------------------cccEEEEecCC---
Q 021660           59 RDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY--------------------HNMILELNASD---  114 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~--------------------~~~~~~~~~~~---  114 (309)
                      ....+.+...  .++.++ ++|+||+|+|||++++.+++.+.|...                    ..++..+.+..   
T Consensus         7 ~~~w~~l~~~--~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~   84 (325)
T PRK08699          7 QEQWRQIAEH--WERRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEP   84 (325)
T ss_pred             HHHHHHHHHh--cCCcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccc
Confidence            3455555554  346666 999999999999999999999986432                    35566666532   


Q ss_pred             -------CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchh
Q 021660          115 -------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPA  187 (309)
Q Consensus       115 -------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~  187 (309)
                             ..+++.++.........+.     ..+++|++||+++.++...++.|++.+++++..+.+|++|+....+.+.
T Consensus        85 ~~g~~~~~I~id~iR~l~~~~~~~p~-----~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~t  159 (325)
T PRK08699         85 ENGRKLLQIKIDAVREIIDNVYLTSV-----RGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPT  159 (325)
T ss_pred             cccccCCCcCHHHHHHHHHHHhhCcc-----cCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHH
Confidence                   2356777775554433222     1268899999999999999999999999998888899999999999999


Q ss_pred             hhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHH
Q 021660          188 LQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRK  238 (309)
Q Consensus       188 l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~  238 (309)
                      +.+||+.+.|.+++.+++..+|...    ++.  ... .. ...++|.+..
T Consensus       160 i~SRc~~~~~~~~~~~~~~~~L~~~----~~~--~~~-~~-l~~~~g~p~~  202 (325)
T PRK08699        160 IKSRCRKMVLPAPSHEEALAYLRER----GVA--EPE-ER-LAFHSGAPLF  202 (325)
T ss_pred             HHHHhhhhcCCCCCHHHHHHHHHhc----CCC--cHH-HH-HHHhCCChhh
Confidence            9999999999999999999999753    432  221 22 3457777743

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=99.77  E-value=1.4e-16  Score=132.78  Aligned_cols=172  Identities=19%  Similarity=0.313  Sum_probs=134.1

Q ss_pred             cChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-------------------ccccEEEEecC-CC
Q 021660           57 AHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNAS-DD  115 (309)
Q Consensus        57 g~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------~~~~~~~~~~~-~~  115 (309)
                      .++.+++.+.+.+..++.+| ++|+||  +||+++|..+++.+.|.+                   ...++..+.+. ..
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            36788999999999999888 899996  689999999999997753                   23345555443 22


Q ss_pred             cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEE
Q 021660          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (309)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i  195 (309)
                      ..++.+++....+...+..     .+++|+|||++|.+..+..|.|++.+|++++++.+|++|+....+.++++|||+.+
T Consensus        84 I~idqIR~l~~~~~~~p~~-----~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i  158 (290)
T PRK07276         84 IKTDTIRELVKNFSQSGYE-----GKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIF  158 (290)
T ss_pred             CCHHHHHHHHHHHhhCccc-----CCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceee
Confidence            4567788777766554322     26799999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHH
Q 021660          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (309)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l  243 (309)
                      .|++ +.+++.+++.    +.|  ++.+....++ ...|+++.++..+
T Consensus       159 ~f~~-~~~~~~~~L~----~~g--~~~~~a~~la-~~~~s~~~A~~l~  198 (290)
T PRK07276        159 HFPK-NEAYLIQLLE----QKG--LLKTQAELLA-KLAQSTSEAEKLA  198 (290)
T ss_pred             eCCC-cHHHHHHHHH----HcC--CChHHHHHHH-HHCCCHHHHHHHh
Confidence            9966 6667766665    335  4444444444 4456899888877

>CHL00176 ftsH cell division protein; Validated

Probab=99.77  E-value=5.4e-17  Score=149.52  Aligned_cols=199  Identities=21%  Similarity=0.266  Sum_probs=137.8

Q ss_pred             CCccccccChHHHHHHHHHHh---cC---------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc-
Q 021660           50 QSLADVAAHRDIVDTIDRLTS---EN---------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-  116 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~---~~---------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~-  116 (309)
                      ..|++++|.++.++.+...+.   ..         .+.+++|+||||||||++|++++.+.     ...++.+++.... 
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            478999999988887777653   11         12349999999999999999999987     5556666554311 


Q ss_pred             -----chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHH---h--cCCceEE
Q 021660          117 -----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEK---Y--TKNTRFA  175 (309)
Q Consensus       117 -----~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~---~--~~~~~~i  175 (309)
                           +...++..+.....         ..+.||+|||+|.+..           .....+..++..   .  .....+|
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                 11222222222211         1578999999998842           222334444433   2  2355677


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHHhhc-
Q 021660          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHMAS-  250 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~~~~-  250 (309)
                      ++||..+.+++++.+  || ..+.+.+|+.++..++++.+++... ..++..+..+++.+.| +.+.+.+++..++..+ 
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 AATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKK-LSPDVSLELIARRTPGFSGADLANLLNEAAILTA  404 (638)
T ss_pred             EecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcc-cchhHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            888998899999886  56 7899999999999999999987743 2346678899999887 6666666666554322 


Q ss_pred             ----CCcCHHHHHhhhC
Q 021660          251 ----QQITEEAVYLCTG  263 (309)
Q Consensus       251 ----~~i~~~~v~~~~~  263 (309)
                          ..++.+++..++.
T Consensus       405 r~~~~~It~~dl~~Ai~  421 (638)
T CHL00176        405 RRKKATITMKEIDTAID  421 (638)
T ss_pred             HhCCCCcCHHHHHHHHH
Confidence                4588888887764

>PRK06585 holA DNA polymerase III subunit delta; Reviewed

Probab=99.76  E-value=4.8e-16  Score=135.46  Aligned_cols=234  Identities=18%  Similarity=0.234  Sum_probs=177.7

Q ss_pred             HHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHccCcc-cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCc
Q 021660           65 IDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKAS  141 (309)
Q Consensus        65 l~~~~~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  141 (309)
                      +...+..  +..+.++|||+........+..+.+.+...+. ...+..++.....  ..+.+ +.....+.+. |+   +
T Consensus         9 ~~~~l~~~~~~~~~yll~G~e~~li~~~~~~l~~~~~~~~~~~fn~~~~~~~e~~--~~~~~-~~~~~~t~sl-F~---~   81 (343)
T PRK06585          9 VDRFLARPDPKIRAVLLYGPDRGLVRERARRLAKSVVPDLDDPFAVVRLDGDDLD--ADPAR-LEDEANAISL-FG---G   81 (343)
T ss_pred             HHHHHhCCCCCCeEEEEeCCchHHHHHHHHHHHHHhcCCCCCCcceeeccHHHhh--cCHHH-HHHHHhCCCC-CC---C
Confidence            3444443  24466999999998888888888887643321 2334444433211  01222 3233333333 33   5


Q ss_pred             cEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc---ccchhhh--cceeEEEecCCChHHHHHHHHHHHHHc
Q 021660          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN---KIIPALQ--SRCTRFRFAPLEPVHVTERLKHVIEAE  216 (309)
Q Consensus       142 ~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~---~l~~~l~--~r~~~i~~~~~~~~~~~~~l~~~~~~~  216 (309)
                      +++|++.+.+   ....+.|..+++.+++.+++|+.+...+   ++.+.+.  ..+..+.|.+++..++..|+..++++.
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            7899999654   3445678888988888888887664432   2233332  234678899999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc---CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS---QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMK  293 (309)
Q Consensus       217 ~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~---~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  293 (309)
                      |+.+++++++.+++.++||++.+.+.|++++.+.   +.||.++|..++.......+|++++++..++...++..++.++
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   4699999999999999999999999999999999999999999


Q ss_pred             HhcCCCHHHHHHHhhC
Q 021660          294 MRKGLALVDIVREVTM  309 (309)
Q Consensus       294 ~~~g~~~~~~~~~l~~  309 (309)
                       ..|.+|..|++.|.+
T Consensus       239 -~~g~~p~~il~~L~~  253 (343)
T PRK06585        239 -AEGTAPVLILRAALR  253 (343)
T ss_pred             -HcCCCHHHHHHHHHH
Confidence             999999999988753

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

Probab=99.76  E-value=1.3e-16  Score=139.79  Aligned_cols=200  Identities=21%  Similarity=0.255  Sum_probs=133.9

Q ss_pred             CCCccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           49 PQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ..+++++.|.+..++.+...+..             ..+.+++|+||||||||++++++++.+     ...++.+.+...
T Consensus       141 ~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l-----~~~fi~i~~s~l  215 (398)
T PTZ00454        141 DVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT-----TATFIRVVGSEF  215 (398)
T ss_pred             CCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc-----CCCEEEEehHHH
Confidence            34789999999999888877631             123449999999999999999999987     455555544321


Q ss_pred             ------cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHh-----cCCce
Q 021660          116 ------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-----TKNTR  173 (309)
Q Consensus       116 ------~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~-----~~~~~  173 (309)
                            .+...+...+....         ...+.+|+|||+|.+..           ..+..+..++...     ..+..
T Consensus       216 ~~k~~ge~~~~lr~lf~~A~---------~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~  286 (398)
T PTZ00454        216 VQKYLGEGPRMVRDVFRLAR---------ENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVK  286 (398)
T ss_pred             HHHhcchhHHHHHHHHHHHH---------hcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEE
Confidence                  11112222222111         12578999999998742           2233444554432     23567


Q ss_pred             EEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHHhh
Q 021660          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHMA  249 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~~~  249 (309)
                      +|++||.++.+++++.+  |+ ..++|+.|+.++...+++.++.+.++.- +..+..+++.+.| +...+.++++.+...
T Consensus       287 VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~-dvd~~~la~~t~g~sgaDI~~l~~eA~~~  365 (398)
T PTZ00454        287 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSE-EVDLEDFVSRPEKISAADIAAICQEAGMQ  365 (398)
T ss_pred             EEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCc-ccCHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            88899999999999876  67 7799999999999999998887665442 3346778888765 455555555555543


Q ss_pred             c-----CCcCHHHHHhhhC
Q 021660          250 S-----QQITEEAVYLCTG  263 (309)
Q Consensus       250 ~-----~~i~~~~v~~~~~  263 (309)
                      +     ..++.+++..++.
T Consensus       366 A~r~~~~~i~~~df~~A~~  384 (398)
T PTZ00454        366 AVRKNRYVILPKDFEKGYK  384 (398)
T ss_pred             HHHcCCCccCHHHHHHHHH
Confidence            2     3567776666553

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.75  E-value=7.5e-17  Score=134.82  Aligned_cols=233  Identities=16%  Similarity=0.158  Sum_probs=154.8

Q ss_pred             CccccccChHHHHHHHHHHh----------cCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc--
Q 021660           51 SLADVAAHRDIVDTIDRLTS----------ENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--  116 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~----------~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--  116 (309)
                      .++|+.|..++++.|++++-          +.+  ...+|++||||||||.||++++.++     +..|+.++++...  
T Consensus       210 kW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc-----~tTFFNVSsstltSK  284 (491)
T KOG0738|consen  210 KWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATEC-----GTTFFNVSSSTLTSK  284 (491)
T ss_pred             ChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhh-----cCeEEEechhhhhhh
Confidence            68999999999999988763          222  3349999999999999999999998     5667766665432  


Q ss_pred             ---chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH------------HHHHHHHHHHHHhc---C--C-ceEE
Q 021660          117 ---GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIEKYT---K--N-TRFA  175 (309)
Q Consensus       117 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~------------~~~~~l~~~l~~~~---~--~-~~~i  175 (309)
                         ..+.+...+..++...        .+.+|+|||||.|..            .....|+-.|+...   .  . +.|+
T Consensus       285 wRGeSEKlvRlLFemARfy--------APStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVL  356 (491)
T KOG0738|consen  285 WRGESEKLVRLLFEMARFY--------APSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMVL  356 (491)
T ss_pred             hccchHHHHHHHHHHHHHh--------CCceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhccccccccceeEEEE
Confidence               1233444455544432        368999999999863            12456776676432   1  2 3344


Q ss_pred             EEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHH-HHHHHHhhc---
Q 021660          176 LICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALN-ILQSTHMAS---  250 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~-~l~~~~~~~---  250 (309)
                      .+||.++.+++++++|+ ..|.++-|+.+....+|+..+... ...++-.++.|++.+.|.-+.-+. .|+.++..+   
T Consensus       357 AATN~PWdiDEAlrRRlEKRIyIPLP~~~~R~~Li~~~l~~~-~~~~~~~~~~lae~~eGySGaDI~nvCreAsm~~mRR  435 (491)
T KOG0738|consen  357 AATNFPWDIDEALRRRLEKRIYIPLPDAEARSALIKILLRSV-ELDDPVNLEDLAERSEGYSGADITNVCREASMMAMRR  435 (491)
T ss_pred             eccCCCcchHHHHHHHHhhheeeeCCCHHHHHHHHHHhhccc-cCCCCccHHHHHHHhcCCChHHHHHHHHHHHHHHHHH
Confidence            45789999999999999 778888888888888887766432 233556678888888775554443 334443322   


Q ss_pred             --CCcCHHHHHhhhCCC-----ChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcC
Q 021660          251 --QQITEEAVYLCTGNP-----LPKDIEQISYWLLNESFADSFKRISEMKMRKG  297 (309)
Q Consensus       251 --~~i~~~~v~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  297 (309)
                        ..++.+.+..+....     ...+++.-+..+.......-+..+.+|+..-|
T Consensus       436 ~i~g~~~~ei~~lakE~~~~pv~~~Dfe~Al~~v~pSvs~~d~~k~ekW~~efG  489 (491)
T KOG0738|consen  436 KIAGLTPREIRQLAKEEPKMPVTNEDFEEALRKVRPSVSAADLEKYEKWMDEFG  489 (491)
T ss_pred             HHhcCCcHHhhhhhhhccccccchhhHHHHHHHcCcCCCHHHHHHHHHHHHHhc
Confidence              345555555554332     23445556666665555577788888884334

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=99.74  E-value=6.6e-16  Score=125.39  Aligned_cols=188  Identities=17%  Similarity=0.148  Sum_probs=136.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc-----------------ccccEEEEecC-CCcchHHHHHHHHHhhhccccccCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ-----------------YHNMILELNAS-DDRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      ++|+||+|+||..+|..+++.+.|..                 ...++..+.+. ...+.+.+++....+......    
T Consensus        10 ~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~e----   85 (261)
T PRK05818         10 LLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSVE----   85 (261)
T ss_pred             eeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCchh----
Confidence            99999999999999999999997652                 22344443332 234566777666655432111    


Q ss_pred             CCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCC----------ChHHHHHH
Q 021660          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL----------EPVHVTER  208 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~----------~~~~~~~~  208 (309)
                      ..+++|+||+++|.+..++.+.|++.+|+||+++.+|++|+....+.++++|||+.+.|+++          +..++.+.
T Consensus        86 ~~~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~~~~~~~i~~~  165 (261)
T PRK05818         86 SNGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYVVLSKEKKVPFKVESNDRYFQYI  165 (261)
T ss_pred             cCCCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhheeeeecCChhhhcccccccChHHHHHH
Confidence            12589999999999999999999999999999999999999999999999999999999887          45555555


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHHhhhCCCChHHHHHHHHHH
Q 021660          209 LKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYLCTGNPLPKDIEQISYWL  277 (309)
Q Consensus       209 l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~~~~~~~~~~~~~~~~~~~  277 (309)
                      +....     .+++    .++..++|+...+...++.+.... ..++...+...+..-++..+..++..+
T Consensus       166 L~~~~-----~~d~----~i~~~a~g~~~~a~~l~~~l~n~~~~~~~v~kl~~~~~~~~~q~~~~~l~~l  226 (261)
T PRK05818        166 LLSFY-----SVDE----QLQAYNNGSFSKLKNIIETLINKKNKLIQIHKAWILFKTFSYYEIAQLLNLL  226 (261)
T ss_pred             HHHcc-----CccH----HHHHHcCCCHHHHHHHHHHHHcccccHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            44321     2333    677788999999999998652211 234555566666666655555554443

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.73  E-value=4e-16  Score=129.20  Aligned_cols=121  Identities=17%  Similarity=0.238  Sum_probs=101.9

Q ss_pred             cEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC------------CcccchhhhcceeEEEecCCChHHHHHHH
Q 021660          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ------------VNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (309)
Q Consensus       142 ~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~------------~~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (309)
                      +.+|+|||+|.|.-++..+|.+.|+..- .+++|++||.            +..++..|++|..++...|++.+++++++
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            6799999999999999999999998643 5567777753            45678899999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHh----h-cCCcCHHHHHhhhC
Q 021660          210 KHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHM----A-SQQITEEAVYLCTG  263 (309)
Q Consensus       210 ~~~~~~~~~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~----~-~~~i~~~~v~~~~~  263 (309)
                      +.+++.+++.++++++++++... .-++|.++++|.-+..    . ++.+..++|+.+..
T Consensus       371 ~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~~  430 (450)
T COG1224         371 RIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKE  430 (450)
T ss_pred             HHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHHH
Confidence            99999999999999999999986 4689999999963332    2 24688888877654

>TIGR01128 holA DNA polymerase III, delta subunit

Probab=99.72  E-value=2.6e-15  Score=128.78  Aligned_cols=208  Identities=13%  Similarity=0.161  Sum_probs=165.6

Q ss_pred             HHHHHHHHccCcc-cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-HHHHHHHHHHHHh
Q 021660           91 ILAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-DAQFALRRVIEKY  168 (309)
Q Consensus        91 ~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-~~~~~l~~~l~~~  168 (309)
                      +..+.+....+++ ...++.++..+. ....+    .....+.+. ++   ++++++|++++.+.. ...+.|.++++++
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~e~-~~~~l----~~~~~~~sl-f~---~~kliii~~~~~~~~~~~~~~L~~~l~~~   74 (302)
T TIGR01128         4 ADAIRAAALAQGFDEFNVFRIDGEEF-DWNQL----LEEAQTLPL-FS---ERRLVELRNPEGKPGAKGLKALEEYLANP   74 (302)
T ss_pred             HHHHHHHHHhCCCchheeeeeccCCC-CHHHH----HHHhhccCc-cc---CCeEEEEECCCCCCCHHHHHHHHHHHhcC
Confidence            4455555543333 456666665542 22332    222222222 22   578999999998763 5578999999998


Q ss_pred             cCCceEEEEecCCcc---cchhhh--cceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHH
Q 021660          169 TKNTRFALICNQVNK---IIPALQ--SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (309)
Q Consensus       169 ~~~~~~i~~~~~~~~---l~~~l~--~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l  243 (309)
                      +++..+|++++..+.   +.+.+.  +++..+.|.+++..++..|+...+++.|+.+++++++.+++.++||++.+.+.+
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            888888888764432   222333  389999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhc--CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          244 QSTHMAS--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       244 ~~~~~~~--~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ++++.+.  +.||.++|...+.......++++++++..++...++..++.++ ..|.+|..|++.|.
T Consensus       155 ~KL~~~~~~~~It~e~I~~~~~~~~~~~if~l~dal~~~~~~~a~~~l~~l~-~~~~~~~~il~~l~  220 (302)
T TIGR01128       155 EKLALYAPDGKITLEDVEEAVSDSARFNVFDLTDALLEGKAARALRILKGLL-GEGEEPLILLALLQ  220 (302)
T ss_pred             HHHHhhCCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHH-HCCCcHHHHHHHHH
Confidence            9999874  5799999999999999999999999999999999999999999 99999999998875

subunit around DNA forming a DNA sliding clamp.

>PRK05574 holA DNA polymerase III subunit delta; Reviewed

Probab=99.72  E-value=7.3e-15  Score=128.16  Aligned_cols=234  Identities=14%  Similarity=0.190  Sum_probs=173.4

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCcc
Q 021660           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASV  142 (309)
Q Consensus        64 ~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  142 (309)
                      .+...+..+-.+.++|+|+.-.=+...+..+.+.+..++ ....+..++.... ..+.    +.....+.+. |+   ++
T Consensus         7 ~~~~~~~~~~~~~~li~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~d~~~~-~~~~----l~~~~~t~~l-F~---~~   77 (340)
T PRK05574          7 QLEKQLKKGLAPLYLLYGDEPLLLQEAKDAIRAAARAQGFDERNVFTFDGSET-DWDD----VLEACQSLPL-FS---DR   77 (340)
T ss_pred             HHHHHHhCCCCceEEEEcCcHHHHHHHHHHHHHHHHcCCCceeeEEEeecCCC-CHHH----HHHHhhccCc-cc---cC
Confidence            444555555344599999996666666666666543322 3445555555532 2222    2233333332 32   58


Q ss_pred             EEEEEeCCCCCCHHH----HHHHHHHHHHhcCC--ceEEEEecCCc---cc---chhhhcceeEEEecCCChHHHHHHHH
Q 021660          143 KLVLLDEADAMTKDA----QFALRRVIEKYTKN--TRFALICNQVN---KI---IPALQSRCTRFRFAPLEPVHVTERLK  210 (309)
Q Consensus       143 ~lliiDe~~~l~~~~----~~~l~~~l~~~~~~--~~~i~~~~~~~---~l---~~~l~~r~~~i~~~~~~~~~~~~~l~  210 (309)
                      ++++|++++.+....    ...+..++ ++++.  .++++.++..+   +.   .+.+.+++..+.|.+++..++..|+.
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            899999999886542    23344444 33433  34444444332   22   56677788999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc--CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHH
Q 021660          211 HVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKR  288 (309)
Q Consensus       211 ~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~--~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  288 (309)
                      ..+++.|+.+++++++.+++.++||+..+.+.+++++.+.  +.||.++|..++......+++++++++..++...++..
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            9999999999999999999999999999999999999765  34999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCHHHHHHHhh
Q 021660          289 ISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       289 l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +..++ ..|.+|..|++.|.
T Consensus       237 l~~l~-~~~~~~~~il~~l~  255 (340)
T PRK05574        237 LDGLR-LEGEEPIKLLAALQ  255 (340)
T ss_pred             HHHHH-HCCCcHHHHHHHHH
Confidence            99999 88999999998875

>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=99.72  E-value=3.3e-16  Score=131.64  Aligned_cols=105  Identities=19%  Similarity=0.279  Sum_probs=80.7

Q ss_pred             cEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC------------CcccchhhhcceeEEEecCCChHHHHHHH
Q 021660          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ------------VNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (309)
Q Consensus       142 ~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~------------~~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (309)
                      ++||+|||+|.|.-++..+|.++++..- .+.+|++||.            +..++..|++|+.++...|++.+|+++++
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            6799999999999999999999998543 6678888863            33567899999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHh-cCCHHHHHHHHHHHH
Q 021660          210 KHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTH  247 (309)
Q Consensus       210 ~~~~~~~~~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~  247 (309)
                      +.+++.+++.+++++++.+.+.. ...+|.+++++..+.
T Consensus       358 ~iR~~~E~v~i~~~al~~L~~ig~~~SLRYAiqLi~~a~  396 (398)
T PF06068_consen  358 KIRAKEEDVEISEDALDLLTKIGVETSLRYAIQLITPAS  396 (398)
T ss_dssp             HHHHHHCT--B-HHHHHHHHHHHHHS-HHHHHHCHHHHH
T ss_pred             HhhhhhhcCcCCHHHHHHHHHHhhhccHHHHHHhhhhhh
Confidence            99999999999999999999876 578999999887654

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.71  E-value=1e-15  Score=134.16  Aligned_cols=205  Identities=20%  Similarity=0.245  Sum_probs=132.3

Q ss_pred             CCCCccccccChHHHHHHHHHHhcC-------------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSEN-------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~~-------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      ....++++.|.+..++.+..++...             .+.+++|+||||||||++++++++.+     ...++.+....
T Consensus       117 p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l-----~~~~~~v~~~~  191 (364)
T TIGR01242       117 PNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET-----NATFIRVVGSE  191 (364)
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC-----CCCEEecchHH
Confidence            3447889999999999998876421             23449999999999999999999997     34445444322


Q ss_pred             Ccc--hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----cCCceEEE
Q 021660          115 DRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRFAL  176 (309)
Q Consensus       115 ~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-----------~~~~~~l~~~l~~~-----~~~~~~i~  176 (309)
                      ...  .......+.......     ....+.+|+|||+|.+.           ...+..+..++...     ..+..+|+
T Consensus       192 l~~~~~g~~~~~i~~~f~~a-----~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~  266 (364)
T TIGR01242       192 LVRKYIGEGARLVREIFELA-----KEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIA  266 (364)
T ss_pred             HHHHhhhHHHHHHHHHHHHH-----HhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEE
Confidence            100  011111122221110     11146799999999874           22344555665443     23667888


Q ss_pred             EecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCH-HHHHHHHHHHHhhc--
Q 021660          177 ICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDM-RKALNILQSTHMAS--  250 (309)
Q Consensus       177 ~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~-r~~~~~l~~~~~~~--  250 (309)
                      +||..+.+++++.+  || ..+.|+.|+.++..++++.++...... ++..+..+++.+.|-. +.+..++..+...+  
T Consensus       267 ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~-~~~~~~~la~~t~g~sg~dl~~l~~~A~~~a~~  345 (364)
T TIGR01242       267 ATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLA-EDVDLEAIAKMTEGASGADLKAICTEAGMFAIR  345 (364)
T ss_pred             ecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCC-ccCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            89999999999876  66 679999999999999998877554332 1235778888887643 34444444443322  


Q ss_pred             ---CCcCHHHHHhhhC
Q 021660          251 ---QQITEEAVYLCTG  263 (309)
Q Consensus       251 ---~~i~~~~v~~~~~  263 (309)
                         ..|+.+++..++.
T Consensus       346 ~~~~~i~~~d~~~a~~  361 (364)
T TIGR01242       346 EERDYVTMDDFIKAVE  361 (364)
T ss_pred             hCCCccCHHHHHHHHH
Confidence               4577777776654

Many proteins may score above the trusted cutoff because an internal

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.71  E-value=3.2e-15  Score=124.85  Aligned_cols=193  Identities=20%  Similarity=0.181  Sum_probs=128.9

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHH---------HHHHhh
Q 021660           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ---------QIQDFA  129 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~  129 (309)
                      ..+++.+..++..+  .+++|+||||||||++|+.+++.+     +..+..+++........+..         ....+.
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  359999999999999999999976     55666666654332222111         001110


Q ss_pred             h----c---------cccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh----------------cCCceEEEEecC
Q 021660          130 S----T---------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY----------------TKNTRFALICNQ  180 (309)
Q Consensus       130 ~----~---------~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~----------------~~~~~~i~~~~~  180 (309)
                      .    .         ...-.....++.+|+|||++.+.++.++.|+.++++.                ++..++|+++|.
T Consensus        81 ~~~~~~~~~~~~~~~~g~l~~A~~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~  160 (262)
T TIGR02640        81 HNVVKLEDIVRQNWVDNRLTLAVREGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNP  160 (262)
T ss_pred             HHhhhhhcccceeecCchHHHHHHcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCC
Confidence            0    0         0000000124569999999999999999999999752                135568888886


Q ss_pred             C-----cccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhc----------CCHHHHHHHHHH
Q 021660          181 V-----NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCN----------GDMRKALNILQS  245 (309)
Q Consensus       181 ~-----~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~----------g~~r~~~~~l~~  245 (309)
                      .     ..+.+++.+||..+.+..|+.++..+++..++     .++++.++.+++...          -.+|.++...+.
T Consensus       161 ~~~~g~~~l~~aL~~R~~~i~i~~P~~~~e~~Il~~~~-----~~~~~~~~~iv~~~~~~R~~~~~~~~~~r~~i~~~~~  235 (262)
T TIGR02640       161 VEYAGVHETQDALLDRLITIFMDYPDIDTETAILRAKT-----DVAEDSAATIVRLVREFRASGDEITSGLRASLMIAEV  235 (262)
T ss_pred             ccccceecccHHHHhhcEEEECCCCCHHHHHHHHHHhh-----CCCHHHHHHHHHHHHHHHhhCCccCCcHHHHHHHHHH
Confidence            4     24578899999999999999999999988764     467777777776541          137888887777


Q ss_pred             HHhhc--CCcCHHHHHhhhC
Q 021660          246 THMAS--QQITEEAVYLCTG  263 (309)
Q Consensus       246 ~~~~~--~~i~~~~v~~~~~  263 (309)
                      +...+  ..++.+++.+.+.
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~  255 (262)
T TIGR02640       236 ATQQDIPVDVDDEDFVDLCI  255 (262)
T ss_pred             HHHcCCCCCCCcHHHHHHHH
Confidence            76654  3566666666553

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).

>TIGR00763 lon ATP-dependent protease La

Probab=99.70  E-value=2.7e-16  Score=149.76  Aligned_cols=183  Identities=22%  Similarity=0.278  Sum_probs=124.8

Q ss_pred             cccccChHHHHHHHHHHhcC------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHH----
Q 021660           53 ADVAAHRDIVDTIDRLTSEN------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR----  122 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----  122 (309)
                      .+++|++.+++.+..++...      +.++++|+||||||||++++.+++.+     ...+..++.........+.    
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l-----~~~~~~i~~~~~~~~~~i~g~~~  394 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL-----NRKFVRFSLGGVRDEAEIRGHRR  394 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh-----cCCeEEEeCCCcccHHHHcCCCC
Confidence            35889999999988876421      33569999999999999999999998     4455555443221111110    


Q ss_pred             -------HHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH----HHHHHHHHHHh---------------cCCceEEE
Q 021660          123 -------QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA----QFALRRVIEKY---------------TKNTRFAL  176 (309)
Q Consensus       123 -------~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~----~~~l~~~l~~~---------------~~~~~~i~  176 (309)
                             ..+.+......      ....+|+|||+|.+.+..    .+.|+++++..               ..++.||+
T Consensus       395 ~~~g~~~g~i~~~l~~~~------~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~  468 (775)
T TIGR00763       395 TYVGAMPGRIIQGLKKAK------TKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIA  468 (775)
T ss_pred             ceeCCCCchHHHHHHHhC------cCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEE
Confidence                   01111111100      133499999999997532    36788877631               03567788


Q ss_pred             EecCCcccchhhhcceeEEEecCCChHHHHHHHHHHH-----HHc-----CCCCCHHHHHHHHHHhc--CCHHHHHHHHH
Q 021660          177 ICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVI-----EAE-----GLDVTEGGLAALVRLCN--GDMRKALNILQ  244 (309)
Q Consensus       177 ~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~-----~~~-----~~~~~~~~l~~i~~~~~--g~~r~~~~~l~  244 (309)
                      |+|....+++++++|+.++.|++++.++..+++++++     +..     ++.++++++..|++.+.  ...|.+...++
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            8899999999999999999999999999999887765     222     35789999999998653  23455444443


Q ss_pred             HH
Q 021660          245 ST  246 (309)
Q Consensus       245 ~~  246 (309)
                      ..
T Consensus       549 ~~  550 (775)
T TIGR00763       549 KI  550 (775)
T ss_pred             HH
Confidence            33

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.70  E-value=1.4e-15  Score=135.96  Aligned_cols=171  Identities=20%  Similarity=0.258  Sum_probs=113.4

Q ss_pred             hhhcCCCCccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccc
Q 021660           44 VEKYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHN  105 (309)
Q Consensus        44 ~~~~~p~~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~  105 (309)
                      .+.+.+.+++++.|.+..++.++..+..             ..+.+++||||||||||++++++++++....     ...
T Consensus       173 ~~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~  252 (512)
T TIGR03689       173 LEEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKS  252 (512)
T ss_pred             eecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCce
Confidence            3555667899999999999988887641             1233499999999999999999999984331     112


Q ss_pred             cEEEEecCCC------cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH------------HHHHHHHHHHH
Q 021660          106 MILELNASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD------------AQFALRRVIEK  167 (309)
Q Consensus       106 ~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~------------~~~~l~~~l~~  167 (309)
                      .++.+.....      .....++..+......     .....+.+|+|||+|.+...            ..+.|+..|+.
T Consensus       253 ~fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~-----a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDg  327 (512)
T TIGR03689       253 YFLNIKGPELLNKYVGETERQIRLIFQRAREK-----ASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDG  327 (512)
T ss_pred             eEEeccchhhcccccchHHHHHHHHHHHHHHH-----hhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcc
Confidence            2333222211      1111122222221111     01114789999999988531            12456666664


Q ss_pred             hc--CCceEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCC
Q 021660          168 YT--KNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDV  220 (309)
Q Consensus       168 ~~--~~~~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~  220 (309)
                      ..  .+..+|.+||..+.+++++.+  || ..|+|++|+.++..++++.++.. .+.+
T Consensus       328 l~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~-~l~l  384 (512)
T TIGR03689       328 VESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD-SLPL  384 (512)
T ss_pred             cccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc-cCCc
Confidence            43  356778888999999999988  77 67999999999999999998754 3344

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.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.69  E-value=2.1e-15  Score=129.23  Aligned_cols=198  Identities=18%  Similarity=0.213  Sum_probs=132.6

Q ss_pred             CCCCccccccChHHHHHHHHHHh----cC-------C-C-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTS----EN-------R-L-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~----~~-------~-~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      .|.+|+-++-.+..++.+.+-+.    +.       + . ..+|||||||||||+++.++|+.+     ...+..+.-+.
T Consensus       196 HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L-----~ydIydLeLt~  270 (457)
T KOG0743|consen  196 HPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYL-----NYDIYDLELTE  270 (457)
T ss_pred             CCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhc-----CCceEEeeecc
Confidence            45778888888777776655443    21       1 1 129999999999999999999999     45555544443


Q ss_pred             CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH------------------HHHHHHHHHHHHhcCCc----
Q 021660          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------------DAQFALRRVIEKYTKNT----  172 (309)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~------------------~~~~~l~~~l~~~~~~~----  172 (309)
                      ...-.+++..+....           +++||+|+|||+-..                  -....|++.++.....+    
T Consensus       271 v~~n~dLr~LL~~t~-----------~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ER  339 (457)
T KOG0743|consen  271 VKLDSDLRHLLLATP-----------NKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDER  339 (457)
T ss_pred             ccCcHHHHHHHHhCC-----------CCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCce
Confidence            333344555544432           589999999998631                  11346888888776544    


Q ss_pred             eEEEEecCCcccchhhhcc--e-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Q 021660          173 RFALICNQVNKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       173 ~~i~~~~~~~~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      ++|+|||..++++|+|.++  + ..|++...+....+.++.+++   ++.-+......|.+...                
T Consensus       340 IivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL---~~~~~h~L~~eie~l~~----------------  400 (457)
T KOG0743|consen  340 IIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYL---GIEEDHRLFDEIERLIE----------------  400 (457)
T ss_pred             EEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhc---CCCCCcchhHHHHHHhh----------------
Confidence            6888999999999999995  4 669999999999999998876   33223444444444222                


Q ss_pred             cCCcCHHHHHhhhCCC---ChHHHHHHHHHHhcC
Q 021660          250 SQQITEEAVYLCTGNP---LPKDIEQISYWLLNE  280 (309)
Q Consensus       250 ~~~i~~~~v~~~~~~~---~~~~~~~~~~~~~~~  280 (309)
                      ...+|+++|.+.+-..   .+..+..+++.+...
T Consensus       401 ~~~~tPA~V~e~lm~~~~dad~~lk~Lv~~l~~~  434 (457)
T KOG0743|consen  401 ETEVTPAQVAEELMKNKNDADVALKGLVEALESK  434 (457)
T ss_pred             cCccCHHHHHHHHhhccccHHHHHHHHHHHHHhh
Confidence            2457777777655332   333455555554433

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.69  E-value=4.5e-15  Score=141.16  Aligned_cols=184  Identities=18%  Similarity=0.241  Sum_probs=127.1

Q ss_pred             CCCccccccChHHHHHHHHHHhc------------C-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           49 PQSLADVAAHRDIVDTIDRLTSE------------N-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~~------------~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ...|+++.|.+.+++.+.+.+..            . .+..++|+||||||||++++++++++     +..++.+.+...
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            34789999999999988887641            1 22349999999999999999999997     566676665431


Q ss_pred             ------cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH------------HHHHHHHHHHHHh--cCCceEE
Q 021660          116 ------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIEKY--TKNTRFA  175 (309)
Q Consensus       116 ------~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~------------~~~~~l~~~l~~~--~~~~~~i  175 (309)
                            .....++..+.....         ..+++|+|||+|.+.+            ...+.|+..++..  ..+..+|
T Consensus       524 ~~~~vGese~~i~~~f~~A~~---------~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI  594 (733)
T TIGR01243       524 LSKWVGESEKAIREIFRKARQ---------AAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVI  594 (733)
T ss_pred             hhcccCcHHHHHHHHHHHHHh---------cCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEE
Confidence                  111223333332221         1578999999998742            1235566666642  3456777


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhcCCHHH-HHHHHHHHHh
Q 021660          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRK-ALNILQSTHM  248 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~l~~i~~~~~g~~r~-~~~~l~~~~~  248 (309)
                      ++||.++.+++++.+  || ..+++++|+.++..++++...+.  ..++ +..+..+++.+.|.... +.++++.++.
T Consensus       595 ~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~--~~~~~~~~l~~la~~t~g~sgadi~~~~~~A~~  670 (733)
T TIGR01243       595 AATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRS--MPLAEDVDLEELAEMTEGYTGADIEAVCREAAM  670 (733)
T ss_pred             EeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcC--CCCCccCCHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            888999999999986  88 78999999999999999876553  3443 34578899988775443 3334444443

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.

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.69  E-value=2.1e-15  Score=137.87  Aligned_cols=201  Identities=21%  Similarity=0.272  Sum_probs=142.9

Q ss_pred             CCCccccccChHHHHHHHHHHh-----------cCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC-
Q 021660           49 PQSLADVAAHRDIVDTIDRLTS-----------ENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-  115 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~-----------~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~-  115 (309)
                      +..|.|+.|.++++..|.+.+.           +.+.|. ++|+||||||||.||+++|.+.     ++.|+.++.+.- 
T Consensus       307 ~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-----gVPF~svSGSEFv  381 (774)
T KOG0731|consen  307 GVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----GVPFFSVSGSEFV  381 (774)
T ss_pred             CCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-----CCceeeechHHHH
Confidence            3579999999999998888765           123343 9999999999999999999997     778887776641 


Q ss_pred             -----cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH---------------HHHHHHHHHHHh--cCCce
Q 021660          116 -----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD---------------AQFALRRVIEKY--TKNTR  173 (309)
Q Consensus       116 -----~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~---------------~~~~l~~~l~~~--~~~~~  173 (309)
                           .+...++..+....         ...+++++|||+|.+...               ..+.|+--|+..  ...++
T Consensus       382 E~~~g~~asrvr~lf~~ar---------~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi  452 (774)
T KOG0731|consen  382 EMFVGVGASRVRDLFPLAR---------KNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVI  452 (774)
T ss_pred             HHhcccchHHHHHHHHHhh---------ccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEE
Confidence                 22233333322221         125789999999977522               234444445432  23456


Q ss_pred             EEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHH-HHHHhh
Q 021660          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMA  249 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l-~~~~~~  249 (309)
                      ++.+||.++.+++++.+  || ..+.+..|+.....+|++-+++......++..+..++.++.|..+.-+..+ ..++..
T Consensus       453 ~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~neaa~~  532 (774)
T KOG0731|consen  453 VLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNEAALL  532 (774)
T ss_pred             EEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhHHHHH
Confidence            67778999999999987  56 779999999999999999998877776677777789999999877665544 444332


Q ss_pred             c-----CCcCHHHHHhhhC
Q 021660          250 S-----QQITEEAVYLCTG  263 (309)
Q Consensus       250 ~-----~~i~~~~v~~~~~  263 (309)
                      +     ..|+..++..++.
T Consensus       533 a~r~~~~~i~~~~~~~a~~  551 (774)
T KOG0731|consen  533 AARKGLREIGTKDLEYAIE  551 (774)
T ss_pred             HHHhccCccchhhHHHHHH
Confidence            2     4566666655554

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.69  E-value=7.7e-16  Score=129.77  Aligned_cols=147  Identities=16%  Similarity=0.207  Sum_probs=107.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC------cchHHHHHHHHHhhhccccccCCCCccEEEEEeCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~  150 (309)
                      ++||||||||||.+++++++++     +..++.++....      .+...+++.+.......    ..+..+++|+|||+
T Consensus       151 llL~GPPGcGKTllAraiA~el-----g~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a----~~~~aPcVLFIDEI  221 (413)
T PLN00020        151 LGIWGGKGQGKSFQCELVFKKM-----GIEPIVMSAGELESENAGEPGKLIRQRYREAADII----KKKGKMSCLFINDL  221 (413)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHc-----CCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHh----hccCCCeEEEEehh
Confidence            9999999999999999999998     677777776542      22334454444443221    01225899999999


Q ss_pred             CCCCHHH------------HHHHHHHHHHh--------------cCCceEEEEecCCcccchhhhc--ceeEEEecCCCh
Q 021660          151 DAMTKDA------------QFALRRVIEKY--------------TKNTRFALICNQVNKIIPALQS--RCTRFRFAPLEP  202 (309)
Q Consensus       151 ~~l~~~~------------~~~l~~~l~~~--------------~~~~~~i~~~~~~~~l~~~l~~--r~~~i~~~~~~~  202 (309)
                      |.+.+..            ...|+.+++.+              ...+.||++||+++.++++|++  |+..+ +..|+.
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            9876321            14566666532              3456788889999999999998  77443 457999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC
Q 021660          203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD  235 (309)
Q Consensus       203 ~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~  235 (309)
                      ++..+|++.+++..  .++...+..|++..+|.
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            99999999988876  45688899999999875

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.68  E-value=8e-16  Score=147.80  Aligned_cols=201  Identities=15%  Similarity=0.193  Sum_probs=142.5

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCCC-
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD-  115 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~-  115 (309)
                      ++++..+|..+++++|+++.+..+...+.+....+++|+||||+|||++++.++..+....     .+..++.++.... 
T Consensus       162 ~l~~~~~~~~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~  241 (852)
T TIGR03346       162 DLTERAREGKLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALI  241 (852)
T ss_pred             hHHHHhhCCCCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHh
Confidence            4677889999999999999999999999888878899999999999999999999874321     1233444432211 


Q ss_pred             ---cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH--------HHHHHHHHHHHHhcCCceEEEEecCC---
Q 021660          116 ---RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------DAQFALRRVIEKYTKNTRFALICNQV---  181 (309)
Q Consensus       116 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--------~~~~~l~~~l~~~~~~~~~i~~~~~~---  181 (309)
                         .....+...+.........    ...+.||+|||+|.+..        +..+.|...+.  .....+|.+|+..   
T Consensus       242 a~~~~~g~~e~~l~~~l~~~~~----~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~--~g~i~~IgaTt~~e~r  315 (852)
T TIGR03346       242 AGAKYRGEFEERLKAVLNEVTK----SEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALA--RGELHCIGATTLDEYR  315 (852)
T ss_pred             hcchhhhhHHHHHHHHHHHHHh----cCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhh--cCceEEEEeCcHHHHH
Confidence               1111222233333221110    01468999999998862        23344555443  2345666666544   


Q ss_pred             --cccchhhhcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHhcC------CHHHHHHHHHHHHh
Q 021660          182 --NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTHM  248 (309)
Q Consensus       182 --~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~~g------~~r~~~~~l~~~~~  248 (309)
                        ...++++.+||+.+.+..|+.++...+++....+    .++.++++++..++..+.+      -|.+++++|+.++.
T Consensus       316 ~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~~r~lPdkAidlld~a~a  394 (852)
T TIGR03346       316 KYIEKDAALERRFQPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPDKAIDLIDEAAA  394 (852)
T ss_pred             HHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccccccccCCchHHHHHHHHHHH
Confidence              2468899999999999999999999998876554    3677899999999988753      49999999988775

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=99.68  E-value=1.4e-15  Score=132.01  Aligned_cols=195  Identities=19%  Similarity=0.221  Sum_probs=129.8

Q ss_pred             CCCccccccChHHHHHHHHHHh-----------cCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC--
Q 021660           49 PQSLADVAAHRDIVDTIDRLTS-----------ENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD--  114 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~-----------~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~--  114 (309)
                      ...|+|+-|-+++++.+.+.+.           +++.|. +||+||||||||.||+++|.+.     ++.|+....+.  
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            4469999999999988887764           334444 9999999999999999999997     56665555443  


Q ss_pred             ----CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--CCceEEEE
Q 021660          115 ----DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNTRFALI  177 (309)
Q Consensus       115 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~~--~~~~~i~~  177 (309)
                          ..+...++..+......         .++||+|||+|.+..           ...+.|+--|+...  ...+||.+
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                12344555544443222         578999999998752           22345555555433  34455667


Q ss_pred             ecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhcCCHHH-HHHHHHHHHhhc--
Q 021660          178 CNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRK-ALNILQSTHMAS--  250 (309)
Q Consensus       178 ~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~l~~i~~~~~g~~r~-~~~~l~~~~~~~--  250 (309)
                      ||.++.++++|.+  || ..+.++.|+..-..+||+.++.+.  ..+ +-....|++-+.|.-+. +.|++..++..+  
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 778999999999999999888743  333 23345567766654333 233333343322  


Q ss_pred             ---CCcCHHHHH
Q 021660          251 ---QQITEEAVY  259 (309)
Q Consensus       251 ---~~i~~~~v~  259 (309)
                         ..++..+++
T Consensus       524 dga~~VtM~~LE  535 (752)
T KOG0734|consen  524 DGAEMVTMKHLE  535 (752)
T ss_pred             cCcccccHHHHh
Confidence               445555554

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.67  E-value=9.4e-16  Score=146.80  Aligned_cols=203  Identities=14%  Similarity=0.176  Sum_probs=143.3

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCCC
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD  115 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~  115 (309)
                      .+++++.+|..+++++|+++.+..+...+.....++++|+||||||||++++.++..+....     .+..++.++....
T Consensus       166 ~~l~~~~r~~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l  245 (857)
T PRK10865        166 IDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL  245 (857)
T ss_pred             hhHHHHHhcCCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhh
Confidence            34667788999999999999999999999888888899999999999999999999984321     1334444433321


Q ss_pred             c----chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------HHHHHHHHHHHhcCCceEEEEecCCc-
Q 021660          116 R----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICNQVN-  182 (309)
Q Consensus       116 ~----~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------~~~~l~~~l~~~~~~~~~i~~~~~~~-  182 (309)
                      .    ....+...+.........    ..++.||+|||+|.+...        ..+.|...+.+  ....+|.+|+..+ 
T Consensus       246 ~ag~~~~g~~e~~lk~~~~~~~~----~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~--g~l~~IgaTt~~e~  319 (857)
T PRK10865        246 VAGAKYRGEFEERLKGVLNDLAK----QEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEY  319 (857)
T ss_pred             hhccchhhhhHHHHHHHHHHHHH----cCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhc--CCCeEEEcCCCHHH
Confidence            1    112222333333221100    014679999999998632        35666666642  3556777766543 


Q ss_pred             ----ccchhhhcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHhc------CCHHHHHHHHHHHHh
Q 021660          183 ----KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (309)
Q Consensus       183 ----~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~~------g~~r~~~~~l~~~~~  248 (309)
                          ..++++.+||+.+.+..|+.++...+++....+    .++.++++++...+..+.      ..|..++.++..++.
T Consensus       320 r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~~~~e~~~~v~~~d~a~~~a~~ls~ry~~~~~~pdkAi~LiD~aaa  399 (857)
T PRK10865        320 RQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKAIDLIDEAAS  399 (857)
T ss_pred             HHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHhhhhccCCCCCcCHHHHHHHHHHhhccccCCCCChHHHHHHHHHhc
Confidence                468899999988999999999999998776654    356788988888776663      468888888877765


Q ss_pred             h
Q 021660          249 A  249 (309)
Q Consensus       249 ~  249 (309)
                      .
T Consensus       400 ~  400 (857)
T PRK10865        400 S  400 (857)
T ss_pred             c
Confidence            4

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

Probab=99.67  E-value=2.3e-14  Score=120.85  Aligned_cols=202  Identities=18%  Similarity=0.209  Sum_probs=125.3

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhcccc----
Q 021660           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF----  134 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----  134 (309)
                      ..++..+...+..+ .+.++|+||+|+||||+++.+++.+....  ..+..+..... ....+...+.........    
T Consensus        29 ~~~~~~l~~~~~~~-~~~~~l~G~~G~GKTtl~~~l~~~l~~~~--~~~~~~~~~~~-~~~~~l~~i~~~lG~~~~~~~~  104 (269)
T TIGR03015        29 KRAMAYLEYGLSQR-EGFILITGEVGAGKTTLIRNLLKRLDQER--VVAAKLVNTRV-DAEDLLRMVAADFGLETEGRDK  104 (269)
T ss_pred             HHHHHHHHHHHhcC-CCEEEEEcCCCCCHHHHHHHHHHhcCCCC--eEEeeeeCCCC-CHHHHHHHHHHHcCCCCCCCCH
Confidence            34444444444432 34599999999999999999999875322  11111111111 111111111111100000    


Q ss_pred             ------------ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc---CCceEEEEecCC------cccchhhhcce-
Q 021660          135 ------------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---KNTRFALICNQV------NKIIPALQSRC-  192 (309)
Q Consensus       135 ------------~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~---~~~~~i~~~~~~------~~l~~~l~~r~-  192 (309)
                                  .......+.+|+|||++.+.....+.+..+.+...   ....+++++...      ......+.+|+ 
T Consensus       105 ~~~~~~l~~~l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~  184 (269)
T TIGR03015       105 AALLRELEDFLIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRII  184 (269)
T ss_pred             HHHHHHHHHHHHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhhee
Confidence                        00011246799999999999877776655444221   122344444321      11123566775 


Q ss_pred             eEEEecCCChHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-----CCcCHHHHHhhhC
Q 021660          193 TRFRFAPLEPVHVTERLKHVIEAEG----LDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                      ..+++++++.+++.+++..++...+    ..+++++++.|++.++|+||.+...+..+...+     +.|+.++|..++.
T Consensus       185 ~~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~  264 (269)
T TIGR03015       185 ASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIA  264 (269)
T ss_pred             eeeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            7889999999999999999998765    368999999999999999999888877765432     6788888887765


Q ss_pred             C
Q 021660          264 N  264 (309)
Q Consensus       264 ~  264 (309)
                      .
T Consensus       265 ~  265 (269)
T TIGR03015       265 E  265 (269)
T ss_pred             H
Confidence            4

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.

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

Probab=99.66  E-value=7.1e-15  Score=137.94  Aligned_cols=209  Identities=12%  Similarity=0.152  Sum_probs=141.0

Q ss_pred             cCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcc-----cccEEEEecCCC----cc
Q 021660           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASDD----RG  117 (309)
Q Consensus        47 ~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-----~~~~~~~~~~~~----~~  117 (309)
                      -+...++.++|++..+..+...+......+++|+||||||||++|+.++..+.....     +..+..++....    ..
T Consensus       180 a~~g~~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~  259 (758)
T PRK11034        180 ARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKY  259 (758)
T ss_pred             HHcCCCCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccch
Confidence            356678899999999999999998887788999999999999999999988633321     112222221110    01


Q ss_pred             hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH---------HHHHHHHHHHHHhcCCceEEEEecCCc-----c
Q 021660          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------DAQFALRRVIEKYTKNTRFALICNQVN-----K  183 (309)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~---------~~~~~l~~~l~~~~~~~~~i~~~~~~~-----~  183 (309)
                      ...+...+........     ..++.+|+|||+|.+..         +..+.|..++..  ....+|.+|+..+     .
T Consensus       260 ~Ge~e~rl~~l~~~l~-----~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~--g~i~vIgATt~~E~~~~~~  332 (758)
T PRK11034        260 RGDFEKRFKALLKQLE-----QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTYQEFSNIFE  332 (758)
T ss_pred             hhhHHHHHHHHHHHHH-----hcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC--CCeEEEecCChHHHHHHhh
Confidence            1122233333222110     01467999999998731         122334444432  3455666665432     4


Q ss_pred             cchhhhcceeEEEecCCChHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHhc------CCHHHHHHHHHHHHhhc---
Q 021660          184 IIPALQSRCTRFRFAPLEPVHVTERLKHVIE----AEGLDVTEGGLAALVRLCN------GDMRKALNILQSTHMAS---  250 (309)
Q Consensus       184 l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~l~~i~~~~~------g~~r~~~~~l~~~~~~~---  250 (309)
                      .++++.+||+.+.+++|+.++...+|+....    .+++.++++++..+++.+.      .-|..++.+|+.++...   
T Consensus       333 ~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaidlldea~a~~~~~  412 (758)
T PRK11034        333 KDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGARARLM  412 (758)
T ss_pred             ccHHHHhhCcEEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHHHHHHHHHHHhhccC
Confidence            6889999999999999999999999987554    3578899999999888764      36889999998887422   


Q ss_pred             ------CCcCHHHHHhhh
Q 021660          251 ------QQITEEAVYLCT  262 (309)
Q Consensus       251 ------~~i~~~~v~~~~  262 (309)
                            ..++.++|.+.+
T Consensus       413 ~~~~~~~~v~~~~i~~v~  430 (758)
T PRK11034        413 PVSKRKKTVNVADIESVV  430 (758)
T ss_pred             cccccccccChhhHHHHH
Confidence                  236666666555

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.66  E-value=1.1e-14  Score=128.42  Aligned_cols=172  Identities=16%  Similarity=0.186  Sum_probs=123.0

Q ss_pred             CccccccChHHHHHHHHHHhcC-------------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc
Q 021660           51 SLADVAAHRDIVDTIDRLTSEN-------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~-------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (309)
                      +|+++-+.+++..+|..++-..             .+..+|+|||||||||.+|+++|++.     +.+|+.+......+
T Consensus       509 tW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEa-----g~NFisVKGPELlN  583 (802)
T KOG0733|consen  509 TWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEA-----GANFISVKGPELLN  583 (802)
T ss_pred             ChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhc-----cCceEeecCHHHHH
Confidence            7888888888888887776421             23349999999999999999999997     88888887764321


Q ss_pred             --hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--CCceEEEEecCCc
Q 021660          118 --IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNTRFALICNQVN  182 (309)
Q Consensus       118 --~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~~--~~~~~i~~~~~~~  182 (309)
                        +.+-...+++.+.....     ..++||++||+|.|.+           ...+.|+.-|+...  ..+.+|.+||.++
T Consensus       584 kYVGESErAVR~vFqRAR~-----saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPD  658 (802)
T KOG0733|consen  584 KYVGESERAVRQVFQRARA-----SAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPD  658 (802)
T ss_pred             HHhhhHHHHHHHHHHHhhc-----CCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCc
Confidence              11222223333222111     1589999999999863           23577777777553  3455677889999


Q ss_pred             ccchhhhcc--e-eEEEecCCChHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHh
Q 021660          183 KIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTE-GGLAALVRLC  232 (309)
Q Consensus       183 ~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~l~~i~~~~  232 (309)
                      .+++++++.  + ..+.+..|+.++...||+...+..+..+++ -.++.|++..
T Consensus       659 iIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~  712 (802)
T KOG0733|consen  659 IIDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNT  712 (802)
T ss_pred             ccchhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcc
Confidence            999999884  5 668888899999999999988865555543 3467777654

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

Probab=99.65  E-value=3.6e-15  Score=134.05  Aligned_cols=209  Identities=21%  Similarity=0.266  Sum_probs=144.3

Q ss_pred             ccccccChHHHHHHHHHHh------cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           52 LADVAAHRDIVDTIDRLTS------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      -.+-.|-+.+++++.++++      ..+.+.++|+||||+|||++++.+|+.+     +-.|+.++-...+...+++..-
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al-----~RkfvR~sLGGvrDEAEIRGHR  396 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL-----GRKFVRISLGGVRDEAEIRGHR  396 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh-----CCCEEEEecCccccHHHhcccc
Confidence            3567888899998888875      2344569999999999999999999999     6677777665444434443332


Q ss_pred             HHhhhcccccc-----CCCCccEEEEEeCCCCCCHHH----HHHHHHHHHHhc---------------CCceEEEEecCC
Q 021660          126 QDFASTQSFSF-----GVKASVKLVLLDEADAMTKDA----QFALRRVIEKYT---------------KNTRFALICNQV  181 (309)
Q Consensus       126 ~~~~~~~~~~~-----~~~~~~~lliiDe~~~l~~~~----~~~l~~~l~~~~---------------~~~~~i~~~~~~  181 (309)
                      +.+..+.+..+     ..+....+++|||+|+++.+.    ..+|+++|+.-.               .++.||+|+|..
T Consensus       397 RTYIGamPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl  476 (782)
T COG0466         397 RTYIGAMPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSL  476 (782)
T ss_pred             ccccccCChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCcc
Confidence            22222111100     001145699999999997543    567888877211               356788888999


Q ss_pred             cccchhhhcceeEEEecCCChHHHHHHHHHHH-----HHcC-----CCCCHHHHHHHHHHhc--CCHHHHHHHHHHHHhh
Q 021660          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVI-----EAEG-----LDVTEGGLAALVRLCN--GDMRKALNILQSTHMA  249 (309)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~-----~~~~-----~~~~~~~l~~i~~~~~--g~~r~~~~~l~~~~~~  249 (309)
                      ..++..|+.|+.+|.+..++.+|-.+|.++++     +..|     +.++++++..|.+.+-  .-+|.+-..+.+++..
T Consensus       477 ~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~iI~~YTREAGVR~LeR~i~ki~RK  556 (782)
T COG0466         477 DTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRYYTREAGVRNLEREIAKICRK  556 (782)
T ss_pred             ccCChHHhcceeeeeecCCChHHHHHHHHHhcchHHHHHcCCCccceeecHHHHHHHHHHHhHhhhhhHHHHHHHHHHHH
Confidence            99999999999999999999999988877754     3333     4689999999998872  2255555555444432


Q ss_pred             c----------C--CcCHHHHHhhhCCC
Q 021660          250 S----------Q--QITEEAVYLCTGNP  265 (309)
Q Consensus       250 ~----------~--~i~~~~v~~~~~~~  265 (309)
                      .          .  .++...+.+.++..
T Consensus       557 ~~~~i~~~~~k~~~~i~~~~l~~yLG~~  584 (782)
T COG0466         557 AAKKILLKKEKSIVKIDEKNLKKYLGVP  584 (782)
T ss_pred             HHHHHHhcCcccceeeCHHHHHHHhCCc
Confidence            1          1  36677777777554

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.64  E-value=7.4e-15  Score=140.83  Aligned_cols=196  Identities=14%  Similarity=0.186  Sum_probs=140.5

Q ss_pred             hcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCCC----c
Q 021660           46 KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD----R  116 (309)
Q Consensus        46 ~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~----~  116 (309)
                      .-+...+++++|++..++.+.+++.....++++|+||||||||++|+.++..+....     .+..+..++....    .
T Consensus       172 ~a~~~~~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~  251 (821)
T CHL00095        172 EAIDGNLDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTK  251 (821)
T ss_pred             HHHcCCCCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCC
Confidence            345668899999999999999999988888899999999999999999999984321     1345555554321    1


Q ss_pred             chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------HHHHHHHHHHHhcCCceEEEEecCCc-----c
Q 021660          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICNQVN-----K  183 (309)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------~~~~l~~~l~~~~~~~~~i~~~~~~~-----~  183 (309)
                      ....+.+.+.........     .++.||+|||+|.+...        ..+.|...+.+  ....+|.+|+...     .
T Consensus       252 ~~ge~e~rl~~i~~~~~~-----~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r--g~l~~IgaTt~~ey~~~ie  324 (821)
T CHL00095        252 YRGEFEERLKRIFDEIQE-----NNNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR--GELQCIGATTLDEYRKHIE  324 (821)
T ss_pred             CccHHHHHHHHHHHHHHh-----cCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC--CCcEEEEeCCHHHHHHHHh
Confidence            122333444444332111     14679999999977532        24455555542  3456777776432     3


Q ss_pred             cchhhhcceeEEEecCCChHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHhcC------CHHHHHHHHHHHHh
Q 021660          184 IIPALQSRCTRFRFAPLEPVHVTERLKHVIE----AEGLDVTEGGLAALVRLCNG------DMRKALNILQSTHM  248 (309)
Q Consensus       184 l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~l~~i~~~~~g------~~r~~~~~l~~~~~  248 (309)
                      ..+.+.+||..+.+..|+.++...+++....    ..++.++++++..+++.+.|      -|+.++++|+.++.
T Consensus       325 ~D~aL~rRf~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~lPdkaidlld~a~a  399 (821)
T CHL00095        325 KDPALERRFQPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDKAIDLLDEAGS  399 (821)
T ss_pred             cCHHHHhcceEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccCchHHHHHHHHHHH
Confidence            5689999999999999999998888776443    34677999999999998864      48999999987765

>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]

Probab=99.64  E-value=1.4e-13  Score=119.11  Aligned_cols=233  Identities=16%  Similarity=0.232  Sum_probs=172.5

Q ss_pred             HHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEE
Q 021660           67 RLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV  145 (309)
Q Consensus        67 ~~~~~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  145 (309)
                      ..+... ..+.+++||+.-.=....+..+.+.....++...+..+.... .   .+...+. ...+.+. |+   +++++
T Consensus         8 ~~l~~~~~~~v~ll~G~d~~l~~e~~~~i~~~~~~~~~~~~~~~~~~~~-~---~~~~~~~-~~~s~~l-F~---~~~~v   78 (334)
T COG1466           8 KHLKKKNLMPVYLLYGEDEGLLEEAADAILKRALADGFDENYSFFDDSE-L---DWADLLS-ELESPSL-FG---EKRLV   78 (334)
T ss_pred             HHHhcCCCccEEEEecCChhHHHHHHHHHHHHHhccchhhHHhhccccc-C---CHHHHHH-Hhhcccc-cc---CCeeE
Confidence            334443 455599999997777777777777764333333333322222 1   1222222 2222222 33   45899


Q ss_pred             EEeCCCCCC-HHHHHHHHHHHHHhc-CCceEEEEecCCcc---cchhhhcc--eeEEEecCCChHHHHHHHHHHHHHcCC
Q 021660          146 LLDEADAMT-KDAQFALRRVIEKYT-KNTRFALICNQVNK---IIPALQSR--CTRFRFAPLEPVHVTERLKHVIEAEGL  218 (309)
Q Consensus       146 iiDe~~~l~-~~~~~~l~~~l~~~~-~~~~~i~~~~~~~~---l~~~l~~r--~~~i~~~~~~~~~~~~~l~~~~~~~~~  218 (309)
                      +|....... .+....+.......| .+..+++.++..+.   ..+.+..-  +..+.+.+++..++..|+..++++.|+
T Consensus        79 ~l~~~~~~~~~~~~~~l~~~~~~~p~~~~~l~~~~~kl~~~~~~~k~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~l  158 (334)
T COG1466          79 VLKNAEKKPNKDKNLALLELAALLPSTDLLLLVESNKLDKAKKLTKWLKKLAKAVVVECKPLDEAELPQWIKKRAKELGL  158 (334)
T ss_pred             EEECCCCCcCchhHHHHHHHHcCCCCCCEEEEEecCCcchHHHHHHHHHHhccCceEecCCCCHHHHHHHHHHHHHHcCC
Confidence            999988765 444556666666666 55555555544432   22222222  457999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcC--CcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhc
Q 021660          219 DVTEGGLAALVRLCNGDMRKALNILQSTHMASQ--QITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRK  296 (309)
Q Consensus       219 ~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~--~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  296 (309)
                      .+++++++.+++..+||...+.+.+++++.+..  .||.++|...+......+.+++.+++++++...++..+++++ ..
T Consensus       159 ~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~~~~f~l~dail~g~~~~a~~~l~~L~-~~  237 (334)
T COG1466         159 KIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAEFNIFDLADALLKGDVKKALRLLRDLL-LE  237 (334)
T ss_pred             CCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhccccCCHHHHHHHHHCCCHHHHHHHHHHHH-Hc
Confidence            999999999999999999999999999998874  599999999999999999999999999999999999999999 89


Q ss_pred             CCCHHHHHHHhhC
Q 021660          297 GLALVDIVREVTM  309 (309)
Q Consensus       297 g~~~~~~~~~l~~  309 (309)
                      |++|..|++.|.+
T Consensus       238 ge~p~~il~~l~~  250 (334)
T COG1466         238 GEEPLKLLAALTR  250 (334)
T ss_pred             CCcHHHHHHHHHH
Confidence            9999999998753

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.64  E-value=3.7e-15  Score=120.77  Aligned_cols=175  Identities=19%  Similarity=0.238  Sum_probs=122.6

Q ss_pred             CccccccChHHHHHHHHHHh----------cCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           51 SLADVAAHRDIVDTIDRLTS----------ENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~----------~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      .|+++.|-+.++++|++.+-          +.+  ...+|||||||+||+.||+++|.+.     +..|+.+++++..+.
T Consensus       131 kWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA-----nSTFFSvSSSDLvSK  205 (439)
T KOG0739|consen  131 KWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA-----NSTFFSVSSSDLVSK  205 (439)
T ss_pred             chhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc-----CCceEEeehHHHHHH
Confidence            68999999999999988753          233  2339999999999999999999997     677777877764221


Q ss_pred             --HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------H---HHHHHHHHHHh---cCCceEEEEecCCc
Q 021660          119 --DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------A---QFALRRVIEKY---TKNTRFALICNQVN  182 (309)
Q Consensus       119 --~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------~---~~~l~~~l~~~---~~~~~~i~~~~~~~  182 (309)
                        .+-...+.++.+     ++....++||+|||+|.++..        .   ...|+--|+..   ...+.++.+||-++
T Consensus       206 WmGESEkLVknLFe-----mARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw  280 (439)
T KOG0739|consen  206 WMGESEKLVKNLFE-----MARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPW  280 (439)
T ss_pred             HhccHHHHHHHHHH-----HHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCCCch
Confidence              111222333322     122236889999999988621        1   12333334422   23345555778889


Q ss_pred             ccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC
Q 021660          183 KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD  235 (309)
Q Consensus       183 ~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~  235 (309)
                      .++.++++|| .+|.++-|.......+++-.+..--..++...+.++++.+.|.
T Consensus       281 ~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGy  334 (439)
T KOG0739|consen  281 VLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGY  334 (439)
T ss_pred             hHHHHHHHHhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCC
Confidence            9999999999 7788887877777777776665555578899999999998774

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.63  E-value=2e-14  Score=122.76  Aligned_cols=218  Identities=13%  Similarity=0.143  Sum_probs=133.2

Q ss_pred             CCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc----ccccEEEEe------------
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELN------------  111 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~----~~~~~~~~~------------  111 (309)
                      .|..|.+++|+++++..+.-.+-....+++||+|+||+|||++++.+++.+.+-.    ....+....            
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            4667999999999999888655433346799999999999999999999984211    000000000            


Q ss_pred             --------------cCC--CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc------
Q 021660          112 --------------ASD--DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------  169 (309)
Q Consensus       112 --------------~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~------  169 (309)
                                    .+.  ..|.-.+...+..-........-..+++++|++||++.+++..+..|++.|++..      
T Consensus        83 ~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl~~~~q~~Lle~mee~~v~v~r~  162 (334)
T PRK13407         83 MIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLLEDHIVDLLLDVAQSGENVVERE  162 (334)
T ss_pred             ccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhCCHHHHHHHHHHHHcCCeEEEEC
Confidence                          000  0111111111110000000000012356799999999999999999999998532      


Q ss_pred             -------CCceEEEEecCCc-ccchhhhcce-eEEEecCCCh-HHHHHHHHHHHHH------------------------
Q 021660          170 -------KNTRFALICNQVN-KIIPALQSRC-TRFRFAPLEP-VHVTERLKHVIEA------------------------  215 (309)
Q Consensus       170 -------~~~~~i~~~~~~~-~l~~~l~~r~-~~i~~~~~~~-~~~~~~l~~~~~~------------------------  215 (309)
                             ....++.+.|..+ .+.+++..|| ..+.+.+++. ++..+++.+....                        
T Consensus       163 G~~~~~p~rfiviAt~NP~e~~l~~aLldRF~~~v~v~~~~~~~e~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  242 (334)
T PRK13407        163 GLSIRHPARFVLVGSGNPEEGELRPQLLDRFGLSVEVRSPRDVETRVEVIRRRDAYDADHDAFMAKWGAEDMQLRGRILG  242 (334)
T ss_pred             CeEEecCCCEEEEecCCcccCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHhhcccccchhhhccccccccCCHHHHHH
Confidence                   2223333335433 5788899998 6677777765 5656666543211                        


Q ss_pred             -----cCCCCCHHHHHHHHHHh---c-CCHHHHHHHHHHHHhhc-----CCcCHHHHHhhhCCC
Q 021660          216 -----EGLDVTEGGLAALVRLC---N-GDMRKALNILQSTHMAS-----QQITEEAVYLCTGNP  265 (309)
Q Consensus       216 -----~~~~~~~~~l~~i~~~~---~-g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~~~  265 (309)
                           ..+.++++.++++++.+   + ..+|..+.+++.+...+     +.++.++|..+....
T Consensus       243 a~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~~~v  306 (334)
T PRK13407        243 ARARLPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVATMA  306 (334)
T ss_pred             HHHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHHHHh
Confidence                 23568888888888765   2 35777777665444332     579999998777443

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

Probab=99.63  E-value=4.9e-14  Score=112.87  Aligned_cols=191  Identities=18%  Similarity=0.235  Sum_probs=133.7

Q ss_pred             hhhcCCCCccccccChHHHHHH----HHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchH
Q 021660           44 VEKYRPQSLADVAAHRDIVDTI----DRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (309)
Q Consensus        44 ~~~~~p~~~~~~ig~~~~~~~l----~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  119 (309)
                      +....|..+++++|-+..++.+    .+.+.+....++||+|+.|||||++++++..+....+  ..++++.........
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            3556677899999977666654    4556666666799999999999999999999986555  567777766655555


Q ss_pred             HHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-HHHHHHHHHHHH----HhcCCceEEEEecCCcccch--------
Q 021660          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-KDAQFALRRVIE----KYTKNTRFALICNQVNKIIP--------  186 (309)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-~~~~~~l~~~l~----~~~~~~~~i~~~~~~~~l~~--------  186 (309)
                      .+...+....           .+-||++||+..=. ...-..|..+|+    ..|.++.+..|+|...-+.+        
T Consensus        96 ~l~~~l~~~~-----------~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~~d~~~~  164 (249)
T PF05673_consen   96 ELLDLLRDRP-----------YKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPESFSDREDI  164 (249)
T ss_pred             HHHHHHhcCC-----------CCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccchhhhhccCC
Confidence            5554444211           46789999965332 233456666666    35566666667653321111        


Q ss_pred             ---------------hhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHH-----HHHHHHhcCCHHHHHHHHHH
Q 021660          187 ---------------ALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGL-----AALVRLCNGDMRKALNILQS  245 (309)
Q Consensus       187 ---------------~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l-----~~i~~~~~g~~r~~~~~l~~  245 (309)
                                     +|..|| ..+.|.+++.++..++++..+.+.|+.++++.+     +.-..+.+.+.|.|...++.
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                           355677 889999999999999999999999999996444     33334445688888877766


Q ss_pred             HH
Q 021660          246 TH  247 (309)
Q Consensus       246 ~~  247 (309)
                      +.
T Consensus       245 l~  246 (249)
T PF05673_consen  245 LA  246 (249)
T ss_pred             Hh
Confidence            54

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.63  E-value=1.3e-14  Score=137.23  Aligned_cols=209  Identities=20%  Similarity=0.227  Sum_probs=137.5

Q ss_pred             cccccChHHHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHH
Q 021660           53 ADVAAHRDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  126 (309)
                      .++.|.+.+++.+.+++..      ...+.++|+||||+|||++++.+++.+     +..+..++.........+.....
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l-----~~~~~~i~~~~~~d~~~i~g~~~  396 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT-----GRKYVRMALGGVRDEAEIRGHRR  396 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEEcCCCCCHHHhccchh
Confidence            4589999999999887762      234559999999999999999999988     44555555443222222221111


Q ss_pred             Hhhhccccc----cC-CCCccEEEEEeCCCCCCHHH----HHHHHHHHHHh---------------cCCceEEEEecCCc
Q 021660          127 DFASTQSFS----FG-VKASVKLVLLDEADAMTKDA----QFALRRVIEKY---------------TKNTRFALICNQVN  182 (309)
Q Consensus       127 ~~~~~~~~~----~~-~~~~~~lliiDe~~~l~~~~----~~~l~~~l~~~---------------~~~~~~i~~~~~~~  182 (309)
                      ......+..    +. ......+++|||+|++.+..    ...|+.+++.-               -.++.||+|+|.. 
T Consensus       397 ~~~g~~~G~~~~~l~~~~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~-  475 (784)
T PRK10787        397 TYIGSMPGKLIQKMAKVGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSM-  475 (784)
T ss_pred             ccCCCCCcHHHHHHHhcCCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCC-
Confidence            111000000    00 00134589999999998764    47899888741               1355677777776 


Q ss_pred             ccchhhhcceeEEEecCCChHHHHHHHHHHHHH-----c-----CCCCCHHHHHHHHHHhc--CCHHHHHHHHHHHHhh-
Q 021660          183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA-----E-----GLDVTEGGLAALVRLCN--GDMRKALNILQSTHMA-  249 (309)
Q Consensus       183 ~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~-----~-----~~~~~~~~l~~i~~~~~--g~~r~~~~~l~~~~~~-  249 (309)
                      .++++|++|+.++.|.+++.++..+++++++..     .     .+.++++++..|++.+.  --.|.+...++..+.. 
T Consensus       476 ~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~GaR~LeR~I~~i~r~~  555 (784)
T PRK10787        476 NIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAGVRSLEREISKLCRKA  555 (784)
T ss_pred             CCCHHHhcceeeeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCcccCCcHHHHHHHHHHHHH
Confidence            599999999999999999999999998887741     1     24689999999998652  1133333333332211 


Q ss_pred             ------c-----CCcCHHHHHhhhCCCCh
Q 021660          250 ------S-----QQITEEAVYLCTGNPLP  267 (309)
Q Consensus       250 ------~-----~~i~~~~v~~~~~~~~~  267 (309)
                            .     -.++.+.+.+.++....
T Consensus       556 l~~~~~~~~~~~v~v~~~~~~~~lg~~~~  584 (784)
T PRK10787        556 VKQLLLDKSLKHIEINGDNLHDYLGVQRF  584 (784)
T ss_pred             HHHHHhcCCCceeeecHHHHHHHhCCCcc
Confidence                  1     14888888888876543

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.62  E-value=2.1e-14  Score=141.15  Aligned_cols=180  Identities=13%  Similarity=0.098  Sum_probs=119.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc--------------------------------------
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--------------------------------------  117 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--------------------------------------  117 (309)
                      .+||+||||||||.||+++|.+.     .+.++.++..+-..                                      
T Consensus      1632 GILLiGPPGTGKTlLAKALA~es-----~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e~~n 1706 (2281)
T CHL00206       1632 GILVIGSIGTGRSYLVKYLATNS-----YVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTMMN 1706 (2281)
T ss_pred             ceEEECCCCCCHHHHHHHHHHhc-----CCceEEEEHHHHhhcccccccccccccccccccccccccccccchhhhhhcc
Confidence            49999999999999999999998     44444444322110                                      


Q ss_pred             -------hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH-----HHHHHHHHHHh-----cCCceEEEEecC
Q 021660          118 -------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA-----QFALRRVIEKY-----TKNTRFALICNQ  180 (309)
Q Consensus       118 -------~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~-----~~~l~~~l~~~-----~~~~~~i~~~~~  180 (309)
                             ...-...+....+     .+....|+||+|||+|.+....     .+.|+..|+..     ...++||++||.
T Consensus      1707 ~~~~~m~~~e~~~rIr~lFe-----lARk~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIVIAATNR 1781 (2281)
T CHL00206       1707 ALTMDMMPKIDRFYITLQFE-----LAKAMSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIASTHI 1781 (2281)
T ss_pred             hhhhhhhhhhhHHHHHHHHH-----HHHHCCCeEEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEEEEeCCC
Confidence                   0000000111111     1111268999999999997532     45666666632     234567778899


Q ss_pred             Ccccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH--HHHHHHHHhcCCH-HHHHHHHHHHHhhc----
Q 021660          181 VNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG--GLAALVRLCNGDM-RKALNILQSTHMAS----  250 (309)
Q Consensus       181 ~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~--~l~~i~~~~~g~~-r~~~~~l~~~~~~~----  250 (309)
                      ++.+++++++  |+ ..|.++.|+..+..+++...+...+..+.++  .++.+++.+.|-. +.+.+++..++..+    
T Consensus      1782 PD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLvNEAaliAirq~ 1861 (2281)
T CHL00206       1782 PQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALTNEALSISITQK 1861 (2281)
T ss_pred             cccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcC
Confidence            9999999998  77 7889999988888887776555556666543  4788999997743 44444445555433    


Q ss_pred             -CCcCHHHHHhhhCCC
Q 021660          251 -QQITEEAVYLCTGNP  265 (309)
Q Consensus       251 -~~i~~~~v~~~~~~~  265 (309)
                       ..|+.++++.++.+.
T Consensus      1862 ks~Id~~~I~~Al~Rq 1877 (2281)
T CHL00206       1862 KSIIDTNTIRSALHRQ 1877 (2281)
T ss_pred             CCccCHHHHHHHHHHH
Confidence             468888888887543

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.61  E-value=3.4e-14  Score=132.47  Aligned_cols=201  Identities=19%  Similarity=0.207  Sum_probs=133.9

Q ss_pred             cCCCCccccccChHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           47 YRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        47 ~~p~~~~~~ig~~~~~~~l~~~~~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      .....+.++.|....+..+...+..            .-+.+++|+||||+|||++++.+++++     ...++.+++..
T Consensus       146 ~~~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~-----~~~f~~is~~~  220 (644)
T PRK10733        146 QIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFTISGSD  220 (644)
T ss_pred             hhhCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc-----CCCEEEEehHH
Confidence            3345688899988888777665431            113349999999999999999999997     55666666543


Q ss_pred             C------cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHHHHhc--CCc
Q 021660          115 D------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYT--KNT  172 (309)
Q Consensus       115 ~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l~~~~--~~~  172 (309)
                      .      .+...++..+.....         ..+++|+|||+|.+...              ..+.|+..++...  ...
T Consensus       221 ~~~~~~g~~~~~~~~~f~~a~~---------~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~v  291 (644)
T PRK10733        221 FVEMFVGVGASRVRDMFEQAKK---------AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGI  291 (644)
T ss_pred             hHHhhhcccHHHHHHHHHHHHh---------cCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCe
Confidence            1      122233333333211         15789999999988421              2344544455433  345


Q ss_pred             eEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC----CHHHHHHHHHH
Q 021660          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG----DMRKALNILQS  245 (309)
Q Consensus       173 ~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g----~~r~~~~~l~~  245 (309)
                      .+|.+||.++.+++++.+  || ..+.++.|+.++..++++.++++....- +..+..+++.+.|    ++..+++....
T Consensus       292 ivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~-~~d~~~la~~t~G~sgadl~~l~~eAa~  370 (644)
T PRK10733        292 IVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAP-DIDAAIIARGTPGFSGADLANLVNEAAL  370 (644)
T ss_pred             eEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCC-cCCHHHHHhhCCCCCHHHHHHHHHHHHH
Confidence            677788999999999986  77 7899999999999999999887654322 2335678888877    55555444433


Q ss_pred             HHhh--cCCcCHHHHHhhh
Q 021660          246 THMA--SQQITEEAVYLCT  262 (309)
Q Consensus       246 ~~~~--~~~i~~~~v~~~~  262 (309)
                      .+..  ...|+..++..+.
T Consensus       371 ~a~r~~~~~i~~~d~~~a~  389 (644)
T PRK10733        371 FAARGNKRVVSMVEFEKAK  389 (644)
T ss_pred             HHHHcCCCcccHHHHHHHH
Confidence            2222  2468888877665

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=5.2e-15  Score=123.49  Aligned_cols=188  Identities=20%  Similarity=0.283  Sum_probs=126.1

Q ss_pred             CccccccChHHHHHHHHHHh----------cC----CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc
Q 021660           51 SLADVAAHRDIVDTIDRLTS----------EN----RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~----------~~----~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (309)
                      +|.|+-|-+.+++.+.+.+-          .+    ...+++++||||||||.+|++++++.     +..++.+......
T Consensus        90 ~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akea-----ga~fInv~~s~lt  164 (386)
T KOG0737|consen   90 SFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEA-----GANFINVSVSNLT  164 (386)
T ss_pred             ehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHc-----CCCcceeeccccc
Confidence            68889999999998887753          11    22349999999999999999999998     4555555444322


Q ss_pred             chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH-------H----HHHHHHHHHHh--cC--CceEEEEecCC
Q 021660          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-------A----QFALRRVIEKY--TK--NTRFALICNQV  181 (309)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~-------~----~~~l~~~l~~~--~~--~~~~i~~~~~~  181 (309)
                      .  .+...-..+..... .++.+-.|.+|+|||++.+...       .    .+.|...=+..  ..  .+.|+.+||.+
T Consensus       165 ~--KWfgE~eKlv~AvF-slAsKl~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNRP  241 (386)
T KOG0737|consen  165 S--KWFGEAQKLVKAVF-SLASKLQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERVLVLGATNRP  241 (386)
T ss_pred             h--hhHHHHHHHHHHHH-hhhhhcCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCCCC
Confidence            2  11111111111111 1344457899999999877521       1    12222222221  12  23444567999


Q ss_pred             cccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          182 NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (309)
Q Consensus       182 ~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~  247 (309)
                      ..+++++.+|+ .++++.-|+..+..+||+-+++.+.+. ++-.+..++..+.|.-+.-+..+...+
T Consensus       242 ~DlDeAiiRR~p~rf~V~lP~~~qR~kILkviLk~e~~e-~~vD~~~iA~~t~GySGSDLkelC~~A  307 (386)
T KOG0737|consen  242 FDLDEAIIRRLPRRFHVGLPDAEQRRKILKVILKKEKLE-DDVDLDEIAQMTEGYSGSDLKELCRLA  307 (386)
T ss_pred             ccHHHHHHHhCcceeeeCCCchhhHHHHHHHHhcccccC-cccCHHHHHHhcCCCcHHHHHHHHHHH
Confidence            99999999998 999999999999999999999988765 455578899999886665555443333

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=99.61  E-value=4.4e-14  Score=114.33  Aligned_cols=121  Identities=21%  Similarity=0.302  Sum_probs=99.9

Q ss_pred             cEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC-------------CcccchhhhcceeEEEecCCChHHHHHH
Q 021660          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ-------------VNKIIPALQSRCTRFRFAPLEPVHVTER  208 (309)
Q Consensus       142 ~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~-------------~~~l~~~l~~r~~~i~~~~~~~~~~~~~  208 (309)
                      +.+++|||++.+.-+....|.+.++.+- .+.+|+++|.             +..+++.+..|..++...+++.++++++
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            6799999999999999999999998654 6677787753             3467889999999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHh----hc-CCcCHHHHHhhhC
Q 021660          209 LKHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHM----AS-QQITEEAVYLCTG  263 (309)
Q Consensus       209 l~~~~~~~~~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~----~~-~~i~~~~v~~~~~  263 (309)
                      ++.+++.+++.++++++..+++.. .-.+|.++.+|.-+..    .+ +.|..++|+++..
T Consensus       376 i~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~~~  436 (456)
T KOG1942|consen  376 IKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVTE  436 (456)
T ss_pred             HHHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHHH
Confidence            999999999999999999999965 5689999998863332    22 3677777766543

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=5.8e-14  Score=111.44  Aligned_cols=159  Identities=23%  Similarity=0.345  Sum_probs=111.2

Q ss_pred             cCCC-CccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           47 YRPQ-SLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        47 ~~p~-~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      -.|. +..++-|-+-.++.+++.+.-             ..+..+++|||||||||.|++++++..     ...|+.+..
T Consensus       148 ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t-----~a~firvvg  222 (408)
T KOG0727|consen  148 EKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHT-----TAAFIRVVG  222 (408)
T ss_pred             CCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhcc-----chheeeecc
Confidence            3444 456677766666666666531             233449999999999999999999986     566666665


Q ss_pred             CC------CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHh-----cC
Q 021660          113 SD------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-----TK  170 (309)
Q Consensus       113 ~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~-----~~  170 (309)
                      +.      ..+...++..+.-..         ...+.+|+|||+|.+..           +.+..|+++++..     ..
T Consensus       223 sefvqkylgegprmvrdvfrlak---------enapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~  293 (408)
T KOG0727|consen  223 SEFVQKYLGEGPRMVRDVFRLAK---------ENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTT  293 (408)
T ss_pred             HHHHHHHhccCcHHHHHHHHHHh---------ccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCccc
Confidence            43      123333333333222         12578999999998752           3466777777753     45


Q ss_pred             CceEEEEecCCcccchhhhcce---eEEEecCCChHHHHHHHHHHHHHcCCC
Q 021660          171 NTRFALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLD  219 (309)
Q Consensus       171 ~~~~i~~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~  219 (309)
                      ++.+|++||..+.+++++.+..   ..|+|+-|+..+.+-++..+..+-++.
T Consensus       294 nvkvimatnradtldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls  345 (408)
T KOG0727|consen  294 NVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLS  345 (408)
T ss_pred             ceEEEEecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCC
Confidence            7789999999999999998854   679999888888888887777665543

>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=99.61  E-value=1e-14  Score=109.22  Aligned_cols=113  Identities=29%  Similarity=0.367  Sum_probs=81.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc--chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~  154 (309)
                      ++|+||||+|||++++.+++.+     +..++.+++....  ......+.+......... ..   .+.+|+|||+|.+.
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            6899999999999999999998     6778888876532  112222233333222111 00   26899999999998


Q ss_pred             HHH-----------HHHHHHHHHHhcC---CceEEEEecCCcccchhhh-cce-eEEEec
Q 021660          155 KDA-----------QFALRRVIEKYTK---NTRFALICNQVNKIIPALQ-SRC-TRFRFA  198 (309)
Q Consensus       155 ~~~-----------~~~l~~~l~~~~~---~~~~i~~~~~~~~l~~~l~-~r~-~~i~~~  198 (309)
                      ...           .+.|...++....   ...+|+++|..+.+++.+. +|| ..+.++
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           6778888887664   4688888999999999999 998 556653

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 ....

>PRK14700 recombination factor protein RarA; Provisional

Probab=99.61  E-value=3.3e-14  Score=116.98  Aligned_cols=136  Identities=18%  Similarity=0.220  Sum_probs=116.1

Q ss_pred             ceEEEEe--cCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHc------CCCCCHHHHHHHHHHhcCCHHHHHHHH
Q 021660          172 TRFALIC--NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE------GLDVTEGGLAALVRLCNGDMRKALNIL  243 (309)
Q Consensus       172 ~~~i~~~--~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~------~~~~~~~~l~~i~~~~~g~~r~~~~~l  243 (309)
                      ..+|.+|  |+...+.++|++||+++.|.+++.+++..++++-+...      .+.+++++++.|++.++||.|.++|.|
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            3455555  55668899999999999999999999999999988742      367999999999999999999999999


Q ss_pred             HHHHhhc---C--CcCHHHHHhhhC----------CCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          244 QSTHMAS---Q--QITEEAVYLCTG----------NPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       244 ~~~~~~~---~--~i~~~~v~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +.+....   +  .||.+.+.+.+.          ..-++.++.++++++++|++.++++|+.|+ ..|++|.-|.+.|.
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            9966422   1  289999887763          345778999999999999999999999999 99999999998775

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=3.9e-14  Score=127.91  Aligned_cols=175  Identities=23%  Similarity=0.281  Sum_probs=118.8

Q ss_pred             hhcCCCCccccccChHHHHHHHHHHhc----------C-C-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           45 EKYRPQSLADVAAHRDIVDTIDRLTSE----------N-R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        45 ~~~~p~~~~~~ig~~~~~~~l~~~~~~----------~-~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      .+..-.+|+|+-|-++++..+..-+.-          + + ...++||||||||||-+|+++|-++     +..|..+..
T Consensus       664 PKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc-----sL~FlSVKG  738 (953)
T KOG0736|consen  664 PKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC-----SLNFLSVKG  738 (953)
T ss_pred             CCCCccchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc-----eeeEEeecC
Confidence            334445789999999999988887753          1 2 2349999999999999999999998     777777766


Q ss_pred             CCCc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH-------------HHHHHHHHHHHhc----
Q 021660          113 SDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-------------AQFALRRVIEKYT----  169 (309)
Q Consensus       113 ~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~-------------~~~~l~~~l~~~~----  169 (309)
                      ....      +.+.+++.+.....         +.++||++||+|.+.+.             ....|+.-|+..+    
T Consensus       739 PELLNMYVGqSE~NVR~VFerAR~---------A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s  809 (953)
T KOG0736|consen  739 PELLNMYVGQSEENVREVFERARS---------AAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSS  809 (953)
T ss_pred             HHHHHHHhcchHHHHHHHHHHhhc---------cCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCC
Confidence            5421      22233333333222         26899999999999643             3456666666544    


Q ss_pred             CCceEEEEecCCcccchhhhc--ce-eEEEecCCChHHHH-HHHHHHHHHcCCCCCHHHHHHHHHHhcC
Q 021660          170 KNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVT-ERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (309)
Q Consensus       170 ~~~~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~l~~i~~~~~g  234 (309)
                      ..+.+|.+||+++-++++|.+  || ..+++.+....+-+ .+|+..-++.... ++-.+..|++.++-
T Consensus       810 ~~VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkFkLd-edVdL~eiAk~cp~  877 (953)
T KOG0736|consen  810 QDVFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKFKLD-EDVDLVEIAKKCPP  877 (953)
T ss_pred             CceEEEecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHHccCC-CCcCHHHHHhhCCc
Confidence            345566788999999999987  56 56777777665544 4455444443322 23346788888753

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=99.60  E-value=2.9e-14  Score=127.86  Aligned_cols=186  Identities=18%  Similarity=0.259  Sum_probs=131.7

Q ss_pred             ccccccChHHHHHHHHHHhcC------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHH--
Q 021660           52 LADVAAHRDIVDTIDRLTSEN------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ--  123 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  123 (309)
                      -++-.|-+.+++++.+++.-+      +.+.++|+||||+|||++++.+|+.+     +..|+.++........+++.  
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL-----nRkFfRfSvGG~tDvAeIkGHR  484 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL-----NRKFFRFSVGGMTDVAEIKGHR  484 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh-----CCceEEEeccccccHHhhcccc
Confidence            356788899999998887633      23449999999999999999999999     55555555544333333322  


Q ss_pred             ---------HHHHhhhccccccCCCCccEEEEEeCCCCCCH----HHHHHHHHHHHHh------------c---CCceEE
Q 021660          124 ---------QIQDFASTQSFSFGVKASVKLVLLDEADAMTK----DAQFALRRVIEKY------------T---KNTRFA  175 (309)
Q Consensus       124 ---------~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~----~~~~~l~~~l~~~------------~---~~~~~i  175 (309)
                               .+-+..+....      ...+++|||+|++..    +-..+|+++++.-            |   ..+.||
T Consensus       485 RTYVGAMPGkiIq~LK~v~t------~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFi  558 (906)
T KOG2004|consen  485 RTYVGAMPGKIIQCLKKVKT------ENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFI  558 (906)
T ss_pred             eeeeccCChHHHHHHHhhCC------CCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEE
Confidence                     22222222221      567999999999973    2246777777621            1   245678


Q ss_pred             EEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHH-----Hc-----CCCCCHHHHHHHHHHhc--CCHHHHHHHH
Q 021660          176 LICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE-----AE-----GLDVTEGGLAALVRLCN--GDMRKALNIL  243 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~-----~~-----~~~~~~~~l~~i~~~~~--g~~r~~~~~l  243 (309)
                      +|+|..+.+++.|+.|+.+|++..+..+|-.+|..+++-     +.     .+.++++++..+.+++-  .-+|.+...+
T Consensus       559 cTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yLip~a~~~~gl~~e~v~is~~al~~lI~~YcrEaGVRnLqk~i  638 (906)
T KOG2004|consen  559 CTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYLIPQALKDCGLKPEQVKISDDALLALIERYCREAGVRNLQKQI  638 (906)
T ss_pred             EeccccccCChhhhhhhheeeccCccHHHHHHHHHHhhhhHHHHHcCCCHHhcCccHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            888999999999999999999999999999888777653     22     35789999988888762  2366666666


Q ss_pred             HHHHh
Q 021660          244 QSTHM  248 (309)
Q Consensus       244 ~~~~~  248 (309)
                      ++++.
T Consensus       639 ekI~R  643 (906)
T KOG2004|consen  639 EKICR  643 (906)
T ss_pred             HHHHH
Confidence            55543

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.60  E-value=4.9e-14  Score=129.66  Aligned_cols=209  Identities=18%  Similarity=0.175  Sum_probs=143.3

Q ss_pred             CCCCccccccChHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      +...++.++|+...++.+.+.+....  ..+++|+|++||||+++|+.+.....  .....++.++|..... ..+...+
T Consensus       191 ~~~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~--r~~~pfv~i~c~~~~~-~~~~~~l  267 (534)
T TIGR01817       191 RSGKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSP--RAKRPFVKVNCAALSE-TLLESEL  267 (534)
T ss_pred             ccCccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCC--CCCCCeEEeecCCCCH-HHHHHHH
Confidence            34578899999999888877765432  23499999999999999999988752  2345788889876432 2222222


Q ss_pred             HHhhhcc-------ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC------
Q 021660          126 QDFASTQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV------  181 (309)
Q Consensus       126 ~~~~~~~-------~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~------  181 (309)
                      .......       ....-..+++++|+|||++.++...+..|+.+++...           .++++|++++..      
T Consensus       268 fg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~l~~~~~  347 (534)
T TIGR01817       268 FGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEAVA  347 (534)
T ss_pred             cCCCCCccCCCCcCCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCCHHHHHH
Confidence            1100000       0001112357899999999999999999999998632           235777776543      


Q ss_pred             -cccchhhhcce--eEEEecCCC--hHHHHHHHHHHHHH----cC--CCCCHHHHHHHHHH-hcCCHHHHHHHHHHHHhh
Q 021660          182 -NKIIPALQSRC--TRFRFAPLE--PVHVTERLKHVIEA----EG--LDVTEGGLAALVRL-CNGDMRKALNILQSTHMA  249 (309)
Q Consensus       182 -~~l~~~l~~r~--~~i~~~~~~--~~~~~~~l~~~~~~----~~--~~~~~~~l~~i~~~-~~g~~r~~~~~l~~~~~~  249 (309)
                       ....+.|..|+  ..+.++|+.  .+++..++...+.+    .+  ..+++++++.+..+ ++||+|.+.+.++.++..
T Consensus       348 ~~~f~~~L~~rl~~~~i~lPpLreR~eDi~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~~~WPGNvrEL~~v~~~a~~~  427 (534)
T TIGR01817       348 KGEFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPLTITPSAIRVLMSCKWPGNVRELENCLERTATL  427 (534)
T ss_pred             cCCCCHHHHHHhcCCeeeCCCcccccccHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHHHHh
Confidence             13345566666  457777776  46676666655543    22  56899999999998 499999999999988765


Q ss_pred             c--CCcCHHHHH
Q 021660          250 S--QQITEEAVY  259 (309)
Q Consensus       250 ~--~~i~~~~v~  259 (309)
                      +  ..|+.+++.
T Consensus       428 ~~~~~I~~~~l~  439 (534)
T TIGR01817       428 SRSGTITRSDFS  439 (534)
T ss_pred             CCCCcccHHHCc
Confidence            4  457777764

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.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.59  E-value=8.6e-14  Score=127.10  Aligned_cols=206  Identities=17%  Similarity=0.237  Sum_probs=138.6

Q ss_pred             CCCccccccChHHHHHHHHHHhc------------CCC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           49 PQSLADVAAHRDIVDTIDRLTSE------------NRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~~------------~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ...+.++.|....+..++..+..            .+. ..+||+||||||||+++++++.++     +..++.+.....
T Consensus       238 ~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~-----~~~fi~v~~~~l  312 (494)
T COG0464         238 DVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALES-----RSRFISVKGSEL  312 (494)
T ss_pred             CcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhC-----CCeEEEeeCHHH
Confidence            34677888877777766666531            122 249999999999999999999987     777777776632


Q ss_pred             cc--hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--CCceEEEEecC
Q 021660          116 RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNTRFALICNQ  180 (309)
Q Consensus       116 ~~--~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~~--~~~~~i~~~~~  180 (309)
                      .+  ..+....+........     +..+++|+|||+|.+..           ...+.|+..++...  .++.+|.+||.
T Consensus       313 ~sk~vGesek~ir~~F~~A~-----~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~  387 (494)
T COG0464         313 LSKWVGESEKNIRELFEKAR-----KLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNR  387 (494)
T ss_pred             hccccchHHHHHHHHHHHHH-----cCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCC
Confidence            22  2233333333332211     12678999999998852           23556666665332  34556778899


Q ss_pred             Ccccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHhcCCHHH-HHHHHHHHHhhc-----
Q 021660          181 VNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLD-VTEGGLAALVRLCNGDMRK-ALNILQSTHMAS-----  250 (309)
Q Consensus       181 ~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~l~~i~~~~~g~~r~-~~~~l~~~~~~~-----  250 (309)
                      ++.+++++.+  |+ ..+.+++|+..+..++++..+...... .++..++.+++.+.|..+. +..+++.+...+     
T Consensus       388 p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ea~~~~~~~~~  467 (494)
T COG0464         388 PDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALREAR  467 (494)
T ss_pred             ccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999  88 889999999999999999998866654 4567778888877764333 333334444322     


Q ss_pred             -CCcCHHHHHhhhCC
Q 021660          251 -QQITEEAVYLCTGN  264 (309)
Q Consensus       251 -~~i~~~~v~~~~~~  264 (309)
                       ..++.+++..+...
T Consensus       468 ~~~~~~~~~~~a~~~  482 (494)
T COG0464         468 RREVTLDDFLDALKK  482 (494)
T ss_pred             cCCccHHHHHHHHHh
Confidence             24555555555543

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=99.59  E-value=1.7e-14  Score=135.72  Aligned_cols=203  Identities=25%  Similarity=0.412  Sum_probs=160.6

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcC------------CC--C--eEEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN------------RL--P--HLLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~------------~~--~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      ...|.++|+|.+..++.|.......+.+|++..            ..  .  .++++||||+|||+.+..+++.+     
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            478999999999999999988888888887644            11  1  15999999999999999999998     


Q ss_pred             cccEEEEecCCCcchHHHHHHHHHhhhccccccC---------CCCccEEEEEeCCCCCCHHH---HHHHHHHHHHhcCC
Q 021660          104 HNMILELNASDDRGIDVVRQQIQDFASTQSFSFG---------VKASVKLVLLDEADAMTKDA---QFALRRVIEKYTKN  171 (309)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~lliiDe~~~l~~~~---~~~l~~~l~~~~~~  171 (309)
                      +..+++.+..+.++...+...+..+.........         ......||++||+|.+..+.   +..+..++.  ...
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            7899999999887776777666665444333111         11124499999999998744   344455555  335


Q ss_pred             ceEEEEecCCcccch-hhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Q 021660          172 TRFALICNQVNKIIP-ALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       172 ~~~i~~~~~~~~l~~-~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      ..+|+++|+...... .+.+.|..++|..|+...+...+..++..+++.++++.++.+.+.++||+|.+++.|+.....
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            678888887765444 555556899999999999999999999999999999999999999999999999999998553

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

Probab=99.59  E-value=5.2e-14  Score=132.14  Aligned_cols=175  Identities=18%  Similarity=0.245  Sum_probs=118.9

Q ss_pred             cccccChHHHHHHHHHHhcC--------C-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHH
Q 021660           53 ADVAAHRDIVDTIDRLTSEN--------R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~--------~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (309)
                      ..++||+++++.+...+...        + ..+++|+||||||||.+|+.+++.+     +..++.+++........+..
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l-----~~~~i~id~se~~~~~~~~~  532 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTVSR  532 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCCcEEeechhhcccccHHH
Confidence            45899999999998887631        2 2349999999999999999999998     34556666543221111111


Q ss_pred             HHHHhhhccc----ccc---CCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC----
Q 021660          124 QIQDFASTQS----FSF---GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV----  181 (309)
Q Consensus       124 ~~~~~~~~~~----~~~---~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~----  181 (309)
                      .+..-.....    ..+   -.....+||+|||++++.++.++.|++++++-.           .++.+|++||..    
T Consensus       533 LiG~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~~~  612 (758)
T PRK11034        533 LIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRET  612 (758)
T ss_pred             HcCCCCCcccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHHHH
Confidence            1110000000    000   001146899999999999999999999998521           355688888722    


Q ss_pred             ---------------------cccchhhhcce-eEEEecCCChHHHHHHHHHHHH-------HcCC--CCCHHHHHHHHH
Q 021660          182 ---------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIE-------AEGL--DVTEGGLAALVR  230 (309)
Q Consensus       182 ---------------------~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~-------~~~~--~~~~~~l~~i~~  230 (309)
                                           ..+.|.+..|+ .++.|.|++.+++.+++...+.       ..|+  .+++++++.|++
T Consensus       613 ~~~~~g~~~~~~~~~~~~~~~~~f~pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~l~~~~i~l~~~~~~~~~l~~  692 (758)
T PRK11034        613 ERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKGVSLEVSQEARDWLAE  692 (758)
T ss_pred             hhcccCcccchhhHHHHHHHHHhcCHHHHccCCEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHCCCCceECHHHHHHHHH
Confidence                                 12347788888 6899999999999998876554       2344  568999999997


Q ss_pred             Hh
Q 021660          231 LC  232 (309)
Q Consensus       231 ~~  232 (309)
                      ..
T Consensus       693 ~~  694 (758)
T PRK11034        693 KG  694 (758)
T ss_pred             hC
Confidence            65

>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=99.58  E-value=8.4e-15  Score=120.76  Aligned_cols=184  Identities=18%  Similarity=0.291  Sum_probs=107.7

Q ss_pred             cccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHH----------
Q 021660           55 VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ----------  124 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------  124 (309)
                      |+|++..++.|.+++..+....++|+||.|+|||++++.+.+.+...+....++  ..............          
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~--~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYI--DFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHH--CCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEE--ecccchhhhHHHHHHHHHHHHHHH
Confidence            589999999999999987777799999999999999999999984433322222  11111111111111          


Q ss_pred             ---HHHhhhccc----------cc----------cCCCCccEEEEEeCCCCCC------HHHHHHHHHHHHH--hcCCce
Q 021660          125 ---IQDFASTQS----------FS----------FGVKASVKLVLLDEADAMT------KDAQFALRRVIEK--YTKNTR  173 (309)
Q Consensus       125 ---~~~~~~~~~----------~~----------~~~~~~~~lliiDe~~~l~------~~~~~~l~~~l~~--~~~~~~  173 (309)
                         +........          ..          +.....+.+|+|||++.+.      ......|..+++.  ...+..
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               110000000          00          0011134899999999988      3445667777776  233555


Q ss_pred             EEEEecCCcc------cchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHhcCCHHHHHH
Q 021660          174 FALICNQVNK------IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV--TEGGLAALVRLCNGDMRKALN  241 (309)
Q Consensus       174 ~i~~~~~~~~------l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~--~~~~l~~i~~~~~g~~r~~~~  241 (309)
                      +|++++....      -...+..|+..+.+.+++.++..+++...+... ..+  +++.++.+...++|+|+.+..
T Consensus       159 ~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  159 IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHH
T ss_pred             EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            6666654321      122356677669999999999999999988776 655  999999999999999998753

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

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.58  E-value=1e-13  Score=132.53  Aligned_cols=185  Identities=27%  Similarity=0.383  Sum_probs=131.7

Q ss_pred             cccccChHHHHHHHHHHhcC-------CCC--eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHH-
Q 021660           53 ADVAAHRDIVDTIDRLTSEN-------RLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR-  122 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~-------~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  122 (309)
                      ..++||+++++.+.+.+...       ..|  .++|+||+|+|||.+++.++..+....  ..++.++.........+. 
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            57899999999888887531       112  389999999999999999999985432  244444433211111100 


Q ss_pred             --------------HHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEE
Q 021660          123 --------------QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALI  177 (309)
Q Consensus       123 --------------~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~  177 (309)
                                    ..+.....        +..++||+|||++++.++..+.|++++++-.           .++.+|+|
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 LKGSPPGYVGYGEGGVLTEAVR--------RKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLT  715 (852)
T ss_pred             ccCCCCCcccccccchHHHHHH--------hCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEe
Confidence                          01111111        1156899999999999999999999999643           56788888


Q ss_pred             ecCCc-----------------------------ccchhhhcceeEEEecCCChHHHHHHHHHHHHH-------c-C--C
Q 021660          178 CNQVN-----------------------------KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA-------E-G--L  218 (309)
Q Consensus       178 ~~~~~-----------------------------~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~-------~-~--~  218 (309)
                      ||...                             ...+.+.+|+.++.|.|++.+++.+++...+.+       . +  +
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                             134677889999999999999999998776643       1 4  3


Q ss_pred             CCCHHHHHHHHHHhcC---CHHHHHHHHHHHH
Q 021660          219 DVTEGGLAALVRLCNG---DMRKALNILQSTH  247 (309)
Q Consensus       219 ~~~~~~l~~i~~~~~g---~~r~~~~~l~~~~  247 (309)
                      .+++++++.|++.+.+   ..|.+.+.++...
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            6799999999999876   6888888887643

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.58  E-value=2.5e-13  Score=116.32  Aligned_cols=214  Identities=14%  Similarity=0.190  Sum_probs=132.5

Q ss_pred             ccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc-------Ccc----cc-----------c---
Q 021660           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG-------AQY----HN-----------M---  106 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~-------~~~----~~-----------~---  106 (309)
                      |..++|+++++..+.-.+-.....+++|.|++|+||||+++.++..+..       ...    ..           .   
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            6789999999998877666666677999999999999999999988721       000    00           0   


Q ss_pred             ----------EEEEe--cC--CCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc---
Q 021660          107 ----------ILELN--AS--DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---  169 (309)
Q Consensus       107 ----------~~~~~--~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~---  169 (309)
                                +..+-  .+  ...+.-.+...+..-........-.++++++|+|||++.+++..+..|+++|++..   
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                      00000  00  00111122222111111001111122356899999999999999999999998531   


Q ss_pred             --------CCceEEEEe--cCCc-ccchhhhcce-eEEEecCCCh-HHHHHHHHHHHH----------------------
Q 021660          170 --------KNTRFALIC--NQVN-KIIPALQSRC-TRFRFAPLEP-VHVTERLKHVIE----------------------  214 (309)
Q Consensus       170 --------~~~~~i~~~--~~~~-~l~~~l~~r~-~~i~~~~~~~-~~~~~~l~~~~~----------------------  214 (309)
                              ...++++++  |..+ .+.+++..|| ..+.+..+.. ++..+++++...                      
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                    112333333  4333 5788999999 5677777765 566666655211                      


Q ss_pred             -------HcCCCCCHHHHHHHHHHh---cC-CHHHHHHHHHHHHhhc-----CCcCHHHHHhhhCCC
Q 021660          215 -------AEGLDVTEGGLAALVRLC---NG-DMRKALNILQSTHMAS-----QQITEEAVYLCTGNP  265 (309)
Q Consensus       215 -------~~~~~~~~~~l~~i~~~~---~g-~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~~~  265 (309)
                             -..+.++++.++++++.+   +. .+|..+.+++.+...+     ..++.++|..++...
T Consensus       243 I~~a~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~v  309 (337)
T TIGR02030       243 IVNAQNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVLA  309 (337)
T ss_pred             HHHHHHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence                   124568888888887754   32 4788877775554332     579999998777543

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.57  E-value=1.3e-13  Score=131.16  Aligned_cols=178  Identities=20%  Similarity=0.287  Sum_probs=123.4

Q ss_pred             CCCccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           49 PQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ..+++++.|.+..++.+.+++..             ..+.+++|+||||||||++++++++++     ...++.+++...
T Consensus       174 ~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~-----~~~~i~i~~~~i  248 (733)
T TIGR01243       174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA-----GAYFISINGPEI  248 (733)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh-----CCeEEEEecHHH
Confidence            45789999999999998887642             122349999999999999999999998     455666665421


Q ss_pred             ------cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHhcC--CceEEE
Q 021660          116 ------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYTK--NTRFAL  176 (309)
Q Consensus       116 ------~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~~~--~~~~i~  176 (309)
                            .....+...+.....         ..+.+|+|||+|.+..           ...+.|+.+++....  ...+|.
T Consensus       249 ~~~~~g~~~~~l~~lf~~a~~---------~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~  319 (733)
T TIGR01243       249 MSKYYGESEERLREIFKEAEE---------NAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIG  319 (733)
T ss_pred             hcccccHHHHHHHHHHHHHHh---------cCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEe
Confidence                  111222333322221         1467999999988753           235667888876543  334555


Q ss_pred             EecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhcCCHHHHHHH
Q 021660          177 ICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRKALNI  242 (309)
Q Consensus       177 ~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~l~~i~~~~~g~~r~~~~~  242 (309)
                      ++|....+++++.+  || ..+.+..|+.++..++++....  +..+. +..++.+++.+.|....-+..
T Consensus       320 atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~--~~~l~~d~~l~~la~~t~G~~gadl~~  387 (733)
T TIGR01243       320 ATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTR--NMPLAEDVDLDKLAEVTHGFVGADLAA  387 (733)
T ss_pred             ecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhc--CCCCccccCHHHHHHhCCCCCHHHHHH
Confidence            77888889998876  66 7789999999999999986554  33342 445788999988865544443

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.57  E-value=2.1e-13  Score=116.69  Aligned_cols=216  Identities=13%  Similarity=0.196  Sum_probs=136.6

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCccc--ccEE--------------------
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH--NMIL--------------------  108 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~--~~~~--------------------  108 (309)
                      .|.+++||++.+..|...+.......++|.|++|+|||++++.+++.+......  ..|.                    
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~~~p~~p~~~~~~~~~~~~~~   94 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFNSHPSDPELMSDEVREAIQNG   94 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCCCCCCChhhhchhhhhhhccc
Confidence            689999999999999999888888889999999999999999998887432100  0000                    


Q ss_pred             -------------EEec--CCC--cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc--
Q 021660          109 -------------ELNA--SDD--RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT--  169 (309)
Q Consensus       109 -------------~~~~--~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~--  169 (309)
                                   .+..  +..  .+.-.+...+..-........-.+++.++|++||++.+++..+..|++++++..  
T Consensus        95 ~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~~~Q~~LLeam~e~~~~  174 (350)
T CHL00081         95 ETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDDHLVDILLDSAASGWNT  174 (350)
T ss_pred             ccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCHHHHHHHHHHHHhCCeE
Confidence                         0000  000  000001111111000000001123467899999999999999999999998521  


Q ss_pred             ---------CCceEEEEe--cCCc-ccchhhhcce-eEEEecCCC-hHHHHHHHHHHHH---------------------
Q 021660          170 ---------KNTRFALIC--NQVN-KIIPALQSRC-TRFRFAPLE-PVHVTERLKHVIE---------------------  214 (309)
Q Consensus       170 ---------~~~~~i~~~--~~~~-~l~~~l~~r~-~~i~~~~~~-~~~~~~~l~~~~~---------------------  214 (309)
                               ...++++++  |..+ .+.+++..|+ ..+.+..++ .++..+++++...                     
T Consensus       175 ier~G~s~~~p~rfiviaT~np~eg~l~~~LldRf~l~i~l~~~~~~~~e~~il~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (350)
T CHL00081        175 VEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPELRVKIVEQRTSFDKNPQEFREKYEESQEELRS  254 (350)
T ss_pred             EeeCCeeeecCCCEEEEeccCcccCCCCHHHHHHhCceeecCCCCChHHHHHHHHhhhccccChhhhhhhhccccccCHH
Confidence                     122344443  4333 5788899998 667777776 3556566655321                     


Q ss_pred             --------HcCCCCCHHHHHHHHHHhc----CCHHHHHHHHHHHHhhc-----CCcCHHHHHhhhCCCC
Q 021660          215 --------AEGLDVTEGGLAALVRLCN----GDMRKALNILQSTHMAS-----QQITEEAVYLCTGNPL  266 (309)
Q Consensus       215 --------~~~~~~~~~~l~~i~~~~~----g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~~~~  266 (309)
                              -..+.++++.++++++.+.    -.+|..+.+++.+...+     ..++.++|..+.....
T Consensus       255 ~I~~ar~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~vL  323 (350)
T CHL00081        255 KIVAAQNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITLCL  323 (350)
T ss_pred             HHHHHHHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence                    1246788888888888752    25888888776554332     5799999988775443

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=99.57  E-value=1.4e-12  Score=103.79  Aligned_cols=175  Identities=16%  Similarity=0.184  Sum_probs=134.3

Q ss_pred             HHHHHHHHhcCCCCe-EEEECCCC-CcHHHHHHHHHHHHccCc----ccccEEEEecC-------CCcchHHHHHHHHHh
Q 021660           62 VDTIDRLTSENRLPH-LLLYGPPG-TGKTSTILAVARKLYGAQ----YHNMILELNAS-------DDRGIDVVRQQIQDF  128 (309)
Q Consensus        62 ~~~l~~~~~~~~~~~-~ll~G~~G-~GKT~l~~~l~~~~~~~~----~~~~~~~~~~~-------~~~~~~~~~~~~~~~  128 (309)
                      +..+.+.++.++..| ++|.|..+ +||..++..+++.+.+.+    ...++..+...       ...+.+.+++....+
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            456788888888877 99999998 999999999999886642    34455555433       235677777766655


Q ss_pred             hhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCChHHHHHH
Q 021660          129 ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTER  208 (309)
Q Consensus       129 ~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~  208 (309)
                      ...+..     .+.+|++|+++|.+..++.++|++.+|+||+++.+|++++....++++++|||+.+.|..+......++
T Consensus        82 ~~~p~~-----g~~KViII~~ae~mt~~AANALLKtLEEPP~~t~fILit~~~~~LLpTIrSRCq~i~~~~p~~~~~~e~  156 (263)
T PRK06581         82 SKTSAI-----SGYKVAIIYSAELMNLNAANSCLKILEDAPKNSYIFLITSRAASIISTIRSRCFKINVRSSILHAYNEL  156 (263)
T ss_pred             hhCccc-----CCcEEEEEechHHhCHHHHHHHHHhhcCCCCCeEEEEEeCChhhCchhHhhceEEEeCCCCCHHHHHHH
Confidence            443222     268999999999999999999999999999999999999999999999999999999999999888877


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          209 LKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       209 l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      ....+   .-..+...++.|.+...-+....+...+
T Consensus       157 ~~~~~---~p~~~~~~l~~i~~~~~~d~~~w~~~~~  189 (263)
T PRK06581        157 YSQFI---QPIADNKTLDFINRFTTKDRELWLDFID  189 (263)
T ss_pred             HHHhc---ccccccHHHHHHHHHhhhhHHHHHHHHH
Confidence            76654   2234556677777776555444444333

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.56  E-value=1.9e-13  Score=117.51  Aligned_cols=200  Identities=16%  Similarity=0.154  Sum_probs=132.2

Q ss_pred             cccChHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhc-
Q 021660           55 VAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST-  131 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  131 (309)
                      ++|+...++.+.+.+..-.  ..+++|+|++||||+++|+.+......  ....++.++|..... ..+...+...... 
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~r--~~~pfv~vnc~~~~~-~~l~~~lfG~~~g~   77 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKR--WQGPLVKLNCAALSE-NLLDSELFGHEAGA   77 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcCc--cCCCeEEEeCCCCCh-HHHHHHHhcccccc
Confidence            4677766666655554322  233999999999999999999876422  345788899886432 2222222111000 


Q ss_pred             ------cccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cccchh
Q 021660          132 ------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKIIPA  187 (309)
Q Consensus       132 ------~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~-------~~l~~~  187 (309)
                            ....+-..++.+.|+|||++.++...+..|+.+++...           .++++|++++..       ....+.
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                  00011123367899999999999999999999998632           345777777543       234466


Q ss_pred             hhcce--eEEEecCCC--hHHHHHHHHHHHH----HcC----CCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc--CC
Q 021660          188 LQSRC--TRFRFAPLE--PVHVTERLKHVIE----AEG----LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQ  252 (309)
Q Consensus       188 l~~r~--~~i~~~~~~--~~~~~~~l~~~~~----~~~----~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~--~~  252 (309)
                      |..|+  ..|.++|+.  .+++..++...+.    +.+    ..+++++++.+..+. +||+|.+.+.++.++...  +.
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            77777  457777776  4566666555443    333    358999999999986 899999999999888754  33


Q ss_pred             cCHHH
Q 021660          253 ITEEA  257 (309)
Q Consensus       253 i~~~~  257 (309)
                      ++.++
T Consensus       238 ~~~~~  242 (329)
T TIGR02974       238 APIDE  242 (329)
T ss_pred             cchhh
Confidence            44443

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

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

Probab=99.56  E-value=1.3e-13  Score=130.93  Aligned_cols=181  Identities=18%  Similarity=0.261  Sum_probs=124.6

Q ss_pred             ccccccChHHHHHHHHHHhcC--------CC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHH
Q 021660           52 LADVAAHRDIVDTIDRLTSEN--------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR  122 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~--------~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (309)
                      -..++||+++++.+.+.+...        ++ .+++|+||+|||||++|+.+++.+     ...++.++.+.......+.
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l-----~~~~~~~d~se~~~~~~~~  527 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL-----GVHLERFDMSEYMEKHTVS  527 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh-----cCCeEEEeCchhhhcccHH
Confidence            456899999999988887632        12 238999999999999999999998     3344555543311111111


Q ss_pred             H---------------HHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEE
Q 021660          123 Q---------------QIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFAL  176 (309)
Q Consensus       123 ~---------------~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~  176 (309)
                      .               .+.....        ....+||+|||++++.++.++.|++++++-           -.++.+|+
T Consensus       528 ~lig~~~gyvg~~~~~~l~~~~~--------~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~  599 (731)
T TIGR02639       528 RLIGAPPGYVGFEQGGLLTEAVR--------KHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIM  599 (731)
T ss_pred             HHhcCCCCCcccchhhHHHHHHH--------hCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEE
Confidence            1               1111111        114689999999999999999999999853           13456777


Q ss_pred             EecCCc-------------------------ccchhhhcce-eEEEecCCChHHHHHHHHHHHHH-------cC--CCCC
Q 021660          177 ICNQVN-------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------EG--LDVT  221 (309)
Q Consensus       177 ~~~~~~-------------------------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~~~~  221 (309)
                      ++|...                         ...+.+..|+ .++.|.|++.+++.+++...+.+       .|  +.++
T Consensus       600 Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~~~~~~l~i~  679 (731)
T TIGR02639       600 TSNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFVDELSKQLNEKNIKLELT  679 (731)
T ss_pred             CCCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEeC
Confidence            775421                         1346777888 78999999999999998887753       22  5678


Q ss_pred             HHHHHHHHHHh---cCCHHHHHHHHHH
Q 021660          222 EGGLAALVRLC---NGDMRKALNILQS  245 (309)
Q Consensus       222 ~~~l~~i~~~~---~g~~r~~~~~l~~  245 (309)
                      +++++.|++..   .-..|.+...++.
T Consensus       680 ~~a~~~La~~~~~~~~GaR~l~r~i~~  706 (731)
T TIGR02639       680 DDAKKYLAEKGYDEEFGARPLARVIQE  706 (731)
T ss_pred             HHHHHHHHHhCCCcccCchHHHHHHHH
Confidence            99999999864   1235555555544

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.54  E-value=1.3e-12  Score=115.14  Aligned_cols=204  Identities=13%  Similarity=0.113  Sum_probs=122.9

Q ss_pred             ccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe--cC-CCcchHHHHHHH--H
Q 021660           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN--AS-DDRGIDVVRQQI--Q  126 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~--~  126 (309)
                      -..++|++++++.+...+..+  .+++|+||||+|||++|+.+++.....+ ...+....  .. +..+...+....  .
T Consensus        19 ~~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~~~~~-~F~~~~~~fttp~DLfG~l~i~~~~~~g   95 (498)
T PRK13531         19 EKGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQNAR-AFEYLMTRFSTPEEVFGPLSIQALKDEG   95 (498)
T ss_pred             hhhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHhcccC-cceeeeeeecCcHHhcCcHHHhhhhhcC
Confidence            356899999999999888776  5699999999999999999999874322 11222111  11 111111111110  0


Q ss_pred             HhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc---------CCceE-EEEecCCcc---cchhhhcce-
Q 021660          127 DFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---------KNTRF-ALICNQVNK---IIPALQSRC-  192 (309)
Q Consensus       127 ~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~---------~~~~~-i~~~~~~~~---l~~~l~~r~-  192 (309)
                      .+.......+   ....++++||+..+++..++.|+.+|++..         -..++ ++++|..+.   ..+++..|| 
T Consensus        96 ~f~r~~~G~L---~~A~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE~g~~leAL~DRFl  172 (498)
T PRK13531         96 RYQRLTSGYL---PEAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPEADSSLEALYDRML  172 (498)
T ss_pred             chhhhcCCcc---ccccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcccCCchHHhHhhEE
Confidence            1100000000   023499999999999999999999997532         12234 444453332   335888998 


Q ss_pred             eEEEecCCCh-HHHHHHHHHHHH-----------------------HcCCCCCHHHHHHHHHHhc----------CCHHH
Q 021660          193 TRFRFAPLEP-VHVTERLKHVIE-----------------------AEGLDVTEGGLAALVRLCN----------GDMRK  238 (309)
Q Consensus       193 ~~i~~~~~~~-~~~~~~l~~~~~-----------------------~~~~~~~~~~l~~i~~~~~----------g~~r~  238 (309)
                      ..+.+++++. ++..+++.....                       -..+.+++...++|.+...          -++|.
T Consensus       173 iri~vp~l~~~~~e~~lL~~~~~~~~~~~~~~~vis~eel~~lq~~v~~V~v~d~v~eyI~~L~~~lr~~r~~~~~SpR~  252 (498)
T PRK13531        173 IRLWLDKVQDKANFRSMLTSQQDENDNPVPASLQITDEEYQQWQKEIGKITLPDHVFELIFQLRQQLDALPNAPYVSDRR  252 (498)
T ss_pred             EEEECCCCCchHHHHHHHHcccccccCCCcccCCCCHHHHHHHHHHhcceeCCHHHHHHHHHHHHHHhcCCCCCCcCcHH
Confidence            5678888864 555666654221                       0234567777777766532          35677


Q ss_pred             HHHHHHHHHhh---c--CCcCHHHHHhhh
Q 021660          239 ALNILQSTHMA---S--QQITEEAVYLCT  262 (309)
Q Consensus       239 ~~~~l~~~~~~---~--~~i~~~~v~~~~  262 (309)
                      .+.++..+...   .  ..++++|+. ++
T Consensus       253 ~~~l~~~akA~A~l~GR~~V~p~Dv~-ll  280 (498)
T PRK13531        253 WKKAIRLLQASAFFSGRDAIAPIDLI-LL  280 (498)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCHHHHH-Hh
Confidence            77666444332   2  568888887 44

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.53  E-value=2.6e-12  Score=112.82  Aligned_cols=206  Identities=17%  Similarity=0.183  Sum_probs=143.9

Q ss_pred             CccccccChHHHHHHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      ...++||+...++.+.+.+..-...  +++|+|++||||-.+|+++.....  ...-.|+.+||... ..+.+.+.+...
T Consensus       139 ~~~~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElvAr~IH~~S~--R~~~PFVavNcaAi-p~~l~ESELFGh  215 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQASP--RAKGPFIAVNCAAI-PENLLESELFGH  215 (464)
T ss_pred             ccCCceecCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHhhCc--ccCCCceeeecccC-CHHHHHHHhhcc
Confidence            5678999999999998888754333  399999999999999999987742  22457888898863 333444433322


Q ss_pred             hhcccc-------ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEEEecCC-------cc
Q 021660          129 ASTQSF-------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQV-------NK  183 (309)
Q Consensus       129 ~~~~~~-------~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~~~-------~~  183 (309)
                      .+....       ..-..++++.|+||||..++-+.|..|+.++++.           +.+++||.+|+..       ..
T Consensus       216 ekGAFTGA~~~r~G~fE~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdvRiIaaT~~dL~~~v~~G~  295 (464)
T COG2204         216 EKGAFTGAITRRIGRFEQANGGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDVRIIAATNRDLEEEVAAGR  295 (464)
T ss_pred             cccCcCCcccccCcceeEcCCceEEeeccccCCHHHHHHHHHHHHcCeeEecCCCcccceeeEEEeecCcCHHHHHHcCC
Confidence            211000       0112346789999999999999999999999963           2356788877643       23


Q ss_pred             cchhhhcceeEEEecCCCh----HHHHH----HHHHHHHHcCC---CCCHHHHHHHHHH-hcCCHHHHHHHHHHHHhhc-
Q 021660          184 IIPALQSRCTRFRFAPLEP----VHVTE----RLKHVIEAEGL---DVTEGGLAALVRL-CNGDMRKALNILQSTHMAS-  250 (309)
Q Consensus       184 l~~~l~~r~~~i~~~~~~~----~~~~~----~l~~~~~~~~~---~~~~~~l~~i~~~-~~g~~r~~~~~l~~~~~~~-  250 (309)
                      .-+.|.-|..++.+.-|+.    +++..    ++++.+++.|.   .+++++++.+..+ ++||+|.+.|.++.++... 
T Consensus       296 FReDLyyRLnV~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNVREL~N~ver~~il~~  375 (464)
T COG2204         296 FREDLYYRLNVVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEALAALLAYDWPGNVRELENVVERAVILSE  375 (464)
T ss_pred             cHHHHHhhhccceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCChHHHHHHHHHHHHHhcCC
Confidence            4567777876666555553    44443    45555555544   6899999999987 4899999999999888765 


Q ss_pred             -CCcCHHHHH
Q 021660          251 -QQITEEAVY  259 (309)
Q Consensus       251 -~~i~~~~v~  259 (309)
                       ..|+.+++.
T Consensus       376 ~~~i~~~~l~  385 (464)
T COG2204         376 GPEIEVEDLP  385 (464)
T ss_pred             ccccchhhcc
Confidence             346666644

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.53  E-value=5.8e-13  Score=128.24  Aligned_cols=186  Identities=19%  Similarity=0.272  Sum_probs=131.2

Q ss_pred             ccccccChHHHHHHHHHHhcCC--------C-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHH
Q 021660           52 LADVAAHRDIVDTIDRLTSENR--------L-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR  122 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~--------~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (309)
                      ...++||+.+++.+...+...+        + ..++|+||+|||||++|+.+++.+.+.+.  .++.++++.........
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~--~~i~~d~s~~~~~~~~~  641 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDED--AMVRIDMSEYMEKHSVA  641 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCC--cEEEEechhhcccchHH
Confidence            3568999999999988886421        2 23999999999999999999999865433  44455544321111111


Q ss_pred             HH---------------HHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEE
Q 021660          123 QQ---------------IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFAL  176 (309)
Q Consensus       123 ~~---------------~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~  176 (309)
                      ..               +.....        .....+|+|||++.+.++.++.|++++++-.           .++.||+
T Consensus       642 ~l~g~~~g~~g~~~~g~l~~~v~--------~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~  713 (852)
T TIGR03346       642 RLIGAPPGYVGYEEGGQLTEAVR--------RKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIM  713 (852)
T ss_pred             HhcCCCCCccCcccccHHHHHHH--------cCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEE
Confidence            11               111110        1145799999999999999999999998631           3566888


Q ss_pred             EecCCc-------------------------ccchhhhcce-eEEEecCCChHHHHHHHHHHHH-------HcC--CCCC
Q 021660          177 ICNQVN-------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIE-------AEG--LDVT  221 (309)
Q Consensus       177 ~~~~~~-------------------------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~-------~~~--~~~~  221 (309)
                      +||...                         ...+.|..|+ .++.|.|++.+++.+++...+.       ..+  +.++
T Consensus       714 TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~~~~~~l~i~  793 (852)
T TIGR03346       714 TSNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLNRIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERKITLELS  793 (852)
T ss_pred             eCCcchHhHhhhcccccHHHHHHHHHHHHHhhcCHHHhcCcCeEEecCCcCHHHHHHHHHHHHHHHHHHHHHCCCeecCC
Confidence            886521                         1234566787 7899999999999888766554       222  5689


Q ss_pred             HHHHHHHHHHh---cCCHHHHHHHHHHHH
Q 021660          222 EGGLAALVRLC---NGDMRKALNILQSTH  247 (309)
Q Consensus       222 ~~~l~~i~~~~---~g~~r~~~~~l~~~~  247 (309)
                      +++++.|+++.   .++.|.+.+.++...
T Consensus       794 ~~a~~~L~~~~~~~~~gaR~L~~~i~~~i  822 (852)
T TIGR03346       794 DAALDFLAEAGYDPVYGARPLKRAIQREI  822 (852)
T ss_pred             HHHHHHHHHhCCCCCCCchhHHHHHHHHH
Confidence            99999999983   588998888887665

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.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.53  E-value=2.6e-12  Score=108.31  Aligned_cols=179  Identities=17%  Similarity=0.119  Sum_probs=114.0

Q ss_pred             cCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHH--
Q 021660           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ--  124 (309)
Q Consensus        47 ~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  124 (309)
                      +.|..-++++-..+....+..++..+  .+++|.||||||||++++.+++.+     +..++.+++........+...  
T Consensus        39 ~~p~~d~~y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l-----~~~~~rV~~~~~l~~~DliG~~~  111 (327)
T TIGR01650        39 HVPDIDPAYLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARL-----NWPCVRVNLDSHVSRIDLVGKDA  111 (327)
T ss_pred             CCCCCCCCccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHH-----CCCeEEEEecCCCChhhcCCCce
Confidence            44555556777778888788887654  459999999999999999999999     555556555443222111110  


Q ss_pred             --HHHh---hhcccccc-CCCCccEEEEEeCCCCCCHHHHHHHHHHHHH--------------hcCCceEEEEecCCc--
Q 021660          125 --IQDF---ASTQSFSF-GVKASVKLVLLDEADAMTKDAQFALRRVIEK--------------YTKNTRFALICNQVN--  182 (309)
Q Consensus       125 --~~~~---~~~~~~~~-~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~--------------~~~~~~~i~~~~~~~--  182 (309)
                        ++.-   .......+ .....+.++++||++...++.+..|..+++.              +.+..++|.+.|...  
T Consensus       112 ~~l~~g~~~~~f~~GpL~~A~~~g~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~G  191 (327)
T TIGR01650       112 IVLKDGKQITEFRDGILPWALQHNVALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLG  191 (327)
T ss_pred             eeccCCcceeEEecCcchhHHhCCeEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcC
Confidence              0000   00000000 0012567899999999999999999999883              113456677777632  


Q ss_pred             ----------ccchhhhccee-EEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 021660          183 ----------KIIPALQSRCT-RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC  232 (309)
Q Consensus       183 ----------~l~~~l~~r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~  232 (309)
                                .+.++..+||. ++.+.-|+.++-.+++........-..+++.++.+++..
T Consensus       192 d~~G~y~Gt~~l~~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~~~~~~~~~~~i~~~mV~la  252 (327)
T TIGR01650       192 DTTGLYHGTQQINQAQMDRWSIVTTLNYLEHDNEAAIVLAKAKGFDDTEGKDIINAMVRVA  252 (327)
T ss_pred             CCCcceeeeecCCHHHHhheeeEeeCCCCCHHHHHHHHHhhccCCCccchHHHHHHHHHHH
Confidence                      45789999995 568999999988888876542211011345555555543

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.

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.53  E-value=1.8e-13  Score=118.34  Aligned_cols=238  Identities=14%  Similarity=0.150  Sum_probs=150.1

Q ss_pred             hcCCCCccccccChHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC
Q 021660           46 KYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (309)
Q Consensus        46 ~~~p~~~~~~ig~~~~~~~l~~~~~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (309)
                      +.++..++++.|...+.+.+...+.-            ..+..+|+.||||+|||.+++++|.+.     ...++.+++.
T Consensus       146 ~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~-----~atff~iSas  220 (428)
T KOG0740|consen  146 TLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATES-----GATFFNISAS  220 (428)
T ss_pred             cCCcccccCCcchhhHHHHhhhhhhhcccchHhhhccccccchhheecCCCCchHHHHHHHHhhh-----cceEeeccHH
Confidence            44667889999988888877776531            122349999999999999999999998     6666666655


Q ss_pred             CCcc--hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH------------HHHHHHHHHH---hcCCceEEE
Q 021660          114 DDRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA------------QFALRRVIEK---YTKNTRFAL  176 (309)
Q Consensus       114 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~------------~~~l~~~l~~---~~~~~~~i~  176 (309)
                      ...+  .+.....+..+...     +...++.|++|||+|.+..+.            .++|+...-.   ...+..+|.
T Consensus       221 sLtsK~~Ge~eK~vralf~v-----Ar~~qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~~drvlvig  295 (428)
T KOG0740|consen  221 SLTSKYVGESEKLVRALFKV-----ARSLQPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIG  295 (428)
T ss_pred             HhhhhccChHHHHHHHHHHH-----HHhcCCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCCCCeEEEEe
Confidence            4221  11112222222221     112268899999999885321            2333333332   223556666


Q ss_pred             EecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHH-HHHHHHhhc----
Q 021660          177 ICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALN-ILQSTHMAS----  250 (309)
Q Consensus       177 ~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~-~l~~~~~~~----  250 (309)
                      +||.++.++.++++|| .++.++.|+.+....++++.++..+..+....++.+++.+.|--..-+. +|..++...    
T Consensus       296 aTN~P~e~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Tegysgsdi~~l~kea~~~p~r~~  375 (428)
T KOG0740|consen  296 ATNRPWELDEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEGYSGSDITALCKEAAMGPLREL  375 (428)
T ss_pred             cCCCchHHHHHHHHHhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCcccccHHHHHHHhhcCchhhc
Confidence            7899999999999999 6777899999999999999999988889999999999988764333222 333333211    


Q ss_pred             CCc-CHHHH-HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          251 QQI-TEEAV-YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMK  293 (309)
Q Consensus       251 ~~i-~~~~v-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  293 (309)
                      ... ..+.+ ..........+.......+...-...-+..+.+|.
T Consensus       376 ~~~~~~~~~~~~~~r~i~~~df~~a~~~i~~~~s~~~l~~~~~~~  420 (428)
T KOG0740|consen  376 GGTTDLEFIDADKIRPITYPDFKNAFKNIKPSVSLEGLEKYEKWD  420 (428)
T ss_pred             ccchhhhhcchhccCCCCcchHHHHHHhhccccCccccchhHHHh
Confidence            111 11111 12223333444445555555555555555566655

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.52  E-value=3.6e-13  Score=118.45  Aligned_cols=173  Identities=20%  Similarity=0.267  Sum_probs=109.3

Q ss_pred             ccccChHHHHHHHHHHhc-------C---------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc
Q 021660           54 DVAAHRDIVDTIDRLTSE-------N---------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~~-------~---------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (309)
                      .++||+.+++.+...+..       .         ...+++|+||||||||++|+.+++.+     +..++.++++....
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l-----~~pf~~id~~~l~~  146 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL-----DVPFAIADATTLTE  146 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh-----CCCceecchhhccc
Confidence            489999999987655421       0         12459999999999999999999987     45555555543211


Q ss_pred             ----hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHHHHh----cC-----
Q 021660          118 ----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKY----TK-----  170 (309)
Q Consensus       118 ----~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l~~~----~~-----  170 (309)
                          .......+........... .+..+.+|+|||+|.+...              .++.|+++|+..    ++     
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                1112222222222111101 1225789999999999753              678999999842    10     


Q ss_pred             ----CceEEEEecC------------------------------C--------c--------------ccchhhhcce-e
Q 021660          171 ----NTRFALICNQ------------------------------V--------N--------------KIIPALQSRC-T  193 (309)
Q Consensus       171 ----~~~~i~~~~~------------------------------~--------~--------------~l~~~l~~r~-~  193 (309)
                          ...+|.|+|-                              .        .              .+.|.+..|+ .
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                1112222211                              0        0              0245666777 7


Q ss_pred             EEEecCCChHHHHHHHHH----H-------HHHcCC--CCCHHHHHHHHHHh
Q 021660          194 RFRFAPLEPVHVTERLKH----V-------IEAEGL--DVTEGGLAALVRLC  232 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~----~-------~~~~~~--~~~~~~l~~i~~~~  232 (309)
                      ++.|.+++.+++..++..    .       +...++  .+++++++.|++.+
T Consensus       306 iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~  357 (412)
T PRK05342        306 VATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKA  357 (412)
T ss_pred             eeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhC
Confidence            789999999999998872    2       233444  57899999999974

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.52  E-value=7.9e-13  Score=120.74  Aligned_cols=207  Identities=19%  Similarity=0.205  Sum_probs=136.7

Q ss_pred             CCCccccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHH
Q 021660           49 PQSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  126 (309)
                      ...|++++|....++.+...+...  ....++|+|++||||+++|+++.....  .....++.++|..... +.+.+.+.
T Consensus       200 ~~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~s~--r~~~pfv~inca~~~~-~~~e~elF  276 (520)
T PRK10820        200 DSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSP--RGKKPFLALNCASIPD-DVVESELF  276 (520)
T ss_pred             cccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHhCC--CCCCCeEEeccccCCH-HHHHHHhc
Confidence            457899999988777666555421  223399999999999999999866542  2235678888876432 22222221


Q ss_pred             Hhhh-c------cccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc------
Q 021660          127 DFAS-T------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN------  182 (309)
Q Consensus       127 ~~~~-~------~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~------  182 (309)
                      .... .      ....+-..++.+.|+|||++.++...+..|+.++++..           .++++|++|+...      
T Consensus       277 G~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~l~~l~~~  356 (520)
T PRK10820        277 GHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQK  356 (520)
T ss_pred             CCCCCCcCCcccCCCChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCCHHHHHHc
Confidence            1110 0      00001112356789999999999999999999998631           2446777664331      


Q ss_pred             -ccchhhhcce--eEEEecCCCh--HHHHHH----HHHHHHHcCC---CCCHHHHHHHHHH-hcCCHHHHHHHHHHHHhh
Q 021660          183 -KIIPALQSRC--TRFRFAPLEP--VHVTER----LKHVIEAEGL---DVTEGGLAALVRL-CNGDMRKALNILQSTHMA  249 (309)
Q Consensus       183 -~l~~~l~~r~--~~i~~~~~~~--~~~~~~----l~~~~~~~~~---~~~~~~l~~i~~~-~~g~~r~~~~~l~~~~~~  249 (309)
                       ...+.+..|+  ..+.++|+..  +++..+    +.+.+.+.|.   .+++++++.+..+ ++||+|.+.+.+..+...
T Consensus       357 g~f~~dL~~rL~~~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~~~~ls~~a~~~L~~y~WPGNvreL~nvl~~a~~~  436 (520)
T PRK10820        357 GEFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRALTQ  436 (520)
T ss_pred             CCccHHHHhhcCeeEEeCCCcccChhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHhcCCCCCHHHHHHHHHHHHHHh
Confidence             2345577775  5567777764  345544    4444445543   6899999999998 899999999999888764


Q ss_pred             c--CCcCHHHH
Q 021660          250 S--QQITEEAV  258 (309)
Q Consensus       250 ~--~~i~~~~v  258 (309)
                      .  ..|+.+++
T Consensus       437 ~~~~~i~~~~~  447 (520)
T PRK10820        437 LEGYELRPQDI  447 (520)
T ss_pred             CCCCcccHHHc
Confidence            3  45777764

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=99.51  E-value=2.4e-12  Score=121.17  Aligned_cols=209  Identities=13%  Similarity=0.138  Sum_probs=138.5

Q ss_pred             CCccccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHH
Q 021660           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  127 (309)
                      ..|++++|....++.+.+.+...  ...+++|+|++||||+++|+.+......  ....++.++|..... +.+.+.+..
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            36889999988887766665432  2233999999999999999999887521  245788889886432 222222211


Q ss_pred             hhh-cc---ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cccc
Q 021660          128 FAS-TQ---SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKII  185 (309)
Q Consensus       128 ~~~-~~---~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~-------~~l~  185 (309)
                      ... ..   ....-..++++.|+|||++.++...+..|+.++++..           .++++|++|+..       ....
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            110 00   0001112357889999999999999999999998532           145677776543       1233


Q ss_pred             hhhhcce--eEEEecCCCh--HHHHHHHHHHHHHc------CCCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc--CC
Q 021660          186 PALQSRC--TRFRFAPLEP--VHVTERLKHVIEAE------GLDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQ  252 (309)
Q Consensus       186 ~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~~~~------~~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~--~~  252 (309)
                      +.|..|+  ..+.++|+..  +++..++...+.+.      .+.+++++++.+.++. +||+|.+.+.++.+....  ..
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            4555555  4466666664  45665555555432      2468999999999987 899999999999877644  35


Q ss_pred             cCHHHHHhh
Q 021660          253 ITEEAVYLC  261 (309)
Q Consensus       253 i~~~~v~~~  261 (309)
                      |+.+++...
T Consensus       559 i~~~~lp~~  567 (638)
T PRK11388        559 IRLSDLPEH  567 (638)
T ss_pred             ecHHHCchh
Confidence            777666433

>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=99.51  E-value=5.1e-13  Score=101.83  Aligned_cols=141  Identities=31%  Similarity=0.393  Sum_probs=92.1

Q ss_pred             ccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccc
Q 021660           56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS  135 (309)
Q Consensus        56 ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (309)
                      +|++..+..+...+......+++++||+|+|||++++.+++.+...+  ..+..+++.......................
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~--~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPG--APFLYLNASDLLEGLVVAELFGHFLVRLLFE   78 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCC--CCeEEEehhhhhhhhHHHHHhhhhhHhHHHH
Confidence            36778888888888876666799999999999999999999985333  3444444443222211111111000000000


Q ss_pred             cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh------cCCceEEEEecCCc--ccchhhhcce-eEEEec
Q 021660          136 FGVKASVKLVLLDEADAMTKDAQFALRRVIEKY------TKNTRFALICNQVN--KIIPALQSRC-TRFRFA  198 (309)
Q Consensus       136 ~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~------~~~~~~i~~~~~~~--~l~~~l~~r~-~~i~~~  198 (309)
                      ......+.+|++||++.+.......+...++..      .....+|++++...  .+.+.+.+|+ ..+.++
T Consensus        79 ~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~~~r~~~~i~~~  150 (151)
T cd00009          79 LAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIP  150 (151)
T ss_pred             hhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcChhHHhhhccEeecC
Confidence            111125789999999999777778888888875      34667788877665  6777888888 666654

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=99.50  E-value=1.4e-12  Score=112.38  Aligned_cols=196  Identities=18%  Similarity=0.170  Sum_probs=131.6

Q ss_pred             ccccccChHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhh
Q 021660           52 LADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (309)
                      +++++|....++.+.+.+..-.  ..+++|+|++||||+++|+.+....  ......++.++|..... ..+...+....
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s--~r~~~pfv~v~c~~~~~-~~~~~~lfg~~   81 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS--SRWQGPFISLNCAALNE-NLLDSELFGHE   81 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC--CccCCCeEEEeCCCCCH-HHHHHHHcccc
Confidence            5678998888887776665432  2349999999999999999997653  22345788899887432 33332221111


Q ss_pred             hcc-------ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------ccc
Q 021660          130 STQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKI  184 (309)
Q Consensus       130 ~~~-------~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~-------~~l  184 (309)
                      ...       ....-..++++.|+|||++.++...+..|+.+++...           .++++|++++..       ...
T Consensus        82 ~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~~l~~l~~~g~f  161 (326)
T PRK11608         82 AGAFTGAQKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVAEGKF  161 (326)
T ss_pred             ccccCCcccccCCchhccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCchhHHHHHHcCCc
Confidence            000       0001123357789999999999999999999998532           245777776542       234


Q ss_pred             chhhhcce--eEEEecCCCh--HHHHHHHHHHH----HHcC----CCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc
Q 021660          185 IPALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEG----LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (309)
Q Consensus       185 ~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~----~~~~----~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~  250 (309)
                      .+.|..|+  ..|.++|+..  +++..++..++    .+.+    ..+++++++.+..+. +||+|.+.+.++.++..+
T Consensus       162 ~~dL~~~l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~vl~~a~~~~  240 (326)
T PRK11608        162 RADLLDRLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYRH  240 (326)
T ss_pred             hHHHHHhcCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhc
Confidence            46677776  4577777763  45655555543    3333    258999999999874 899999999999887643

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.50  E-value=1.2e-12  Score=112.94  Aligned_cols=199  Identities=17%  Similarity=0.183  Sum_probs=134.7

Q ss_pred             CccccccChHHHHHHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      .+.++||....++.+.+.++.-.+  .+++++|++|+||+.+|+.+....... ....++.+||......-...+.+.-.
T Consensus        76 ~~~~LIG~~~~~~~~~eqik~~ap~~~~vLi~GetGtGKel~A~~iH~~s~r~-~~~PFI~~NCa~~~en~~~~eLFG~~  154 (403)
T COG1221          76 ALDDLIGESPSLQELREQIKAYAPSGLPVLIIGETGTGKELFARLIHALSARR-AEAPFIAFNCAAYSENLQEAELFGHE  154 (403)
T ss_pred             hhhhhhccCHHHHHHHHHHHhhCCCCCcEEEecCCCccHHHHHHHHHHhhhcc-cCCCEEEEEHHHhCcCHHHHHHhccc
Confidence            578899998888877777765332  239999999999999999998443222 67889999998643322222211110


Q ss_pred             h------hccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHH-----------hcCCceEEEEecCC--cccch--h
Q 021660          129 A------STQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK-----------YTKNTRFALICNQV--NKIIP--A  187 (309)
Q Consensus       129 ~------~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~-----------~~~~~~~i~~~~~~--~~l~~--~  187 (309)
                      .      ......+-..++.+.|++||++.+++..+..|+.++++           .+.++++|.+|+..  ..+.+  .
T Consensus       155 kGaftGa~~~k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT~~~l~~~~~~g~d  234 (403)
T COG1221         155 KGAFTGAQGGKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLEEAVLAGAD  234 (403)
T ss_pred             cceeecccCCcCchheecCCCEEehhhhhhCCHhHHHHHHHHHHcCceEecCCCCCcCCCceeeeccccCHHHHHHhhcc
Confidence            0      01111112345788999999999999999999999997           34567777777543  34445  6


Q ss_pred             hhcce--eEEEecCCCh--HHHH----HHHHHHHHHcCCCCC---HHHHHHHHHH-hcCCHHHHHHHHHHHHhhc
Q 021660          188 LQSRC--TRFRFAPLEP--VHVT----ERLKHVIEAEGLDVT---EGGLAALVRL-CNGDMRKALNILQSTHMAS  250 (309)
Q Consensus       188 l~~r~--~~i~~~~~~~--~~~~----~~l~~~~~~~~~~~~---~~~l~~i~~~-~~g~~r~~~~~l~~~~~~~  250 (309)
                      +.+|.  ..|+++|+..  .|+.    .+++..+++.+..+.   ++++..+..+ +.||+|.+.|.++.++..+
T Consensus       235 l~~rl~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L~~y~~pGNirELkN~Ve~~~~~~  309 (403)
T COG1221         235 LTRRLNILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLAYDWPGNIRELKNLVERAVAQA  309 (403)
T ss_pred             hhhhhcCceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHHh
Confidence            66654  6677777653  2333    345566666666543   4566666665 5899999999999988755

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.50  E-value=1.3e-12  Score=110.47  Aligned_cols=153  Identities=21%  Similarity=0.278  Sum_probs=110.7

Q ss_pred             CccccccChHHHHHHHHHHh--------cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc-----c
Q 021660           51 SLADVAAHRDIVDTIDRLTS--------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-----G  117 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~--------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~-----~  117 (309)
                      .++++|-++...+.+..+..        .....+++||||||+|||.+++.++...     +.+|..+...+.-     +
T Consensus       353 pl~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~S-----GlDYA~mTGGDVAPlG~qa  427 (630)
T KOG0742|consen  353 PLEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHS-----GLDYAIMTGGDVAPLGAQA  427 (630)
T ss_pred             CcCCeecCHHHHHHHHHHHHHhcccccccchhhheeeeCCCCCCchHHHHHHHhhc-----CCceehhcCCCccccchHH
Confidence            38889999999888887753        1233459999999999999999999986     6666666655432     2


Q ss_pred             hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCC---------CHHHHHHHHHHHH---HhcCCceEEEEecCCcccc
Q 021660          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM---------TKDAQFALRRVIE---KYTKNTRFALICNQVNKII  185 (309)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l---------~~~~~~~l~~~l~---~~~~~~~~i~~~~~~~~l~  185 (309)
                      +..+...+.-...+        ..+-+|+|||+|.+         +.+....|-.++-   +.+.+.++++.+|.+..++
T Consensus       428 VTkiH~lFDWakkS--------~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTGdqSrdivLvlAtNrpgdlD  499 (630)
T KOG0742|consen  428 VTKIHKLFDWAKKS--------RRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDLD  499 (630)
T ss_pred             HHHHHHHHHHHhhc--------ccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhcccccceEEEeccCCccchh
Confidence            23333333322211        14568999998754         3344444444444   3455677888899999999


Q ss_pred             hhhhcce-eEEEecCCChHHHHHHHHHHHHHc
Q 021660          186 PALQSRC-TRFRFAPLEPVHVTERLKHVIEAE  216 (309)
Q Consensus       186 ~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~  216 (309)
                      .++..|+ .+++|+-|..+|...+|..++.+.
T Consensus       500 sAV~DRide~veFpLPGeEERfkll~lYlnky  531 (630)
T KOG0742|consen  500 SAVNDRIDEVVEFPLPGEEERFKLLNLYLNKY  531 (630)
T ss_pred             HHHHhhhhheeecCCCChHHHHHHHHHHHHHH
Confidence            9999999 899999999999999998888764

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.50  E-value=5.4e-13  Score=123.23  Aligned_cols=188  Identities=19%  Similarity=0.289  Sum_probs=129.5

Q ss_pred             ccccccChHHHHHHHHHHhcC---------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHH
Q 021660           52 LADVAAHRDIVDTIDRLTSEN---------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR  122 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~---------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (309)
                      -..++||++++..+.+.++..         +..+++|.||+|+|||.|++++|..+++..  ..++.++.+.......+.
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e--~aliR~DMSEy~EkHsVS  567 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDE--QALIRIDMSEYMEKHSVS  567 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCC--ccceeechHHHHHHHHHH
Confidence            356899999999998888632         123499999999999999999999995432  455555555433333333


Q ss_pred             HHHHHhhhccccccC-----------CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecC
Q 021660          123 QQIQDFASTQSFSFG-----------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQ  180 (309)
Q Consensus       123 ~~~~~~~~~~~~~~~-----------~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~  180 (309)
                      ..+.    +++...+           .+..++||++||+++.-++..+.|++++++-.           .++++|+|+|-
T Consensus       568 rLIG----aPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~  643 (786)
T COG0542         568 RLIG----APPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNA  643 (786)
T ss_pred             HHhC----CCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEeccc
Confidence            3222    2221111           11257899999999999999999999999521           35678888752


Q ss_pred             Cc----------------------------ccchhhhcce-eEEEecCCChHHHHHHHHHHHHH-------cCC--CCCH
Q 021660          181 VN----------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------EGL--DVTE  222 (309)
Q Consensus       181 ~~----------------------------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~-------~~~--~~~~  222 (309)
                      ..                            ...|.++.|+ .+|.|.+++.+.+.+|+...+.+       .++  .+++
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                            1236677788 58999999999999887765553       343  5789


Q ss_pred             HHHHHHHHHhc---CCHHHHHHHHHH
Q 021660          223 GGLAALVRLCN---GDMRKALNILQS  245 (309)
Q Consensus       223 ~~l~~i~~~~~---g~~r~~~~~l~~  245 (309)
                      ++.+.|++.+-   .-.|-+.+.++.
T Consensus       724 ~a~~~l~~~gyd~~~GARpL~R~Iq~  749 (786)
T COG0542         724 EAKDFLAEKGYDPEYGARPLRRAIQQ  749 (786)
T ss_pred             HHHHHHHHhccCCCcCchHHHHHHHH
Confidence            99999999863   224545555443

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.50  E-value=4.4e-13  Score=120.67  Aligned_cols=198  Identities=22%  Similarity=0.278  Sum_probs=132.7

Q ss_pred             CCccccccChHHHHHHHHHHhc-----------CCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC---
Q 021660           50 QSLADVAAHRDIVDTIDRLTSE-----------NRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD---  114 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~-----------~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~---  114 (309)
                      ..|.|+.|.++++..+.+.+.-           .+.|. ++++||||||||.+|++++.+.     ++.++.++.++   
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            4789999999999888777641           23333 9999999999999999999998     66666665553   


Q ss_pred             ---CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHHHHhcC--CceEE
Q 021660          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYTK--NTRFA  175 (309)
Q Consensus       115 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l~~~~~--~~~~i  175 (309)
                         ..+...++..+.+..+.         .++|++|||+|.+...              ..+.|+--++....  ...++
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               23455666666665433         4689999999987532              34555555554442  33455


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHH-HHHHHHHHhhc-
Q 021660          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKA-LNILQSTHMAS-  250 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~-~~~l~~~~~~~-  250 (309)
                      ..||.++-++++|.+  || +.+.++.|+.....++++-+++..... ..-.+..+++.++|....- .|.+..++..+ 
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            567888899999877  45 778899999999999999666544433 2233455888887754433 33333333322 


Q ss_pred             ----CCcCHHHHHhhh
Q 021660          251 ----QQITEEAVYLCT  262 (309)
Q Consensus       251 ----~~i~~~~v~~~~  262 (309)
                          ..|+..++..+.
T Consensus       372 r~n~~~i~~~~i~ea~  387 (596)
T COG0465         372 RRNKKEITMRDIEEAI  387 (596)
T ss_pred             HhcCeeEeccchHHHH
Confidence                346655555444

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=99.50  E-value=6.9e-13  Score=105.87  Aligned_cols=169  Identities=20%  Similarity=0.326  Sum_probs=113.0

Q ss_pred             CccccccChHHHHHHHHHHh------------cCC-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC---
Q 021660           51 SLADVAAHRDIVDTIDRLTS------------ENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD---  114 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~------------~~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~---  114 (309)
                      ..+++-|-+..++.+.+.+-            +-+ +..+++|||||+|||.++++++.+.     +..|..+....   
T Consensus       169 ~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT-----~aTFLKLAgPQLVQ  243 (424)
T KOG0652|consen  169 QYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT-----NATFLKLAGPQLVQ  243 (424)
T ss_pred             cccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc-----cchHHHhcchHHHh
Confidence            35667777777777766652            112 3349999999999999999999987     33333332221   


Q ss_pred             ---CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----cCCceEE
Q 021660          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRFA  175 (309)
Q Consensus       115 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-----------~~~~~~l~~~l~~~-----~~~~~~i  175 (309)
                         ..+...++..+.         ++....+.+|+|||+|.+.           .+.+..++++++..     .....+|
T Consensus       244 MfIGdGAkLVRDAFa---------LAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKvi  314 (424)
T KOG0652|consen  244 MFIGDGAKLVRDAFA---------LAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVI  314 (424)
T ss_pred             hhhcchHHHHHHHHH---------HhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEE
Confidence               122233332222         2222357899999999875           23456677777653     2456788


Q ss_pred             EEecCCcccchhhhcc--e-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC
Q 021660          176 LICNQVNKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g  234 (309)
                      .+||..+-++|++.+.  . +.|+|+.|+.+....+++-+.++-++. ++-.++.+++.+.+
T Consensus       315 AATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~-~DvNfeELaRsTdd  375 (424)
T KOG0652|consen  315 AATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVS-DDVNFEELARSTDD  375 (424)
T ss_pred             eecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCC-CCCCHHHHhhcccc
Confidence            8999999999998875  4 779999999988888888776655432 33456777777654

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.50  E-value=2.2e-12  Score=123.86  Aligned_cols=191  Identities=19%  Similarity=0.263  Sum_probs=127.3

Q ss_pred             CccccccChHHHHHHHHHHhcC--------CC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH
Q 021660           51 SLADVAAHRDIVDTIDRLTSEN--------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~--------~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (309)
                      -...++|++.+++.+...+...        ++ ..++|+||+|+|||++|+.+++.+.+.+.  .++.+++.........
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            4567999999999888887632        11 24899999999999999999998854332  3455555432111111


Q ss_pred             HHHHHHhhhccccccC-----------CCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEEEec
Q 021660          122 RQQIQDFASTQSFSFG-----------VKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICN  179 (309)
Q Consensus       122 ~~~~~~~~~~~~~~~~-----------~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~  179 (309)
                      ...+.    ..+...+           ......+|+|||++.+.+..++.|++++++.           ..++.+|++||
T Consensus       644 ~~LiG----~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN  719 (857)
T PRK10865        644 SRLVG----APPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSN  719 (857)
T ss_pred             HHHhC----CCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCC
Confidence            11110    0000000           0113579999999999999999999999863           12445788876


Q ss_pred             CCc-------------------------ccchhhhcce-eEEEecCCChHHHHHHHHHHHHH-------cC--CCCCHHH
Q 021660          180 QVN-------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------EG--LDVTEGG  224 (309)
Q Consensus       180 ~~~-------------------------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~~~~~~~  224 (309)
                      ...                         ...+.|.+|+ .++.|.|++.+++..++...+.+       .+  +.+++++
T Consensus       720 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELlnRld~iivF~PL~~edl~~Iv~~~L~~l~~rl~~~gi~l~is~~a  799 (857)
T PRK10865        720 LGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEERGYEIHISDEA  799 (857)
T ss_pred             cchHHHHHhccccchHHHHHHHHHHHcccccHHHHHhCCeeEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCcCcCCHHH
Confidence            521                         1335788888 88999999999999987776654       23  4579999


Q ss_pred             HHHHHHHhc---CCHHHHHHHHHHHH
Q 021660          225 LAALVRLCN---GDMRKALNILQSTH  247 (309)
Q Consensus       225 l~~i~~~~~---g~~r~~~~~l~~~~  247 (309)
                      ++.|+++.-   -..|.+.+.++...
T Consensus       800 l~~L~~~gy~~~~GARpL~r~I~~~i  825 (857)
T PRK10865        800 LKLLSENGYDPVYGARPLKRAIQQQI  825 (857)
T ss_pred             HHHHHHcCCCccCChHHHHHHHHHHH
Confidence            999998652   13556666655443

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=99.50  E-value=3.3e-12  Score=114.84  Aligned_cols=195  Identities=22%  Similarity=0.260  Sum_probs=138.4

Q ss_pred             cccChHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHc-----cCcccccEEEEecCCCcchHHHHHH
Q 021660           55 VAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLY-----GAQYHNMILELNASDDRGIDVVRQQ  124 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~  124 (309)
                      +-+++.....+...+..     +.+..++++|-||+|||.+++.+.+.+.     .+-..+.|+++++-...+...+...
T Consensus       398 LpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~  477 (767)
T KOG1514|consen  398 LPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEK  477 (767)
T ss_pred             ccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHH
Confidence            34455555555555432     2222499999999999999999999875     2345678899998776665555555


Q ss_pred             HHHhhhcccc--------------ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc---CCceEEEEecCCccc---
Q 021660          125 IQDFASTQSF--------------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---KNTRFALICNQVNKI---  184 (309)
Q Consensus       125 ~~~~~~~~~~--------------~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~---~~~~~i~~~~~~~~l---  184 (309)
                      +.........              .-.......||+|||.|.|....+..|+++++.+.   ...++|.++|..+..   
T Consensus       478 I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNTmdlPEr~  557 (767)
T KOG1514|consen  478 IWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANTMDLPERL  557 (767)
T ss_pred             HHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecccccCHHHH
Confidence            5433221110              11234568899999999999888899999999754   344555566655432   


Q ss_pred             -chhhhcce--eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh---cCCHHHHHHHHHHHHhhc
Q 021660          185 -IPALQSRC--TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC---NGDMRKALNILQSTHMAS  250 (309)
Q Consensus       185 -~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~---~g~~r~~~~~l~~~~~~~  250 (309)
                       ....-+|.  .++.|.|++..++.+++..+++.. ..+++++++.+++..   .||.|.+++.|+.+.-.+
T Consensus       558 l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~-~~f~~~aielvarkVAavSGDaRraldic~RA~Eia  628 (767)
T KOG1514|consen  558 LMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL-DAFENKAIELVARKVAAVSGDARRALDICRRAAEIA  628 (767)
T ss_pred             hccchhhhccceeeecCCCCHHHHHHHHHHhhcch-hhcchhHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence             22334554  889999999999999999988765 357888888888764   699999999999888654

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.49  E-value=2e-12  Score=117.22  Aligned_cols=208  Identities=17%  Similarity=0.184  Sum_probs=139.7

Q ss_pred             CCccccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHH
Q 021660           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  127 (309)
                      ..|++++|....++.+.+.+..-  ...+++|+|++||||+.+|+.+.....  .....++.++|..... ..+.+.+..
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            46888999999888887776532  223499999999999999999987642  2356788889886432 223322221


Q ss_pred             hhhc--------cccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc------
Q 021660          128 FAST--------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN------  182 (309)
Q Consensus       128 ~~~~--------~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~------  182 (309)
                      ....        ....+-..++.+.|+|||++.|+...+..|+.++++..           .++++|++++...      
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            1110        00111122467899999999999999999999998532           2446777775432      


Q ss_pred             -ccchhhhcce--eEEEecCCCh--HHHHHHHHHHHH----HcCCCCCHHHHHH-------HHHH-hcCCHHHHHHHHHH
Q 021660          183 -KIIPALQSRC--TRFRFAPLEP--VHVTERLKHVIE----AEGLDVTEGGLAA-------LVRL-CNGDMRKALNILQS  245 (309)
Q Consensus       183 -~l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~~----~~~~~~~~~~l~~-------i~~~-~~g~~r~~~~~l~~  245 (309)
                       .+.+.+..|+  ..+.++|+..  +++..++..++.    ..++.+++++++.       +..+ ++||+|.+.+.++.
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             2334555565  5577777764  466655555544    3466789999887       5554 58999999999998


Q ss_pred             HHhhc-----CCcCHHHHHh
Q 021660          246 THMAS-----QQITEEAVYL  260 (309)
Q Consensus       246 ~~~~~-----~~i~~~~v~~  260 (309)
                      ++...     ..|+.+++..
T Consensus       446 ~~i~~~~~~~~~I~~~~l~~  465 (526)
T TIGR02329       446 LALELSAMPAGALTPDVLRA  465 (526)
T ss_pred             HHHhcccCCCCccCHHHhhh
Confidence            87642     4578877643

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.49  E-value=1.2e-12  Score=125.79  Aligned_cols=184  Identities=22%  Similarity=0.293  Sum_probs=124.8

Q ss_pred             ccccccChHHHHHHHHHHhcC--------CC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHH
Q 021660           52 LADVAAHRDIVDTIDRLTSEN--------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR  122 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~--------~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (309)
                      -..++||+++++.+...+...        ++ ..++|+||+|+|||++|+.+++.+.+..  ..++.++.+.......+.
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~--~~~~~~d~s~~~~~~~~~  585 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSE--DAMIRLDMSEYMEKHTVS  585 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCc--cceEEEEchhccccccHH
Confidence            356899999999998887532        11 2389999999999999999999986543  234444443211111111


Q ss_pred             HH---------------HHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEE
Q 021660          123 QQ---------------IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFAL  176 (309)
Q Consensus       123 ~~---------------~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~  176 (309)
                      ..               +.....        ....+||+|||++++.++.++.|++++++-           ..++.||+
T Consensus       586 ~l~g~~~gyvg~~~~~~l~~~~~--------~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~  657 (821)
T CHL00095        586 KLIGSPPGYVGYNEGGQLTEAVR--------KKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIM  657 (821)
T ss_pred             HhcCCCCcccCcCccchHHHHHH--------hCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEE
Confidence            11               111111        114589999999999999999999999962           24677888


Q ss_pred             EecCCcc-------------------------------------cchhhhcce-eEEEecCCChHHHHHHHHHHHHH---
Q 021660          177 ICNQVNK-------------------------------------IIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA---  215 (309)
Q Consensus       177 ~~~~~~~-------------------------------------l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~---  215 (309)
                      |+|....                                     ..|.+.+|+ .++.|.|++.+++.+++...+.+   
T Consensus       658 Tsn~g~~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~peflnRid~ii~F~pL~~~~l~~Iv~~~l~~l~~  737 (821)
T CHL00095        658 TSNLGSKVIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIMLKNLFK  737 (821)
T ss_pred             eCCcchHHHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhccCCeEEEeCCCCHHHHHHHHHHHHHHHHH
Confidence            8753210                                     124677888 88999999999999998776653   


Q ss_pred             ----cC--CCCCHHHHHHHHHHh-c--CCHHHHHHHHHH
Q 021660          216 ----EG--LDVTEGGLAALVRLC-N--GDMRKALNILQS  245 (309)
Q Consensus       216 ----~~--~~~~~~~l~~i~~~~-~--g~~r~~~~~l~~  245 (309)
                          .+  +.+++++.+.|++.. .  .-.|.+...++.
T Consensus       738 rl~~~~i~l~~~~~~~~~La~~~~~~~~GAR~l~r~i~~  776 (821)
T CHL00095        738 RLNEQGIQLEVTERIKTLLIEEGYNPLYGARPLRRAIMR  776 (821)
T ss_pred             HHHHCCcEEEECHHHHHHHHHhcCCCCCChhhHHHHHHH
Confidence                23  467899999999974 1  124544444443

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=99.49  E-value=2e-12  Score=102.63  Aligned_cols=175  Identities=23%  Similarity=0.336  Sum_probs=116.8

Q ss_pred             CCCcccccc-ChHHHHHHHHHHh-------------cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           49 PQSLADVAA-HRDIVDTIDRLTS-------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        49 p~~~~~~ig-~~~~~~~l~~~~~-------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      |.+--+.+| -+..++.+++.+.             -.++..+++|||||+|||.+++++++..     ...|+.++.+.
T Consensus       142 PDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht-----~c~firvsgse  216 (404)
T KOG0728|consen  142 PDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT-----DCTFIRVSGSE  216 (404)
T ss_pred             CccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc-----ceEEEEechHH
Confidence            334344455 4555666666654             2244559999999999999999999986     56666666553


Q ss_pred             C------cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----cCCc
Q 021660          115 D------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNT  172 (309)
Q Consensus       115 ~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-----------~~~~~~l~~~l~~~-----~~~~  172 (309)
                      .      .+...+++.+- .+        ....+++|+.||+|.+.           .+.+..++++++..     ..+.
T Consensus       217 lvqk~igegsrmvrelfv-ma--------rehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatkni  287 (404)
T KOG0728|consen  217 LVQKYIGEGSRMVRELFV-MA--------REHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNI  287 (404)
T ss_pred             HHHHHhhhhHHHHHHHHH-HH--------HhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccce
Confidence            2      12222222211 11        12257899999999885           24466677777643     4577


Q ss_pred             eEEEEecCCcccchhhhcce---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHH
Q 021660          173 RFALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRK  238 (309)
Q Consensus       173 ~~i~~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~  238 (309)
                      .+|++||..+-+++++.+..   ..|+|+||+.+...++++-..++-+..- --.+..|++...|-.+.
T Consensus       288 kvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~r-gi~l~kiaekm~gasga  355 (404)
T KOG0728|consen  288 KVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTR-GINLRKIAEKMPGASGA  355 (404)
T ss_pred             EEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhc-ccCHHHHHHhCCCCccc
Confidence            89999999999999998854   6699999999999999987766543211 11256777777664443

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.48  E-value=1.8e-12  Score=116.46  Aligned_cols=182  Identities=19%  Similarity=0.198  Sum_probs=126.5

Q ss_pred             CccccccChHHHHHHHHHHhcC------------C-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc
Q 021660           51 SLADVAAHRDIVDTIDRLTSEN------------R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~------------~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (309)
                      .++++-|-.++++.+.+.+...            + ...+++|||||||||.+|.+++...     +..++.+.......
T Consensus       665 ~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~-----~~~fisvKGPElL~  739 (952)
T KOG0735|consen  665 RWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNS-----NLRFISVKGPELLS  739 (952)
T ss_pred             CceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhC-----CeeEEEecCHHHHH
Confidence            4678888888888777776532            1 1239999999999999999999986     77788776654211


Q ss_pred             --hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--CCceEEEEecCCc
Q 021660          118 --IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNTRFALICNQVN  182 (309)
Q Consensus       118 --~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~~--~~~~~i~~~~~~~  182 (309)
                        +..-.+.++......     ..+.++++++||+|.+.+           ...+.|+.-|+...  ..+.++.+|+.++
T Consensus       740 KyIGaSEq~vR~lF~rA-----~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpd  814 (952)
T KOG0735|consen  740 KYIGASEQNVRDLFERA-----QSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPD  814 (952)
T ss_pred             HHhcccHHHHHHHHHHh-----hccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCcc
Confidence              111122333332221     122789999999999864           34678888777543  2445555678888


Q ss_pred             ccchhhhcc--e-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHH
Q 021660          183 KIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (309)
Q Consensus       183 ~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l  243 (309)
                      .+++++.+.  + ..+.++.|+..+..++++........ -++..++-++..+.|--+.-+..|
T Consensus       815 liDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~-~~~vdl~~~a~~T~g~tgADlq~l  877 (952)
T KOG0735|consen  815 LIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLK-DTDVDLECLAQKTDGFTGADLQSL  877 (952)
T ss_pred             ccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCC-ccccchHHHhhhcCCCchhhHHHH
Confidence            999999875  4 66899999999999999887765443 245667888988877555444433

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.48  E-value=2.4e-12  Score=116.58  Aligned_cols=209  Identities=15%  Similarity=0.188  Sum_probs=137.0

Q ss_pred             CCccccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHc------cCcccccEEEEecCCCcchHHH
Q 021660           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLY------GAQYHNMILELNASDDRGIDVV  121 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~  121 (309)
                      ..|++++|+...++.+.+.+..-  ...+++|+|++||||+.+|+.+...+.      .......|+.++|..... ..+
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            35888999999888887776532  223499999999999999999988721      122456789999986432 233


Q ss_pred             HHHHHHhhhc--------cccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc
Q 021660          122 RQQIQDFAST--------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN  182 (309)
Q Consensus       122 ~~~~~~~~~~--------~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~  182 (309)
                      .+.+......        ....+-..++++.|+|||++.++...+..|+.++++..           .++++|++|+..-
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            3322221110        00111123467899999999999999999999998632           2457777775432


Q ss_pred             -------ccchhhhcce--eEEEecCCCh--HHHHHHHHHHHHH----cCCCCCHHHHH-------HHHHH-hcCCHHHH
Q 021660          183 -------KIIPALQSRC--TRFRFAPLEP--VHVTERLKHVIEA----EGLDVTEGGLA-------ALVRL-CNGDMRKA  239 (309)
Q Consensus       183 -------~l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~~~----~~~~~~~~~l~-------~i~~~-~~g~~r~~  239 (309)
                             ...+.+..|+  ..+.++|+..  +++..++...+++    .+..++++++.       .+..+ ++||+|.+
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                   1233455565  4566666653  5666666665554    56678887763       33333 58999999


Q ss_pred             HHHHHHHHhhc-----CCcCHHHHH
Q 021660          240 LNILQSTHMAS-----QQITEEAVY  259 (309)
Q Consensus       240 ~~~l~~~~~~~-----~~i~~~~v~  259 (309)
                      .+.++.++...     ..++.+++.
T Consensus       455 ~nvier~~i~~~~~~~~~i~~~~l~  479 (538)
T PRK15424        455 RNLMERLALFLSVEPTPDLTPQFLQ  479 (538)
T ss_pred             HHHHHHHHHhcCCCCcCccCHHHhh
Confidence            99999887653     246655543

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.48  E-value=6.4e-12  Score=102.27  Aligned_cols=122  Identities=13%  Similarity=0.204  Sum_probs=99.6

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec------------CCcccchhhhcceeEEEecCCChHHHHHH
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN------------QVNKIIPALQSRCTRFRFAPLEPVHVTER  208 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~------------~~~~l~~~l~~r~~~i~~~~~~~~~~~~~  208 (309)
                      -+.+|+|||+|.|.-++..+|...+++-- .+++|+++|            .+..++-.+..|..++...|++.++++++
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            47799999999999999999999998643 445666664            34467888999999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc-----CCcCHHHHHhhhC
Q 021660          209 LKHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       209 l~~~~~~~~~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                      |+.+|..+++.+++++++.+.... .-.+|.+++++......+     ..+..++|..+..
T Consensus       367 L~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~y~  427 (454)
T KOG2680|consen  367 LRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIERVYR  427 (454)
T ss_pred             HHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHHHH
Confidence            999999999999999999999876 457999999987665533     4566677766543

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=99.47  E-value=3.3e-13  Score=109.29  Aligned_cols=153  Identities=22%  Similarity=0.338  Sum_probs=108.2

Q ss_pred             hhcCCCCccccccChHHHHHHHHHHhcC------------C-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           45 EKYRPQSLADVAAHRDIVDTIDRLTSEN------------R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        45 ~~~~p~~~~~~ig~~~~~~~l~~~~~~~------------~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      ++....++.++-|-+..++.+++.+.-.            + +..+++||+||+|||.||+++|++.     +..|..+.
T Consensus       177 eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqT-----SATFlRvv  251 (440)
T KOG0726|consen  177 EKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQT-----SATFLRVV  251 (440)
T ss_pred             ccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhccc-----chhhhhhh
Confidence            3333446778888888899998887521            2 3349999999999999999999987     44444444


Q ss_pred             cCC------CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHh-----c
Q 021660          112 ASD------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-----T  169 (309)
Q Consensus       112 ~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~-----~  169 (309)
                      .+.      ..+...+++.+.-..+         ..+++++|||+|.+..           +.+..++++++..     .
T Consensus       252 GseLiQkylGdGpklvRqlF~vA~e---------~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsr  322 (440)
T KOG0726|consen  252 GSELIQKYLGDGPKLVRELFRVAEE---------HAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSR  322 (440)
T ss_pred             hHHHHHHHhccchHHHHHHHHHHHh---------cCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCcccc
Confidence            332      1233334443332222         2478999999998852           3456677777754     3


Q ss_pred             CCceEEEEecCCcccchhhhcce---eEEEecCCChHHHHHHHHH
Q 021660          170 KNTRFALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKH  211 (309)
Q Consensus       170 ~~~~~i~~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~  211 (309)
                      .++.+|++||..+.+++++.+..   ..|.|+.|+....+.++.-
T Consensus       323 gDvKvimATnrie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~I  367 (440)
T KOG0726|consen  323 GDVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQI  367 (440)
T ss_pred             CCeEEEEecccccccCHhhcCCCccccccccCCCchhhhceeEEE
Confidence            46789999999999999998864   6699999988877777653

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

Probab=99.46  E-value=1.1e-12  Score=112.70  Aligned_cols=197  Identities=19%  Similarity=0.270  Sum_probs=138.9

Q ss_pred             CccccccChHHHHHHHHHHhc----CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH-HHHH
Q 021660           51 SLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV-RQQI  125 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  125 (309)
                      ....+.|++..++.++.++..    ...+.++++|.||+|||.+...+...+.++......+.++|........+ ....
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHH
Confidence            346688999999988888764    34455999999999999999999999888877778888888863322222 2222


Q ss_pred             HHhhh---ccccc----------cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh---cCCceEEEEecCCc---ccch
Q 021660          126 QDFAS---TQSFS----------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKY---TKNTRFALICNQVN---KIIP  186 (309)
Q Consensus       126 ~~~~~---~~~~~----------~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~---~~~~~~i~~~~~~~---~l~~  186 (309)
                      ..+.+   .....          +......-++++||+|.+....+..|+.+++.+   ..+.++|.++|..+   ...+
T Consensus       228 ~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~Lp  307 (529)
T KOG2227|consen  228 SSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFLP  307 (529)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHHhh
Confidence            22211   00000          011124678999999999877777777777754   34455666677654   4445


Q ss_pred             hhhcce----eEEEecCCChHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHh---cCCHHHHHHHHHHHH
Q 021660          187 ALQSRC----TRFRFAPLEPVHVTERLKHVIEAEGLD-VTEGGLAALVRLC---NGDMRKALNILQSTH  247 (309)
Q Consensus       187 ~l~~r~----~~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~l~~i~~~~---~g~~r~~~~~l~~~~  247 (309)
                      .|..+.    .++.|+|++.+++.+|++.++..+... +-+.+++..|+..   .||+|.+++.++.+.
T Consensus       308 rL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~ai  376 (529)
T KOG2227|consen  308 RLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRAI  376 (529)
T ss_pred             hhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            555532    779999999999999999999877543 3455777777764   699999999998544

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.46  E-value=1.9e-11  Score=111.69  Aligned_cols=197  Identities=15%  Similarity=0.137  Sum_probs=133.2

Q ss_pred             CccccccChHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           51 SLADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      .+.+++|+...++.+.+.+....  ..+++|+|++||||+++|+.+......  ....++.++|..... ..+.+.+...
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            46789999999888777766432  233999999999999999999887532  345788888876432 2222222111


Q ss_pred             hhcc-------ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------c
Q 021660          129 ASTQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------K  183 (309)
Q Consensus       129 ~~~~-------~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~-------~  183 (309)
                      ....       ....-..++++.|+|||++.++.+.+..|+.++++..           .++++|++++...       .
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            0000       0001112357789999999999999999999998532           2567888876432       3


Q ss_pred             cchhhhcce--eEEEecCCCh--HHHHHHHHHHH----HHcC---CCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc
Q 021660          184 IIPALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (309)
Q Consensus       184 l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~----~~~~---~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~  250 (309)
                      +.+.+..|+  ..|.++|+..  +++..++...+    .+.+   ..+++++++.+..+. +||+|.+.+.++.++..+
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            445666666  4466666653  45555444433    3333   568999999999874 899999999999888654

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.45  E-value=7.8e-12  Score=111.81  Aligned_cols=197  Identities=19%  Similarity=0.242  Sum_probs=137.6

Q ss_pred             cccccChHHHHHHHHHHh------------cC-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC----
Q 021660           53 ADVAAHRDIVDTIDRLTS------------EN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD----  115 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~------------~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~----  115 (309)
                      .++.|....+..+...+.            +. .+..+++|||||+|||.++++++++.     +..++.+++...    
T Consensus       184 ~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~-----~a~~~~i~~peli~k~  258 (693)
T KOG0730|consen  184 DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEY-----GAFLFLINGPELISKF  258 (693)
T ss_pred             cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHh-----CceeEecccHHHHHhc
Confidence            466666666666665543            11 22349999999999999999999997     566666665521    


Q ss_pred             --cchHHHHHHHHHhhhccccccCCCCc-cEEEEEeCCCCCCH----------HHHHHHHHHHHHhc--CCceEEEEecC
Q 021660          116 --RGIDVVRQQIQDFASTQSFSFGVKAS-VKLVLLDEADAMTK----------DAQFALRRVIEKYT--KNTRFALICNQ  180 (309)
Q Consensus       116 --~~~~~~~~~~~~~~~~~~~~~~~~~~-~~lliiDe~~~l~~----------~~~~~l~~~l~~~~--~~~~~i~~~~~  180 (309)
                        .....++..+......         . +.+++|||++.+.+          .....|+.+++...  ...++|.++|.
T Consensus       259 ~gEte~~LR~~f~~a~k~---------~~psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~atnr  329 (693)
T KOG0730|consen  259 PGETESNLRKAFAEALKF---------QVPSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKVIVLAATNR  329 (693)
T ss_pred             ccchHHHHHHHHHHHhcc---------CCCeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcCcCcEEEEEecCC
Confidence              2223334444443322         3 78999999999874          23567889998776  56667777899


Q ss_pred             Ccccchhhhc-ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHH-HHHHhhcCCcCHHH
Q 021660          181 VNKIIPALQS-RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEA  257 (309)
Q Consensus       181 ~~~l~~~l~~-r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l-~~~~~~~~~i~~~~  257 (309)
                      +..+++++++ || ..+.+.-|+..+..++++...+..+.. ++..+..++..+.|..+.-+..+ ..+...+..-+.++
T Consensus       330 p~sld~alRRgRfd~ev~IgiP~~~~RldIl~~l~k~~~~~-~~~~l~~iA~~thGyvGaDL~~l~~ea~~~~~r~~~~~  408 (693)
T KOG0730|consen  330 PDSLDPALRRGRFDREVEIGIPGSDGRLDILRVLTKKMNLL-SDVDLEDIAVSTHGYVGADLAALCREASLQATRRTLEI  408 (693)
T ss_pred             ccccChhhhcCCCcceeeecCCCchhHHHHHHHHHHhcCCc-chhhHHHHHHHccchhHHHHHHHHHHHHHHHhhhhHHH
Confidence            9999999996 88 889999999999999999999887766 67889999999998776555444 33332221114445


Q ss_pred             HHhhhCC
Q 021660          258 VYLCTGN  264 (309)
Q Consensus       258 v~~~~~~  264 (309)
                      +..+...
T Consensus       409 ~~~A~~~  415 (693)
T KOG0730|consen  409 FQEALMG  415 (693)
T ss_pred             HHHHHhc
Confidence            5444443

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

Probab=99.44  E-value=3.1e-11  Score=99.99  Aligned_cols=207  Identities=15%  Similarity=0.157  Sum_probs=131.9

Q ss_pred             cccChHH---HHHHHHHHh---cCCCCeEEEECCCCCcHHHHHHHHHHHHccCc----ccccEEEEecCCCcchHHHHHH
Q 021660           55 VAAHRDI---VDTIDRLTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNASDDRGIDVVRQQ  124 (309)
Q Consensus        55 ~ig~~~~---~~~l~~~~~---~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~  124 (309)
                      -||.+.+   ++.+..++.   ..++++++|+|++|.|||++++.+.+......    ....++.+......+...+...
T Consensus        36 WIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~  115 (302)
T PF05621_consen   36 WIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSA  115 (302)
T ss_pred             eecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHH
Confidence            4555444   445555554   44678899999999999999999998764221    1234455555444443444433


Q ss_pred             HHHhhhccccccC-------------CCCccEEEEEeCCCCCC---HHHHHHHHHHHHHhcC--CceEEEEecC----Cc
Q 021660          125 IQDFASTQSFSFG-------------VKASVKLVLLDEADAMT---KDAQFALRRVIEKYTK--NTRFALICNQ----VN  182 (309)
Q Consensus       125 ~~~~~~~~~~~~~-------------~~~~~~lliiDe~~~l~---~~~~~~l~~~l~~~~~--~~~~i~~~~~----~~  182 (309)
                      +......+...-.             ..-+.++|||||+|.+.   ...+..+++++.....  ...+|+++..    .-
T Consensus       116 IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al  195 (302)
T PF05621_consen  116 ILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRAL  195 (302)
T ss_pred             HHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHh
Confidence            3333322221000             11267899999999874   2335666666665543  3445555432    12


Q ss_pred             ccchhhhcceeEEEecCCChH-HHHHHHHHHHHHcCC----C-CCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-----C
Q 021660          183 KIIPALQSRCTRFRFAPLEPV-HVTERLKHVIEAEGL----D-VTEGGLAALVRLCNGDMRKALNILQSTHMAS-----Q  251 (309)
Q Consensus       183 ~l~~~l~~r~~~i~~~~~~~~-~~~~~l~~~~~~~~~----~-~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-----~  251 (309)
                      ..++++.+||..+.++++..+ +...++...-...-.    . -+++....|.+.++|.++.+.+++..++..+     +
T Consensus       196 ~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~ll~~aA~~AI~sG~E  275 (302)
T PF05621_consen  196 RTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRLLNAAAIAAIRSGEE  275 (302)
T ss_pred             ccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHHHHHHHHHHHhcCCc
Confidence            456899999999999998864 566666554433211    2 3567779999999999999999998887654     5


Q ss_pred             CcCHHHHHhh
Q 021660          252 QITEEAVYLC  261 (309)
Q Consensus       252 ~i~~~~v~~~  261 (309)
                      .||.+.+..+
T Consensus       276 ~It~~~l~~~  285 (302)
T PF05621_consen  276 RITREILDKI  285 (302)
T ss_pred             eecHHHHhhC
Confidence            7888887654

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

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.44  E-value=2.9e-11  Score=95.55  Aligned_cols=192  Identities=19%  Similarity=0.231  Sum_probs=132.9

Q ss_pred             hhhcCCCCccccccChHHHHHHH----HHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchH
Q 021660           44 VEKYRPQSLADVAAHRDIVDTID----RLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (309)
Q Consensus        44 ~~~~~p~~~~~~ig~~~~~~~l~----~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  119 (309)
                      ...+.|..+.+++|-+...+.+.    +.+.+....++|+||..|+|||++++++..+....+..  .++++..+.....
T Consensus        51 v~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glr--LVEV~k~dl~~Lp  128 (287)
T COG2607          51 VPDPDPIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLR--LVEVDKEDLATLP  128 (287)
T ss_pred             CCCCCCcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCe--EEEEcHHHHhhHH
Confidence            34455667889999777666554    44556666669999999999999999999998666554  7787777655555


Q ss_pred             HHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-HHHHHHHHHHH----HhcCCceEEEEecCCcccch--------
Q 021660          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-DAQFALRRVIE----KYTKNTRFALICNQVNKIIP--------  186 (309)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-~~~~~l~~~l~----~~~~~~~~i~~~~~~~~l~~--------  186 (309)
                      .+...++...           .+-||+.|+.-.=.. ..-..|..+++    ..|.++.|-.|+|....+++        
T Consensus       129 ~l~~~Lr~~~-----------~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~~  197 (287)
T COG2607         129 DLVELLRARP-----------EKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHLLPEDMKDNEGS  197 (287)
T ss_pred             HHHHHHhcCC-----------ceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCcccccHhhhhCCCc
Confidence            5544444322           567899998654332 33455666666    34556666666664432221        


Q ss_pred             --------------hhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-----hcCCHHHHHHHHHHH
Q 021660          187 --------------ALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL-----CNGDMRKALNILQST  246 (309)
Q Consensus       187 --------------~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~-----~~g~~r~~~~~l~~~  246 (309)
                                    ++-.|| ..+.|.|++.++...++..+++..++.++++.+..=+-.     .+.+-|.+...++.+
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                          234577 789999999999999999999999999988766554433     355677777777666


Q ss_pred             Hh
Q 021660          247 HM  248 (309)
Q Consensus       247 ~~  248 (309)
                      +.
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=99.44  E-value=5.7e-12  Score=117.60  Aligned_cols=212  Identities=14%  Similarity=0.158  Sum_probs=132.6

Q ss_pred             ccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc-----------cCc------------------
Q 021660           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-----------GAQ------------------  102 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-----------~~~------------------  102 (309)
                      |.+++||+.++..+...+......+++|.|++|+|||++++.+++.+.           |..                  
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            678999999999888888777667799999999999999999998872           000                  


Q ss_pred             -ccccEEEEecCCC----cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh---------
Q 021660          103 -YHNMILELNASDD----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY---------  168 (309)
Q Consensus       103 -~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~---------  168 (309)
                       ....|+.+.....    .+...+...+..-........-..++.++|+|||++.+++..++.|+.+|+..         
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             0123333322211    01111122121100000011112235679999999999999999999999853         


Q ss_pred             ----cCCceEEEEecCC-cccchhhhcce-eEEEecCCC-hHHHHHHHHHHHH---------------------------
Q 021660          169 ----TKNTRFALICNQV-NKIIPALQSRC-TRFRFAPLE-PVHVTERLKHVIE---------------------------  214 (309)
Q Consensus       169 ----~~~~~~i~~~~~~-~~l~~~l~~r~-~~i~~~~~~-~~~~~~~l~~~~~---------------------------  214 (309)
                          +....+|.++|.. ..+.+.|..|+ ..+.+..+. .++..+++.+...                           
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                2235566665643 35678899998 556666554 3444444433111                           


Q ss_pred             --HcCCCCCHHHHHHHHHHhc--C--CHHHHHHHHHHHHhhc-----CCcCHHHHHhhhC
Q 021660          215 --AEGLDVTEGGLAALVRLCN--G--DMRKALNILQSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       215 --~~~~~~~~~~l~~i~~~~~--g--~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                        ...+.++++.++++++.+.  |  .+|..+.+++.+...+     ..++.++|..++.
T Consensus       243 ~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~  302 (633)
T TIGR02442       243 SLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAE  302 (633)
T ss_pred             HhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence              1246788888888888762  2  3677777665543322     5799999877663

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.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.44  E-value=5.5e-12  Score=110.42  Aligned_cols=189  Identities=19%  Similarity=0.238  Sum_probs=115.8

Q ss_pred             cccccChHHHHHHHHHHh-------c---CC--------CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           53 ADVAAHRDIVDTIDRLTS-------E---NR--------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~-------~---~~--------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      ..++||+++++.+...+.       .   ..        ..+++|+||||+|||++|+.+++.+     +..+..+++..
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l-----~~pf~~~da~~  151 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARIL-----NVPFAIADATT  151 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhc-----CCCeEEechhh
Confidence            347999999998866552       1   11        2459999999999999999999987     44555554432


Q ss_pred             Ccc----hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH--------------HHHHHHHHHHHHhc-------
Q 021660          115 DRG----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT-------  169 (309)
Q Consensus       115 ~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--------------~~~~~l~~~l~~~~-------  169 (309)
                      ...    .......+..........+ ..+.+.+|+|||+|.+.+              ..++.|+++|+...       
T Consensus       152 L~~~gyvG~d~e~~L~~~~~~~~~~l-~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~  230 (413)
T TIGR00382       152 LTEAGYVGEDVENILLKLLQAADYDV-EKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQG  230 (413)
T ss_pred             ccccccccccHHHHHHHHHHhCcccH-HhcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCC
Confidence            110    1112222222222111111 112567999999999876              57889999997321       


Q ss_pred             ------CCceEEEEecCC---------------------------c-----------------------ccchhhhcce-
Q 021660          170 ------KNTRFALICNQV---------------------------N-----------------------KIIPALQSRC-  192 (309)
Q Consensus       170 ------~~~~~i~~~~~~---------------------------~-----------------------~l~~~l~~r~-  192 (309)
                            .+..+|.|+|-.                           .                       .+.|.+..|+ 
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                  122344444320                           0                       1335667787 


Q ss_pred             eEEEecCCChHHHHHHHHHH----HHH-------cCC--CCCHHHHHHHHHHhc---CCHHHHHHHHHHHH
Q 021660          193 TRFRFAPLEPVHVTERLKHV----IEA-------EGL--DVTEGGLAALVRLCN---GDMRKALNILQSTH  247 (309)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~----~~~-------~~~--~~~~~~l~~i~~~~~---g~~r~~~~~l~~~~  247 (309)
                      .++.|.|++.+++.+++...    +++       .++  .+++++++.|++.+-   --.|.+...++...
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            67889999999999987652    221       233  578999999999852   12444555554433

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.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.41  E-value=3.8e-12  Score=117.71  Aligned_cols=197  Identities=18%  Similarity=0.205  Sum_probs=138.9

Q ss_pred             hhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcc-----cccEEEEecCCCcch-
Q 021660           45 EKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASDDRGI-  118 (309)
Q Consensus        45 ~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-----~~~~~~~~~~~~~~~-  118 (309)
                      +.-+-..++.+||+++.+..+.+.+.+....|-+|.|+||+|||.++..+|.++.....     +..+..++-...... 
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            33456678999999999999999999998888999999999999999999999854432     223444433221111 


Q ss_pred             ---HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH---------HHHHHHHHHHHHhcCCceEEEEecC-----C
Q 021660          119 ---DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------DAQFALRRVIEKYTKNTRFALICNQ-----V  181 (309)
Q Consensus       119 ---~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~---------~~~~~l~~~l~~~~~~~~~i~~~~~-----~  181 (309)
                         .++.+.++........     .++.+|+|||+|.+-.         +..+.|...+..-  ...+|.+|+.     .
T Consensus       242 kyRGeFEeRlk~vl~ev~~-----~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARG--eL~~IGATT~~EYRk~  314 (786)
T COG0542         242 KYRGEFEERLKAVLKEVEK-----SKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARG--ELRCIGATTLDEYRKY  314 (786)
T ss_pred             cccCcHHHHHHHHHHHHhc-----CCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcC--CeEEEEeccHHHHHHH
Confidence               1222333333222111     1467999999998742         2345555555532  3455665532     2


Q ss_pred             cccchhhhcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHhc------CCHHHHHHHHHHHHh
Q 021660          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (309)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~~------g~~r~~~~~l~~~~~  248 (309)
                      -.-+++|.+||+.|.+..|+.++...+|+....+    +++.++++++...+..+.      --|..++.+++.++.
T Consensus       315 iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~LPDKAIDLiDeA~a  391 (786)
T COG0542         315 IEKDAALERRFQKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDKAIDLLDEAGA  391 (786)
T ss_pred             hhhchHHHhcCceeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHHHHHHhhcccCCCCchHHHHHHHHHH
Confidence            2457899999999999999999999998776554    478999999999998874      468899999987775

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.41  E-value=1.9e-11  Score=107.63  Aligned_cols=209  Identities=16%  Similarity=0.165  Sum_probs=141.2

Q ss_pred             CCCCccccccChHHHHHHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      ...+|++++|....+..+.+.++....  ..++|.|++||||..+|+.+.+...  ..+-.|+.+||... ....+.+.+
T Consensus       240 a~y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S~--R~~~PFIaiNCaAi-Pe~LlESEL  316 (560)
T COG3829         240 AKYTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIHNLSP--RANGPFIAINCAAI-PETLLESEL  316 (560)
T ss_pred             cccchhhhccCCHHHHHHHHHHHhhcCCCCcEEEecCCCccHHHHHHHHHhcCc--ccCCCeEEEecccC-CHHHHHHHH
Confidence            445799999999988888777765433  2399999999999999999987752  23557889999873 333444444


Q ss_pred             HHhhhcccc--------ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEEEecCCc----
Q 021660          126 QDFASTQSF--------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVN----  182 (309)
Q Consensus       126 ~~~~~~~~~--------~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~~~~----  182 (309)
                      .........        ..-..++++.|++||+..|+...+..|+.++++.           +.+.++|.+||...    
T Consensus       317 FGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVRIIAATN~nL~~~i  396 (560)
T COG3829         317 FGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVRIIAATNRNLEKMI  396 (560)
T ss_pred             hCcCCccccccccCCCCcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCceeeEEEEEeccCcCHHHHH
Confidence            332221111        0111246779999999999999999999999973           34678888887542    


Q ss_pred             ---ccchhhhcceeEEEe--cCCC--hHHHHHHHHHH----HHHcCC---CCCHHHHHHHHHH-hcCCHHHHHHHHHHHH
Q 021660          183 ---KIIPALQSRCTRFRF--APLE--PVHVTERLKHV----IEAEGL---DVTEGGLAALVRL-CNGDMRKALNILQSTH  247 (309)
Q Consensus       183 ---~l~~~l~~r~~~i~~--~~~~--~~~~~~~l~~~----~~~~~~---~~~~~~l~~i~~~-~~g~~r~~~~~l~~~~  247 (309)
                         ..-+.|.=|..++.+  +|+-  ++++..+....    .++.+.   .+++++++.+.++ ++||+|.+.|.++.+.
T Consensus       397 ~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~a~~~L~~y~WPGNVRELeNviER~v  476 (560)
T COG3829         397 AEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPDALALLLRYDWPGNVRELENVIERAV  476 (560)
T ss_pred             hcCcchhhheeeeceeeecCCCcccCcchHHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHhCCCCchHHHHHHHHHHHH
Confidence               233455556655444  4443  24444443333    333332   3889999999887 5899999999999988


Q ss_pred             hhc---CCcCHHHHH
Q 021660          248 MAS---QQITEEAVY  259 (309)
Q Consensus       248 ~~~---~~i~~~~v~  259 (309)
                      ...   ..|+.+++-
T Consensus       477 ~~~~~~~~I~~~~lp  491 (560)
T COG3829         477 NLVESDGLIDADDLP  491 (560)
T ss_pred             hccCCcceeehhhcc
Confidence            633   335555543

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.39  E-value=6.1e-11  Score=103.17  Aligned_cols=197  Identities=15%  Similarity=0.139  Sum_probs=132.4

Q ss_pred             CccccccChHHHHHHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      .+.++||+...+..+.+.+.--..  ..+||.|++||||.-+|+++.+...  -..-.++.+||.... ...+.+.+...
T Consensus       221 ~~~~iIG~S~am~~ll~~i~~VA~Sd~tVLi~GETGtGKElvAraIH~~S~--R~~kPfV~~NCAAlP-esLlESELFGH  297 (550)
T COG3604         221 EVGGIIGRSPAMRQLLKEIEVVAKSDSTVLIRGETGTGKELVARAIHQLSP--RRDKPFVKLNCAALP-ESLLESELFGH  297 (550)
T ss_pred             ccccceecCHHHHHHHHHHHHHhcCCCeEEEecCCCccHHHHHHHHHhhCc--ccCCCceeeeccccc-hHHHHHHHhcc
Confidence            466899999999988877764322  3399999999999999999977642  224467888887632 22233322221


Q ss_pred             hhccc-cccC------CCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEEEecCCc-------c
Q 021660          129 ASTQS-FSFG------VKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVN-------K  183 (309)
Q Consensus       129 ~~~~~-~~~~------~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~~~~-------~  183 (309)
                      .+... ..++      ..++++.+++|||..++.+.+..|+.++++.           .-++++|.+||..-       +
T Consensus       298 eKGAFTGA~~~r~GrFElAdGGTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVDVRiIAATNRDL~~~V~~G~  377 (550)
T COG3604         298 EKGAFTGAINTRRGRFELADGGTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVDVRVIAATNRDLEEMVRDGE  377 (550)
T ss_pred             cccccccchhccCcceeecCCCeEechhhccCCHHHHHHHHHHHhhcceeecCCCceeEEEEEEEeccchhHHHHHHcCc
Confidence            11110 0011      1236778999999999999999999999963           23568888887532       3


Q ss_pred             cchhhhcceeEEEecCCCh----HHHH----HHHHHHHHHcCC---CCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc
Q 021660          184 IIPALQSRCTRFRFAPLEP----VHVT----ERLKHVIEAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (309)
Q Consensus       184 l~~~l~~r~~~i~~~~~~~----~~~~----~~l~~~~~~~~~---~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~  250 (309)
                      .-..+.-|..++.+.-|+.    +++.    .++++...+.|.   .+++++++.+..+. +||+|.+.|.++.++..+
T Consensus       378 FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L~~y~wPGNVRELen~veRavlla  456 (550)
T COG3604         378 FRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELLSSYEWPGNVRELENVVERAVLLA  456 (550)
T ss_pred             chhhhhhcccccccCCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHcCCCCCcHHHHHHHHHHHHHHh
Confidence            3345666665554444442    2332    344444445554   68999999999874 899999999999888754

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.39  E-value=9.4e-12  Score=99.78  Aligned_cols=169  Identities=24%  Similarity=0.389  Sum_probs=116.2

Q ss_pred             CccccccChHHHHHHHHHHhcC-------------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC--
Q 021660           51 SLADVAAHRDIVDTIDRLTSEN-------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~-------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (309)
                      +.+++-|.++.+..+++.+...             .+..+++|||||+|||.++++++++.     ..+|+.+-.+..  
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            5678888888888888776521             23349999999999999999999987     777777655532  


Q ss_pred             ----cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----cCCceEE
Q 021660          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRFA  175 (309)
Q Consensus       116 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-----------~~~~~~l~~~l~~~-----~~~~~~i  175 (309)
                          .+...+++ +.+++.+        ...++|++||+|.+.           .+.+..+++++...     ..+..++
T Consensus       250 kyvgegarmvre-lf~mart--------kkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvl  320 (435)
T KOG0729|consen  250 KYVGEGARMVRE-LFEMART--------KKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVL  320 (435)
T ss_pred             HHhhhhHHHHHH-HHHHhcc--------cceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEE
Confidence                22222222 2222221        246899999999874           34466677777753     3466789


Q ss_pred             EEecCCcccchhhhcce---eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCC
Q 021660          176 LICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNGD  235 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~l~~i~~~~~g~  235 (309)
                      ++||.++.+++++.+..   ..++|.-|+.+-...+++-+++.-  .++.+ -++.|++.|+..
T Consensus       321 matnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksm--sverdir~ellarlcpns  382 (435)
T KOG0729|consen  321 MATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSM--SVERDIRFELLARLCPNS  382 (435)
T ss_pred             eecCCCCCcCHhhcCCcccccceeccCCcccccceeEEEecccc--ccccchhHHHHHhhCCCC
Confidence            99999999999998754   669999999888888877655433  23322 245666666543

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.38  E-value=1.8e-11  Score=115.91  Aligned_cols=197  Identities=15%  Similarity=0.201  Sum_probs=128.8

Q ss_pred             CccccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           51 SLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      .|++++|+...++.+.+.+...  ...+++|+|++|||||++|+.+......  ....++.++|..... ..+...+...
T Consensus       374 ~~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r--~~~~~v~i~c~~~~~-~~~~~~lfg~  450 (686)
T PRK15429        374 EFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGR--NNRRMVKMNCAAMPA-GLLESDLFGH  450 (686)
T ss_pred             cccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCC--CCCCeEEEecccCCh-hHhhhhhcCc
Confidence            5778999998888776655432  2234999999999999999999887532  245777788775321 2222211110


Q ss_pred             hhcc-------ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------c
Q 021660          129 ASTQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------K  183 (309)
Q Consensus       129 ~~~~-------~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~-------~  183 (309)
                      ....       ....-..+.+++|+|||++.++.+.+..|+.++++..           .++++|++++..-       .
T Consensus       451 ~~~~~~g~~~~~~g~le~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~~~~~  530 (686)
T PRK15429        451 ERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADRE  530 (686)
T ss_pred             ccccccccccchhhHHHhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCCHHHHHHcCc
Confidence            0000       0000012256799999999999999999999998632           3457777775432       2


Q ss_pred             cchhhhcce--eEEEecCCCh--HHHHHHHHHHH----HHcCC---CCCHHHHHHHHHH-hcCCHHHHHHHHHHHHhhc
Q 021660          184 IIPALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEGL---DVTEGGLAALVRL-CNGDMRKALNILQSTHMAS  250 (309)
Q Consensus       184 l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~----~~~~~---~~~~~~l~~i~~~-~~g~~r~~~~~l~~~~~~~  250 (309)
                      +.+.+..|+  ..|.++|+..  +++..++...+    .+.|.   .+++++++.+..+ ++||+|.+.+.++.++..+
T Consensus       531 f~~~L~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~~i~~a~~~~  609 (686)
T PRK15429        531 FRSDLYYRLNVFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLT  609 (686)
T ss_pred             ccHHHHhccCeeEEeCCChhhhHhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCCcHHHHHHHHHHHHHhC
Confidence            334455565  4466666653  45555554443    33343   4789999999886 5899999999999888654

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.37  E-value=2.5e-11  Score=105.11  Aligned_cols=143  Identities=22%  Similarity=0.210  Sum_probs=98.6

Q ss_pred             cccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH------HHHH-
Q 021660           53 ADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV------RQQI-  125 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~-  125 (309)
                      ..++|+++.+..+..++..+  .+++|.||||+|||++++.+++.+     +..++.+.+........+      .... 
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            34888889888888777776  459999999999999999999998     577778877765433322      1111 


Q ss_pred             -HH-hhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh------------cCCceEEEEec-----CCcccch
Q 021660          126 -QD-FASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY------------TKNTRFALICN-----QVNKIIP  186 (309)
Q Consensus       126 -~~-~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~------------~~~~~~i~~~~-----~~~~l~~  186 (309)
                       .. +.......+..  ...++++|||++..+..++.|+.+|++.            +....+|.++|     ..+.+++
T Consensus        97 ~~~~~~~~~gpl~~~--~~~ill~DEInra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l~e  174 (329)
T COG0714          97 EPGEFRFVPGPLFAA--VRVILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPE  174 (329)
T ss_pred             cCCeEEEecCCcccc--cceEEEEeccccCCHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCCCH
Confidence             00 00000111111  1149999999999999999999999972            12233444557     4457889


Q ss_pred             hhhcce-eEEEecCCChHH
Q 021660          187 ALQSRC-TRFRFAPLEPVH  204 (309)
Q Consensus       187 ~l~~r~-~~i~~~~~~~~~  204 (309)
                      ++.+|| ..+.+..|+..+
T Consensus       175 A~ldRf~~~~~v~yp~~~~  193 (329)
T COG0714         175 ALLDRFLLRIYVDYPDSEE  193 (329)
T ss_pred             HHHhhEEEEEecCCCCchH
Confidence            999999 777777774443

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=99.36  E-value=3.2e-11  Score=98.71  Aligned_cols=170  Identities=22%  Similarity=0.283  Sum_probs=108.8

Q ss_pred             CccccccChHHHHHHHHHHhc------------CCCC-eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC--
Q 021660           51 SLADVAAHRDIVDTIDRLTSE------------NRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~------------~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (309)
                      +++++-|.-.....+...+.-            -.+| .++||||||+|||.+++.+++.+     +++++.+.++..  
T Consensus       130 s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~m-----g~nfl~v~ss~lv~  204 (388)
T KOG0651|consen  130 SFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATM-----GVNFLKVVSSALVD  204 (388)
T ss_pred             CHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhc-----CCceEEeeHhhhhh
Confidence            788888877777777766531            1233 39999999999999999999998     777777665532  


Q ss_pred             ----cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----cCCceEE
Q 021660          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRFA  175 (309)
Q Consensus       116 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-----------~~~~~~l~~~l~~~-----~~~~~~i  175 (309)
                          .....+++.+......         .+++|++||+|.+.           ...+..|.++++..     -..+.+|
T Consensus       205 kyiGEsaRlIRemf~yA~~~---------~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~I  275 (388)
T KOG0651|consen  205 KYIGESARLIRDMFRYAREV---------IPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTI  275 (388)
T ss_pred             hhcccHHHHHHHHHHHHhhh---------CceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEE
Confidence                2223344443333322         57899999999774           23356677777743     3578899


Q ss_pred             EEecCCcccchhhhcce---eEEEecCCChHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhcC
Q 021660          176 LICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLCNG  234 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~l~~i~~~~~g  234 (309)
                      +++|+++.++++|.+..   ..+..+.|.......+++-.....  .-.++.+++-.+.+-.+|
T Consensus       276 matNrpdtLdpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~d~f~g  339 (388)
T KOG0651|consen  276 MATNRPDTLDPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLVDGFNG  339 (388)
T ss_pred             EecCCccccchhhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHHhccCh
Confidence            99999999999998754   446665555444444333222111  113554544444444443

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

Probab=99.36  E-value=1.8e-11  Score=107.07  Aligned_cols=150  Identities=19%  Similarity=0.222  Sum_probs=95.7

Q ss_pred             ccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcc--cccEEEEecCCC------------cc
Q 021660           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY--HNMILELNASDD------------RG  117 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~--~~~~~~~~~~~~------------~~  117 (309)
                      ++++++.+..++.+...+..+  .+++|+||||||||++|+.++..+.....  ....+.+.....            .+
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            567788888888888888765  56999999999999999999998854321  223333332210            00


Q ss_pred             h----HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH-HHHHHHHHHH----------------------hcC
Q 021660          118 I----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA-QFALRRVIEK----------------------YTK  170 (309)
Q Consensus       118 ~----~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~-~~~l~~~l~~----------------------~~~  170 (309)
                      .    ..+.+.+.....       ...++.+|||||+++...+. ...++.+++.                      .|.
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 FRRKDGIFYNFCQQAKE-------QPEKKYVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPE  324 (459)
T ss_pred             eEecCchHHHHHHHHHh-------cccCCcEEEEehhhccCHHHhhhhhhhhccccccccccceeeeccccccccccCCC
Confidence            0    011111111111       11146899999999988553 5666666662                      133


Q ss_pred             CceEEEEecCCc----ccchhhhcceeEEEecCC-ChHHHHHHHH
Q 021660          171 NTRFALICNQVN----KIIPALQSRCTRFRFAPL-EPVHVTERLK  210 (309)
Q Consensus       171 ~~~~i~~~~~~~----~l~~~l~~r~~~i~~~~~-~~~~~~~~l~  210 (309)
                      +..+|.|.|..+    .++.++++||..+++.|- +...+..++.
T Consensus       325 Nl~IIgTMNt~Drs~~~lD~AlrRRF~fi~i~p~~~~~~~~~~l~  369 (459)
T PRK11331        325 NVYIIGLMNTADRSLAVVDYALRRRFSFIDIEPGFDTPQFRNFLL  369 (459)
T ss_pred             CeEEEEecCccccchhhccHHHHhhhheEEecCCCChHHHHHHHH
Confidence            456677777665    578899999999998773 4445555554

>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]

Probab=99.35  E-value=9.9e-11  Score=101.63  Aligned_cols=255  Identities=18%  Similarity=0.221  Sum_probs=167.0

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHhcCCC------------CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRL------------PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~------------~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      +.+++...-..++.|+..+++.|.-++-++..            =++++.|.||+.||.|+..+.+....    ..+.. 
T Consensus       332 ~yekLa~SiAPEIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlapR----gvYTT-  406 (721)
T KOG0482|consen  332 FYEKLAASIAPEIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAPR----GVYTT-  406 (721)
T ss_pred             HHHHHHHhhchhhccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCcc----cceec-
Confidence            45665555566999999999988888754311            13999999999999999999887522    12221 


Q ss_pred             ecCCCcchHHHHHHHHHhhh------ccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCC
Q 021660          111 NASDDRGIDVVRQQIQDFAS------TQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKN  171 (309)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~  171 (309)
                       .....++..-....++-..      .....+   +..+|+.|||+|++......++.++|+..             +..
T Consensus       407 -GrGSSGVGLTAAVmkDpvTgEM~LEGGALVL---AD~GICCIDEfDKM~e~DRtAIHEVMEQQTISIaKAGI~TtLNAR  482 (721)
T KOG0482|consen  407 -GRGSSGVGLTAAVMKDPVTGEMVLEGGALVL---ADGGICCIDEFDKMDESDRTAIHEVMEQQTISIAKAGINTTLNAR  482 (721)
T ss_pred             -CCCCCccccchhhhcCCCCCeeEeccceEEE---ccCceEeehhhhhhhhhhhHHHHHHHHhhhhhhhhhccccchhhh
Confidence             1111222222222221111      111111   25779999999999998899999999963             234


Q ss_pred             ceEEEEecCCc-------------ccchhhhcceeE-------------------------------EEecCCChHHHHH
Q 021660          172 TRFALICNQVN-------------KIIPALQSRCTR-------------------------------FRFAPLEPVHVTE  207 (309)
Q Consensus       172 ~~~i~~~~~~~-------------~l~~~l~~r~~~-------------------------------i~~~~~~~~~~~~  207 (309)
                      +.++.++|..+             .++.+|++||..                               ..|.|++++-++.
T Consensus       483 ~sILaAANPayGRYnprrs~e~NI~LPaALLSRFDll~Li~D~pdrd~D~~LA~HiTyVH~H~~qp~~~fepl~~~~mR~  562 (721)
T KOG0482|consen  483 TSILAAANPAYGRYNPRRSPEQNINLPAALLSRFDLLWLIQDRPDRDNDLRLAQHITYVHQHEEQPPLDFEPLDPNLMRR  562 (721)
T ss_pred             HHhhhhcCccccccCcccChhHhcCCcHHHHHhhhhhhhhccCCcccchHHHHHHhHhhhccCCCCCccCCCCCHHHHHH
Confidence            55666665432             467888888733                               2466677777777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHh--------------cCCHHHHHHHHHHHHhh-----cCCcCHHHHHhhhC-----
Q 021660          208 RLKHVIEAEGLDVTEGGLAALVRLC--------------NGDMRKALNILQSTHMA-----SQQITEEAVYLCTG-----  263 (309)
Q Consensus       208 ~l~~~~~~~~~~~~~~~l~~i~~~~--------------~g~~r~~~~~l~~~~~~-----~~~i~~~~v~~~~~-----  263 (309)
                      ++. .+++..-.++++..++|...+              --.+|.++.+|+.....     +..++.++|.+++.     
T Consensus       563 yI~-~ak~~~P~vp~~l~dyi~~AYv~~Rrea~~~~~~t~ttpRtLL~IlRls~AlarLRls~~V~~~DV~EALRLme~s  641 (721)
T KOG0482|consen  563 YIS-LAKRKNPVVPEALADYITGAYVELRREARSSKDFTYTTPRTLLGILRLSTALARLRLSDSVEEDDVNEALRLMEMS  641 (721)
T ss_pred             HHH-HHhhcCCCCCHHHHHHHHHHHHHHHHHhhccCCCcccCHHHHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHhh
Confidence            764 466767677888777777653              13688888888654432     26788888888772     


Q ss_pred             -------------CCChHHHHHHHHHHhc-CCHH-HHHHHHHHHHHhcCCCHHHHHHHh
Q 021660          264 -------------NPLPKDIEQISYWLLN-ESFA-DSFKRISEMKMRKGLALVDIVREV  307 (309)
Q Consensus       264 -------------~~~~~~~~~~~~~~~~-~~~~-~~~~~l~~~~~~~g~~~~~~~~~l  307 (309)
                                   ....+.++.++..+.+ ++.. -.+..+.+++..+|+++.++...|
T Consensus       642 K~sL~~~~~~~~~~~~~~~if~iirel~~e~g~~~v~~s~~~~r~~~kGfs~~ql~~~i  700 (721)
T KOG0482|consen  642 KDSLYQDDGQKEDTSATDAIFAIIRELAGEGGKRCVKLSNAEQRCVRKGFSEAQLKKCI  700 (721)
T ss_pred             hcccccccccccccchHHHHHHHHHHHHhhcCCceeeHHHHHHHHHHcCCCHHHHHHHH
Confidence                         1235568888888876 3322 356666666669999999987765

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.34  E-value=3.7e-11  Score=98.83  Aligned_cols=160  Identities=24%  Similarity=0.320  Sum_probs=105.1

Q ss_pred             ccccccChHHHHHHHHHHhc-------CCC-------CeEEEECCCCCcHHHHHHHHHHHHc----cCcccccEEEEecC
Q 021660           52 LADVAAHRDIVDTIDRLTSE-------NRL-------PHLLLYGPPGTGKTSTILAVARKLY----GAQYHNMILELNAS  113 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~-------~~~-------~~~ll~G~~G~GKT~l~~~l~~~~~----~~~~~~~~~~~~~~  113 (309)
                      |+.++-....++.+..+...       +..       ..++++||||||||+|.+++|+.+.    ...+....+++++.
T Consensus       141 WEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinsh  220 (423)
T KOG0744|consen  141 WESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSH  220 (423)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehh
Confidence            45566666677766666431       111       1289999999999999999999983    23345567788776


Q ss_pred             CCc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH---------------HHHHHHHHHHHhcC--
Q 021660          114 DDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD---------------AQFALRRVIEKYTK--  170 (309)
Q Consensus       114 ~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~---------------~~~~l~~~l~~~~~--  170 (309)
                      ...      +...+...+++..+.    ......-.+++|||++.+...               ..+.++.-++....  
T Consensus       221 sLFSKWFsESgKlV~kmF~kI~EL----v~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~  296 (423)
T KOG0744|consen  221 SLFSKWFSESGKLVAKMFQKIQEL----VEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYP  296 (423)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHH----HhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCC
Confidence            431      222222233322221    111123567999999987421               25778888887654  


Q ss_pred             CceEEEEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHH
Q 021660          171 NTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA  215 (309)
Q Consensus       171 ~~~~i~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~  215 (309)
                      ++.++.++|-.+.++.++..|. .+..+.+|+...+.++++..+.+
T Consensus       297 NvliL~TSNl~~siD~AfVDRADi~~yVG~Pt~~ai~~IlkscieE  342 (423)
T KOG0744|consen  297 NVLILATSNLTDSIDVAFVDRADIVFYVGPPTAEAIYEILKSCIEE  342 (423)
T ss_pred             CEEEEeccchHHHHHHHhhhHhhheeecCCccHHHHHHHHHHHHHH
Confidence            3334445577889999999999 67788899999999988876653

>PHA02244 ATPase-like protein

Probab=99.34  E-value=4.4e-11  Score=102.02  Aligned_cols=129  Identities=23%  Similarity=0.238  Sum_probs=84.9

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHH--hhhccccccCCCCc
Q 021660           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD--FASTQSFSFGVKAS  141 (309)
Q Consensus        64 ~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~  141 (309)
                      .+.+++..+.  +++|+||+|||||++|+++++.+     +..++.++.....  ..+...+..  .....+. .....+
T Consensus       111 ri~r~l~~~~--PVLL~GppGtGKTtLA~aLA~~l-----g~pfv~In~l~d~--~~L~G~i~~~g~~~dgpL-l~A~~~  180 (383)
T PHA02244        111 DIAKIVNANI--PVFLKGGAGSGKNHIAEQIAEAL-----DLDFYFMNAIMDE--FELKGFIDANGKFHETPF-YEAFKK  180 (383)
T ss_pred             HHHHHHhcCC--CEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEecChHH--HhhcccccccccccchHH-HHHhhc
Confidence            5555665553  49999999999999999999997     4455555532100  000000000  0000000 001125


Q ss_pred             cEEEEEeCCCCCCHHHHHHHHHHHHH-----------hcCCceEEEEecCC-----------cccchhhhcceeEEEecC
Q 021660          142 VKLVLLDEADAMTKDAQFALRRVIEK-----------YTKNTRFALICNQV-----------NKIIPALQSRCTRFRFAP  199 (309)
Q Consensus       142 ~~lliiDe~~~l~~~~~~~l~~~l~~-----------~~~~~~~i~~~~~~-----------~~l~~~l~~r~~~i~~~~  199 (309)
                      +.+|+|||++.+.++.+..|..+++.           .+++.++|+++|..           ..+.+++.+||..++|.-
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            78999999999999999999999873           23577888888862           466889999999999988


Q ss_pred             CCh
Q 021660          200 LEP  202 (309)
Q Consensus       200 ~~~  202 (309)
                      |+.
T Consensus       261 p~~  263 (383)
T PHA02244        261 DEK  263 (383)
T ss_pred             CcH
Confidence            774

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.34  E-value=2.5e-11  Score=105.07  Aligned_cols=108  Identities=20%  Similarity=0.340  Sum_probs=75.8

Q ss_pred             ccEEEEEeCCCCCCHH------------HHHHHHHHHHHhc----------CCceEEEEe----cCCcccchhhhcce-e
Q 021660          141 SVKLVLLDEADAMTKD------------AQFALRRVIEKYT----------KNTRFALIC----NQVNKIIPALQSRC-T  193 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~------------~~~~l~~~l~~~~----------~~~~~i~~~----~~~~~l~~~l~~r~-~  193 (309)
                      +.++|+|||+|++...            .|..|+++++...          .+..||+++    ..+..+.|.|..|+ .
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            6779999999998632            4778999998532          122233332    23456788999999 8


Q ss_pred             EEEecCCChHHHHHHHH-----------HHHHHcCC--CCCHHHHHHHHHHhc--------CCHHHHHHHHHHHHh
Q 021660          194 RFRFAPLEPVHVTERLK-----------HVIEAEGL--DVTEGGLAALVRLCN--------GDMRKALNILQSTHM  248 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~-----------~~~~~~~~--~~~~~~l~~i~~~~~--------g~~r~~~~~l~~~~~  248 (309)
                      ++.+.+++.+++..+|.           ..++.+|+  .++++++..||+.+.        --.|.+...++.+..
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            89999999999988872           22234454  578999999999863        236666666666553

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.

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.34  E-value=9.3e-11  Score=106.09  Aligned_cols=205  Identities=18%  Similarity=0.182  Sum_probs=134.6

Q ss_pred             CccccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           51 SLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      .+..++|....+..+...+...  ...+++|+|++|+||+++|+.+......  ....++.++|..... ..+.+.+...
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            4556888888877777766532  2234999999999999999999876522  234578888876432 2222222111


Q ss_pred             hhcc-------ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cc
Q 021660          129 ASTQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NK  183 (309)
Q Consensus       129 ~~~~-------~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~-------~~  183 (309)
                      ....       ....-..++++.|+|||++.++...+..|+.+++...           .++++|++++..       ..
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            1000       0001112467899999999999999999999998532           245777777543       23


Q ss_pred             cchhhhcce--eEEEecCCCh--HHHHHHHHHHH----HHcC---CCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc-
Q 021660          184 IIPALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS-  250 (309)
Q Consensus       184 l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~----~~~~---~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~-  250 (309)
                      ..+.|..|+  ..+.++|+..  +++..++...+    .+.+   ..+++++++.+.++. +||+|.+.+.++.++..+ 
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            345566665  4566666653  34444444433    3334   358999999999875 899999999999888654 


Q ss_pred             -CCcCHHHH
Q 021660          251 -QQITEEAV  258 (309)
Q Consensus       251 -~~i~~~~v  258 (309)
                       ..|+.+++
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).

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=99.33  E-value=4.2e-11  Score=113.23  Aligned_cols=190  Identities=17%  Similarity=0.175  Sum_probs=136.4

Q ss_pred             CCccccccChHHHHHHHHHHhc------------CCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc
Q 021660           50 QSLADVAAHRDIVDTIDRLTSE------------NRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~------------~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (309)
                      ..|+++-|-..++..+++.+-.            -.+|. +||+||||+|||..|++++..+......+.+......+-.
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            3688899999999888887631            12333 9999999999999999999998655555544443333211


Q ss_pred             --chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH-----------HHHHHHHHHHHhcCCce--EEEEecCC
Q 021660          117 --GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKYTKNTR--FALICNQV  181 (309)
Q Consensus       117 --~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~-----------~~~~l~~~l~~~~~~~~--~i~~~~~~  181 (309)
                        .+......+..+.+...     +..+.|+++||+|.+.+-           ....|+.+|+..+..+.  +|.+||.+
T Consensus       342 skwvgEaERqlrllFeeA~-----k~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigATnRp  416 (1080)
T KOG0732|consen  342 SKWVGEAERQLRLLFEEAQ-----KTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATNRP  416 (1080)
T ss_pred             ccccCcHHHHHHHHHHHHh-----ccCceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcccCCc
Confidence              12222233333222211     127899999999977531           23568888887776554  44556999


Q ss_pred             cccchhhhcc--e-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          182 NKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       182 ~~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      +.++++++++  | ..+.|+-|+.+...+++.-+-....-.+....+..+++.+.|-.+.-+..|-
T Consensus       417 da~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLC  482 (1080)
T KOG0732|consen  417 DAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALC  482 (1080)
T ss_pred             cccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHH
Confidence            9999999775  5 7789999999999999988777777789999999999999988887766663

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.33  E-value=3.9e-10  Score=102.72  Aligned_cols=206  Identities=20%  Similarity=0.230  Sum_probs=135.1

Q ss_pred             CccccccChHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           51 SLADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      .+.+++|....+..+...+....  ...++|+|++|+||+++|+.+.....  .....++.++|..... ..+...+...
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s~--~~~~~~i~i~c~~~~~-~~~~~~lfg~  212 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSP--RAKAPFIALNMAAIPK-DLIESELFGH  212 (469)
T ss_pred             ccccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcCC--CCCCCeEeeeCCCCCH-HHHHHHhcCC
Confidence            35678898877777666654322  23399999999999999999888642  2345788888876422 2222222111


Q ss_pred             hhcc-------ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cc
Q 021660          129 ASTQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NK  183 (309)
Q Consensus       129 ~~~~-------~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~-------~~  183 (309)
                      ....       ....-..+.++.|+|||++.++...+..|+.++++..           .++++|++++..       ..
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            0000       0000112346789999999999999999999998632           234777777543       23


Q ss_pred             cchhhhcce--eEEEecCCCh--HHHHHHHHHHHH----HcCC---CCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc-
Q 021660          184 IIPALQSRC--TRFRFAPLEP--VHVTERLKHVIE----AEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS-  250 (309)
Q Consensus       184 l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~~----~~~~---~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~-  250 (309)
                      ..+.+..|+  ..|.++|+..  +++..++...++    +.+.   .+++++++.+.++. +||+|.+.+.++.+...+ 
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            446677776  5566666653  455555555443    3333   47999999999874 899999999999888654 


Q ss_pred             -CCcCHHHHH
Q 021660          251 -QQITEEAVY  259 (309)
Q Consensus       251 -~~i~~~~v~  259 (309)
                       ..|+.+++.
T Consensus       373 ~~~i~~~~l~  382 (469)
T PRK10923        373 GQEVLIQDLP  382 (469)
T ss_pred             CCcccHHHCc
Confidence             457766653

>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=99.33  E-value=1.3e-12  Score=98.81  Aligned_cols=112  Identities=24%  Similarity=0.309  Sum_probs=72.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhh----ccccccCCCCccEEEEEeCCC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS----TQSFSFGVKASVKLVLLDEAD  151 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~lliiDe~~  151 (309)
                      +++|+||||+|||++++.+++.+     ...+..+..........+.........    ..........++.+++|||++
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            38999999999999999999998     666666666665444333221110000    000000111268899999999


Q ss_pred             CCCHHHHHHHHHHHHHhc-------------C------CceEEEEecCCc----ccchhhhcce
Q 021660          152 AMTKDAQFALRRVIEKYT-------------K------NTRFALICNQVN----KIIPALQSRC  192 (309)
Q Consensus       152 ~l~~~~~~~l~~~l~~~~-------------~------~~~~i~~~~~~~----~l~~~l~~r~  192 (309)
                      ...++..+.|..+++...             .      +..+|+++|...    .+.+++.+||
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      267778888777    7788888886

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.

>PRK08485 DNA polymerase III subunit delta'; Validated

Probab=99.32  E-value=3.5e-11  Score=93.23  Aligned_cols=135  Identities=19%  Similarity=0.222  Sum_probs=111.1

Q ss_pred             cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          104 HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      +...+.+-..+..+++.++..+........       ..+ ++|++++.+..++.++|++.+++||.++.||++|+....
T Consensus        25 ~~~~~~~f~~~~i~Vd~iReii~~~~~~~~-------~~k-~iI~~a~~l~~~A~NaLLK~LEEPp~~~~fiL~t~~~~~   96 (206)
T PRK08485         25 GKKNLRFFIKEEFKIEDAKEVIAEAYIAES-------EEK-IIVIAAPSYGIEAQNALLKILEEPPKNICFIIVAKSKNL   96 (206)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHhhCCC-------CcE-EEEEchHhhCHHHHHHHHHHhcCCCCCeEEEEEeCChHh
Confidence            444444444546788888887777654322       234 467899999999999999999999999999999999999


Q ss_pred             cchhhhcceeE-------------EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          184 IIPALQSRCTR-------------FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (309)
Q Consensus       184 l~~~l~~r~~~-------------i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~  247 (309)
                      +++++++||+.             +.+.+++.+++.++++. +.++++...+++++.|++.+.|.+|.++.+.+...
T Consensus        97 llpTI~SRc~~~~~~~~~~~~~l~l~l~~l~~~~i~~~L~~-~~ke~~~~~~ea~~lIa~la~~s~r~~l~l~~q~l  172 (206)
T PRK08485         97 LLPTIRSRLIIEKRKQKKPVKPLDLDLKKLDLKDIYEFLKE-LEKENKLSKEELKELIESLLKECVKYKIPLNEEEL  172 (206)
T ss_pred             CchHHHhhheeccccccccccccccccCCCCHHHHHHHHHH-HHHcccccHHHHHHHHHHHHHHHHHHHcCccHHHH
Confidence            99999999975             77899999999999998 78888888999999999999999998877665443

>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=99.32  E-value=8.7e-11  Score=100.04  Aligned_cols=185  Identities=15%  Similarity=0.152  Sum_probs=106.3

Q ss_pred             ChHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHH--HccCcccccEEEEecCCCcchHHHHHHHHHhhhccc
Q 021660           58 HRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARK--LYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS  133 (309)
Q Consensus        58 ~~~~~~~l~~~~~~--~~~~~~ll~G~~G~GKT~l~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  133 (309)
                      ++..++.+...+..  .....+.|+|++|+|||++|..+++.  .........++.+..... ........+..+.....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~-~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPS-LEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SC-CHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccc-ccccccccccccccccc
Confidence            35667788888877  33444999999999999999999988  322222233444443322 12222332323222211


Q ss_pred             cc--cC------------CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecC
Q 021660          134 FS--FG------------VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP  199 (309)
Q Consensus       134 ~~--~~------------~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~  199 (309)
                      ..  ..            -...+.+|||||++...  ....+...+.....++.+|+||+.. .+..........+++.+
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~kilvTTR~~-~v~~~~~~~~~~~~l~~  156 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEE--DLEELREPLPSFSSGSKILVTTRDR-SVAGSLGGTDKVIELEP  156 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHH--HH-------HCHHSS-EEEEEESCG-GGGTTHHSCEEEEECSS
T ss_pred             ccccccccccccccchhhhccccceeeeeeecccc--ccccccccccccccccccccccccc-ccccccccccccccccc
Confidence            00  00            01258899999987543  3444555555455577888887654 33333333367899999


Q ss_pred             CChHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHhcCCHHHHHHHHHHH
Q 021660          200 LEPVHVTERLKHVIEAEG---LDVTEGGLAALVRLCNGDMRKALNILQST  246 (309)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~---~~~~~~~l~~i~~~~~g~~r~~~~~l~~~  246 (309)
                      ++.++..+++.+.+....   ..-.++....|++.++|.|-.+.-+...+
T Consensus       157 L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l  206 (287)
T PF00931_consen  157 LSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYL  206 (287)
T ss_dssp             --HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999999998875443   12235677899999999887666655544

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.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.32  E-value=3.3e-11  Score=104.32  Aligned_cols=108  Identities=19%  Similarity=0.322  Sum_probs=75.8

Q ss_pred             ccEEEEEeCCCCCCHH------------HHHHHHHHHHHhc----------CCceEEEEe----cCCcccchhhhcce-e
Q 021660          141 SVKLVLLDEADAMTKD------------AQFALRRVIEKYT----------KNTRFALIC----NQVNKIIPALQSRC-T  193 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~------------~~~~l~~~l~~~~----------~~~~~i~~~----~~~~~l~~~l~~r~-~  193 (309)
                      +.++|+|||+|++...            .|..|+++++...          .+..||+++    ..+..+.|.|..|+ .
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            6779999999999632            4678999998532          122233322    23456789999999 8


Q ss_pred             EEEecCCChHHHHHHHHH----H-------HHHcCC--CCCHHHHHHHHHHhc--------CCHHHHHHHHHHHHh
Q 021660          194 RFRFAPLEPVHVTERLKH----V-------IEAEGL--DVTEGGLAALVRLCN--------GDMRKALNILQSTHM  248 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~----~-------~~~~~~--~~~~~~l~~i~~~~~--------g~~r~~~~~l~~~~~  248 (309)
                      ++.+.+++.+++..+|..    .       ++.+|+  .++++++..||+.+.        --.|.+...++.+..
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            899999999999888732    2       333455  578999999999863        236666666666553

>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=99.30  E-value=1.5e-11  Score=96.73  Aligned_cols=126  Identities=20%  Similarity=0.179  Sum_probs=73.8

Q ss_pred             ccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCccc--ccEEE-------------EecCCCc
Q 021660           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILE-------------LNASDDR  116 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~--~~~~~-------------~~~~~~~  116 (309)
                      |.+++||+..+..+.-+..++  .+++|+||||+|||++|+.+...+..-...  ..+..             +......
T Consensus         2 f~dI~GQe~aKrAL~iAAaG~--h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~~~~~~~~~~~~Pfr   79 (206)
T PF01078_consen    2 FSDIVGQEEAKRALEIAAAGG--HHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAGLGPDEGLIRQRPFR   79 (206)
T ss_dssp             TCCSSSTHHHHHHHHHHHHCC----EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT---S---EEEE---EE
T ss_pred             hhhhcCcHHHHHHHHHHHcCC--CCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhccccccccCCCCCceecCCCcc
Confidence            789999999999999998875  579999999999999999998876321100  00000             0000000


Q ss_pred             ---chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceEEEEecC
Q 021660          117 ---GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQ  180 (309)
Q Consensus       117 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~~~~  180 (309)
                         ........+..-. ...+..-..++++||++||+..+.+...+.|...++.-             |.+..+|.+.|.
T Consensus        80 ~phhs~s~~~liGgg~-~~~PGeislAh~GVLflDE~~ef~~~vld~Lr~ple~g~v~i~R~~~~~~~Pa~f~lv~a~NP  158 (206)
T PF01078_consen   80 APHHSASEAALIGGGR-PPRPGEISLAHRGVLFLDELNEFDRSVLDALRQPLEDGEVTISRAGGSVTYPARFLLVAAMNP  158 (206)
T ss_dssp             EE-TT--HHHHHEEGG-GEEE-CGGGGTTSEEEECETTTS-HHHHHHHHHHHHHSBEEEEETTEEEEEB--EEEEEEE-S
T ss_pred             cCCCCcCHHHHhCCCc-CCCcCHHHHhcCCEEEechhhhcCHHHHHHHHHHHHCCeEEEEECCceEEEecccEEEEEecc
Confidence               0011112222211 11111123357889999999999999999999999963             345556666653

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.

>PRK15115 response regulator GlrR; Provisional

Probab=99.30  E-value=7.1e-10  Score=100.33  Aligned_cols=206  Identities=14%  Similarity=0.167  Sum_probs=129.4

Q ss_pred             ccccChHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhc
Q 021660           54 DVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (309)
                      .++|....+..+...+..  .....++++|++|+||+++|+.+.+....  ....++.++|..... ..+...+......
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s~r--~~~~f~~i~c~~~~~-~~~~~~lfg~~~~  211 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPR--ASKPFIAINCGALPE-QLLESELFGHARG  211 (444)
T ss_pred             cccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhcCC--CCCCeEEEeCCCCCH-HHHHHHhcCCCcC
Confidence            466766655544443322  12234999999999999999999886522  345788888876422 2222222111100


Q ss_pred             c-------ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------ccch
Q 021660          132 Q-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KIIP  186 (309)
Q Consensus       132 ~-------~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~-------~l~~  186 (309)
                      .       .......+.++.|+|||++.++...+..|+.+++...           .++++|++++...       .+.+
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       0001112356799999999999999999999998632           1456777665321       2334


Q ss_pred             hhhcce--eEEEecCCCh--HHHHHHHHHHHHH----cC---CCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc--CC
Q 021660          187 ALQSRC--TRFRFAPLEP--VHVTERLKHVIEA----EG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQ  252 (309)
Q Consensus       187 ~l~~r~--~~i~~~~~~~--~~~~~~l~~~~~~----~~---~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~--~~  252 (309)
                      .+..++  ..+.++|+..  +++..++...+++    .+   ..+++++++.+..+. +||+|.+.+.++.++..+  ..
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            455555  3455655543  4555454444433    33   248999999999987 999999999999887654  45


Q ss_pred             cCHHHHHhhh
Q 021660          253 ITEEAVYLCT  262 (309)
Q Consensus       253 i~~~~v~~~~  262 (309)
                      |+.+++...+
T Consensus       372 i~~~~l~~~~  381 (444)
T PRK15115        372 ISDALVEQAL  381 (444)
T ss_pred             cChhhhhhhh
Confidence            7777765433

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.28  E-value=2.1e-10  Score=106.11  Aligned_cols=190  Identities=16%  Similarity=0.138  Sum_probs=117.0

Q ss_pred             hcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec--CCCc--chHHHHHHHHHhhhccccccCCCCccEEE
Q 021660           70 SENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA--SDDR--GIDVVRQQIQDFASTQSFSFGVKASVKLV  145 (309)
Q Consensus        70 ~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  145 (309)
                      -+....+++|.|++|+|||++++.+++.+..   ...|+.+..  ....  +.-.+...+..-........-.++++.+|
T Consensus        12 v~p~~g~vLl~G~~GtgKs~lar~l~~~~~~---~~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~A~~GvL   88 (589)
T TIGR02031        12 VDPSLGGVAIRARAGTGKTALARALAEILPP---IMPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLDEAPRGVL   88 (589)
T ss_pred             cCCCcceEEEEcCCCcHHHHHHHHHHHhCCc---CCCeEecCcccchhhcccchhhhhhhhcCcccCCCCCeeeCCCCcE
Confidence            3444677999999999999999999998732   123444442  1111  11111111110000000001112367899


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHHhc-------------CCceEEEEecCCc---ccchhhhcce-eEEEecC-CChHHHHH
Q 021660          146 LLDEADAMTKDAQFALRRVIEKYT-------------KNTRFALICNQVN---KIIPALQSRC-TRFRFAP-LEPVHVTE  207 (309)
Q Consensus       146 iiDe~~~l~~~~~~~l~~~l~~~~-------------~~~~~i~~~~~~~---~l~~~l~~r~-~~i~~~~-~~~~~~~~  207 (309)
                      +|||++.+++..+..|+.+|++..             ..+.+|.++|...   .+.+++..|| ..+.+.. ++.++..+
T Consensus        89 ~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~LldRf~l~v~~~~~~~~~er~e  168 (589)
T TIGR02031        89 YVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLDRLALHVSLEDVASQDLRVE  168 (589)
T ss_pred             eccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHHhccCeeecCCCCCHHHHHH
Confidence            999999999999999999998532             3456666666544   6888999998 4444443 44455556


Q ss_pred             HHHHHHH-----------------------HcCCCCCHHHHHHHHHHh---c-CCHHHHHHHHHHHHhhc-----CCcCH
Q 021660          208 RLKHVIE-----------------------AEGLDVTEGGLAALVRLC---N-GDMRKALNILQSTHMAS-----QQITE  255 (309)
Q Consensus       208 ~l~~~~~-----------------------~~~~~~~~~~l~~i~~~~---~-g~~r~~~~~l~~~~~~~-----~~i~~  255 (309)
                      ++++...                       ...+.++++.+++|++.+   + ..+|..+.+++.+...+     ..++.
T Consensus       169 il~~~~~~~~~~~~~~~~~~~~~i~~ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~  248 (589)
T TIGR02031       169 IVRRERCNEVFRMNDELELLRGQIEAARELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTE  248 (589)
T ss_pred             HHHHHHHhhhhhcchhhHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCH
Confidence            5554331                       124678898888888876   2 23677777665443322     57999


Q ss_pred             HHHHhhh
Q 021660          256 EAVYLCT  262 (309)
Q Consensus       256 ~~v~~~~  262 (309)
                      +++..++
T Consensus       249 ~Dv~~a~  255 (589)
T TIGR02031       249 EDLKLAV  255 (589)
T ss_pred             HHHHHHH
Confidence            9988776

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.

>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=99.27  E-value=1.7e-11  Score=88.35  Aligned_cols=110  Identities=25%  Similarity=0.223  Sum_probs=59.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhc--cccccC-CCCccEEEEEeCCCC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST--QSFSFG-VKASVKLVLLDEADA  152 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~-~~~~~~lliiDe~~~  152 (309)
                      |+||+|+||+|||++++.+++.+     +..+..+..+......++...  .....  ....+. .-.-..++++||+++
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~-----~~~f~RIq~tpdllPsDi~G~--~v~~~~~~~f~~~~GPif~~ill~DEiNr   73 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSL-----GLSFKRIQFTPDLLPSDILGF--PVYDQETGEFEFRPGPIFTNILLADEINR   73 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHT-----T--EEEEE--TT--HHHHHEE--EEEETTTTEEEEEE-TT-SSEEEEETGGG
T ss_pred             CEeeECCCccHHHHHHHHHHHHc-----CCceeEEEecCCCCcccceee--eeeccCCCeeEeecChhhhceeeeccccc
Confidence            58999999999999999999998     555666655543332222211  00000  000000 001235999999999


Q ss_pred             CCHHHHHHHHHHHHHh-----------cCCceEEEEecCCc-----ccchhhhcce
Q 021660          153 MTKDAQFALRRVIEKY-----------TKNTRFALICNQVN-----KIIPALQSRC  192 (309)
Q Consensus       153 l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~~~~-----~l~~~l~~r~  192 (309)
                      .++..+..|+++|++.           +....+|.+.|..+     .+++++.+||
T Consensus        74 appktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~DRF  129 (131)
T PF07726_consen   74 APPKTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLDRF  129 (131)
T ss_dssp             S-HHHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHTTS
T ss_pred             CCHHHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhccc
Confidence            9999999999999973           22234444556543     6778888887

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.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.27  E-value=3.6e-10  Score=104.65  Aligned_cols=126  Identities=17%  Similarity=0.179  Sum_probs=86.6

Q ss_pred             CccEEEEEeCCCCCCHHHHHHHHHHHHHhc---------------------CCceEEEEecCC--cccchhhhccee---
Q 021660          140 ASVKLVLLDEADAMTKDAQFALRRVIEKYT---------------------KNTRFALICNQV--NKIIPALQSRCT---  193 (309)
Q Consensus       140 ~~~~lliiDe~~~l~~~~~~~l~~~l~~~~---------------------~~~~~i~~~~~~--~~l~~~l~~r~~---  193 (309)
                      +++++|+|||++.+++..+..|+++|+...                     -+.++|++++..  ..+.+.+.+||.   
T Consensus       216 AngGtL~Ldei~~L~~~~q~~Ll~~L~~~~i~~~g~~e~~~~~~~~~~~ip~dvrvIa~~~~~~l~~l~~~l~~rf~~y~  295 (608)
T TIGR00764       216 AHKGVLYIDEIKTMPLEVQQYLLTALQDKKFPITGQSENSSGAMVRTEPVPCDFILVASGNLDDLEGMHPALRSRIRGYG  295 (608)
T ss_pred             CCCCEEEEEChHhCCHHHHHHHHHHHHhCcEEecCccccccccccCCCCCccceEEEEECCHHHHhhcCHHHHHHhcCCe
Confidence            456799999999999999999999997521                     134567777643  467888988885   


Q ss_pred             E-EEecC---CChHH---HHHHHHHHHHHcC--CCCCHHHHHHHHHHhc----------CCHHHHHHHHHHHHhhc----
Q 021660          194 R-FRFAP---LEPVH---VTERLKHVIEAEG--LDVTEGGLAALVRLCN----------GDMRKALNILQSTHMAS----  250 (309)
Q Consensus       194 ~-i~~~~---~~~~~---~~~~l~~~~~~~~--~~~~~~~l~~i~~~~~----------g~~r~~~~~l~~~~~~~----  250 (309)
                      + +.|..   .+.+.   +..++.+.+++.|  ..+++++++.+.+.+.          .+.|.+-++++.+...+    
T Consensus       296 v~v~~~~~~~~~~e~~~~~~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~  375 (608)
T TIGR00764       296 YEVYMKDTMPDTPENRDKLVQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSG  375 (608)
T ss_pred             EEEEeeccCCCCHHHHHHHHHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcC
Confidence            2 34422   23333   3455666666653  3589999999986542          35888888887764322    


Q ss_pred             -CCcCHHHHHhhhCCC
Q 021660          251 -QQITEEAVYLCTGNP  265 (309)
Q Consensus       251 -~~i~~~~v~~~~~~~  265 (309)
                       ..|+.++|.+++...
T Consensus       376 ~~~I~~ehV~~Ai~~~  391 (608)
T TIGR00764       376 KVYVTAEHVLKAKKLA  391 (608)
T ss_pred             CceecHHHHHHHHHHH
Confidence             468888888776544

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>smart00350 MCM minichromosome maintenance proteins

Probab=99.27  E-value=1.3e-10  Score=106.02  Aligned_cols=156  Identities=22%  Similarity=0.271  Sum_probs=97.2

Q ss_pred             ccccccChHHHHHHHHHHhcCCC------------CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch-
Q 021660           52 LADVAAHRDIVDTIDRLTSENRL------------PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI-  118 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~~------------~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-  118 (309)
                      ...+.|++.++..+.-.+.++..            .++||+|+||+|||++++.+++.....    .+.........+. 
T Consensus       202 ~p~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~----~~~~~~~~~~~~l~  277 (509)
T smart00350      202 APSIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRA----VYTTGKGSSAVGLT  277 (509)
T ss_pred             CccccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcc----eEcCCCCCCcCCcc
Confidence            34678888887777766655421            169999999999999999999876321    1211100010000 


Q ss_pred             -HHHHHHHH-Hh-hhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceEEEEecCCc
Q 021660          119 -DVVRQQIQ-DF-ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQVN  182 (309)
Q Consensus       119 -~~~~~~~~-~~-~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~~~~~~  182 (309)
                       ..+..... .+ .+....   ..++.++++|||++.+.+..+..|+++|+..             +..+.+|.++|...
T Consensus       278 ~~~~~~~~~g~~~~~~G~l---~~A~~Gil~iDEi~~l~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~  354 (509)
T smart00350      278 AAVTRDPETREFTLEGGAL---VLADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIG  354 (509)
T ss_pred             ccceEccCcceEEecCccE---EecCCCEEEEechhhCCHHHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCC
Confidence             00000000 00 000000   1235789999999999999999999999853             24567788887542


Q ss_pred             -------------ccchhhhcce-eE-EEecCCChHHHHHHHHHHHH
Q 021660          183 -------------KIIPALQSRC-TR-FRFAPLEPVHVTERLKHVIE  214 (309)
Q Consensus       183 -------------~l~~~l~~r~-~~-i~~~~~~~~~~~~~l~~~~~  214 (309)
                                   .+++++.+|| .. +-...++.+.-.+++++.+.
T Consensus       355 g~y~~~~~~~~n~~l~~~lLsRFdLi~~~~d~~~~~~d~~i~~~i~~  401 (509)
T smart00350      355 GRYDPKLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVVD  401 (509)
T ss_pred             cccCCCcChhhccCCChHHhCceeeEEEecCCCChHHHHHHHHHHHH
Confidence                         5788999999 43 34456666666666666543

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.27  E-value=9.9e-10  Score=99.24  Aligned_cols=207  Identities=16%  Similarity=0.179  Sum_probs=132.0

Q ss_pred             cccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc--hHHHHHHHHHh
Q 021660           53 ADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--IDVVRQQIQDF  128 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~  128 (309)
                      .+++--+.+++...+..-..  +.++++|+||+|+|||.|++++++++. .....++..++|....+  .+.+...+...
T Consensus       408 ~d~i~~~s~kke~~n~~~spv~~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~v  486 (952)
T KOG0735|consen  408 HDFIQVPSYKKENANQELSPVFRHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNNV  486 (952)
T ss_pred             CceeecchhhhhhhhhhcccccccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHHH
Confidence            55666666665555433222  345699999999999999999999986 44455666677765433  33333333332


Q ss_pred             hhccccccCCCCccEEEEEeCCCCCCHH----------H----HHHHHHHHHHh---cCCceEEEEecCCcccchhhhcc
Q 021660          129 ASTQSFSFGVKASVKLVLLDEADAMTKD----------A----QFALRRVIEKY---TKNTRFALICNQVNKIIPALQSR  191 (309)
Q Consensus       129 ~~~~~~~~~~~~~~~lliiDe~~~l~~~----------~----~~~l~~~l~~~---~~~~~~i~~~~~~~~l~~~l~~r  191 (309)
                      .....     ...+.+|++||+|.+...          .    ...|.+++...   .....+|+++.....+.+.|.+.
T Consensus       487 fse~~-----~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~  561 (952)
T KOG0735|consen  487 FSEAL-----WYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSP  561 (952)
T ss_pred             HHHHH-----hhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCc
Confidence            21111     116899999999988531          1    12233333332   22335666667777777776553


Q ss_pred             --e-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCH-HHHHHHHHHHHhh---------cCCcCHHHH
Q 021660          192 --C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDM-RKALNILQSTHMA---------SQQITEEAV  258 (309)
Q Consensus       192 --~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~-r~~~~~l~~~~~~---------~~~i~~~~v  258 (309)
                        | .++.+++|...+..++|+..++........+.++.++..++|.. ..+.-..+++...         .+.+|.+++
T Consensus       562 ~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~~~~~~~dLd~ls~~TEGy~~~DL~ifVeRai~~a~leris~~~klltke~f  641 (952)
T KOG0735|consen  562 LLFQIVIALPAPAVTRRKEILTTIFSKNLSDITMDDLDFLSVKTEGYLATDLVIFVERAIHEAFLERISNGPKLLTKELF  641 (952)
T ss_pred             cceEEEEecCCcchhHHHHHHHHHHHhhhhhhhhHHHHHHHHhcCCccchhHHHHHHHHHHHHHHHHhccCcccchHHHH
Confidence              4 66889999999999999999988877778888999999998843 3333333333322         235677777


Q ss_pred             HhhhCCC
Q 021660          259 YLCTGNP  265 (309)
Q Consensus       259 ~~~~~~~  265 (309)
                      .+.+...
T Consensus       642 ~ksL~~F  648 (952)
T KOG0735|consen  642 EKSLKDF  648 (952)
T ss_pred             HHHHHhc
Confidence            6666543

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.27  E-value=1.2e-09  Score=99.33  Aligned_cols=205  Identities=16%  Similarity=0.200  Sum_probs=129.3

Q ss_pred             ccccccChHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhh
Q 021660           52 LADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (309)
                      +..++|....+..+...+....  ..+++++|++|+||+++++.+.....  .....++.++|..... ..+...+....
T Consensus       142 ~~~ii~~S~~~~~~~~~~~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~--~~~~~~~~i~c~~~~~-~~~~~~lfg~~  218 (457)
T PRK11361        142 WGHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSR--RAKGPFIKVNCAALPE-SLLESELFGHE  218 (457)
T ss_pred             ccceecccHHHhHHHHHHHHHcCCCcEEEEEcCCCccHHHHHHHHHHhCC--CCCCCeEEEECCCCCH-HHHHHHhcCCC
Confidence            3457777666665555543321  23499999999999999999977642  2345678888876432 22222221100


Q ss_pred             hcc-------ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------cc
Q 021660          130 STQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KI  184 (309)
Q Consensus       130 ~~~-------~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~-------~l  184 (309)
                      ...       ....-..+++++|+|||++.++...+..|+.++++..           .++++|++++...       ..
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       0001112356799999999999999999999998532           2457777776431       23


Q ss_pred             chhhhcce--eEEEecCCC--hHHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc--
Q 021660          185 IPALQSRC--TRFRFAPLE--PVHVTERLKHVIE----AEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--  250 (309)
Q Consensus       185 ~~~l~~r~--~~i~~~~~~--~~~~~~~l~~~~~----~~~---~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~--  250 (309)
                      .+.+..++  ..+.++|+.  .+++..++...+.    +.+   ..+++++++.+..+. +||+|.+.+.++.+...+  
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            34555555  445566665  2445444433333    223   358999999999875 899999999999887654  


Q ss_pred             CCcCHHHHH
Q 021660          251 QQITEEAVY  259 (309)
Q Consensus       251 ~~i~~~~v~  259 (309)
                      ..|+.+++.
T Consensus       379 ~~i~~~~l~  387 (457)
T PRK11361        379 PIIFSEDLP  387 (457)
T ss_pred             CcccHHHCh
Confidence            357766654

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=99.23  E-value=7.8e-10  Score=102.18  Aligned_cols=123  Identities=15%  Similarity=0.196  Sum_probs=83.1

Q ss_pred             CccEEEEEeCCCCCCHHHHHHHHHHHHHhc---------------------CCceEEEEecCC--cccchhhhccee---
Q 021660          140 ASVKLVLLDEADAMTKDAQFALRRVIEKYT---------------------KNTRFALICNQV--NKIIPALQSRCT---  193 (309)
Q Consensus       140 ~~~~lliiDe~~~l~~~~~~~l~~~l~~~~---------------------~~~~~i~~~~~~--~~l~~~l~~r~~---  193 (309)
                      +++++|+|||++.+++..+..|+++|+...                     -+.++|++++..  ..+.+.|..|+.   
T Consensus       225 AnGGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~g~~e~~~~~~~~~~~ip~dvrvI~a~~~~ll~~~dpdL~~rfk~~~  304 (637)
T PRK13765        225 AHKGVLFIDEINTLDLESQQSLLTAMQEKKFPITGQSERSSGAMVRTEPVPCDFIMVAAGNLDALENMHPALRSRIKGYG  304 (637)
T ss_pred             CCCcEEEEeChHhCCHHHHHHHHHHHHhCCEEecccccccccccCCCcceeeeeEEEEecCcCHHHhhhHHHHHHhccCe
Confidence            467899999999999999999999997421                     134677777653  355778888873   


Q ss_pred             -EEEecC---CChHHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHhc---CC-------HHHHHHHHHHHHhhc----
Q 021660          194 -RFRFAP---LEPVHVTERLKHVIEAE-----GLDVTEGGLAALVRLCN---GD-------MRKALNILQSTHMAS----  250 (309)
Q Consensus       194 -~i~~~~---~~~~~~~~~l~~~~~~~-----~~~~~~~~l~~i~~~~~---g~-------~r~~~~~l~~~~~~~----  250 (309)
                       .++|..   -+++....++....++.     -..++++++..|.+++.   |+       .+.+.++++.+...+    
T Consensus       305 v~v~f~~~~~d~~e~~~~~~~~iaqe~~~~G~l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~  384 (637)
T PRK13765        305 YEVYMRDTMEDTPENRRKLVRFVAQEVKRDGKIPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEG  384 (637)
T ss_pred             EEEEcccccCCCHHHHHHHHHHHHHHhhhccCCCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhc
Confidence             355543   23455666665444432     23689999999998662   32       677777777655433    


Q ss_pred             -CCcCHHHHHhhh
Q 021660          251 -QQITEEAVYLCT  262 (309)
Q Consensus       251 -~~i~~~~v~~~~  262 (309)
                       +.++.+++.++.
T Consensus       385 ~~~i~~~~v~~a~  397 (637)
T PRK13765        385 AELTTAEHVLEAK  397 (637)
T ss_pred             cceecHHHHHHHH
Confidence             457777776665

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.23  E-value=5.9e-10  Score=101.42  Aligned_cols=204  Identities=19%  Similarity=0.196  Sum_probs=135.0

Q ss_pred             cccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhh
Q 021660           53 ADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  130 (309)
                      ..++|.......+...+...  ....+++.|++|+||+++++.+.....  .....++.++|.... .+.+.+.+.....
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~~~--~~~~~~~~~~c~~~~-~~~~~~~lfg~~~  210 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSP--RANGPFIALNMAAIP-KDLIESELFGHEK  210 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHhCC--CCCCCeEEEeCCCCC-HHHHHHHhcCCCC
Confidence            35777766666665554332  223499999999999999999887642  234677788887642 2233332211000


Q ss_pred             c-----c--ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------ccc
Q 021660          131 T-----Q--SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KII  185 (309)
Q Consensus       131 ~-----~--~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~-------~l~  185 (309)
                      .     .  ....-..+.++.|+|||++.++.+.+..|+.++++..           .++++|++++...       ...
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            0     0  0000112346789999999999999999999998532           2456777775432       334


Q ss_pred             hhhhcce--eEEEecCCC--hHHHHHHHHHHHHH----cC---CCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc--C
Q 021660          186 PALQSRC--TRFRFAPLE--PVHVTERLKHVIEA----EG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--Q  251 (309)
Q Consensus       186 ~~l~~r~--~~i~~~~~~--~~~~~~~l~~~~~~----~~---~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~--~  251 (309)
                      +.+..|+  ..++++|+.  .+++..++..++.+    .+   ..+++++++.|.++. +||+|.+.+.++.++..+  .
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            4666665  467788877  56777766655443    23   368999999999875 899999999999888755  4


Q ss_pred             CcCHHHHH
Q 021660          252 QITEEAVY  259 (309)
Q Consensus       252 ~i~~~~v~  259 (309)
                      .|+.+++.
T Consensus       371 ~i~~~~l~  378 (463)
T TIGR01818       371 EVLVSDLP  378 (463)
T ss_pred             cccHHhch
Confidence            57777664

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.

>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2

Probab=99.20  E-value=2.5e-10  Score=89.53  Aligned_cols=163  Identities=17%  Similarity=0.235  Sum_probs=108.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc-ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCC----C
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA----D  151 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~----~  151 (309)
                      ++|+|..-.-+...++.+.+.+...+ ....+..++..... .    ..+.....+.+  +..  ++++|+|.++    +
T Consensus         1 Yll~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~-~----~~l~~~~~s~s--lF~--~~klvii~~~~~l~~   71 (172)
T PF06144_consen    1 YLLYGEDSFLIEEYIKKIRKALIKKDFDDFNVIVFDGSEDD-I----DELLEELQSPS--LFG--DKKLVIIKNAPFLKD   71 (172)
T ss_dssp             EEEEES-HHHHHHHHHHHHHHHHTTTEEEEEEEE-STTS-H-H----H-HTTTSTTTT--SSS--SEEEEEEE-----TT
T ss_pred             CEEEeCcHHHHHHHHHHHHHHhhcCCCccceEEEEccccCc-H----HHHHHHHhcCC--ccC--CCeEEEEecCccccc
Confidence            57899887777778888877743333 23344444443321 1    11333333322  222  6899999998    4


Q ss_pred             CCCHHHHHHHHHHHHHhcCCceEEEEec-CCc---ccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHH
Q 021660          152 AMTKDAQFALRRVIEKYTKNTRFALICN-QVN---KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAA  227 (309)
Q Consensus       152 ~l~~~~~~~l~~~l~~~~~~~~~i~~~~-~~~---~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~  227 (309)
                      .........|..++..+++++.+|+.++ ..+   ++.+.+...+.++.+.++...++..|++.++++.|+.+++++++.
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            4556678899999999888888888887 333   456677778899999999999999999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 021660          228 LVRLCNGDMRKALNILQSTHM  248 (309)
Q Consensus       228 i~~~~~g~~r~~~~~l~~~~~  248 (309)
                      +++++++|++.+.+.++++++
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            999999999999999999864

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.

>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=99.19  E-value=2.5e-10  Score=88.48  Aligned_cols=124  Identities=15%  Similarity=0.174  Sum_probs=77.8

Q ss_pred             cccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhcc
Q 021660           55 VAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ  132 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (309)
                      +||....++.+.+.++.-  ...+++|+|++||||+.+|+.+.+..  ......|+.++|.... .+.+...+.......
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--PRKNGPFISVNCAALP-EELLESELFGHEKGA   77 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS--TTTTS-EEEEETTTS--HHHHHHHHHEBCSSS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh--hcccCCeEEEehhhhh-cchhhhhhhcccccc
Confidence            467777777666665532  22449999999999999999998843  2235679999998743 233333332211100


Q ss_pred             -------ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEEEecCC
Q 021660          133 -------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQV  181 (309)
Q Consensus       133 -------~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~~~  181 (309)
                             ....-..++.+.|+|||++.|+...+..|+++|+..           +.++++|++|+..
T Consensus        78 ~~~~~~~~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~~  144 (168)
T PF00158_consen   78 FTGARSDKKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSKD  144 (168)
T ss_dssp             STTTSSEBEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS-
T ss_pred             ccccccccCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCcC
Confidence                   000111246789999999999999999999999963           2366788887643

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 ....

>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=99.19  E-value=2.1e-11  Score=94.74  Aligned_cols=106  Identities=25%  Similarity=0.296  Sum_probs=67.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~  154 (309)
                      .+++|.||+|+|||.+++.+++.+.. +....++.++.......+.....+......... .-...+..||++||+|++.
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            45999999999999999999999942 223466677766544311111111111111111 0011134599999999999


Q ss_pred             H-----------HHHHHHHHHHHHh-----------cCCceEEEEecCCc
Q 021660          155 K-----------DAQFALRRVIEKY-----------TKNTRFALICNQVN  182 (309)
Q Consensus       155 ~-----------~~~~~l~~~l~~~-----------~~~~~~i~~~~~~~  182 (309)
                      +           ..++.|+++++.-           ..++.||+++|-..
T Consensus        82 ~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~  131 (171)
T PF07724_consen   82 PSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGA  131 (171)
T ss_dssp             HTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSST
T ss_pred             ccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccccc
Confidence            9           9999999999962           13556777776543

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 ....

>TIGR00368 Mg chelatase-related protein

Probab=99.18  E-value=1.9e-09  Score=97.26  Aligned_cols=152  Identities=19%  Similarity=0.181  Sum_probs=95.3

Q ss_pred             CCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc-c-----------
Q 021660           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-G-----------  117 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~-~-----------  117 (309)
                      ..|.++.|+..+++.+...+.++  .+++|.||||+|||++++.+...+..... ...++....... +           
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa~~g--~~vlliG~pGsGKTtlar~l~~llp~~~~-~~~le~~~i~s~~g~~~~~~~~~~~  265 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAAAGG--HNLLLFGPPGSGKTMLASRLQGILPPLTN-EEAIETARIWSLVGKLIDRKQIKQR  265 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhccCC--CEEEEEecCCCCHHHHHHHHhcccCCCCC-cEEEeccccccchhhhccccccccC
Confidence            37899999999999888877665  56999999999999999999876632211 111111110000 0           


Q ss_pred             -h------HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceEEEE
Q 021660          118 -I------DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALI  177 (309)
Q Consensus       118 -~------~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~  177 (309)
                       +      ......+..-.. .....-..+++.+|+|||++.+.+..++.|...|+..             +.+..+|.+
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 PFRSPHHSASKPALVGGGPI-PLPGEISLAHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAA  344 (499)
T ss_pred             CccccccccchhhhhCCccc-cchhhhhccCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEe
Confidence             0      000000000000 0000112236789999999999999999999999853             245677777


Q ss_pred             ecCCc-----------------------ccchhhhcce-eEEEecCCChHHH
Q 021660          178 CNQVN-----------------------KIIPALQSRC-TRFRFAPLEPVHV  205 (309)
Q Consensus       178 ~~~~~-----------------------~l~~~l~~r~-~~i~~~~~~~~~~  205 (309)
                      +|...                       ++...+++|| ..+.+++++..++
T Consensus       345 ~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllDR~dl~~~~~~~~~~~l  396 (499)
T TIGR00368       345 MNPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLDRIDLSVEVPLLPPEKL  396 (499)
T ss_pred             cCCcccCcCCCCcccccCCHHHHHHHhhhccHhHHhhCCEEEEEcCCCHHHH
Confidence            76421                       4666788898 6678887765543

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PF13173 AAA_14: AAA domain

Probab=99.17  E-value=4.3e-10  Score=83.56  Aligned_cols=120  Identities=23%  Similarity=0.323  Sum_probs=76.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHH-HHHHHhhhccccccCCCCccEEEEEeCCCCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR-QQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l  153 (309)
                      +.++|+||.|+||||+++.+++.+.   ....++.++..+........ +....+....    ..  +..+|+|||++.+
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~----~~--~~~~i~iDEiq~~   73 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPDLLEYFLELI----KP--GKKYIFIDEIQYL   73 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhhhHHHHHHhh----cc--CCcEEEEehhhhh
Confidence            3489999999999999999999873   22344445544422211110 0111111110    01  5689999999998


Q ss_pred             CHHHHHHHHHHHHHhcCCceEEEEecCCcc----cchhhhcceeEEEecCCChHHH
Q 021660          154 TKDAQFALRRVIEKYTKNTRFALICNQVNK----IIPALQSRCTRFRFAPLEPVHV  205 (309)
Q Consensus       154 ~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~----l~~~l~~r~~~i~~~~~~~~~~  205 (309)
                      . +....+..+.+.. .+..+|++++....    ....+..|...+++.|++..|.
T Consensus        74 ~-~~~~~lk~l~d~~-~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   74 P-DWEDALKFLVDNG-PNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             c-cHHHHHHHHHHhc-cCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            6 4555666666644 46778887765433    3456777889999999998774

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=99.17  E-value=1e-09  Score=103.35  Aligned_cols=154  Identities=16%  Similarity=0.148  Sum_probs=91.5

Q ss_pred             cccccChHHHHHHHHHHhcCCC---------------------CeEEEECCCCCcHHHHHHHHHHHHccCcc--cccEEE
Q 021660           53 ADVAAHRDIVDTIDRLTSENRL---------------------PHLLLYGPPGTGKTSTILAVARKLYGAQY--HNMILE  109 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~~---------------------~~~ll~G~~G~GKT~l~~~l~~~~~~~~~--~~~~~~  109 (309)
                      ..+.|++.+++.+.-.+-++..                     .++||+|+||+|||++++.+++......+  +..+..
T Consensus       450 P~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~  529 (915)
T PTZ00111        450 PSIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSS  529 (915)
T ss_pred             CeEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCcc
Confidence            4688999998877666644321                     15999999999999999999886421110  001111


Q ss_pred             EecCCCcchHHHHHHHHHhhhccc--cccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceE
Q 021660          110 LNASDDRGIDVVRQQIQDFASTQS--FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRF  174 (309)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~  174 (309)
                      +.+...      ............  ...-..+..++++|||++.++...+..|+++|+..             +..+.+
T Consensus       530 vgLTa~------~~~~d~~tG~~~le~GaLvlAdgGtL~IDEidkms~~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rV  603 (915)
T PTZ00111        530 VGLTAS------IKFNESDNGRAMIQPGAVVLANGGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKAETAI  603 (915)
T ss_pred             ccccch------hhhcccccCcccccCCcEEEcCCCeEEecchhhCCHHHHHHHHHHHhCCEEEEecCCcceecCCCeEE
Confidence            111110      000000000000  00001235789999999999999999999999853             246678


Q ss_pred             EEEecCCc-------------ccchhhhcceeE--EEecCCChHHHHHHHHHH
Q 021660          175 ALICNQVN-------------KIIPALQSRCTR--FRFAPLEPVHVTERLKHV  212 (309)
Q Consensus       175 i~~~~~~~-------------~l~~~l~~r~~~--i~~~~~~~~~~~~~l~~~  212 (309)
                      |.++|...             .+++.+.+||..  +-+..++.+.-..+..++
T Consensus       604 IAAaNP~~gryd~~~s~~eni~Lp~~LLSRFDLIf~l~D~~d~~~D~~lA~hI  656 (915)
T PTZ00111        604 LASCNPINSRYNKNKAVIENINISPSLFTRFDLIYLVLDHIDQDTDQLISLSI  656 (915)
T ss_pred             EEEcCCcccccCcccCcccccCCChHHhhhhcEEEEecCCCChHHHHHHHHHH
Confidence            88887531             467899999933  445555554444443333

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.16  E-value=1.8e-08  Score=99.29  Aligned_cols=187  Identities=14%  Similarity=0.181  Sum_probs=121.4

Q ss_pred             CCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHH
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  127 (309)
                      .|....+++-++...+.+...   ...+.++|+||+|+||||++..++...   + ...++.++..++.....+...+..
T Consensus         9 ~p~~~~~~~~R~rl~~~l~~~---~~~~~~~v~apaG~GKTtl~~~~~~~~---~-~~~w~~l~~~d~~~~~f~~~l~~~   81 (903)
T PRK04841          9 RPVRLHNTVVRERLLAKLSGA---NNYRLVLVTSPAGYGKTTLISQWAAGK---N-NLGWYSLDESDNQPERFASYLIAA   81 (903)
T ss_pred             CCCCccccCcchHHHHHHhcc---cCCCeEEEECCCCCCHHHHHHHHHHhC---C-CeEEEecCcccCCHHHHHHHHHHH
Confidence            355567888899888887643   233559999999999999999998654   2 344555554443322111111111


Q ss_pred             hhhccc--------------------------cccCCCCccEEEEEeCCCCCCHHH-HHHHHHHHHHhcCCceEEEEecC
Q 021660          128 FASTQS--------------------------FSFGVKASVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       128 ~~~~~~--------------------------~~~~~~~~~~lliiDe~~~l~~~~-~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      +.....                          ..+.....+.+|||||+|.+.... ...+..++...+++..+|+++..
T Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~  161 (903)
T PRK04841         82 LQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRN  161 (903)
T ss_pred             HHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCC
Confidence            110000                          000111367899999999997544 45777888888888888888765


Q ss_pred             Cccc-chhhhcc--eeEEEec--CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          181 VNKI-IPALQSR--CTRFRFA--PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       181 ~~~l-~~~l~~r--~~~i~~~--~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      ...+ ...+.-+  +..+...  +++.+|...++...+   |..++++.+..+.+.++|.|-.+.-...
T Consensus       162 ~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~---~~~~~~~~~~~l~~~t~Gwp~~l~l~~~  227 (903)
T PRK04841        162 LPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRL---SSPIEAAESSRLCDDVEGWATALQLIAL  227 (903)
T ss_pred             CCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhcc---CCCCCHHHHHHHHHHhCChHHHHHHHHH
Confidence            4333 2223222  2334444  889999999887654   7789999999999999999977654443

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=99.16  E-value=6.9e-09  Score=86.90  Aligned_cols=205  Identities=18%  Similarity=0.152  Sum_probs=133.6

Q ss_pred             CccccccChHHHHHHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      .|+.+++....++.+......-.+-  .++|.|.+||||..+|+++....  ......|..++|...... ...+.+...
T Consensus       202 ~F~~~v~~S~~mk~~v~qA~k~AmlDAPLLI~GeTGTGKdLlAkaCH~~S--~R~~~pFlalNCA~lPe~-~aEsElFG~  278 (511)
T COG3283         202 GFEQIVAVSPKMKHVVEQAQKLAMLDAPLLITGETGTGKDLLAKACHLAS--PRHSKPFLALNCASLPED-AAESELFGH  278 (511)
T ss_pred             chHHHhhccHHHHHHHHHHHHhhccCCCeEEecCCCchHHHHHHHHhhcC--cccCCCeeEeecCCCchh-HhHHHHhcC
Confidence            4888999988888777666554332  29999999999999999876553  233567788888764322 222222211


Q ss_pred             hh--ccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cccchhh
Q 021660          129 AS--TQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKIIPAL  188 (309)
Q Consensus       129 ~~--~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~-------~~l~~~l  188 (309)
                      ..  .....+-..++++.+++||+..+++..+..|+..+++-.           .++++|.+|...       .+.-+.+
T Consensus       279 apg~~gk~GffE~AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVRVIcatq~nL~~lv~~g~fReDL  358 (511)
T COG3283         279 APGDEGKKGFFEQANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQVNLVELVQKGKFREDL  358 (511)
T ss_pred             CCCCCCccchhhhccCCeEEeehhhhcCHHHHHHHHHHhcCCceeecCCcceEEEEEEEEecccccHHHHHhcCchHHHH
Confidence            11  111112233467789999999999999999999998532           345666665321       2344566


Q ss_pred             hcceeEEEecCCChH----H----HHHHHHHHHHHcCC---CCCHHHHHHHHHH-hcCCHHHHHHHHHHHHhhc--CCcC
Q 021660          189 QSRCTRFRFAPLEPV----H----VTERLKHVIEAEGL---DVTEGGLAALVRL-CNGDMRKALNILQSTHMAS--QQIT  254 (309)
Q Consensus       189 ~~r~~~i~~~~~~~~----~----~~~~l~~~~~~~~~---~~~~~~l~~i~~~-~~g~~r~~~~~l~~~~~~~--~~i~  254 (309)
                      .-|..++.+.-|+..    +    ...++.+.+.+.++   .++++.+..+.++ ++||+|.+.|.+-.++...  ..++
T Consensus       359 fyRLNVLtl~~PpLRer~~di~pL~e~Fv~q~s~elg~p~pkl~~~~~~~L~~y~WpGNVRqL~N~iyRA~s~~Eg~~l~  438 (511)
T COG3283         359 FYRLNVLTLNLPPLRERPQDIMPLAELFVQQFSDELGVPRPKLAADLLTVLTRYAWPGNVRQLKNAIYRALTLLEGYELR  438 (511)
T ss_pred             HHHhheeeecCCccccCcccchHHHHHHHHHHHHHhCCCCCccCHHHHHHHHHcCCCccHHHHHHHHHHHHHHhccCccc
Confidence            677655544444422    2    23456666667666   4788888888886 5899999999997776543  3444


Q ss_pred             HHHH
Q 021660          255 EEAV  258 (309)
Q Consensus       255 ~~~v  258 (309)
                      .+++
T Consensus       439 i~~i  442 (511)
T COG3283         439 IEDI  442 (511)
T ss_pred             hhhc
Confidence            4443

>PRK12377 putative replication protein; Provisional

Probab=99.15  E-value=2.5e-10  Score=93.75  Aligned_cols=130  Identities=20%  Similarity=0.295  Sum_probs=75.4

Q ss_pred             cCCCCccccc----cChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHH
Q 021660           47 YRPQSLADVA----AHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (309)
Q Consensus        47 ~~p~~~~~~i----g~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (309)
                      +...+|+.+.    |+..++..+..+....  ...+++|+||||+|||+|+.++++.+...+..+.++.+.  +  -...
T Consensus        68 ~~~~tFdnf~~~~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~--~--l~~~  143 (248)
T PRK12377         68 HRKCSFANYQVQNDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVP--D--VMSR  143 (248)
T ss_pred             cccCCcCCcccCChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHH--H--HHHH
Confidence            3333455554    3344555555554421  234699999999999999999999997665554443322  1  1111


Q ss_pred             HHHHHHHhhhccccccCCCCccEEEEEeCC--CCCCHHHHHHHHHHHHHhcC-CceEEEEecCC
Q 021660          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEA--DAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (309)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~lliiDe~--~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~  181 (309)
                      +....... ......+.......+|||||+  +..++.....|+.+++.... ..+.|++||..
T Consensus       144 l~~~~~~~-~~~~~~l~~l~~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl~  206 (248)
T PRK12377        144 LHESYDNG-QSGEKFLQELCKVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNLN  206 (248)
T ss_pred             HHHHHhcc-chHHHHHHHhcCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCCC
Confidence            11111000 000000111125679999999  45566678899999997554 46778888754

>PRK08181 transposase; Validated

Probab=99.15  E-value=3e-10  Score=94.46  Aligned_cols=107  Identities=21%  Similarity=0.283  Sum_probs=65.9

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccc--cccCCCCcc
Q 021660           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS--FSFGVKASV  142 (309)
Q Consensus        65 l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~  142 (309)
                      +..|+..+  .+++|+||+|+|||+|+.++++++...+..+.++..  .      .+...+........  ..+......
T Consensus        99 ~~~~~~~~--~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~--~------~L~~~l~~a~~~~~~~~~l~~l~~~  168 (269)
T PRK08181         99 GDSWLAKG--ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT--T------DLVQKLQVARRELQLESAIAKLDKF  168 (269)
T ss_pred             HHHHHhcC--ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeH--H------HHHHHHHHHHhCCcHHHHHHHHhcC
Confidence            33566543  569999999999999999999988666655544432  1      11111111000000  000001146


Q ss_pred             EEEEEeCCCCCC--HHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          143 KLVLLDEADAMT--KDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       143 ~lliiDe~~~l~--~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      .+|||||++...  ......|+++++.......+|+++|..
T Consensus       169 dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        169 DLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             CEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            799999998775  344678999999765556788888754

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=99.13  E-value=2.2e-10  Score=86.31  Aligned_cols=125  Identities=18%  Similarity=0.229  Sum_probs=77.6

Q ss_pred             ccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccc
Q 021660           56 AAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS  133 (309)
Q Consensus        56 ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  133 (309)
                      ||....++.+.+.+..-  ....++|+|++|+||+++|+.+......  ....++.+++....     .+.+...     
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            46666666666655432  2234999999999999999999886522  22233333333321     1222221     


Q ss_pred             cccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-cCCceEEEEecCCc-------ccchhhhcce--eEEEecC
Q 021660          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-TKNTRFALICNQVN-------KIIPALQSRC--TRFRFAP  199 (309)
Q Consensus       134 ~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-~~~~~~i~~~~~~~-------~l~~~l~~r~--~~i~~~~  199 (309)
                             .+..|+|+|++.++.+.+..|..+++.. ..++++|++++...       .+.+.+..++  ..+.++|
T Consensus        69 -------~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~l~~l~~~~~~~~~L~~~l~~~~i~lPp  137 (138)
T PF14532_consen   69 -------KGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQDLEELVEEGRFSPDLYYRLSQLEIHLPP  137 (138)
T ss_dssp             -------TTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-CCCHHHHSTHHHHHHHHCSTCEEEE--
T ss_pred             -------CCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCCHHHHhhccchhHHHHHHhCCCEEeCCC
Confidence                   4678999999999999999999999965 45778888875332       3445666665  5566655

>PRK06526 transposase; Provisional

Probab=99.13  E-value=2.5e-10  Score=94.49  Aligned_cols=122  Identities=13%  Similarity=0.153  Sum_probs=72.1

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccc--cccCCCCccEEEEEeCCC
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS--FSFGVKASVKLVLLDEAD  151 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lliiDe~~  151 (309)
                      ..+++|+||||+|||+++.+++.++...+..+.+....        .+...+........  ..+....+..+|||||++
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~--------~l~~~l~~~~~~~~~~~~l~~l~~~dlLIIDD~g  169 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAA--------QWVARLAAAHHAGRLQAELVKLGRYPLLIVDEVG  169 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHH--------HHHHHHHHHHhcCcHHHHHHHhccCCEEEEcccc
Confidence            35699999999999999999999886555554332111        11111111000000  000111246799999999


Q ss_pred             CCC--HHHHHHHHHHHHHhcCCceEEEEecCCcc--------------cchhhhcceeEEEecCCChH
Q 021660          152 AMT--KDAQFALRRVIEKYTKNTRFALICNQVNK--------------IIPALQSRCTRFRFAPLEPV  203 (309)
Q Consensus       152 ~l~--~~~~~~l~~~l~~~~~~~~~i~~~~~~~~--------------l~~~l~~r~~~i~~~~~~~~  203 (309)
                      .+.  ....+.|+.+++....+..+|+++|....              +...+...+.++.|...+..
T Consensus       170 ~~~~~~~~~~~L~~li~~r~~~~s~IitSn~~~~~w~~~~~d~~~a~ai~dRl~~~~~~i~~~g~s~R  237 (254)
T PRK06526        170 YIPFEPEAANLFFQLVSSRYERASLIVTSNKPFGRWGEVFGDDVVAAAMIDRLVHHAEVISLKGDSYR  237 (254)
T ss_pred             cCCCCHHHHHHHHHHHHHHHhcCCEEEEcCCCHHHHHHHcCChHHHHHHHHHHhcCceEEeecCCCcc
Confidence            775  55667889998865545568888875431              11223333566777766544

>PRK08116 hypothetical protein; Validated

Probab=99.11  E-value=1.7e-09  Score=90.45  Aligned_cols=153  Identities=16%  Similarity=0.178  Sum_probs=84.9

Q ss_pred             hcCCCCccccccC---hHHHHHHHHHHhc----C-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc
Q 021660           46 KYRPQSLADVAAH---RDIVDTIDRLTSE----N-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (309)
Q Consensus        46 ~~~p~~~~~~ig~---~~~~~~l~~~~~~----~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (309)
                      ++.-.+|+.+...   ..++..+.+++..    . ....++|+|++|+|||+|+.++++.+...+..+  +.++...  -
T Consensus        78 ~~~~~tFdnf~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v--~~~~~~~--l  153 (268)
T PRK08116         78 KFRNSTFENFLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGVPV--IFVNFPQ--L  153 (268)
T ss_pred             HHHhcchhcccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeE--EEEEHHH--H
Confidence            4444456655432   2334444544442    1 122399999999999999999999986554333  3333221  0


Q ss_pred             hHHHHHHHHHhhhccc-cccCCCCccEEEEEeCC--CCCCHHHHHHHHHHHHHh-cCCceEEEEecCCcc-----cchhh
Q 021660          118 IDVVRQQIQDFASTQS-FSFGVKASVKLVLLDEA--DAMTKDAQFALRRVIEKY-TKNTRFALICNQVNK-----IIPAL  188 (309)
Q Consensus       118 ~~~~~~~~~~~~~~~~-~~~~~~~~~~lliiDe~--~~l~~~~~~~l~~~l~~~-~~~~~~i~~~~~~~~-----l~~~l  188 (309)
                      ...+............ ..+....+..+|+|||+  +......+..|+.+++.. ....++|++||....     +...+
T Consensus       154 l~~i~~~~~~~~~~~~~~~~~~l~~~dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~~~eL~~~~~~ri  233 (268)
T PRK08116        154 LNRIKSTYKSSGKEDENEIIRSLVNADLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLSLEELKNQYGKRI  233 (268)
T ss_pred             HHHHHHHHhccccccHHHHHHHhcCCCEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHhHHH
Confidence            1111111100000000 00000114569999999  455666778899999964 345678888876532     34456


Q ss_pred             hcc----eeEEEecCCCh
Q 021660          189 QSR----CTRFRFAPLEP  202 (309)
Q Consensus       189 ~~r----~~~i~~~~~~~  202 (309)
                      .+|    +..+.+..++.
T Consensus       234 ~sRl~e~~~~v~~~g~d~  251 (268)
T PRK08116        234 YDRILEMCTPVENEGKSY  251 (268)
T ss_pred             HHHHHHcCEEEEeeCcCh
Confidence            666    56677776663

>smart00763 AAA_PrkA PrkA AAA domain

Probab=99.11  E-value=2.1e-09  Score=91.89  Aligned_cols=93  Identities=11%  Similarity=0.025  Sum_probs=67.0

Q ss_pred             CCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cccchhhhcceeEEEecCC
Q 021660          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKIIPALQSRCTRFRFAPL  200 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~-------~~l~~~l~~r~~~i~~~~~  200 (309)
                      +++++++-++|+.+...+..+.|+.++++..           -+..||+++|..       .+..+++++||..+.++-+
T Consensus       234 ~aNrGi~~f~Ei~K~~~~~l~~LL~~~qE~~v~~~~~~~~~~~d~liia~sNe~e~~~~~~~k~~eaf~dR~~~i~vpY~  313 (361)
T smart00763      234 RANRGILEFVEMFKADIKFLHPLLTATQEGNIKGTGGFAMIPIDGLIIAHSNESEWQRFKSNKKNEALLDRIIKVKVPYC  313 (361)
T ss_pred             cccCceEEEeehhcCCHHHHHHHhhhhhcceEecCCcccccccceEEEEeCCHHHHhhhhccccchhhhhceEEEeCCCc
Confidence            3577899999999999999999999999521           234566677765       2557899999988887655


Q ss_pred             C-hHHHHHHHHHHHHHc---CCCCCHHHHHHHHHH
Q 021660          201 E-PVHVTERLKHVIEAE---GLDVTEGGLAALVRL  231 (309)
Q Consensus       201 ~-~~~~~~~l~~~~~~~---~~~~~~~~l~~i~~~  231 (309)
                      . ..+-.++.++.+...   +..+.+.+++.++..
T Consensus       314 l~~~~E~~Iy~k~~~~s~~~~~~~aP~~le~aa~~  348 (361)
T smart00763      314 LRVSEEAQIYEKLLRNSDLTEAHIAPHTLEMAALF  348 (361)
T ss_pred             CCHHHHHHHHHHHhccCcCcccccCchHHHHHHHH
Confidence            4 456667777776543   455677776665554

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PF05729 NACHT: NACHT domain

Probab=99.10  E-value=1.7e-09  Score=84.07  Aligned_cols=138  Identities=14%  Similarity=0.194  Sum_probs=82.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccc----cEEEEecCCCcch---HHHHHHHHHhhhccccc-------cCCCCcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHN----MILELNASDDRGI---DVVRQQIQDFASTQSFS-------FGVKASV  142 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~----~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~-------~~~~~~~  142 (309)
                      ++|+|++|+|||++++.++..+.......    .++.+........   ..+...+..........       ......+
T Consensus         3 l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   82 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNKR   82 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCCc
Confidence            79999999999999999999986554322    1222222221111   12222222211111100       1112357


Q ss_pred             EEEEEeCCCCCCHHHH--------HHHHHHHHH-hcCCceEEEEecCCcc-cchhhhcceeEEEecCCChHHHHHHHHHH
Q 021660          143 KLVLLDEADAMTKDAQ--------FALRRVIEK-YTKNTRFALICNQVNK-IIPALQSRCTRFRFAPLEPVHVTERLKHV  212 (309)
Q Consensus       143 ~lliiDe~~~l~~~~~--------~~l~~~l~~-~~~~~~~i~~~~~~~~-l~~~l~~r~~~i~~~~~~~~~~~~~l~~~  212 (309)
                      .+++||.+|.+.....        ..|..++.. .+++..++++++.... -..........+.+.+++.+++..++++.
T Consensus        83 ~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  162 (166)
T PF05729_consen   83 VLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLRKY  162 (166)
T ss_pred             eEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHHHH
Confidence            7899999999875322        345566665 4557778877764432 12222233367899999999999999987


Q ss_pred             HH
Q 021660          213 IE  214 (309)
Q Consensus       213 ~~  214 (309)
                      ++
T Consensus       163 f~  164 (166)
T PF05729_consen  163 FS  164 (166)
T ss_pred             hh
Confidence            64

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.10  E-value=3.2e-08  Score=89.55  Aligned_cols=204  Identities=15%  Similarity=0.159  Sum_probs=127.4

Q ss_pred             ccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhc
Q 021660           54 DVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (309)
                      .++|....+..+...+..-  ....++++|++|+||+++++.+.....  .....++.++|.... ...+.+.+......
T Consensus       140 ~lig~s~~~~~~~~~i~~~~~~~~~vli~ge~g~gk~~~a~~ih~~s~--~~~~~~i~~~c~~~~-~~~~~~~lfg~~~~  216 (441)
T PRK10365        140 GMVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKELVARAIHASSA--RSEKPLVTLNCAALN-ESLLESELFGHEKG  216 (441)
T ss_pred             ceEecCHHHHHHHHHHhhccCCCCeEEEEecCCCCHHHHHHHHHHcCC--CCCCCeeeeeCCCCC-HHHHHHHhcCCCCC
Confidence            3556555555444333322  223499999999999999999977642  234678888888643 23333322211100


Q ss_pred             c-------ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------ccch
Q 021660          132 Q-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KIIP  186 (309)
Q Consensus       132 ~-------~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~-------~l~~  186 (309)
                      .       ....-..++++.|+|||++.++...+..|+.+++...           .++++|++++...       ...+
T Consensus       217 ~~~~~~~~~~g~~~~a~~gtl~ldei~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~~~~~~~~~~~~~  296 (441)
T PRK10365        217 AFTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQ  296 (441)
T ss_pred             CcCCCCcCCCCceeECCCCEEEEeccccCCHHHHHHHHHHHccCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCchH
Confidence            0       0001122357889999999999999999999998632           2346777765432       2334


Q ss_pred             hhhccee--EEEecCCCh--HHHHHHHHHHHHH----cC---CCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc--CC
Q 021660          187 ALQSRCT--RFRFAPLEP--VHVTERLKHVIEA----EG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQ  252 (309)
Q Consensus       187 ~l~~r~~--~i~~~~~~~--~~~~~~l~~~~~~----~~---~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~--~~  252 (309)
                      .+..++.  .+.++|+..  +++..++...+.+    .+   ..+++++++.+..+. +||+|.+.+.++.+....  ..
T Consensus       297 ~l~~~l~~~~i~~ppLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgN~reL~~~~~~~~~~~~~~~  376 (441)
T PRK10365        297 DLYYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEY  376 (441)
T ss_pred             HHHHHhccceecCCChhhcchhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCCc
Confidence            4555553  345555542  3555555444443    23   348999999999987 899999999999877643  45


Q ss_pred             cCHHHHHh
Q 021660          253 ITEEAVYL  260 (309)
Q Consensus       253 i~~~~v~~  260 (309)
                      |+.+++..
T Consensus       377 i~~~~l~~  384 (441)
T PRK10365        377 ISERELPL  384 (441)
T ss_pred             cchHhCch
Confidence            77776643

>PF14516 AAA_35: AAA-like domain

Probab=99.10  E-value=8.2e-08  Score=83.06  Aligned_cols=231  Identities=13%  Similarity=0.160  Sum_probs=139.9

Q ss_pred             ccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC---cchHHHHHH-HHHhh
Q 021660           54 DVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD---RGIDVVRQQ-IQDFA  129 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~  129 (309)
                      -.|.++.+-+.+.+.+... ...+.|.||..+|||+++..+.+.+...++...++.+.....   ...+.+... ...+.
T Consensus        12 ~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~   90 (331)
T PF14516_consen   12 FYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEIS   90 (331)
T ss_pred             cccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHH
Confidence            3566776666666666552 135999999999999999999999977766665555554322   111111111 11110


Q ss_pred             hcccc-------------------------ccCCCCccEEEEEeCCCCCCH--HHHHHHHHHHHHh----c-----CCce
Q 021660          130 STQSF-------------------------SFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKY----T-----KNTR  173 (309)
Q Consensus       130 ~~~~~-------------------------~~~~~~~~~lliiDe~~~l~~--~~~~~l~~~l~~~----~-----~~~~  173 (309)
                      .....                         .+.....+-||+|||+|.+..  .....++..+..-    .     .+.+
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                         001113678999999999875  3334455555431    1     2344


Q ss_pred             EEEEecCCcccchhh-hcc---eeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Q 021660          174 FALICNQVNKIIPAL-QSR---CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l-~~r---~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      +|++......+.... .+.   +..+.+++.+.+|+..+++++    +...++..++.|...++|.|.-+..++..++. 
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            555543222122221 222   356889999999998877655    77888888999999999999888888888766 


Q ss_pred             cCCcCHHHHH-hhhC--CCChHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          250 SQQITEEAVY-LCTG--NPLPKDIEQISYWLLNESFADSFKRISEMK  293 (309)
Q Consensus       250 ~~~i~~~~v~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  293 (309)
                       ..++.+.+- .+..  ....+.+..+++.+.. + .+....+++++
T Consensus       246 -~~~~~~~l~~~a~~~~~~~~~hL~~l~~~L~~-~-~~L~~~~~~il  289 (331)
T PF14516_consen  246 -EQITLEQLLEEAITDNGIYNDHLDRLLDRLQQ-N-PELLEAYQQIL  289 (331)
T ss_pred             -ccCcHHHHHHHHHHhcccHHHHHHHHHHHHcc-C-HHHHHHHHHHH
Confidence             345555443 2222  2223456666666633 2 37778888888

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

Probab=99.10  E-value=8.6e-10  Score=96.50  Aligned_cols=160  Identities=22%  Similarity=0.265  Sum_probs=103.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC------CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~  150 (309)
                      ++||||||||||.+|+.+.+-++...+.+    ++.+.      ..+.+.++..+.+..+.... .+...+-.+||+||+
T Consensus       259 iLLyGPPGTGKTLiARqIGkMLNArePKI----VNGPeIL~KYVGeSE~NvR~LFaDAEeE~r~-~g~~SgLHIIIFDEi  333 (744)
T KOG0741|consen  259 ILLYGPPGTGKTLIARQIGKMLNAREPKI----VNGPEILNKYVGESEENVRKLFADAEEEQRR-LGANSGLHIIIFDEI  333 (744)
T ss_pred             EEEECCCCCChhHHHHHHHHHhcCCCCcc----cCcHHHHHHhhcccHHHHHHHHHhHHHHHHh-hCccCCceEEEehhh
Confidence            99999999999999999999996654322    12211      12233455555544433332 444446789999999


Q ss_pred             CCCCH-------------HHHHHHHHHHHHhc--CCceEEEEecCCcccchhhhcce---eEEEecCCChHHHHHHHHHH
Q 021660          151 DAMTK-------------DAQFALRRVIEKYT--KNTRFALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHV  212 (309)
Q Consensus       151 ~~l~~-------------~~~~~l~~~l~~~~--~~~~~i~~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~  212 (309)
                      |.+++             ...+.|+.-|+...  .+..+|..||..+.++++|++..   ...++.-|+..-..+|++-+
T Consensus       334 DAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqLNNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IH  413 (744)
T KOG0741|consen  334 DAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIH  413 (744)
T ss_pred             HHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhhhcEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhh
Confidence            98864             23577777766432  36678888999999999998854   33666677776666655443


Q ss_pred             H---HHcCCCCCHHHHHHHHHHhcCCHHHHHH
Q 021660          213 I---EAEGLDVTEGGLAALVRLCNGDMRKALN  241 (309)
Q Consensus       213 ~---~~~~~~~~~~~l~~i~~~~~g~~r~~~~  241 (309)
                      -   +..+.--++-.++.|+.++...-+.-+.
T Consensus       414 T~rMre~~~l~~dVdl~elA~lTKNfSGAEle  445 (744)
T KOG0741|consen  414 TKRMRENNKLSADVDLKELAALTKNFSGAELE  445 (744)
T ss_pred             hhhhhhcCCCCCCcCHHHHHHHhcCCchhHHH
Confidence            3   3334333455678888887543333333

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

Probab=99.07  E-value=3.4e-08  Score=79.37  Aligned_cols=187  Identities=19%  Similarity=0.223  Sum_probs=119.2

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccc--
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS--  135 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  135 (309)
                      +.+.+..+...+..++. .+.++|+-|+|||.+.+++...+....  ...+.++.............+..+...+...  
T Consensus        36 h~e~l~~l~~~i~d~qg-~~~vtGevGsGKTv~~Ral~~s~~~d~--~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~  112 (269)
T COG3267          36 HNEALLMLHAAIADGQG-ILAVTGEVGSGKTVLRRALLASLNEDQ--VAVVVIDKPTLSDATLLEAIVADLESQPKVNVN  112 (269)
T ss_pred             hhHHHHHHHHHHhcCCc-eEEEEecCCCchhHHHHHHHHhcCCCc--eEEEEecCcchhHHHHHHHHHHHhccCccchhH
Confidence            56777788877777652 489999999999999996666654222  2223333333222221222222211100000  


Q ss_pred             -------------cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc---CCceEEEEecCC------cccchhhhccee
Q 021660          136 -------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---KNTRFALICNQV------NKIIPALQSRCT  193 (309)
Q Consensus       136 -------------~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~---~~~~~i~~~~~~------~~l~~~l~~r~~  193 (309)
                                   ......+.++++||++.+..+..+.|.-+.+.-.   ....+++++-..      ......+..|+.
T Consensus       113 ~~~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~  192 (269)
T COG3267         113 AVLEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRID  192 (269)
T ss_pred             HHHHHHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEE
Confidence                         1111245799999999999888777666655322   222344444211      112345677885


Q ss_pred             E-EEecCCChHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          194 R-FRFAPLEPVHVTERLKHVIEAEGLD---VTEGGLAALVRLCNGDMRKALNILQSTH  247 (309)
Q Consensus       194 ~-i~~~~~~~~~~~~~l~~~~~~~~~~---~~~~~l~~i~~~~~g~~r~~~~~l~~~~  247 (309)
                      . |.++|++.++...+++.+++..+..   ++++++..+...+.|-|+.+-+.+..+-
T Consensus       193 ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~Al  250 (269)
T COG3267         193 IRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATLAL  250 (269)
T ss_pred             EEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHHHH
Confidence            5 9999999999999999999887653   6799999999999998888777765444

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=99.06  E-value=4.8e-09  Score=90.13  Aligned_cols=164  Identities=13%  Similarity=0.090  Sum_probs=106.3

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc--------------
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--------------  116 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--------------  116 (309)
                      .|..++|++.....|.-..-..+...+||.|+.|+||||++++++..+.....-. -..++|....              
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 PFTAIVGQDPLKLALGLNAVDPQIGGALIAGEKGTAKSTLARALADLLPEIEVVI-GCPFNCDPDDPEEMCDECRAKGDE   93 (423)
T ss_pred             chhhhcCchHHHHHHhhhhcccccceeEEecCCCccHHHHHHHHHHhCCccceec-CCCCCCCCCChhhhhHHHHhhccc
Confidence            3677999999988877766666677799999999999999999999983211000 0001111100              


Q ss_pred             --------------------------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHH---
Q 021660          117 --------------------------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK---  167 (309)
Q Consensus       117 --------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~---  167 (309)
                                                +.=.+...+..-.....+.+-.+++++|+.|||+..|....++.|+++++.   
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                                      000111122211111111222356899999999999999999999999996   


Q ss_pred             ----------hcCCceEEEEecCC-cccchhhhcce-eEEEecCCC-hHHHHHHHHHHHHH
Q 021660          168 ----------YTKNTRFALICNQV-NKIIPALQSRC-TRFRFAPLE-PVHVTERLKHVIEA  215 (309)
Q Consensus       168 ----------~~~~~~~i~~~~~~-~~l~~~l~~r~-~~i~~~~~~-~~~~~~~l~~~~~~  215 (309)
                                ++.+..+|.+.|.. ..+-+.|+.|| ..+...++. .++..+++.+.+.-
T Consensus       174 ~vereGisi~hpa~fvligTmNPEeGeLrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r~~~f  234 (423)
T COG1239         174 DVEREGISIRHPARFLLIGTMNPEEGELRPQLLDRFGLEVDTHYPLDLEERVEIIRRRLAF  234 (423)
T ss_pred             eeeeCceeeccCccEEEEeecCccccccchhhHhhhcceeeccCCCCHHHHHHHHHHHHHh
Confidence                      23455666666655 46788999998 667766555 46666676666543

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.03  E-value=8.3e-09  Score=85.13  Aligned_cols=173  Identities=21%  Similarity=0.334  Sum_probs=108.5

Q ss_pred             ccccChHHHHHHH--------HHHhc-------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc-
Q 021660           54 DVAAHRDIVDTID--------RLTSE-------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-  117 (309)
Q Consensus        54 ~~ig~~~~~~~l~--------~~~~~-------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-  117 (309)
                      -+|||+.+++.+.        +....       ....++++.||+|+|||.||+.+|+.+     ++.|..-+++.... 
T Consensus        62 YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~L-----nVPFaiADATtLTEA  136 (408)
T COG1219          62 YVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKIL-----NVPFAIADATTLTEA  136 (408)
T ss_pred             heecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHh-----CCCeeeccccchhhc
Confidence            4678888777432        11111       123469999999999999999999998     66666666654321 


Q ss_pred             ---hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH--------------HHHHHHHHHHHHh----cC------
Q 021660          118 ---IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKY----TK------  170 (309)
Q Consensus       118 ---~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--------------~~~~~l~~~l~~~----~~------  170 (309)
                         .+.+...+..+.+...... .++++++++|||+|++..              ..+.+|+++++..    |+      
T Consensus       137 GYVGEDVENillkLlqaadydV-~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGTvasVPPqGGRKH  215 (408)
T COG1219         137 GYVGEDVENILLKLLQAADYDV-ERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKH  215 (408)
T ss_pred             cccchhHHHHHHHHHHHcccCH-HHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCceeccCCCCCCCC
Confidence               2333444444444333211 234789999999999863              3478999999942    11      


Q ss_pred             ---------CceEEEEec------------------------CC----------------------cccchhhhcce-eE
Q 021660          171 ---------NTRFALICN------------------------QV----------------------NKIIPALQSRC-TR  194 (309)
Q Consensus       171 ---------~~~~i~~~~------------------------~~----------------------~~l~~~l~~r~-~~  194 (309)
                               ...++|++.                        ..                      ..+.|.+..|+ .+
T Consensus       216 P~Qe~iqvDT~NILFIcgGAF~GlekiI~~R~~~~~iGF~a~~~~~~~~~~~~~~l~~vepeDLvkFGLIPEfIGRlPvi  295 (408)
T COG1219         216 PQQEFIQVDTSNILFICGGAFAGLEKIIKKRLGKKGIGFGAEVKSKSKKKEEGELLKQVEPEDLVKFGLIPEFIGRLPVI  295 (408)
T ss_pred             CccceEEEcccceeEEeccccccHHHHHHHhccCCcccccccccchhhhhhHHHHHHhcChHHHHHcCCcHHHhccccee
Confidence                     112333330                        00                      02345666777 55


Q ss_pred             EEecCCChHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHh
Q 021660          195 FRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLC  232 (309)
Q Consensus       195 i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~l~~i~~~~  232 (309)
                      ..+.+++.+++..+|..           .+...++  .++++++..|++.+
T Consensus       296 a~L~~Lde~aLv~ILtePkNAlvKQYq~Lf~~d~V~L~F~~~AL~~IA~~A  346 (408)
T COG1219         296 ATLEELDEDALVQILTEPKNALVKQYQKLFEMDGVELEFTEEALKAIAKKA  346 (408)
T ss_pred             eehhhcCHHHHHHHHhcccHHHHHHHHHHhcccCceEEEcHHHHHHHHHHH
Confidence            67888998888877543           2223343  57899999999876

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=99.03  E-value=1e-08  Score=83.92  Aligned_cols=175  Identities=18%  Similarity=0.249  Sum_probs=115.6

Q ss_pred             cccChHHHHHHHHH----HhcCCCCe---EEEECCCCCcHHHHHHHHHHHHccCcccccEEEE-----ecCCCcchHHHH
Q 021660           55 VAAHRDIVDTIDRL----TSENRLPH---LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL-----NASDDRGIDVVR  122 (309)
Q Consensus        55 ~ig~~~~~~~l~~~----~~~~~~~~---~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~  122 (309)
                      +.||.-+.+.+.+.    +.+..+..   +-|+|++||||+..++.+++.+...+....++..     +.+....++..+
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            56765555544444    44443322   7789999999999999999999887776665543     233333444444


Q ss_pred             HHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-------CCceEEEEecCCcccc----------
Q 021660          123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------KNTRFALICNQVNKII----------  185 (309)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-------~~~~~i~~~~~~~~l~----------  185 (309)
                      ..+.........  .  -.++++|+||+|+|.+...+.|...++..+       .+.++|+.+|......          
T Consensus       164 ~eL~~~v~~~v~--~--C~rslFIFDE~DKmp~gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~gg~eI~~~aL~~~~~  239 (344)
T KOG2170|consen  164 EELKNRVRGTVQ--A--CQRSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNAGGSEIARIALENARN  239 (344)
T ss_pred             HHHHHHHHHHHH--h--cCCceEEechhhhcCHhHHHHHhhhhccccccccccccceEEEEEcCCcchHHHHHHHHHHHc
Confidence            443332221111  1  157899999999999999999998888543       3567888886332110          


Q ss_pred             -------------hhhh-------------cc------e-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 021660          186 -------------PALQ-------------SR------C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC  232 (309)
Q Consensus       186 -------------~~l~-------------~r------~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~  232 (309)
                                   +.+.             ++      . ..|.|-|++...+...++..+.++|...+.+.++.+++..
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                         0000             00      1 3377888888889999998888888888888888888765


Q ss_pred             c
Q 021660          233 N  233 (309)
Q Consensus       233 ~  233 (309)
                      .
T Consensus       320 ~  320 (344)
T KOG2170|consen  320 S  320 (344)
T ss_pred             c
Confidence            4

>PRK07952 DNA replication protein DnaC; Validated

Probab=99.02  E-value=1.5e-09  Score=88.99  Aligned_cols=129  Identities=15%  Similarity=0.257  Sum_probs=76.2

Q ss_pred             hhcCCCCcccccc----ChHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           45 EKYRPQSLADVAA----HRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        45 ~~~~p~~~~~~ig----~~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      +.|+..+|+.+..    +..++..+.+++....  ..+++|+|++|+|||+|+.++++.+...+..+.++.  ..     
T Consensus        64 ~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it--~~-----  136 (244)
T PRK07952         64 PLHQNCSFENYRVECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT--VA-----  136 (244)
T ss_pred             ccccCCccccccCCCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE--HH-----
Confidence            4455566766653    3446666666665432  235999999999999999999999976555444442  21     


Q ss_pred             HHHHHHHHHhhhccc----cccCCCCccEEEEEeCCCCCCHH--HHHHHHHHHHHh-cCCceEEEEecCC
Q 021660          119 DVVRQQIQDFASTQS----FSFGVKASVKLVLLDEADAMTKD--AQFALRRVIEKY-TKNTRFALICNQV  181 (309)
Q Consensus       119 ~~~~~~~~~~~~~~~----~~~~~~~~~~lliiDe~~~l~~~--~~~~l~~~l~~~-~~~~~~i~~~~~~  181 (309)
                       .+...+........    ..+.......+|+|||++.....  ....|..+++.. .....+|++||..
T Consensus       137 -~l~~~l~~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl~  205 (244)
T PRK07952        137 -DIMSAMKDTFSNSETSEEQLLNDLSNVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNSN  205 (244)
T ss_pred             -HHHHHHHHHHhhccccHHHHHHHhccCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCCC
Confidence             11111111000000    00000114679999999876532  345788888854 3466788888754

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=99.02  E-value=3.5e-09  Score=95.26  Aligned_cols=138  Identities=17%  Similarity=0.235  Sum_probs=88.7

Q ss_pred             cccccChHHHHHHHHHHhcCC---------C---CeEEEECCCCCcHHHHHHHHHHHHccCcc----cc------cEEEE
Q 021660           53 ADVAAHRDIVDTIDRLTSENR---------L---PHLLLYGPPGTGKTSTILAVARKLYGAQY----HN------MILEL  110 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~---------~---~~~ll~G~~G~GKT~l~~~l~~~~~~~~~----~~------~~~~~  110 (309)
                      .++.|++.+++.+.-.+.++.         .   -|+||+|-||+|||.+++.+.+.+....+    +.      .++..
T Consensus       429 PsIye~edvKkglLLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVtr  508 (804)
T KOG0478|consen  429 PSIYELEDVKKGLLLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVTK  508 (804)
T ss_pred             hhhhcccchhhhHHHHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEEe
Confidence            367788888886665554431         1   24999999999999999999888743211    00      11111


Q ss_pred             ecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceEEEE
Q 021660          111 NASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALI  177 (309)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~  177 (309)
                      +....       +.   ..++....++   ..+++.|||+|+++...+..|.++|+..             +..+.|+.+
T Consensus       509 d~dtk-------ql---VLesGALVLS---D~GiCCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAa  575 (804)
T KOG0478|consen  509 DPDTR-------QL---VLESGALVLS---DNGICCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAA  575 (804)
T ss_pred             cCccc-------ee---eeecCcEEEc---CCceEEchhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeee
Confidence            11110       00   1111111122   5789999999999999999999999962             456778888


Q ss_pred             ecCCc-------------ccchhhhcceeE--EEecCCChH
Q 021660          178 CNQVN-------------KIIPALQSRCTR--FRFAPLEPV  203 (309)
Q Consensus       178 ~~~~~-------------~l~~~l~~r~~~--i~~~~~~~~  203 (309)
                      +|...             .+++.|++||..  +-+.+++..
T Consensus       576 ANP~~skynp~k~i~eNI~LpptLLSRFDLIylllD~~DE~  616 (804)
T KOG0478|consen  576 ANPIRSKYNPNKSIIENINLPPTLLSRFDLIFLLLDKPDER  616 (804)
T ss_pred             eccccccCCCCCchhhccCCChhhhhhhcEEEEEecCcchh
Confidence            87432             467899999944  445666544

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.97  E-value=1.7e-08  Score=75.99  Aligned_cols=95  Identities=28%  Similarity=0.333  Sum_probs=56.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc--------------------chHHHHHHHHHhhhcccc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--------------------GIDVVRQQIQDFASTQSF  134 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~  134 (309)
                      .+++|+||||+|||++++.++..+.....  .++.++.....                    ...... ........   
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~---   76 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGG--GVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLR-LALALARK---   76 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCC--CEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHH-HHHHHHHh---
Confidence            46999999999999999999999854431  23333333211                    111111 11111111   


Q ss_pred             ccCCCCccEEEEEeCCCCCCHHHHHHHHH--------HHHHhcCCceEEEEecC
Q 021660          135 SFGVKASVKLVLLDEADAMTKDAQFALRR--------VIEKYTKNTRFALICNQ  180 (309)
Q Consensus       135 ~~~~~~~~~lliiDe~~~l~~~~~~~l~~--------~l~~~~~~~~~i~~~~~  180 (309)
                           ..+.+|++||++.+..........        ..........+|+++|.
T Consensus        77 -----~~~~viiiDei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  125 (148)
T smart00382       77 -----LKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTND  125 (148)
T ss_pred             -----cCCCEEEEECCcccCCHHHHHHHHhhhhhHHHHHHHhcCCCEEEEEeCC
Confidence                 024899999999998665444332        22234446677777775

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=98.97  E-value=6.4e-09  Score=90.66  Aligned_cols=47  Identities=30%  Similarity=0.459  Sum_probs=42.6

Q ss_pred             CCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..|.|++||+..++.+.-...++  .+++++||||||||+++..+..-+
T Consensus       176 ~D~~DV~GQ~~AKrAleiAAAGg--HnLl~~GpPGtGKTmla~Rl~~lL  222 (490)
T COG0606         176 PDFKDVKGQEQAKRALEIAAAGG--HNLLLVGPPGTGKTMLASRLPGLL  222 (490)
T ss_pred             cchhhhcCcHHHHHHHHHHHhcC--CcEEEecCCCCchHHhhhhhcccC
Confidence            36899999999999999999887  569999999999999999987776

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=98.96  E-value=3e-09  Score=97.84  Aligned_cols=145  Identities=20%  Similarity=0.225  Sum_probs=88.6

Q ss_pred             ccccccChHHHHHHHHHHhcCCC------------CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch-
Q 021660           52 LADVAAHRDIVDTIDRLTSENRL------------PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI-  118 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~~------------~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-  118 (309)
                      ...+.|++.+++.+.-.+.++..            -|+||.|-||+|||+|.+.+++...    ...+.....+...+. 
T Consensus       285 aPsIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aP----r~vytsgkgss~~GLT  360 (682)
T COG1241         285 APSIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAP----RGVYTSGKGSSAAGLT  360 (682)
T ss_pred             cccccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCC----ceEEEccccccccCce
Confidence            45778899988877766654411            2499999999999999999998862    222222222211111 


Q ss_pred             -HHHHHHH--HHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceEEEEecCCc
Q 021660          119 -DVVRQQI--QDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQVN  182 (309)
Q Consensus       119 -~~~~~~~--~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~~~~~~  182 (309)
                       ...+...  ....+.....+   +.+++++|||+|++.......|.++|+..             +..+.+++++|+..
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             0011111  00111111212   25889999999999999999999999963             23445555555432


Q ss_pred             -------------ccchhhhcceeEEE--ecCCChH
Q 021660          183 -------------KIIPALQSRCTRFR--FAPLEPV  203 (309)
Q Consensus       183 -------------~l~~~l~~r~~~i~--~~~~~~~  203 (309)
                                   .+++.+.+||..+.  ...++.+
T Consensus       438 Gryd~~~~~~enI~l~~~lLSRFDLifvl~D~~d~~  473 (682)
T COG1241         438 GRYDPKKTVAENINLPAPLLSRFDLIFVLKDDPDEE  473 (682)
T ss_pred             CcCCCCCCHHHhcCCChhHHhhCCeeEEecCCCCcc
Confidence                         46788999994433  3444443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.96  E-value=2.1e-07  Score=86.40  Aligned_cols=183  Identities=17%  Similarity=0.215  Sum_probs=122.2

Q ss_pred             cCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHH
Q 021660           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (309)
Q Consensus        47 ~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  126 (309)
                      .+|......+-++...+.+.+...   ...++|+.|.|.||||++-.++. ....+..+.+..++.+++.........+.
T Consensus        13 ~~P~~~~~~v~R~rL~~~L~~~~~---~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlslde~dndp~rF~~yLi~   88 (894)
T COG2909          13 VRPVRPDNYVVRPRLLDRLRRAND---YRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSLDESDNDPARFLSYLIA   88 (894)
T ss_pred             CCCCCcccccccHHHHHHHhcCCC---ceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeecCCccCCHHHHHHHHHH
Confidence            456666777777777766654322   23499999999999999999988 55667777788787777543332222222


Q ss_pred             Hhhhcccc--------------------------ccCCCCccEEEEEeCCCCCCHHH-HHHHHHHHHHhcCCceEEEEec
Q 021660          127 DFASTQSF--------------------------SFGVKASVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       127 ~~~~~~~~--------------------------~~~~~~~~~lliiDe~~~l~~~~-~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      ......+.                          .+..-.++..+||||.+.+.... ...+-.+++..|++..+|++|.
T Consensus        89 al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR  168 (894)
T COG2909          89 ALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSR  168 (894)
T ss_pred             HHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEec
Confidence            21111110                          01122357799999999998655 5667778888898999999996


Q ss_pred             CCccc-chhhhcceeEEEe----cCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCH
Q 021660          180 QVNKI-IPALQSRCTRFRF----APLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDM  236 (309)
Q Consensus       180 ~~~~l-~~~l~~r~~~i~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~  236 (309)
                      ..+.+ ...++-|-..+++    -.++.+|..+++....   +..++...+..+.++++|=+
T Consensus       169 ~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~---~l~Ld~~~~~~L~~~teGW~  227 (894)
T COG2909         169 SRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRG---SLPLDAADLKALYDRTEGWA  227 (894)
T ss_pred             cCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcC---CCCCChHHHHHHHhhcccHH
Confidence            65543 2333333222222    3467788888887763   48899999999999999844

>PRK09183 transposase/IS protein; Provisional

Probab=98.95  E-value=3.9e-09  Score=87.90  Aligned_cols=97  Identities=20%  Similarity=0.249  Sum_probs=58.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHH-----HHHhhhccccccCCCCccEEEEEeC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ-----IQDFASTQSFSFGVKASVKLVLLDE  149 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~lliiDe  149 (309)
                      .+++|+||+|+|||+++.+++......+..+.++.  ....  ...+...     +.......      .....+++|||
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~--~~~l--~~~l~~a~~~~~~~~~~~~~------~~~~dlLiiDd  172 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT--AADL--LLQLSTAQRQGRYKTTLQRG------VMAPRLLIIDE  172 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe--HHHH--HHHHHHHHHCCcHHHHHHHH------hcCCCEEEEcc
Confidence            56999999999999999999888654454443332  1110  0011000     10111000      01457999999


Q ss_pred             CCCCC--HHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          150 ADAMT--KDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       150 ~~~l~--~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      ++...  ....+.|+.+++.......+|+++|..
T Consensus       173 lg~~~~~~~~~~~lf~li~~r~~~~s~iiTsn~~  206 (259)
T PRK09183        173 IGYLPFSQEEANLFFQVIAKRYEKGSMILTSNLP  206 (259)
T ss_pred             cccCCCChHHHHHHHHHHHHHHhcCcEEEecCCC
Confidence            98753  455667899988655455678888654

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.95  E-value=2e-09  Score=84.41  Aligned_cols=97  Identities=23%  Similarity=0.337  Sum_probs=59.0

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC-----CCcchHHHHHHHHHhhhccccccCCCCccEEEEEe
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS-----DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLD  148 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiD  148 (309)
                      ..+++|+||+|+|||+++.++++++...+..+.|+....-     .........+.+..+.           ...+||||
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~-----------~~dlLilD  115 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLK-----------RVDLLILD  115 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHH-----------TSSCEEEE
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccc-----------cccEeccc
Confidence            3569999999999999999999998776665555533210     0000011112222222           45799999


Q ss_pred             CCCCCC--HHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          149 EADAMT--KDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       149 e~~~l~--~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      |+....  ....+.|+++++....+...|++||..
T Consensus       116 DlG~~~~~~~~~~~l~~ii~~R~~~~~tIiTSN~~  150 (178)
T PF01695_consen  116 DLGYEPLSEWEAELLFEIIDERYERKPTIITSNLS  150 (178)
T ss_dssp             TCTSS---HHHHHCTHHHHHHHHHT-EEEEEESS-
T ss_pred             ccceeeecccccccchhhhhHhhcccCeEeeCCCc
Confidence            987654  445677888888654455778888754

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.

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.94  E-value=4.4e-08  Score=84.11  Aligned_cols=87  Identities=30%  Similarity=0.389  Sum_probs=64.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc----hHHHHHHHHHhhhccccccCCCCccEEEEEeCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~  150 (309)
                      .++++.||+|+|||.|++.+|+.+     ++.+...+|+....    .+.+...+..+........ .+++..|++|||+
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            359999999999999999999998     88888888876432    2344555555544333211 1236889999999


Q ss_pred             CCCC--------------HHHHHHHHHHHHH
Q 021660          151 DAMT--------------KDAQFALRRVIEK  167 (309)
Q Consensus       151 ~~l~--------------~~~~~~l~~~l~~  167 (309)
                      |++.              ...+..|+++++.
T Consensus       301 DKi~~~~~~i~~~RDVsGEGVQQaLLKllEG  331 (564)
T KOG0745|consen  301 DKITKKAESIHTSRDVSGEGVQQALLKLLEG  331 (564)
T ss_pred             hhhcccCccccccccccchhHHHHHHHHhcc
Confidence            9986              2357899999994

>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=98.94  E-value=4.9e-07  Score=73.70  Aligned_cols=140  Identities=19%  Similarity=0.264  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCC
Q 021660           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVK  139 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (309)
                      .....+..++...  ..-.++||+|+|||.+++.+++.+     +..++.+++........+.+.+......        
T Consensus        20 r~~~~l~~al~~~--~~~~~~GpagtGKtetik~La~~l-----G~~~~vfnc~~~~~~~~l~ril~G~~~~--------   84 (231)
T PF12774_consen   20 RCFLTLTQALSLN--LGGALSGPAGTGKTETIKDLARAL-----GRFVVVFNCSEQMDYQSLSRILKGLAQS--------   84 (231)
T ss_dssp             HHHHHHHHHHCTT--TEEEEESSTTSSHHHHHHHHHHCT-----T--EEEEETTSSS-HHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHhccC--CCCCCcCCCCCCchhHHHHHHHHh-----CCeEEEecccccccHHHHHHHHHHHhhc--------
Confidence            4444555666544  236789999999999999999998     8889999999988888887777776653        


Q ss_pred             CccEEEEEeCCCCCCHHHHHHHHHHHHHh--------------------cCCceEEEEecC----CcccchhhhcceeEE
Q 021660          140 ASVKLVLLDEADAMTKDAQFALRRVIEKY--------------------TKNTRFALICNQ----VNKIIPALQSRCTRF  195 (309)
Q Consensus       140 ~~~~lliiDe~~~l~~~~~~~l~~~l~~~--------------------~~~~~~i~~~~~----~~~l~~~l~~r~~~i  195 (309)
                        +..+++||++++..+....+...+...                    .+++.+.++.|.    ...+++.++.-|+.+
T Consensus        85 --GaW~cfdefnrl~~~vLS~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~lFRpv  162 (231)
T PF12774_consen   85 --GAWLCFDEFNRLSEEVLSVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPENLKALFRPV  162 (231)
T ss_dssp             --T-EEEEETCCCSSHHHHHHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-HHHCTTEEEE
T ss_pred             --CchhhhhhhhhhhHHHHHHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCHhHHHHhhee
Confidence              568999999999987765544444421                    123344445553    347888898889999


Q ss_pred             EecCCChHHHHHHHHHHHHHcCCC
Q 021660          196 RFAPLEPVHVTERLKHVIEAEGLD  219 (309)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~  219 (309)
                      .+..|+...+.++   ++...|..
T Consensus       163 am~~PD~~~I~ei---~L~s~GF~  183 (231)
T PF12774_consen  163 AMMVPDLSLIAEI---LLLSQGFK  183 (231)
T ss_dssp             E--S--HHHHHHH---HHHCCCTS
T ss_pred             EEeCCCHHHHHHH---HHHHcCch
Confidence            9999987666444   44445643

>PLN03210 Resistant to P

Probab=98.93  E-value=7.2e-08  Score=96.73  Aligned_cols=189  Identities=12%  Similarity=0.118  Sum_probs=107.6

Q ss_pred             CCccccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE---ecCC---------C
Q 021660           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL---NASD---------D  115 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~---~~~~---------~  115 (309)
                      ..+++++|.+..++.+..++...  ....+.|+|++|+||||+|+++++.+........++..   ....         .
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            35788999999999999887533  22339999999999999999999887543322222210   0000         0


Q ss_pred             cc--hHHHHHHHHHhhhcccccc--------CCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccc
Q 021660          116 RG--IDVVRQQIQDFASTQSFSF--------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKII  185 (309)
Q Consensus       116 ~~--~~~~~~~~~~~~~~~~~~~--------~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~  185 (309)
                      ..  .......+...........        .-...+.+|++||++.  ....+.|....+...+...+|+||++...+.
T Consensus       261 ~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~--~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~  338 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDD--QDVLDALAGQTQWFGSGSRIIVITKDKHFLR  338 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCC--HHHHHHHHhhCccCCCCcEEEEEeCcHHHHH
Confidence            00  0001111111111100000        0012567899999864  2344444443333334667888877543321


Q ss_pred             hhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHhcCCHHHHHHH
Q 021660          186 PALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT--EGGLAALVRLCNGDMRKALNI  242 (309)
Q Consensus       186 ~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~l~~i~~~~~g~~r~~~~~  242 (309)
                      ..  .-..++.+..++.++..+++.+.+-+....-+  .+....++++++|.|-.+.-+
T Consensus       339 ~~--~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vl  395 (1153)
T PLN03210        339 AH--GIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVL  395 (1153)
T ss_pred             hc--CCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHH
Confidence            11  11267888899999988888887754332211  244567888999987554433

syringae 6; Provisional

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.92  E-value=1.4e-07  Score=85.06  Aligned_cols=149  Identities=21%  Similarity=0.171  Sum_probs=91.7

Q ss_pred             CCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC----------------
Q 021660           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS----------------  113 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~----------------  113 (309)
                      ..+.++.|+..+++.+.-.+..+  .+++|.||+|+|||++++.+...+...... ...+...-                
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--HNLLLIGPPGTGKTMLASRINGLLPDLSNE-EALESAAILSLVNAESVQKQWRQR  264 (506)
T ss_pred             cCeEEEECcHHHHhhhheeccCC--cEEEEECCCCCcHHHHHHHHhccCCCCCCc-EEEecchhhhhhccccccCCcCCC
Confidence            37888999998888876555544  569999999999999999998876322111 11111100                


Q ss_pred             CC---cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceEEEE
Q 021660          114 DD---RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALI  177 (309)
Q Consensus       114 ~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~  177 (309)
                      .-   .........+..-.. .....-..+++.+|++||++.+....++.|.+.|++.             +.+..+|.+
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            00   000011111111000 0000112346789999999999999999999999752             345667777


Q ss_pred             ecCCc---------------------ccchhhhcce-eEEEecCCCh
Q 021660          178 CNQVN---------------------KIIPALQSRC-TRFRFAPLEP  202 (309)
Q Consensus       178 ~~~~~---------------------~l~~~l~~r~-~~i~~~~~~~  202 (309)
                      +|...                     ++...+.+|| ..+.+++++.
T Consensus       344 ~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLDRfdL~v~v~~~~~  390 (506)
T PRK09862        344 MNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLDRFDLSLEIPLPPP  390 (506)
T ss_pred             ecCccceecCCCCCCcCHHHHHHHHhhCCHhHHhhccEEEEeCCCCH
Confidence            76542                     3556788898 6678877753

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.92  E-value=1.6e-08  Score=86.67  Aligned_cols=137  Identities=19%  Similarity=0.262  Sum_probs=76.7

Q ss_pred             HHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCC
Q 021660           61 IVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        61 ~~~~l~~~~~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      ++.....++.+  ....+++|+||+|+|||+|+.++++++...+..+.++.  ...  -...+..............+..
T Consensus       168 ~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t--~~~--l~~~l~~~~~~~~~~~~~~~~~  243 (329)
T PRK06835        168 ILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT--ADE--LIEILREIRFNNDKELEEVYDL  243 (329)
T ss_pred             HHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE--HHH--HHHHHHHHHhccchhHHHHHHH
Confidence            34444455552  12256999999999999999999999976665444432  221  1111111000000000000000


Q ss_pred             CCccEEEEEeCCCCC--CHHHHHHHHHHHHHhc-CCceEEEEecCCcc-----cchhhhcc----eeEEEecCCC
Q 021660          139 KASVKLVLLDEADAM--TKDAQFALRRVIEKYT-KNTRFALICNQVNK-----IIPALQSR----CTRFRFAPLE  201 (309)
Q Consensus       139 ~~~~~lliiDe~~~l--~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~~-----l~~~l~~r----~~~i~~~~~~  201 (309)
                      .....+|||||+...  .+.....|+.+++... ....+|++||....     +.+.+.+|    +.++.|...+
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            114679999999554  4556788999999654 34567888875432     23445555    3556665444

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.91  E-value=8e-08  Score=88.41  Aligned_cols=202  Identities=14%  Similarity=0.117  Sum_probs=124.6

Q ss_pred             ChHHHHHHHHHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC--C--CcchHHHHHHHHHhhhcc
Q 021660           58 HRDIVDTIDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS--D--DRGIDVVRQQIQDFASTQ  132 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~  132 (309)
                      ++..+..+.-..-.. ....++|.|++|+|||++++.++..+..   ...|+.+..+  .  ..+.-.+...+..-....
T Consensus         8 ~~~~~~Al~l~av~p~~~gGv~i~g~~G~~ks~~~r~l~~llp~---~~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~   84 (584)
T PRK13406          8 WADAALAAALLAVDPAGLGGVVLRARAGPVRDRWLAALRALLPA---GTPLRRLPPGIADDRLLGGLDLAATLRAGRPVA   84 (584)
T ss_pred             HHHHHHHHHHhCcCccccceEEEEcCCCcHHHHHHHHHHHhcCC---CCCcccCCCCCcHHHccCCchHHhHhhcCCcCC
Confidence            344444443333333 5566999999999999999999998732   1233322221  1  122223333333222111


Q ss_pred             ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceEEEEec---CCcccchhhhcce-eEE
Q 021660          133 SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICN---QVNKIIPALQSRC-TRF  195 (309)
Q Consensus       133 ~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~~~---~~~~l~~~l~~r~-~~i  195 (309)
                      ....-..++++||+|||++.+.+..++.|++.++.-             +....+|.+-+   ....+.+.+..|| ..+
T Consensus        85 ~pGlla~Ah~GvL~lDe~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLDRf~l~v  164 (584)
T PRK13406         85 QRGLLAEADGGVLVLAMAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALADRLAFHL  164 (584)
T ss_pred             CCCceeeccCCEEEecCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHhheEEEE
Confidence            112223457889999999999999999999999962             22233333211   1235788899999 778


Q ss_pred             EecCCChHHHH-------HHHHHHHHHcCCCCCHHHHHHHHHHhc--C--CHHHHHHHHHHHHhhc-----CCcCHHHHH
Q 021660          196 RFAPLEPVHVT-------ERLKHVIEAEGLDVTEGGLAALVRLCN--G--DMRKALNILQSTHMAS-----QQITEEAVY  259 (309)
Q Consensus       196 ~~~~~~~~~~~-------~~l~~~~~~~~~~~~~~~l~~i~~~~~--g--~~r~~~~~l~~~~~~~-----~~i~~~~v~  259 (309)
                      .+..++..+..       .+...+..-.++.++++.++++++.+.  |  .+|..+.+++.+...+     ..++.++|.
T Consensus       165 ~v~~~~~~~~~~~~~~~~~I~~AR~rl~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~  244 (584)
T PRK13406        165 DLDGLALRDAREIPIDADDIAAARARLPAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLA  244 (584)
T ss_pred             EcCCCChHHhcccCCCHHHHHHHHHHHccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHH
Confidence            88877765432       233333222478899999988887552  2  5677777775554433     579999998


Q ss_pred             hhh
Q 021660          260 LCT  262 (309)
Q Consensus       260 ~~~  262 (309)
                      .++
T Consensus       245 ~Aa  247 (584)
T PRK13406        245 LAA  247 (584)
T ss_pred             HHH
Confidence            776

>PRK06921 hypothetical protein; Provisional

Probab=98.90  E-value=1.5e-08  Score=84.57  Aligned_cols=100  Identities=15%  Similarity=0.213  Sum_probs=60.1

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHccC-cccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCC
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA  152 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~  152 (309)
                      ..+++|+|++|+|||+|+.++++++... +..+.++.  ...  ....+...+......    +.......+|||||++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~--~~~--l~~~l~~~~~~~~~~----~~~~~~~dlLiIDDl~~  188 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP--FVE--GFGDLKDDFDLLEAK----LNRMKKVEVLFIDDLFK  188 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE--HHH--HHHHHHHHHHHHHHH----HHHhcCCCEEEEecccc
Confidence            4569999999999999999999998654 44443333  211  111221111111100    00111467999999944


Q ss_pred             -------CCHHHHHHHHHHHHHhc-CCceEEEEecCC
Q 021660          153 -------MTKDAQFALRRVIEKYT-KNTRFALICNQV  181 (309)
Q Consensus       153 -------l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~  181 (309)
                             ...-....|+.+++... ....+|+++|..
T Consensus       189 ~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~~  225 (266)
T PRK06921        189 PVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSELT  225 (266)
T ss_pred             ccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence                   33445667888888654 345677888754

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.89  E-value=7.1e-08  Score=80.35  Aligned_cols=123  Identities=24%  Similarity=0.349  Sum_probs=81.4

Q ss_pred             ccEEEEEeCCCCCCHH------------HHHHHHHHHHHhc--------CCceEEEEe------cCCcccchhhhcce-e
Q 021660          141 SVKLVLLDEADAMTKD------------AQFALRRVIEKYT--------KNTRFALIC------NQVNKIIPALQSRC-T  193 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~------------~~~~l~~~l~~~~--------~~~~~i~~~------~~~~~l~~~l~~r~-~  193 (309)
                      +.++++|||+|++...            .+..|+.+++...        ....++|++      ..++.+.|.|..|| .
T Consensus       250 ~~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQGRfPI  329 (444)
T COG1220         250 QNGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQGRFPI  329 (444)
T ss_pred             hcCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhcCCCce
Confidence            4569999999998532            2456888887532        112334443      46678889999999 8


Q ss_pred             EEEecCCChHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHhc--------CCHHHHHHHHHHHHh----
Q 021660          194 RFRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLCN--------GDMRKALNILQSTHM----  248 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~l~~i~~~~~--------g~~r~~~~~l~~~~~----  248 (309)
                      .+++.+++.+++..+|..           .++.+|+  .++++++..|++.+-        =-.|.+...++++.-    
T Consensus       330 RVEL~~Lt~~Df~rILtep~~sLikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhTvlErlLediSF  409 (444)
T COG1220         330 RVELDALTKEDFERILTEPKASLIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERLLEDISF  409 (444)
T ss_pred             EEEcccCCHHHHHHHHcCcchHHHHHHHHHHhhcCeeEEecHHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhCc
Confidence            899999999999887542           2334454  578999999999762        125666666655442    


Q ss_pred             hc-----C--CcCHHHHHhhhC
Q 021660          249 AS-----Q--QITEEAVYLCTG  263 (309)
Q Consensus       249 ~~-----~--~i~~~~v~~~~~  263 (309)
                      .+     .  .|+.+-|.+.++
T Consensus       410 eA~d~~g~~v~Id~~yV~~~l~  431 (444)
T COG1220         410 EAPDMSGQKVTIDAEYVEEKLG  431 (444)
T ss_pred             cCCcCCCCeEEEcHHHHHHHHH
Confidence            22     1  366666665553

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=98.89  E-value=2.2e-08  Score=89.58  Aligned_cols=233  Identities=17%  Similarity=0.145  Sum_probs=129.1

Q ss_pred             CccccccChHHHHHHHHHHhcCC------------CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           51 SLADVAAHRDIVDTIDRLTSENR------------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~------------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      -++.+.|++.++..+.-.+.++-            -.|++|.|-||+|||.++++++.-+.    ...|..-+.+...+.
T Consensus       343 l~PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsP----R~vYtsGkaSSaAGL  418 (764)
T KOG0480|consen  343 LFPSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSP----RSVYTSGKASSAAGL  418 (764)
T ss_pred             hCccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCC----cceEecCcccccccc
Confidence            46678899999887776665431            12499999999999999999988762    222222222111110


Q ss_pred             --HHHHH--HHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceEEEEecCC
Q 021660          119 --DVVRQ--QIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQV  181 (309)
Q Consensus       119 --~~~~~--~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~~~~~  181 (309)
                        ...+.  .-....+.....+   +..+|..|||+|++....+.+|+++|+..             +.++.+|.++|+.
T Consensus       419 TaaVvkD~esgdf~iEAGALmL---ADnGICCIDEFDKMd~~dqvAihEAMEQQtISIaKAGv~aTLnARtSIlAAANPv  495 (764)
T KOG0480|consen  419 TAAVVKDEESGDFTIEAGALML---ADNGICCIDEFDKMDVKDQVAIHEAMEQQTISIAKAGVVATLNARTSILAAANPV  495 (764)
T ss_pred             eEEEEecCCCCceeeecCcEEE---ccCceEEechhcccChHhHHHHHHHHHhheehheecceEEeecchhhhhhhcCCc
Confidence              00000  0000111111112   25789999999999998899999999963             2344566666543


Q ss_pred             c-------------ccchhhhccee--EEEecCCChHHHHHHHHHHHHH----------------------------cCC
Q 021660          182 N-------------KIIPALQSRCT--RFRFAPLEPVHVTERLKHVIEA----------------------------EGL  218 (309)
Q Consensus       182 ~-------------~l~~~l~~r~~--~i~~~~~~~~~~~~~l~~~~~~----------------------------~~~  218 (309)
                      .             ++.+.+.+||.  .+-+..++...-..+-++++..                            ..-
T Consensus       496 ~GhYdR~ktl~eNi~msApimSRFDL~FiLlD~~nE~~D~~ia~hIld~h~~i~~~~~~~~~~~~e~vrkYi~yAR~~~P  575 (764)
T KOG0480|consen  496 GGHYDRKKTLRENINMSAPIMSRFDLFFILLDDCNEVVDYAIARHILDLHRGIDDATERVCVYTLEQVRKYIRYARNFKP  575 (764)
T ss_pred             CCccccccchhhhcCCCchhhhhhcEEEEEecCCchHHHHHHHHHHHHHhccccccccccccccHHHHHHHHHHHHhcCc
Confidence            2             34567788873  3444445444333333333332                            222


Q ss_pred             CCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          219 DVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMK  293 (309)
Q Consensus       219 ~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  293 (309)
                      .++.++.+.|.+.+.+ +|.-  ..+.....+-.||...++.++...+.....++-+.+...+..++++.+.+-+
T Consensus       576 ~ls~ea~~~lve~Y~~-lR~~--~~~~~~~~s~~ITvRqLESlIRLsEA~Ar~~~~devt~~~v~ea~eLlk~Si  647 (764)
T KOG0480|consen  576 KLSKEASEMLVEKYKG-LRQR--DAQGNNRSSYRITVRQLESLIRLSEARARVECRDEVTKEDVEEAVELLKKSI  647 (764)
T ss_pred             cccHHHHHHHHHHHHH-HHHh--hccccCcccccccHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHHHHHHhhh
Confidence            3444555555544432 0000  0000000112577777777776666666666666666666666666666554

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

Probab=98.86  E-value=8.8e-09  Score=81.67  Aligned_cols=48  Identities=25%  Similarity=0.392  Sum_probs=34.0

Q ss_pred             ccccChHHHHHHHHHHh---cCCCCeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           54 DVAAHRDIVDTIDRLTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~---~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      .|+|+++.++.+...+.   .+..+.++|+|++|+|||++++.+...+...
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            37899999999999993   2334459999999999999999999988554

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=98.85  E-value=1.8e-07  Score=85.73  Aligned_cols=166  Identities=20%  Similarity=0.274  Sum_probs=104.5

Q ss_pred             ccChHHHHHHHHHHhcCC---------CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc--chHHHHHH
Q 021660           56 AAHRDIVDTIDRLTSENR---------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQQ  124 (309)
Q Consensus        56 ig~~~~~~~l~~~~~~~~---------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~  124 (309)
                      .+.+..+..+...+.-..         .+.+|++|+||+|||++++.+|+++     +.++.+++|....  ........
T Consensus       404 ~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~l-----g~h~~evdc~el~~~s~~~~etk  478 (953)
T KOG0736|consen  404 PGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASEL-----GLHLLEVDCYELVAESASHTETK  478 (953)
T ss_pred             ccchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHh-----CCceEeccHHHHhhcccchhHHH
Confidence            345555555555554321         2339999999999999999999998     8888888875321  11111111


Q ss_pred             HHHh-hhccccccCCCCccEEEEEeCCCCCCHHH--------HHHHHHHHH-H----hcCCceEEEEecCCcccchhhhc
Q 021660          125 IQDF-ASTQSFSFGVKASVKLVLLDEADAMTKDA--------QFALRRVIE-K----YTKNTRFALICNQVNKIIPALQS  190 (309)
Q Consensus       125 ~~~~-~~~~~~~~~~~~~~~lliiDe~~~l~~~~--------~~~l~~~l~-~----~~~~~~~i~~~~~~~~l~~~l~~  190 (309)
                      +... ......      .+.+|++.++|.+.-+.        ...+...+. +    ..+.+.+|.+++..+.+++.+.+
T Consensus       479 l~~~f~~a~~~------~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~lp~~i~~  552 (953)
T KOG0736|consen  479 LQAIFSRARRC------SPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLPADIQS  552 (953)
T ss_pred             HHHHHHHHhhc------CceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEeccccccCCHHHHH
Confidence            1111 111111      57789999888775221        222333333 1    12345667777888999999988


Q ss_pred             ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcC
Q 021660          191 RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTE-GGLAALVRLCNG  234 (309)
Q Consensus       191 r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~l~~i~~~~~g  234 (309)
                      -+ ..+.++.++.++..+|++-++....  +++ ..+..+++++.|
T Consensus       553 ~f~~ei~~~~lse~qRl~iLq~y~~~~~--~n~~v~~k~~a~~t~g  596 (953)
T KOG0736|consen  553 LFLHEIEVPALSEEQRLEILQWYLNHLP--LNQDVNLKQLARKTSG  596 (953)
T ss_pred             hhhhhccCCCCCHHHHHHHHHHHHhccc--cchHHHHHHHHHhcCC
Confidence            87 8899999999999999998876553  332 334455555554

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

Probab=98.84  E-value=6.1e-09  Score=77.71  Aligned_cols=104  Identities=27%  Similarity=0.369  Sum_probs=60.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcc---cccEEEEecCCCcchHHHHHHHHHhhhccccc-cC------------C
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY---HNMILELNASDDRGIDVVRQQIQDFASTQSFS-FG------------V  138 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~------------~  138 (309)
                      ..++++||+|+|||+++..+++.+.....   ...++.+++........+...+.......... ..            .
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            34999999999999999999999743210   34444555443333333333333332222211 00            0


Q ss_pred             CCccEEEEEeCCCCC-CHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          139 KASVKLVLLDEADAM-TKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       139 ~~~~~lliiDe~~~l-~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      .....+|+|||+|.+ ..+..+.|..+.+  .....+|+++++
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            112359999999999 7666666666665  446677777754

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.83  E-value=1.7e-08  Score=83.73  Aligned_cols=118  Identities=18%  Similarity=0.295  Sum_probs=66.0

Q ss_pred             ChHHHHHHHHHHh-cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccc-
Q 021660           58 HRDIVDTIDRLTS-ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS-  135 (309)
Q Consensus        58 ~~~~~~~l~~~~~-~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  135 (309)
                      +...+..+..... -.+..+++|+||||+|||+|+.++++++...+..+.++.+  ++  ....+......-  ..... 
T Consensus        88 ~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~--~e--l~~~Lk~~~~~~--~~~~~l  161 (254)
T COG1484          88 DKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA--PD--LLSKLKAAFDEG--RLEEKL  161 (254)
T ss_pred             hHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEH--HH--HHHHHHHHHhcC--chHHHH
Confidence            3344444443331 1244569999999999999999999999744454444432  21  111121111110  00000 


Q ss_pred             cCCCCccEEEEEeCCCCCC--HHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          136 FGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       136 ~~~~~~~~lliiDe~~~l~--~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      ........||||||+....  ....+.++.+|...-.....++++|..
T Consensus       162 ~~~l~~~dlLIiDDlG~~~~~~~~~~~~~q~I~~r~~~~~~~~tsN~~  209 (254)
T COG1484         162 LRELKKVDLLIIDDIGYEPFSQEEADLLFQLISRRYESRSLIITSNLS  209 (254)
T ss_pred             HHHhhcCCEEEEecccCccCCHHHHHHHHHHHHHHHhhccceeecCCC
Confidence            0001256899999987754  445677777777554343447788754

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.82  E-value=2.5e-07  Score=87.57  Aligned_cols=116  Identities=23%  Similarity=0.365  Sum_probs=79.8

Q ss_pred             cccccChHHHHHHHHHHhcCC-------CC-eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC----------
Q 021660           53 ADVAAHRDIVDTIDRLTSENR-------LP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD----------  114 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~-------~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~----------  114 (309)
                      +.++||++++..+...+...+       +. .++|.||.|+|||.+|++++..+++...  .++.++...          
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~--~~IriDmse~~evskligs  639 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEE--NFIRLDMSEFQEVSKLIGS  639 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCcc--ceEEechhhhhhhhhccCC
Confidence            468999999999988876432       22 2999999999999999999999955433  334444332          


Q ss_pred             ---CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEec
Q 021660          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICN  179 (309)
Q Consensus       115 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~  179 (309)
                         ..+... -..+......        ....||+|||+++..+..++.|+.++++-.           .+++||+|+|
T Consensus       640 p~gyvG~e~-gg~Lteavrr--------rP~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMTsn  709 (898)
T KOG1051|consen  640 PPGYVGKEE-GGQLTEAVKR--------RPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTSN  709 (898)
T ss_pred             Ccccccchh-HHHHHHHHhc--------CCceEEEEechhhcCHHHHHHHHHHHhcCccccCCCcEeeccceEEEEecc
Confidence               011111 1122222211        257899999999999999999999999621           4667888864

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=98.82  E-value=4.8e-07  Score=81.65  Aligned_cols=170  Identities=19%  Similarity=0.229  Sum_probs=112.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhcccc--------ccCCCCccEEEEEe
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF--------SFGVKASVKLVLLD  148 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~lliiD  148 (309)
                      +++.|++|+||-.+++.+.....   ..-.++.++|.... ...+.+.+..+......        ..-..+..+.+++|
T Consensus       339 vll~GEtGtGKe~laraiH~~s~---~~gpfvAvNCaAip-~~liesELFGy~~GafTga~~kG~~g~~~~A~gGtlFld  414 (606)
T COG3284         339 VLLQGETGTGKEVLARAIHQNSE---AAGPFVAVNCAAIP-EALIESELFGYVAGAFTGARRKGYKGKLEQADGGTLFLD  414 (606)
T ss_pred             eEecCCcchhHHHHHHHHHhccc---ccCCeEEEEeccch-HHhhhHHHhccCccccccchhccccccceecCCCccHHH
Confidence            99999999999999999987753   45667888887632 22233333222211111        01122467789999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhc----------CCceEEEEecCC-------cccchhhhcce--eEEEecCCCh-HHHHHH
Q 021660          149 EADAMTKDAQFALRRVIEKYT----------KNTRFALICNQV-------NKIIPALQSRC--TRFRFAPLEP-VHVTER  208 (309)
Q Consensus       149 e~~~l~~~~~~~l~~~l~~~~----------~~~~~i~~~~~~-------~~l~~~l~~r~--~~i~~~~~~~-~~~~~~  208 (309)
                      |+..|+-+.+..|+.++++-.          -+..+|.+|+..       ...-+.|.-|.  .+|.++|+.. .+....
T Consensus       415 eIgd~p~~~Qs~LLrVl~e~~v~p~g~~~~~vdirvi~ath~dl~~lv~~g~fredLyyrL~~~~i~lP~lr~R~d~~~~  494 (606)
T COG3284         415 EIGDMPLALQSRLLRVLQEGVVTPLGGTRIKVDIRVIAATHRDLAQLVEQGRFREDLYYRLNAFVITLPPLRERSDRIPL  494 (606)
T ss_pred             HhhhchHHHHHHHHHHHhhCceeccCCcceeEEEEEEeccCcCHHHHHHcCCchHHHHHHhcCeeeccCchhcccccHHH
Confidence            999999999999999999631          234455555432       12334455555  4566666653 234444


Q ss_pred             HHHHHHHc---CCCCCHHHHHHHHHH-hcCCHHHHHHHHHHHHhhc
Q 021660          209 LKHVIEAE---GLDVTEGGLAALVRL-CNGDMRKALNILQSTHMAS  250 (309)
Q Consensus       209 l~~~~~~~---~~~~~~~~l~~i~~~-~~g~~r~~~~~l~~~~~~~  250 (309)
                      |.+++.++   ...+++++++.+..+ ++||+|.+.+.++.++..+
T Consensus       495 l~~~~~~~~~~~~~l~~~~~~~l~~~~WPGNirel~~v~~~~~~l~  540 (606)
T COG3284         495 LDRILKRENDWRLQLDDDALARLLAYRWPGNIRELDNVIERLAALS  540 (606)
T ss_pred             HHHHHHHccCCCccCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHcC
Confidence            55555554   467899999888775 6999999999999998766

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.81  E-value=1.8e-08  Score=85.73  Aligned_cols=127  Identities=18%  Similarity=0.188  Sum_probs=71.1

Q ss_pred             CCCcccccc----ChHHHHHHHHHHhcC----CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHH
Q 021660           49 PQSLADVAA----HRDIVDTIDRLTSEN----RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (309)
Q Consensus        49 p~~~~~~ig----~~~~~~~l~~~~~~~----~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (309)
                      ..+|+++..    +..+...+..++...    ...+++|+||+|+|||+|+.++++++...+..+.++.+..    ....
T Consensus       123 ~atf~~~~~~~~~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~----l~~~  198 (306)
T PRK08939        123 QASLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPE----FIRE  198 (306)
T ss_pred             cCcHHHhcCCChHHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHH----HHHH
Confidence            445666653    334445555565532    2345999999999999999999999976665555543321    1111


Q ss_pred             HHHHHHHhhhccccccCCCCccEEEEEeCCCCCC--HHHHHHH-HHHHHHh-cCCceEEEEecCC
Q 021660          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFAL-RRVIEKY-TKNTRFALICNQV  181 (309)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~--~~~~~~l-~~~l~~~-~~~~~~i~~~~~~  181 (309)
                      +...+..-.  ....+.......+|||||+..-.  +-....+ ..+++.. ....+.|++||..
T Consensus       199 lk~~~~~~~--~~~~l~~l~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl~  261 (306)
T PRK08939        199 LKNSISDGS--VKEKIDAVKEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNFD  261 (306)
T ss_pred             HHHHHhcCc--HHHHHHHhcCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCCC
Confidence            111110000  00000001156799999986543  3334344 4455643 4567788888754

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=98.80  E-value=1.2e-07  Score=84.77  Aligned_cols=227  Identities=14%  Similarity=0.167  Sum_probs=127.2

Q ss_pred             cccccChHHHHHHHHHHhcCCC------------CeEEEECCCCCcHHHHHHHHHHHHcc----CcccccEEEEec--CC
Q 021660           53 ADVAAHRDIVDTIDRLTSENRL------------PHLLLYGPPGTGKTSTILAVARKLYG----AQYHNMILELNA--SD  114 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~~------------~~~ll~G~~G~GKT~l~~~l~~~~~~----~~~~~~~~~~~~--~~  114 (309)
                      ..+.|+..++.++.-.+.++..            -++||+|-||||||.+++.+++....    .|.+...+-+.+  ..
T Consensus       449 PsIyGh~~VK~AvAlaLfGGv~kn~~~khkvRGDinvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~K  528 (854)
T KOG0477|consen  449 PSIYGHEDVKRAVALALFGGVPKNPGGKHKVRGDINVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRK  528 (854)
T ss_pred             chhhchHHHHHHHHHHHhcCCccCCCCCceeccceeEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEee
Confidence            3577889988888877765421            13999999999999999999887521    111111111111  11


Q ss_pred             CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceEEEEecCC
Q 021660          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQV  181 (309)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~~~~~  181 (309)
                      ..-..+|      .++.....++   .++|++|||+|++.......+.+.|+..             ...+.+|+++|..
T Consensus       529 dPvtrEW------TLEaGALVLA---DkGvClIDEFDKMndqDRtSIHEAMEQQSISISKAGIVtsLqArctvIAAanPi  599 (854)
T KOG0477|consen  529 DPVTREW------TLEAGALVLA---DKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARCTVIAAANPI  599 (854)
T ss_pred             CCcccee------eeccCeEEEc---cCceEEeehhhhhcccccchHHHHHHhcchhhhhhhHHHHHHhhhhhheecCCC
Confidence            1001111      1111122222   5789999999999988888888888853             2456788888752


Q ss_pred             c-------------ccchhhhcceeEEEe-----cCCChHHHHHHH-HHHHHHc-------CC----------CCCHHHH
Q 021660          182 N-------------KIIPALQSRCTRFRF-----APLEPVHVTERL-KHVIEAE-------GL----------DVTEGGL  225 (309)
Q Consensus       182 ~-------------~l~~~l~~r~~~i~~-----~~~~~~~~~~~l-~~~~~~~-------~~----------~~~~~~l  225 (309)
                      .             .+.+.+++||.++.+     .|...+.+.+++ ..+.+-+       +.          .++++++
T Consensus       600 gGRY~~s~tFaqNV~ltePIlSRFDiLcVvkD~vd~~~De~lA~fVV~Sh~r~hp~~~~~~~~~e~~~~~~v~~ipq~lL  679 (854)
T KOG0477|consen  600 GGRYNPSLTFAQNVDLTEPILSRFDILCVVKDTVDPVQDEKLAKFVVGSHVRHHPSNKEEDGLEEPQMPARVEPIPQELL  679 (854)
T ss_pred             CCccCCccchhhccccccchhhhcceeeeeecccCchhHHHHHHHHHHhHhhcCCcccccCcccccccccccccChHHHH
Confidence            1             345678888855443     333333444433 2222211       11          1445555


Q ss_pred             HHHHHHh---------cCCHHHHHHHHHHHHhhc-----CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHH
Q 021660          226 AALVRLC---------NGDMRKALNILQSTHMAS-----QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKR  288 (309)
Q Consensus       226 ~~i~~~~---------~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  288 (309)
                      ..-.-++         .+|..++-+....+-..+     -.||..+++.++.-.+......+-+.+...|...|+.+
T Consensus       680 rkyI~yar~~v~PkL~q~d~~K~s~vya~lRkES~~tGs~piTvRHieS~ir~seAhArm~Lr~~V~~~d~~~AI~v  756 (854)
T KOG0477|consen  680 RKYIIYAREKVRPKLNQMDMDKISSVYADLRKESMATGSLPITVRHIESMIRMSEAHARMHLREYVTEEDVDMAIRV  756 (854)
T ss_pred             HHHHHHHHHhcccccccccHHHHHHHHHHHHhhccccCCchhhHHHHHHHHHHHHHHHHHHHHhhccHhHHHHHHHH
Confidence            4444433         233333333332222211     25788888877766666666666666666666665554

>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=98.74  E-value=1.2e-07  Score=79.53  Aligned_cols=148  Identities=19%  Similarity=0.284  Sum_probs=84.7

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccc-cccCCC-Cc
Q 021660           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS-FSFGVK-AS  141 (309)
Q Consensus        64 ~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~-~~  141 (309)
                      .+..++..+  .+++|+||+|+|||.+++.+.+.+....  .....++.+.......+...++....... ..+++. .+
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--RPVLLVGPSGTGKTSLIQNFLSSLDSDK--YLVITINFSAQTTSNQLQKIIESKLEKRRGRVYGPPGGK  100 (272)
T ss_dssp             HHHHHHHCT--EEEEEESSTTSSHHHHHHHHHHCSTTCC--EEEEEEES-TTHHHHHHHHCCCTTECECTTEEEEEESSS
T ss_pred             HHHHHHHcC--CcEEEECCCCCchhHHHHhhhccCCccc--cceeEeeccCCCCHHHHHHHHhhcEEcCCCCCCCCCCCc
Confidence            444555554  3499999999999999999887763322  22334555544444333333322221111 112222 24


Q ss_pred             cEEEEEeCCCCCCHH------HHHHHHHHHHHhc------------CCceEEEEecCCc---ccchhhhcceeEEEecCC
Q 021660          142 VKLVLLDEADAMTKD------AQFALRRVIEKYT------------KNTRFALICNQVN---KIIPALQSRCTRFRFAPL  200 (309)
Q Consensus       142 ~~lliiDe~~~l~~~------~~~~l~~~l~~~~------------~~~~~i~~~~~~~---~l~~~l~~r~~~i~~~~~  200 (309)
                      +.+++|||++.-.++      ..+.|..+++...            .+..+|.+++...   .+.+.+.+.|.++.+..|
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            568999999765433      2466667776311            2445566555432   467788888999999999


Q ss_pred             ChHHHHHHHHHHHHH
Q 021660          201 EPVHVTERLKHVIEA  215 (309)
Q Consensus       201 ~~~~~~~~l~~~~~~  215 (309)
                      +.+.+..+...++..
T Consensus       181 ~~~sl~~If~~il~~  195 (272)
T PF12775_consen  181 SDESLNTIFSSILQS  195 (272)
T ss_dssp             TCCHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhh
Confidence            999999988887764

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.71  E-value=5.2e-07  Score=67.39  Aligned_cols=27  Identities=37%  Similarity=0.673  Sum_probs=24.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      .++++|+||+||||++..++..+...+
T Consensus         7 ki~ITG~PGvGKtTl~~ki~e~L~~~g   33 (179)
T COG1618           7 KIFITGRPGVGKTTLVLKIAEKLREKG   33 (179)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHhcC
Confidence            499999999999999999999986553

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

Probab=98.70  E-value=9.8e-07  Score=77.83  Aligned_cols=153  Identities=14%  Similarity=0.269  Sum_probs=92.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC-Ccch------HHHHHHHHHhhhccccccCCCCccEEEEEe
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGI------DVVRQQIQDFASTQSFSFGVKASVKLVLLD  148 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~lliiD  148 (309)
                      .+||.||||+|||+||..+|...     ...|+.+-+.. ..+.      ..+...+.+..++         .-.+|++|
T Consensus       540 SvLl~Gp~~sGKTaLAA~iA~~S-----~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS---------~lsiivvD  605 (744)
T KOG0741|consen  540 SVLLEGPPGSGKTALAAKIALSS-----DFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKS---------PLSIIVVD  605 (744)
T ss_pred             EEEEecCCCCChHHHHHHHHhhc-----CCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcC---------cceEEEEc
Confidence            39999999999999999999886     56666654433 2222      2233344444332         56799999


Q ss_pred             CCCCCC------HH----HHHHHHHHHHHhcCC--ceEEEEecCCcccchh--hhcce-eEEEecCCCh-HHHHHHHHHH
Q 021660          149 EADAMT------KD----AQFALRRVIEKYTKN--TRFALICNQVNKIIPA--LQSRC-TRFRFAPLEP-VHVTERLKHV  212 (309)
Q Consensus       149 e~~~l~------~~----~~~~l~~~l~~~~~~--~~~i~~~~~~~~l~~~--l~~r~-~~i~~~~~~~-~~~~~~l~~~  212 (309)
                      ++++|-      +.    ....|+=++...|+.  -.+|++|+........  +..-| ..++++.++. +++.+++...
T Consensus       606 diErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~  685 (744)
T KOG0741|consen  606 DIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEEL  685 (744)
T ss_pred             chhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHHc
Confidence            998873      22    345555566665554  3456666554443332  33444 6788888876 6777777653


Q ss_pred             HHHcCCCCCHHHHHHHHHHhcC-----CHHHHHHHHHHHH
Q 021660          213 IEAEGLDVTEGGLAALVRLCNG-----DMRKALNILQSTH  247 (309)
Q Consensus       213 ~~~~~~~~~~~~l~~i~~~~~g-----~~r~~~~~l~~~~  247 (309)
                          + .++++....+++.-.+     -+..++.+++.+.
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 3556666666655433     1445555555443

>PHA02774 E1; Provisional

Probab=98.66  E-value=7.6e-07  Score=80.35  Aligned_cols=138  Identities=22%  Similarity=0.273  Sum_probs=87.3

Q ss_pred             HHHHHHHHHHhcCCCC-eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCC
Q 021660           60 DIVDTIDRLTSENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      ..+..++.++++.... .++|+||||+|||+++..+++.+.    +..+..++.....    +   +..           
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~----G~vi~fvN~~s~F----w---Lqp-----------  476 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK----GKVISFVNSKSHF----W---LQP-----------  476 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC----CCEEEEEECcccc----c---cch-----------
Confidence            5667788888765433 399999999999999999999983    1222223332111    1   111           


Q ss_pred             CCccEEEEEeCCCCCCHHH-HHHHHHHHHHhc-------------CCceEEEEecCCc---ccchhhhcceeEEEecC--
Q 021660          139 KASVKLVLLDEADAMTKDA-QFALRRVIEKYT-------------KNTRFALICNQVN---KIIPALQSRCTRFRFAP--  199 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~-~~~l~~~l~~~~-------------~~~~~i~~~~~~~---~l~~~l~~r~~~i~~~~--  199 (309)
                      -...+++++||+..-..+. ...|..+++..+             ..+++|+|||...   .-.+.|.+|...+.|+.  
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            1146799999983322111 234556665431             2367888887432   23456888988777643  


Q ss_pred             -----------CChHHHHHHHHHHHHHcCCC
Q 021660          200 -----------LEPVHVTERLKHVIEAEGLD  219 (309)
Q Consensus       200 -----------~~~~~~~~~l~~~~~~~~~~  219 (309)
                                 ++....+.++++...+.++.
T Consensus       557 P~d~~G~P~f~ltd~~WKsFF~rlw~~LdL~  587 (613)
T PHA02774        557 PLDENGNPVFELTDANWKSFFERLWSQLDLS  587 (613)
T ss_pred             CcCCCCCEeeeeCchhHHHHHHHHHHHcCCC
Confidence                       34577888999988887765

>PHA00729 NTP-binding motif containing protein

Probab=98.61  E-value=5.9e-07  Score=72.19  Aligned_cols=125  Identities=18%  Similarity=0.240  Sum_probs=66.6

Q ss_pred             HHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccc--cEEEEecCC---CcchHHHHHHHHHhhhccccccCCCCc
Q 021660           67 RLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHN--MILELNASD---DRGIDVVRQQIQDFASTQSFSFGVKAS  141 (309)
Q Consensus        67 ~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~--~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~  141 (309)
                      +.+..+...+++|+|+||+|||++|..+++.+.......  ....+....   -.....+...+......       ...
T Consensus        10 ~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~~~~~fid~~~Ll~~L~~a~~~-------~~~   82 (226)
T PHA00729         10 SAYNNNGFVSAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYVQNSYFFELPDALEKIQDAIDN-------DYR   82 (226)
T ss_pred             HHHhcCCeEEEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcCCcEEEEEHHHHHHHHHHHHhc-------CCC
Confidence            334455556799999999999999999999873110000  000000000   01122233333322211       012


Q ss_pred             cEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHH
Q 021660          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHV  212 (309)
Q Consensus       142 ~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~  212 (309)
                      ..+|||||+.--....   .  +..+      ..   .....+.+.+++|+..+.|.+++++++.+.++.+
T Consensus        83 ~dlLIIDd~G~~~~~~---~--wh~~------~~---~~yf~L~~aLrSR~~l~il~~ls~edL~~~Lr~R  139 (226)
T PHA00729         83 IPLIIFDDAGIWLSKY---V--WYED------YM---KTFYKIYALIRTRVSAVIFTTPSPEDLAFYLREK  139 (226)
T ss_pred             CCEEEEeCCchhhccc---c--hhhh------cc---chHHHHHHHHHhhCcEEEEecCCHHHHHHHHHhC
Confidence            3578999864221110   0  0000      00   1122456778889989999999999888877763

>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=98.58  E-value=7.8e-08  Score=74.54  Aligned_cols=63  Identities=16%  Similarity=0.280  Sum_probs=36.5

Q ss_pred             ccEEEEEeCCCCC---CHHHHHHHHHHHHHhcCCceEEEEecC--Ccccchhhhcc--eeEEEecCCChHHHH
Q 021660          141 SVKLVLLDEADAM---TKDAQFALRRVIEKYTKNTRFALICNQ--VNKIIPALQSR--CTRFRFAPLEPVHVT  206 (309)
Q Consensus       141 ~~~lliiDe~~~l---~~~~~~~l~~~l~~~~~~~~~i~~~~~--~~~l~~~l~~r--~~~i~~~~~~~~~~~  206 (309)
                      ...+++|||+..+   ++...+.+..+++   .+..+|.+-..  ...+.+.+.+|  +.++.+.+-+.+.+.
T Consensus        95 ~~~liviDEIG~mEl~~~~F~~~v~~~l~---s~~~vi~vv~~~~~~~~l~~i~~~~~~~i~~vt~~NRd~l~  164 (168)
T PF03266_consen   95 SSDLIVIDEIGKMELKSPGFREAVEKLLD---SNKPVIGVVHKRSDNPFLEEIKRRPDVKIFEVTEENRDALP  164 (168)
T ss_dssp             CCHEEEE---STTCCC-CHHHHHHHHHHC---TTSEEEEE--SS--SCCHHHHHTTTTSEEEE--TTTCCCHH
T ss_pred             CCCEEEEeccchhhhcCHHHHHHHHHHHc---CCCcEEEEEecCCCcHHHHHHHhCCCcEEEEeChhHHhhHh
Confidence            5679999998665   4566777777777   23445555433  34567788887  688888777665553

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.

>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=98.57  E-value=1.4e-05  Score=69.74  Aligned_cols=106  Identities=8%  Similarity=0.132  Sum_probs=69.1

Q ss_pred             cEEEEEeCCCCCCHHHHHHHHHHHHH------hcCCceEEEEecCCc---ccchhhhcc-eeEEEecCCChHHHHHHHHH
Q 021660          142 VKLVLLDEADAMTKDAQFALRRVIEK------YTKNTRFALICNQVN---KIIPALQSR-CTRFRFAPLEPVHVTERLKH  211 (309)
Q Consensus       142 ~~lliiDe~~~l~~~~~~~l~~~l~~------~~~~~~~i~~~~~~~---~l~~~l~~r-~~~i~~~~~~~~~~~~~l~~  211 (309)
                      +.||+||++..-... .+.+++.|.+      ...-..||+.|++..   .+.+++-++ |..|.+...+++..+.++..
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            569999998664433 3444443332      123456788876543   455566665 48899999999999999999


Q ss_pred             HHHHcC-C-------------------CCCHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 021660          212 VIEAEG-L-------------------DVTEGGLAALVRLCNGDMRKALNILQSTHM  248 (309)
Q Consensus       212 ~~~~~~-~-------------------~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~  248 (309)
                      .+.... .                   ..+...++..++..||-+..+.-+.+++..
T Consensus       228 ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiks  284 (431)
T PF10443_consen  228 QLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKS  284 (431)
T ss_pred             HhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHc
Confidence            886541 1                   134555667777777776666666666554

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=98.55  E-value=2.2e-05  Score=68.08  Aligned_cols=108  Identities=15%  Similarity=0.211  Sum_probs=68.4

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhc--CCceEEEEecCCc---------------ccchhhhcce--eEEEecCCC
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYT--KNTRFALICNQVN---------------KIIPALQSRC--TRFRFAPLE  201 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~--~~~~~i~~~~~~~---------------~l~~~l~~r~--~~i~~~~~~  201 (309)
                      .+-||+|||+|++.++....+++.+...-  +++.+|++.+...               ........++  ..+.+++++
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            56789999999999988888888887543  3566666664210               1222334444  558899999


Q ss_pred             hHHHHHHHHHHHHHcCCCC----C---------------HHHHHHHHHH---hcCCHHHHHHHHHHHHh
Q 021660          202 PVHVTERLKHVIEAEGLDV----T---------------EGGLAALVRL---CNGDMRKALNILQSTHM  248 (309)
Q Consensus       202 ~~~~~~~l~~~~~~~~~~~----~---------------~~~l~~i~~~---~~g~~r~~~~~l~~~~~  248 (309)
                      ..++..++...+.......    .               ...+..+...   ..++||.+...+..+..
T Consensus       252 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~npR~ikr~iN~~~~  320 (325)
T PF07693_consen  252 PSDLERYLNELLESLESETNESDDIETLSNSASNENLRIDEILNDIIDSIDFSIGNPRDIKRFINSLSL  320 (325)
T ss_pred             HHHHHHHHHHHHHHhhhccccccchhhhhhcchhhhhhHHHHHHHHHHhhhhcCCCHHHHHHHHHHHHH
Confidence            9999988888765432211    1               1223333332   35788888777766543

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 [].

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

Probab=98.52  E-value=3.6e-05  Score=68.31  Aligned_cols=133  Identities=16%  Similarity=0.214  Sum_probs=79.8

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc-hHHHHHHHHHhhhccccccCC
Q 021660           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-IDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      .....+.+.+..... .++++||.+|||||+++.+.+.....     ++.++..+... .....+.+.........    
T Consensus        24 ~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~-----~iy~~~~d~~~~~~~l~d~~~~~~~~~~~----   93 (398)
T COG1373          24 KLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEE-----IIYINFDDLRLDRIELLDLLRAYIELKER----   93 (398)
T ss_pred             hhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCcc-----eEEEEecchhcchhhHHHHHHHHHHhhcc----
Confidence            444455555555533 69999999999999998888776322     34444333221 11222222322222111    


Q ss_pred             CCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC----cccchhhhcceeEEEecCCChHHHHH
Q 021660          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV----NKIIPALQSRCTRFRFAPLEPVHVTE  207 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~----~~l~~~l~~r~~~i~~~~~~~~~~~~  207 (309)
                        ....+++||+++... -...+..+.+..+ . .++++++..    ....+.+..|...+.+.|++..|...
T Consensus        94 --~~~yifLDEIq~v~~-W~~~lk~l~d~~~-~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373          94 --EKSYIFLDEIQNVPD-WERALKYLYDRGN-L-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             --CCceEEEecccCchh-HHHHHHHHHcccc-c-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence              457899999998753 3444444444333 2 455555433    24456778889999999999988865

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.52  E-value=1.1e-05  Score=78.13  Aligned_cols=193  Identities=11%  Similarity=0.113  Sum_probs=120.0

Q ss_pred             cccChHHHHHHHHHHhcC---CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe-cCCCcchHHHHHHHHHhhh
Q 021660           55 VAAHRDIVDTIDRLTSEN---RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN-ASDDRGIDVVRQQIQDFAS  130 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~~~---~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  130 (309)
                      ++|++..++.+...+...   ...-+++.|.+|+|||.+++.+.+.+..+........++ ...+.....+.+.+++...
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~~   81 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLMG   81 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHHH
Confidence            678888888887776543   333399999999999999999999985541100000011 0111111111111111100


Q ss_pred             cc-------------------------------------c-------------------------cccCCCCccEEEEEe
Q 021660          131 TQ-------------------------------------S-------------------------FSFGVKASVKLVLLD  148 (309)
Q Consensus       131 ~~-------------------------------------~-------------------------~~~~~~~~~~lliiD  148 (309)
                      ..                                     .                         ..+....++-++++|
T Consensus        82 ~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~le  161 (849)
T COG3899          82 QLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVLE  161 (849)
T ss_pred             HHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEEe
Confidence            00                                     0                         001112358899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhc--C--CceEEEEecCCcccchhhhcc--eeEEEecCCChHHHHHHHHHHHHHcCCCCCH
Q 021660          149 EADAMTKDAQFALRRVIEKYT--K--NTRFALICNQVNKIIPALQSR--CTRFRFAPLEPVHVTERLKHVIEAEGLDVTE  222 (309)
Q Consensus       149 e~~~l~~~~~~~l~~~l~~~~--~--~~~~i~~~~~~~~l~~~l~~r--~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~  222 (309)
                      |+|.+++...+.|..+++...  .  ...+..+.+....+.....+.  ...|.+.|++..+...++...+... .....
T Consensus       162 DlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~-~~~~~  240 (849)
T COG3899         162 DLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCT-KLLPA  240 (849)
T ss_pred             cccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCc-ccccc
Confidence            999999999888888888664  0  111111122222222222232  4789999999999999999988552 35677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 021660          223 GGLAALVRLCNGDMRKALNILQSTHM  248 (309)
Q Consensus       223 ~~l~~i~~~~~g~~r~~~~~l~~~~~  248 (309)
                      +....+.+.+.|||-.+.+.++.+..
T Consensus       241 p~~~~i~~kt~GnPfFi~e~lk~l~~  266 (849)
T COG3899         241 PLLELIFEKTKGNPFFIEEFLKALYE  266 (849)
T ss_pred             hHHHHHHHHhcCCCccHHHHHHHHHh
Confidence            88899999999999988888877765

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.51  E-value=1.8e-06  Score=85.31  Aligned_cols=156  Identities=21%  Similarity=0.250  Sum_probs=102.1

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHH---------Hhhhcc
Q 021660           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ---------DFASTQ  132 (309)
Q Consensus        62 ~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~  132 (309)
                      +..+.+++.-+++  +++.|.||+|||+++.++|+..     +-..+.++-+.....   -..+.         ++...-
T Consensus      1533 l~rVlRAmqv~kp--ilLEGsPGVGKTSlItaLAr~t-----G~kliRINLSeQTdL---~DLfGsd~Pve~~Gef~w~d 1602 (4600)
T COG5271        1533 LRRVLRAMQVGKP--ILLEGSPGVGKTSLITALARKT-----GKKLIRINLSEQTDL---CDLFGSDLPVEEGGEFRWMD 1602 (4600)
T ss_pred             HHHHHHHHhcCCc--eeecCCCCccHHHHHHHHHHHh-----cCceEEeeccccchH---HHHhCCCCCcccCceeEecc
Confidence            3445555555543  9999999999999999999997     444445554432211   11111         111111


Q ss_pred             ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh--------------cCCceEEEEecC------Ccccchhhhcce
Q 021660          133 SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY--------------TKNTRFALICNQ------VNKIIPALQSRC  192 (309)
Q Consensus       133 ~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~--------------~~~~~~i~~~~~------~~~l~~~l~~r~  192 (309)
                      .+-+..++.+..+++||+...+....+.|-..++..              .++.++..+-|+      ...+++.+..||
T Consensus      1603 apfL~amr~G~WVlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~nRF 1682 (4600)
T COG5271        1603 APFLHAMRDGGWVLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGGGRKGLPKSFLNRF 1682 (4600)
T ss_pred             cHHHHHhhcCCEEEeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCCCcccCCHHHhhhh
Confidence            111223346778999999988888888888888742              123344444343      346889999999


Q ss_pred             eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 021660          193 TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL  231 (309)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~  231 (309)
                      .++.+..++.+++..|...+    ...+.++-...+.+.
T Consensus      1683 svV~~d~lt~dDi~~Ia~~~----yp~v~~d~~~kiik~ 1717 (4600)
T COG5271        1683 SVVKMDGLTTDDITHIANKM----YPQVNEDWRLKIIKF 1717 (4600)
T ss_pred             heEEecccccchHHHHHHhh----CCccChHHHHHHHHH
Confidence            99999999999999888776    456677766666554

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.50  E-value=5.1e-06  Score=68.32  Aligned_cols=186  Identities=18%  Similarity=0.180  Sum_probs=112.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH-ccCcccccEEEEecCCCcchHHHHHHHHHhhhcccc------ccCCCCccEEEEEeC
Q 021660           77 LLLYGPPGTGKTSTILAVARKL-YGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF------SFGVKASVKLVLLDE  149 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~lliiDe  149 (309)
                      +++.||.|.||+.+++.+...- ....+.-.+++++|....+...+...+.........      .+-..+.+..+++||
T Consensus       211 ~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r~gllrsadggmlflde  290 (531)
T COG4650         211 ILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESREGLLRSADGGMLFLDE  290 (531)
T ss_pred             eEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhhhhhhccCCCceEehHh
Confidence            9999999999999999886542 223567889999999877766555544432211110      011223678999999


Q ss_pred             CCCCCHHHHHHHHHHHHHhc-----------CCceEEEEe-cCC------cccchhhhcceeEEEecCCChHHHH-----
Q 021660          150 ADAMTKDAQFALRRVIEKYT-----------KNTRFALIC-NQV------NKIIPALQSRCTRFRFAPLEPVHVT-----  206 (309)
Q Consensus       150 ~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~-~~~------~~l~~~l~~r~~~i~~~~~~~~~~~-----  206 (309)
                      +..+..+.+..|++.+++..           .+..+|.-| .+.      ...-+.+..|.....|.-|...+..     
T Consensus       291 igelgadeqamllkaieekrf~pfgsdr~v~sdfqliagtvrdlrq~vaeg~fredl~arinlwtf~lpgl~qr~ediep  370 (531)
T COG4650         291 IGELGADEQAMLLKAIEEKRFYPFGSDRQVSSDFQLIAGTVRDLRQLVAEGKFREDLYARINLWTFTLPGLRQRQEDIEP  370 (531)
T ss_pred             hhhcCccHHHHHHHHHHhhccCCCCCccccccchHHhhhhHHHHHHHHhccchHHHHHHhhheeeeeccccccCccccCC
Confidence            99999888999999999642           111222211 111      1222345555555555444322221     


Q ss_pred             ---HHHHHHHHHcC--CCCCHHHHHHHHH-------HhcCCHHHHHHHHHHHHhhc--CCcCHHHHHhhh
Q 021660          207 ---ERLKHVIEAEG--LDVTEGGLAALVR-------LCNGDMRKALNILQSTHMAS--QQITEEAVYLCT  262 (309)
Q Consensus       207 ---~~l~~~~~~~~--~~~~~~~l~~i~~-------~~~g~~r~~~~~l~~~~~~~--~~i~~~~v~~~~  262 (309)
                         --+.+.+...|  +.+..++-..-..       ...||.|.+-..+..++..+  +.||.+.|+.-+
T Consensus       371 nldyelerha~~~g~~vrfntearra~l~fa~spqa~w~gnfrelsasvtrmatlad~grit~~~ve~ei  440 (531)
T COG4650         371 NLDYELERHASLTGDSVRFNTEARRAWLAFATSPQATWRGNFRELSASVTRMATLADSGRITLDVVEDEI  440 (531)
T ss_pred             CccHHHHHHHHhhCceeeeehHHHHHHHHhccCcchhhcccHHHHhHHHHHHHHHhcCCceeHHHHHHHH
Confidence               12455555444  3445554443333       24699999988887777655  678888776443

>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=98.50  E-value=3.2e-07  Score=79.72  Aligned_cols=117  Identities=21%  Similarity=0.231  Sum_probs=68.2

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHccC-cccccEEEEecCCCc-------chHHHHHHHHHhhhccccccCCCCccEEE
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNASDDR-------GIDVVRQQIQDFASTQSFSFGVKASVKLV  145 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  145 (309)
                      +..++|||++|+|||.|+..+...+..+ ....+|..+...-..       ..+.+......+.        .  +..||
T Consensus        62 ~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~~~~~l~~va~~l~--------~--~~~lL  131 (362)
T PF03969_consen   62 PKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQDDPLPQVADELA--------K--ESRLL  131 (362)
T ss_pred             CceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCCCccHHHHHHHHH--------h--cCCEE
Confidence            3459999999999999999999998542 222332222211000       0011111111211        1  56799


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHHhcC-CceEEEEecCCc-c-------------cchhhhcceeEEEecCC
Q 021660          146 LLDEADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN-K-------------IIPALQSRCTRFRFAPL  200 (309)
Q Consensus       146 iiDe~~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~-~-------------l~~~l~~r~~~i~~~~~  200 (309)
                      ++||++.-.....-.|..+++..-. .+++|+|+|..+ .             ....|.++|.++++...
T Consensus       132 cfDEF~V~DiaDAmil~rLf~~l~~~gvvlVaTSN~~P~~Ly~~gl~r~~Flp~I~~l~~~~~vv~ld~~  201 (362)
T PF03969_consen  132 CFDEFQVTDIADAMILKRLFEALFKRGVVLVATSNRPPEDLYKNGLQRERFLPFIDLLKRRCDVVELDGG  201 (362)
T ss_pred             EEeeeeccchhHHHHHHHHHHHHHHCCCEEEecCCCChHHHcCCcccHHHHHHHHHHHHhceEEEEecCC
Confidence            9999987766655556666665544 445555666443 1             12456677888877665

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=98.48  E-value=4e-06  Score=82.94  Aligned_cols=169  Identities=19%  Similarity=0.260  Sum_probs=113.0

Q ss_pred             cccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhh
Q 021660           53 ADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  130 (309)
                      .++|..+-+-+...+.++..  +.-.++|.||..+|||+++..+++..     +-.++.++......   +.+.+..+..
T Consensus       865 ~hyIiTPfVqkn~ln~~Ra~s~~~fP~LiQGpTSSGKTSMI~yla~~t-----ghkfVRINNHEHTd---lqeYiGTyvT  936 (4600)
T COG5271         865 EHYIITPFVQKNYLNTMRAASLSNFPLLIQGPTSSGKTSMILYLARET-----GHKFVRINNHEHTD---LQEYIGTYVT  936 (4600)
T ss_pred             ceeEecHHHHHHHHHHHHHHhhcCCcEEEecCCCCCcchHHHHHHHHh-----CccEEEecCcccch---HHHHhhceee
Confidence            34666555555444443322  22239999999999999999999997     55667777655432   2233333322


Q ss_pred             ccccc--cC------CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc------------CCceE-EEEe-cCC------c
Q 021660          131 TQSFS--FG------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------KNTRF-ALIC-NQV------N  182 (309)
Q Consensus       131 ~~~~~--~~------~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~------------~~~~~-i~~~-~~~------~  182 (309)
                      .-...  |.      ..+++-.|++||....+.+..+.|-.++++..            +++-| +++| |++      .
T Consensus       937 dd~G~lsFkEGvLVeAlR~GyWIVLDELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK 1016 (4600)
T COG5271         937 DDDGSLSFKEGVLVEALRRGYWIVLDELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRK 1016 (4600)
T ss_pred             cCCCceeeehhHHHHHHhcCcEEEeeccccCcHHHHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchH
Confidence            21111  11      11246689999999999999999999998521            22222 3334 433      2


Q ss_pred             ccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC
Q 021660          183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (309)
Q Consensus       183 ~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g  234 (309)
                      .+..+++.||..++|...+.+|+..||..     ++.+.+.-+..|++-+.|
T Consensus      1017 ~LSrAFRNRFlE~hFddipedEle~ILh~-----rc~iapSyakKiVeVyr~ 1063 (4600)
T COG5271        1017 GLSRAFRNRFLEMHFDDIPEDELEEILHG-----RCEIAPSYAKKIVEVYRG 1063 (4600)
T ss_pred             HHHHHHHhhhHhhhcccCcHHHHHHHHhc-----cCccCHHHHHHHHHHHHH
Confidence            45678999999999999999999999987     457888888888887654

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

Probab=98.47  E-value=1.2e-05  Score=68.40  Aligned_cols=185  Identities=18%  Similarity=0.187  Sum_probs=102.9

Q ss_pred             cccccChHHHHHHHHHHhcCC--CCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc-------------
Q 021660           53 ADVAAHRDIVDTIDRLTSENR--LPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-------------  116 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~--~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~-------------  116 (309)
                      ..+.+++.....+..++....  .|+ ++|+|.+|||||.+++.+.+..     +...+.+++..-.             
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~-----n~~~vw~n~~ecft~~~lle~IL~~~   80 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL-----NLENVWLNCVECFTYAILLEKILNKS   80 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc-----CCcceeeehHHhccHHHHHHHHHHHh
Confidence            356678888888988887653  344 6999999999999999999997     3333333322110             


Q ss_pred             ------c------hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH---HHHHHHHHHHhcC-CceEEEEecC
Q 021660          117 ------G------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA---QFALRRVIEKYTK-NTRFALICNQ  180 (309)
Q Consensus       117 ------~------~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~---~~~l~~~l~~~~~-~~~~i~~~~~  180 (309)
                            +      ...+...+..+.+...  .......-+|++|++|.+.+-.   ...|+++-+-.+. ...++++...
T Consensus        81 ~~~d~dg~~~~~~~en~~d~i~~l~q~~~--~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~~  158 (438)
T KOG2543|consen   81 QLADKDGDKVEGDAENFSDFIYLLVQWPA--ATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSAPS  158 (438)
T ss_pred             ccCCCchhhhhhHHHHHHHHHHHHHhhHH--hhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEeccc
Confidence                  0      0111122222222111  1111246689999999886433   3344444443332 3444444443


Q ss_pred             Ccccchhhhc--ceeEEEecCCChHHHHHHHHHHHHHcCCCCCH--------HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 021660          181 VNKIIPALQS--RCTRFRFAPLEPVHVTERLKHVIEAEGLDVTE--------GGLAALVRLCNGDMRKALNILQSTHM  248 (309)
Q Consensus       181 ~~~l~~~l~~--r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~--------~~l~~i~~~~~g~~r~~~~~l~~~~~  248 (309)
                      .++....-.+  -...++|+.++.++++.++.+---.   ....        -.++.+...+. |+..+...+.....
T Consensus       159 ~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~---~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~~wp  232 (438)
T KOG2543|consen  159 CEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPG---KRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISLAWP  232 (438)
T ss_pred             cHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCcc---ccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHH
Confidence            3332211011  1267899999999999998763110   1221        12233333444 88888887765553

>PRK04132 replication factor C small subunit; Provisional

Probab=98.44  E-value=1.5e-07  Score=89.41  Aligned_cols=51  Identities=47%  Similarity=0.933  Sum_probs=47.9

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHH
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTST   90 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l   90 (309)
                      ..||.++|||.+|+|++|++++++.+.+++..++.++++|+||||+||+..
T Consensus         6 ~~~~~~k~RP~~f~dIiGqe~i~~~Lk~~i~~~~i~h~l~~g~~g~~~cl~   56 (846)
T PRK04132          6 EKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKCLT   56 (846)
T ss_pred             cccHHHhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEECCCCCCcccc
Confidence            468999999999999999999999999999999999999999999999743

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.44  E-value=2.3e-06  Score=68.32  Aligned_cols=114  Identities=19%  Similarity=0.288  Sum_probs=63.1

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHH-------Hhhhcccc
Q 021660           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ-------DFASTQSF  134 (309)
Q Consensus        62 ~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~  134 (309)
                      ...+...+.+. ....++.|+||+|||+++..+...+...+  ..++-+..+ ......+.+...       .+......
T Consensus         7 ~~a~~~~l~~~-~~~~~l~G~aGtGKT~~l~~~~~~~~~~g--~~v~~~apT-~~Aa~~L~~~~~~~a~Ti~~~l~~~~~   82 (196)
T PF13604_consen    7 REAVRAILTSG-DRVSVLQGPAGTGKTTLLKALAEALEAAG--KRVIGLAPT-NKAAKELREKTGIEAQTIHSFLYRIPN   82 (196)
T ss_dssp             HHHHHHHHHCT-CSEEEEEESTTSTHHHHHHHHHHHHHHTT----EEEEESS-HHHHHHHHHHHTS-EEEHHHHTTEECC
T ss_pred             HHHHHHHHhcC-CeEEEEEECCCCCHHHHHHHHHHHHHhCC--CeEEEECCc-HHHHHHHHHhhCcchhhHHHHHhcCCc
Confidence            34444444443 23488999999999999999988886544  233333333 233333333211       11111111


Q ss_pred             ccC----CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          135 SFG----VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       135 ~~~----~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      ...    ......+|||||+..++......|+..+..  ....+|++++..
T Consensus        83 ~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~~  131 (196)
T PF13604_consen   83 GDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDPN  131 (196)
T ss_dssp             EECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-TT
T ss_pred             ccccccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCcc
Confidence            000    012457999999999988777777777664  356788888644

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=98.43  E-value=3.5e-06  Score=70.49  Aligned_cols=160  Identities=14%  Similarity=0.181  Sum_probs=91.7

Q ss_pred             ccccChHHHHHHHHHHh----cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc---chHHHHHHHH
Q 021660           54 DVAAHRDIVDTIDRLTS----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---GIDVVRQQIQ  126 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~----~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~  126 (309)
                      .+.|.....+.+..+++    .+....+++.||.|+|||.++.........-+.+.-.+.+++.-..   ....+...+.
T Consensus        25 ~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~  104 (408)
T KOG2228|consen   25 NLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQLA  104 (408)
T ss_pred             ceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHHH
Confidence            46777666666666655    4555669999999999999998777774333445555666665433   1111111111


Q ss_pred             Hhhhcccccc------------------CCCCccEEEEEeCCCCCCHHH-HHHHHHHHHHhc---CCceEEEEecCC---
Q 021660          127 DFASTQSFSF------------------GVKASVKLVLLDEADAMTKDA-QFALRRVIEKYT---KNTRFALICNQV---  181 (309)
Q Consensus       127 ~~~~~~~~~~------------------~~~~~~~lliiDe~~~l~~~~-~~~l~~~l~~~~---~~~~~i~~~~~~---  181 (309)
                      .-.......+                  .....+.++|+||+|...+-. +-.|+++++-..   ...++|.+|...   
T Consensus       105 ~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~l  184 (408)
T KOG2228|consen  105 LELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDIL  184 (408)
T ss_pred             HHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccHH
Confidence            1111000001                  111235678888999876544 555666666322   223445555444   


Q ss_pred             cccchhhhcce--eEEEe-cCCChHHHHHHHHHHH
Q 021660          182 NKIIPALQSRC--TRFRF-APLEPVHVTERLKHVI  213 (309)
Q Consensus       182 ~~l~~~l~~r~--~~i~~-~~~~~~~~~~~l~~~~  213 (309)
                      +.+.+..++||  ..|.+ ++.+..+...+++..+
T Consensus       185 E~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  185 ELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             HHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            35567788898  33444 4445677888777765

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=98.42  E-value=1.6e-06  Score=62.12  Aligned_cols=72  Identities=22%  Similarity=0.433  Sum_probs=43.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc---ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l  153 (309)
                      +.|+||||+|||++++.+++.+....   ....+...+...    +-+    ..        +   .+..++++||+...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~----~~w----~g--------Y---~~q~vvi~DD~~~~   61 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGD----KFW----DG--------Y---QGQPVVIIDDFGQD   61 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCcc----chh----hc--------c---CCCcEEEEeecCcc
Confidence            57999999999999999999884322   111111111111    111    00        1   14578999999877


Q ss_pred             CHH----HHHHHHHHHHH
Q 021660          154 TKD----AQFALRRVIEK  167 (309)
Q Consensus       154 ~~~----~~~~l~~~l~~  167 (309)
                      ...    ....+++++..
T Consensus        62 ~~~~~~~~~~~l~~l~s~   79 (107)
T PF00910_consen   62 NDGYNYSDESELIRLISS   79 (107)
T ss_pred             ccccchHHHHHHHHHHhc
Confidence            643    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

>PTZ00202 tuzin; Provisional

Probab=98.39  E-value=5.2e-05  Score=66.53  Aligned_cols=51  Identities=16%  Similarity=0.182  Sum_probs=43.0

Q ss_pred             CCCCccccccChHHHHHHHHHHhcCCC---CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSENRL---PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~~~~---~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .|....+|+|++..+..+...+.....   ..++|+|++|+|||++++.+...+
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            466678999999999999999875332   248999999999999999999876

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.39  E-value=3.9e-08  Score=84.98  Aligned_cols=157  Identities=22%  Similarity=0.218  Sum_probs=78.2

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHhcCC------------CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENR------------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~------------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      +.+.+.|    .+.|++.++..+.-.+-++.            .-|+||.|.||+|||.+++.+++...    ...+...
T Consensus        18 l~~s~aP----~i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~p----r~v~~~g   89 (331)
T PF00493_consen   18 LANSIAP----SIYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAP----RSVYTSG   89 (331)
T ss_dssp             CHHHCSS----TTTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-S----SEEEEEC
T ss_pred             HHHHhCC----cCcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhCC----ceEEECC
Confidence            3445555    67788888776654443321            12599999999999999997765541    1111111


Q ss_pred             ecCCCcch--HHHHHH--HHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCce
Q 021660          111 NASDDRGI--DVVRQQ--IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTR  173 (309)
Q Consensus       111 ~~~~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~  173 (309)
                      ......+.  ...+..  -....+....   ..+.+++++|||++.+..+....|.++|+..             +..+.
T Consensus        90 ~~~s~~gLta~~~~d~~~~~~~leaGal---vlad~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~kagi~~~l~ar~s  166 (331)
T PF00493_consen   90 KGSSAAGLTASVSRDPVTGEWVLEAGAL---VLADGGICCIDEFDKMKEDDRDALHEAMEQQTISIAKAGIVTTLNARCS  166 (331)
T ss_dssp             CGSTCCCCCEEECCCGGTSSECEEE-HH---HHCTTSEEEECTTTT--CHHHHHHHHHHHCSCEEECTSSSEEEEE---E
T ss_pred             CCcccCCccceeccccccceeEEeCCch---hcccCceeeecccccccchHHHHHHHHHHcCeeccchhhhcccccchhh
Confidence            11110000  000000  0000000000   0125789999999999999999999999962             34566


Q ss_pred             EEEEecCCc-------------ccchhhhcceeEE-E-ecCCChHHHHHHHH
Q 021660          174 FALICNQVN-------------KIIPALQSRCTRF-R-FAPLEPVHVTERLK  210 (309)
Q Consensus       174 ~i~~~~~~~-------------~l~~~l~~r~~~i-~-~~~~~~~~~~~~l~  210 (309)
                      ++.++|+..             .+++.+.+||..+ . ...++.+.-..+.+
T Consensus       167 vlaa~NP~~g~~~~~~~~~~ni~l~~~LLSRFDLif~l~D~~d~~~D~~la~  218 (331)
T PF00493_consen  167 VLAAANPKFGRYDPNKSLSENINLPPPLLSRFDLIFLLRDKPDEEEDERLAE  218 (331)
T ss_dssp             EEEEE--TT--S-TTS-CGCCT-S-CCCHCC-SEEECC--TTT-HHHHHHHH
T ss_pred             hHHHHhhhhhhcchhhhhHHhcccchhhHhhcCEEEEeccccccccccccce
Confidence            777776443             3567889999443 3 35555433333333

; 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.

>PRK10536 hypothetical protein; Provisional

Probab=98.38  E-value=1.5e-05  Score=65.31  Aligned_cols=44  Identities=18%  Similarity=0.175  Sum_probs=33.9

Q ss_pred             cccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           53 ADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.+.......+..++...  ..++++||+|||||+++.+++.+.
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~   98 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEA   98 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHH
Confidence            34555666666666677664  469999999999999999999863

>PRK04296 thymidine kinase; Provisional

Probab=98.38  E-value=3.3e-06  Score=67.10  Aligned_cols=95  Identities=16%  Similarity=0.245  Sum_probs=53.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEE--EecCCC-------cch-------HHHHHHHHHhhhccccccCCCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE--LNASDD-------RGI-------DVVRQQIQDFASTQSFSFGVKA  140 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~--~~~~~~-------~~~-------~~~~~~~~~~~~~~~~~~~~~~  140 (309)
                      .+++||+|+||||++..++.++...+..+.++.  ++....       .+.       ......+..+..       ...
T Consensus         5 ~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-------~~~   77 (190)
T PRK04296          5 EFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-------EGE   77 (190)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-------hCC
Confidence            789999999999999999988865554433331  111110       000       001111111111       111


Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      +..+|+|||++.+..+....+.+.+.  +....+|+++..
T Consensus        78 ~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tgl~  115 (190)
T PRK04296         78 KIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYGLD  115 (190)
T ss_pred             CCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEecC
Confidence            46799999999987665444454443  335566666643

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=98.32  E-value=7.6e-06  Score=62.35  Aligned_cols=106  Identities=15%  Similarity=0.129  Sum_probs=67.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC-CcchHHH--------------------------HHHHHHh
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGIDVV--------------------------RQQIQDF  128 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~--------------------------~~~~~~~  128 (309)
                      .+.+|+++|.|||++|..++-+..+.+..+.++++--.. ..+....                          .......
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a~~~   83 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAAAEG   83 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHHHHH
Confidence            478889999999999999999988888777776665442 1110000                          0000100


Q ss_pred             hhccccccCCCCccEEEEEeCCCCCCH---HHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          129 ASTQSFSFGVKASVKLVLLDEADAMTK---DAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       129 ~~~~~~~~~~~~~~~lliiDe~~~l~~---~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                      ...... .-......+|||||+.....   -..+.++++++..+....+|+|++..+
T Consensus        84 ~~~a~~-~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          84 WAFAKE-AIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHH-HHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            000000 00112578999999865422   125778999999998999999997654

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.

>PHA02624 large T antigen; Provisional

Probab=98.31  E-value=3.9e-06  Score=76.18  Aligned_cols=119  Identities=17%  Similarity=0.163  Sum_probs=72.7

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCC
Q 021660           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      .....++.++.+-+..+ ++|+||+|+|||+++..+++.+     +...+.++++..... -+.+-   +          
T Consensus       416 ~~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L-----~G~vlsVNsPt~ks~-FwL~p---l----------  476 (647)
T PHA02624        416 VIYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC-----GGKSLNVNCPPDKLN-FELGC---A----------  476 (647)
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc-----CCeEEEeeCCcchhH-HHhhh---h----------
Confidence            34445555555544444 9999999999999999999998     333444665543221 11111   1          


Q ss_pred             CCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHh-c-------------CCceEEEEecCCcccchhhhcce-
Q 021660          139 KASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-T-------------KNTRFALICNQVNKIIPALQSRC-  192 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~-~-------------~~~~~i~~~~~~~~l~~~l~~r~-  192 (309)
                       ....+++||++..-..           +....|.+.++.. +             .-++.|+|+|+ +.++.++.-|| 
T Consensus       477 -~D~~~~l~dD~t~~~~~~~~Lp~G~~~dNl~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~Ne-y~iP~T~~~Rf~  554 (647)
T PHA02624        477 -IDQFMVVFEDVKGQPADNKDLPSGQGMNNLDNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTMNE-YLIPQTVKARFA  554 (647)
T ss_pred             -hhceEEEeeeccccccccccCCcccccchhhHHHhhcCCCCccccchhccCchhccCCCeEEeecC-cccchhHHHHHH
Confidence             1467899999853221           1124566666643 1             12355666665 47788898898 


Q ss_pred             eEEEecC
Q 021660          193 TRFRFAP  199 (309)
Q Consensus       193 ~~i~~~~  199 (309)
                      .++.|.+
T Consensus       555 ~~~~F~~  561 (647)
T PHA02624        555 KVLDFKP  561 (647)
T ss_pred             Hhccccc
Confidence            7777744

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=98.28  E-value=7.7e-05  Score=65.33  Aligned_cols=94  Identities=20%  Similarity=0.270  Sum_probs=54.0

Q ss_pred             HHhcCCCCeEEEECCCCCcHHHHHHHHHHH-HccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEE
Q 021660           68 LTSENRLPHLLLYGPPGTGKTSTILAVARK-LYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVL  146 (309)
Q Consensus        68 ~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lli  146 (309)
                      ++..+  -|+++.||+|||||+++..+... ....|           .......+-..+..   ..   ++.-....+|+
T Consensus       205 fve~~--~Nli~lGp~GTGKThla~~l~~~~a~~sG-----------~f~T~a~Lf~~L~~---~~---lg~v~~~DlLI  265 (449)
T TIGR02688       205 LVEPN--YNLIELGPKGTGKSYIYNNLSPYVILISG-----------GTITVAKLFYNIST---RQ---IGLVGRWDVVA  265 (449)
T ss_pred             HHhcC--CcEEEECCCCCCHHHHHHHHhHHHHHHcC-----------CcCcHHHHHHHHHH---HH---HhhhccCCEEE
Confidence            44443  56999999999999999998877 21122           00111111111111   00   11112578999


Q ss_pred             EeCCCCCCH----HHHHHHHHHHHHh---------cCCceEEEEecC
Q 021660          147 LDEADAMTK----DAQFALRRVIEKY---------TKNTRFALICNQ  180 (309)
Q Consensus       147 iDe~~~l~~----~~~~~l~~~l~~~---------~~~~~~i~~~~~  180 (309)
                      |||+..++-    +..+.+...|+.-         ..+..+++++|-
T Consensus       266 ~DEvgylp~~~~~~~v~imK~yMesg~fsRG~~~~~a~as~vfvGNi  312 (449)
T TIGR02688       266 FDEVATLKFAKPKELIGILKNYMESGSFTRGDETKSSDASFVFLGNV  312 (449)
T ss_pred             EEcCCCCcCCchHHHHHHHHHHHHhCceeccceeeeeeeEEEEEccc
Confidence            999998653    2346666667642         234566776653

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.

>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]

Probab=98.27  E-value=1.2e-05  Score=70.94  Aligned_cols=133  Identities=23%  Similarity=0.321  Sum_probs=80.6

Q ss_pred             ccccccChHHHHHHHHHHhcCCCC------------eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchH
Q 021660           52 LADVAAHRDIVDTIDRLTSENRLP------------HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~~~------------~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  119 (309)
                      ...+.|+..+++.+.=++.++...            ++||.|.||+.|+.|++-+-+..     .  +-...+.+..+..
T Consensus       330 APSIfG~~DiKkAiaClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvs-----P--IaVYTSGKGSSAA  402 (729)
T KOG0481|consen  330 APSIFGHEDIKKAIACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVS-----P--IAVYTSGKGSSAA  402 (729)
T ss_pred             CchhcCchhHHHHHHHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcC-----c--eEEEecCCCcccc
Confidence            346789999999888777655211            39999999999999999886653     1  1111222211111


Q ss_pred             HHH-HHHH-----H-hhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-------------CCceEEEEec
Q 021660          120 VVR-QQIQ-----D-FASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFALICN  179 (309)
Q Consensus       120 ~~~-~~~~-----~-~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-------------~~~~~i~~~~  179 (309)
                      -+. +.++     . ..+.....+   +.+++++|||+|++.++..-++.+.|+...             ..+.++.++|
T Consensus       403 GLTASV~RD~~tReFylEGGAMVL---ADgGVvCIDEFDKMre~DRVAIHEAMEQQTISIAKAGITT~LNSRtSVLAAAN  479 (729)
T KOG0481|consen  403 GLTASVIRDPSTREFYLEGGAMVL---ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRTSVLAAAN  479 (729)
T ss_pred             cceeeEEecCCcceEEEecceEEE---ecCCEEEeehhhccCchhhhHHHHHHHhhhHHHhhhcceeeecchhhhhhhcC
Confidence            110 0000     0 111111111   257899999999999999999999999632             3444555555


Q ss_pred             CCc-------------ccchhhhcceeE
Q 021660          180 QVN-------------KIIPALQSRCTR  194 (309)
Q Consensus       180 ~~~-------------~l~~~l~~r~~~  194 (309)
                      ...             ...+.+++||..
T Consensus       480 pvfGRyDd~Kt~~dNIDf~~TILSRFDm  507 (729)
T KOG0481|consen  480 PVFGRYDDTKTGEDNIDFMPTILSRFDM  507 (729)
T ss_pred             CccccccccCCcccccchhhhHhhhccE
Confidence            332             234778888844

>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=98.26  E-value=4.5e-05  Score=63.69  Aligned_cols=151  Identities=19%  Similarity=0.262  Sum_probs=91.8

Q ss_pred             cccChHHHHHHHHH---HhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhc
Q 021660           55 VAAHRDIVDTIDRL---TSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (309)
Q Consensus        55 ~ig~~~~~~~l~~~---~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (309)
                      +|--+++++.+.+.   +.. ..+|+++.|.+|+||+++++..+.-.     +..+.++..+...+...+++.++.....
T Consensus        10 lVlf~~ai~hi~ri~RvL~~-~~Gh~LLvG~~GsGr~sl~rLaa~i~-----~~~~~~i~~~~~y~~~~f~~dLk~~~~~   83 (268)
T PF12780_consen   10 LVLFDEAIEHIARISRVLSQ-PRGHALLVGVGGSGRQSLARLAAFIC-----GYEVFQIEITKGYSIKDFKEDLKKALQK   83 (268)
T ss_dssp             ----HHHHHHHHHHHHHHCS-TTEEEEEECTTTSCHHHHHHHHHHHT-----TEEEE-TTTSTTTHHHHHHHHHHHHHHH
T ss_pred             eeeHHHHHHHHHHHHHHHcC-CCCCeEEecCCCccHHHHHHHHHHHh-----ccceEEEEeeCCcCHHHHHHHHHHHHHH
Confidence            44445666654444   443 34679999999999999999777665     6677777777666777777777666543


Q ss_pred             cccccCCCCccEEEEEeCCCCCCHHHH---------------------HHHH---------------------HHHHHhc
Q 021660          132 QSFSFGVKASVKLVLLDEADAMTKDAQ---------------------FALR---------------------RVIEKYT  169 (309)
Q Consensus       132 ~~~~~~~~~~~~lliiDe~~~l~~~~~---------------------~~l~---------------------~~l~~~~  169 (309)
                      ...    +..+.+++++|-+...+...                     +.+.                     ..+++..
T Consensus        84 ag~----~~~~~vfll~d~qi~~~~fLe~in~LL~sGeip~LF~~eE~~~i~~~l~~~~~~~~~~~~~~~~~~~F~~rvr  159 (268)
T PF12780_consen   84 AGI----KGKPTVFLLTDSQIVDESFLEDINSLLSSGEIPNLFTKEELDNIISSLREEAKAEGISDSRESLYEFFIERVR  159 (268)
T ss_dssp             HHC----S-S-EEEEEECCCSSSCHHHHHHHHHHHCSS-TTTS-TCHHHHHHHHHHHHHHHCT--SSHHHHHHHHHHHHC
T ss_pred             Hhc----cCCCeEEEecCcccchHhHHHHHHHHHhCCCCCCCccHHHHHHHHHHhHHHHHHcCCCCchHHHHHHHHHHHH
Confidence            222    22577888888665432211                     1111                     1122233


Q ss_pred             CCceEEEEecCCc-------ccchhhhcceeEEEecCCChHHHHHHHHHHHHH
Q 021660          170 KNTRFALICNQVN-------KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA  215 (309)
Q Consensus       170 ~~~~~i~~~~~~~-------~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~  215 (309)
                      .+..+|++-++..       ...|++.++|.+.-|.+++.+.+..+-.+.+..
T Consensus       160 ~nLHivl~~sp~~~~~r~~~~~fPaL~~~ctIdW~~~W~~eaL~~Va~~~l~~  212 (268)
T PF12780_consen  160 KNLHIVLCMSPVGPNFRDRCRSFPALVNCCTIDWFDPWPEEALLSVANKFLSD  212 (268)
T ss_dssp             CCEEEEEEESTTTTCCCHHHHHHCCHHHHSEEEEEES--HHHHHHHHHHHCCH
T ss_pred             hheeEEEEECCCCchHHHHHHhCcchhcccEEEeCCcCCHHHHHHHHHHHHHh
Confidence            4556777665433       234678888889999999999998887776654

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.

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.20  E-value=0.00013  Score=62.60  Aligned_cols=48  Identities=19%  Similarity=0.075  Sum_probs=37.9

Q ss_pred             EEEecCCChHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHhcCCHHHHHH
Q 021660          194 RFRFAPLEPVHVTERLKHVIEAEGL---DVTEGGLAALVRLCNGDMRKALN  241 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~l~~i~~~~~g~~r~~~~  241 (309)
                      .+++++++.+|.+.+++-+....-+   ..++...+.+.-.++|||+.+.+
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            8899999999999999877665433   34566777788888999998753

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).

>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=98.18  E-value=1.1e-05  Score=69.21  Aligned_cols=137  Identities=20%  Similarity=0.266  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCC
Q 021660           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      ..+..++.++++-+..+ ++|+|||+||||.++..+.+-+     ...++.+..+...   -+              +.+
T Consensus       247 ~Fl~~lk~~Lkg~PKKnClvi~GPPdTGKS~F~~SLi~Fl-----~GkViSf~Ns~Sh---FW--------------LqP  304 (432)
T PF00519_consen  247 SFLIALKQFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFL-----KGKVISFVNSKSH---FW--------------LQP  304 (432)
T ss_dssp             HHHHHHHHHHHTBTTSSEEEEESSCCCSHHHHHHHHHHHH-----TSEEE-GGGTTSC---GG--------------GGG
T ss_pred             HHHHHHHHHHhCCCcccEEEEECCCCCchhHHHHHHHHHh-----CCEEEEecCCCCc---cc--------------ccc
Confidence            45667788887755555 9999999999999999999998     3334433222211   01              111


Q ss_pred             CCccEEEEEeCCCCCCHHHH-HHHHHHHHHhc-------------CCceEEEEecCC---cccchhhhcceeEEEecCC-
Q 021660          139 KASVKLVLLDEADAMTKDAQ-FALRRVIEKYT-------------KNTRFALICNQV---NKIIPALQSRCTRFRFAPL-  200 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~~-~~l~~~l~~~~-------------~~~~~i~~~~~~---~~l~~~l~~r~~~i~~~~~-  200 (309)
                      ....++-+|||+..-.-... ..|.++++..+             ..++++++||..   +.-..-|.+|...+.|+.+ 
T Consensus       305 L~d~Ki~llDDAT~~cW~Y~D~ylRNaLDGN~vsiD~KHkap~Qik~PPLlITsN~dv~~~~~~~YLhSRi~~f~F~n~~  384 (432)
T PF00519_consen  305 LADAKIALLDDATYPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKKDDRWKYLHSRITCFEFPNPF  384 (432)
T ss_dssp             GCT-SSEEEEEE-HHHHHHHHHHTHHHHCTSEEEEEESSSEEEEEE---EEEEESS-TTTSCCCHHHCTTEEEEE--S-S
T ss_pred             hhcCcEEEEcCCcccHHHHHHHHHHhccCCCeeeeeccCCCceEeecCceEEecCCCCCcchhhhhhhheEEEEEcCCcc
Confidence            12567899999854322222 22445555322             235677787643   2345678899988887543 


Q ss_pred             ------------ChHHHHHHHHHHHHHcCC
Q 021660          201 ------------EPVHVTERLKHVIEAEGL  218 (309)
Q Consensus       201 ------------~~~~~~~~l~~~~~~~~~  218 (309)
                                  +....+.++++...+.++
T Consensus       385 P~d~~G~P~y~ltd~~WksFF~rlw~~LdL  414 (432)
T PF00519_consen  385 PLDENGNPVYELTDANWKSFFRRLWSQLDL  414 (432)
T ss_dssp             -BSTTSSBSS---HHHHHHHHHHHTCCCT-
T ss_pred             ccCCCCCeeEEeccChHHHHHHHHHHhcCC
Confidence                        245566667666554443

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.

>PRK13695 putative NTPase; Provisional

Probab=98.18  E-value=0.00011  Score=57.50  Aligned_cols=69  Identities=12%  Similarity=0.222  Sum_probs=41.5

Q ss_pred             ccEEEEEeCCCCCC---HHHHHHHHHHHHHhcCCceEEEEecCCc--ccchhhhcc--eeEEEecCCChHHHHHHHHHH
Q 021660          141 SVKLVLLDEADAMT---KDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQSR--CTRFRFAPLEPVHVTERLKHV  212 (309)
Q Consensus       141 ~~~lliiDe~~~l~---~~~~~~l~~~l~~~~~~~~~i~~~~~~~--~l~~~l~~r--~~~i~~~~~~~~~~~~~l~~~  212 (309)
                      ++.++++||+..+.   ....+.+..+++   ....+|++++...  .....+..+  +.++++.+-+.+++...+..+
T Consensus        96 ~~~~lllDE~~~~e~~~~~~~~~l~~~~~---~~~~~i~v~h~~~~~~~~~~i~~~~~~~i~~~~~~~r~~~~~~~~~~  171 (174)
T PRK13695         96 EADVIIIDEIGKMELKSPKFVKAVEEVLD---SEKPVIATLHRRSVHPFVQEIKSRPGGRVYELTPENRDSLPFEILNR  171 (174)
T ss_pred             CCCEEEEECCCcchhhhHHHHHHHHHHHh---CCCeEEEEECchhhHHHHHHHhccCCcEEEEEcchhhhhHHHHHHHH
Confidence            57899999975442   233444555552   2456777776532  334455555  377888777777776655544

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.17  E-value=2.6e-05  Score=60.46  Aligned_cols=99  Identities=19%  Similarity=0.295  Sum_probs=57.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc--ch-HHHH-------------HHHHHhhhccccccCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GI-DVVR-------------QQIQDFASTQSFSFGV  138 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~-------------~~~~~~~~~~~~~~~~  138 (309)
                      ..+.|.||+|+|||||++.++.........   +.++.....  .. ....             ...-.+...    +  
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~~~~~G~---v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~lara----l--   97 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLYKPDSGE---ILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVEIARA----L--   97 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCeE---EEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHHHHHH----H--
Confidence            448999999999999999998876322211   111111100  00 0000             000011111    1  


Q ss_pred             CCccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021660          139 KASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (309)
Q Consensus       139 ~~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~  182 (309)
                      ..++.++++||. ..+.......+.+++.+... ...+|+++++..
T Consensus        98 ~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  143 (163)
T cd03216          98 ARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLD  143 (163)
T ss_pred             hcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            126889999995 46777788888888876643 456666776554

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.

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=98.17  E-value=5e-05  Score=65.13  Aligned_cols=220  Identities=13%  Similarity=0.151  Sum_probs=109.5

Q ss_pred             ccccc-ChHHHHHHHHHHh----c-CCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           53 ADVAA-HRDIVDTIDRLTS----E-NRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        53 ~~~ig-~~~~~~~l~~~~~----~-~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      .++.+ .++....+.+++.    . ..... ++++|+.|+|||+++..+...+ +..    ........  .       +
T Consensus        48 ~~~~~~d~~~~~~l~~~lg~~L~~~~~~~~~~~l~G~g~nGKStl~~~l~~l~-G~~----~~~~~~~~--~-------~  113 (304)
T TIGR01613        48 LETFGGDNELIEYLQRVIGYSLTGNYTEQKLFFLYGNGGNGKSTFQNLLSNLL-GDY----ATTAVASL--K-------M  113 (304)
T ss_pred             HHHhCCCHHHHHHHHHHHhHHhcCCCCceEEEEEECCCCCcHHHHHHHHHHHh-Chh----hccCCcch--h-------h
Confidence            34444 3345666666643    2 12222 8999999999999999887665 211    11100000  0       0


Q ss_pred             HHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHH--------------hcCCceEEEEecCCccc---chhh
Q 021660          126 QDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK--------------YTKNTRFALICNQVNKI---IPAL  188 (309)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~--------------~~~~~~~i~~~~~~~~l---~~~l  188 (309)
                      .++. ......+...++++++.||++.-.....+.|..+...              ......+|+++|..+.+   ..++
T Consensus       114 ~~~~-~~~f~~a~l~gk~l~~~~E~~~~~~~~~~~lK~lt~gd~i~~~~k~k~~~~~~~~~~~i~~tN~~P~~~~~~~a~  192 (304)
T TIGR01613       114 NEFQ-EHRFGLARLEGKRAVIGDEVQKGYRDDESTFKSLTGGDTITARFKNKDPFEFTPKFTLVQSTNHLPRIRGFDGGI  192 (304)
T ss_pred             hhcc-CCCchhhhhcCCEEEEecCCCCCccccHHhhhhhhcCCeEEeecccCCcEEEEEeeEEEEEcCCCCccCCCChhh
Confidence            0000 0011122223688999999874322233444444431              11345688888887655   3578


Q ss_pred             hcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCC--CC
Q 021660          189 QSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGN--PL  266 (309)
Q Consensus       189 ~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~--~~  266 (309)
                      .+|+.+|.|...-+.+-              -+++..+.+.+..+|-+.-++..+......+.-...+.+.++...  ..
T Consensus       193 ~RR~~vi~f~~~~~~~~--------------~d~~l~~kl~~E~~~il~w~l~g~~~~~~~~~~~~p~~~~~~~~~~~~~  258 (304)
T TIGR01613       193 KRRLRIIPFTKVFPGEK--------------KNKALKEDYINEKDVILYWAVEGIRLDQRIGDFSIPKAVLEATEEYKEE  258 (304)
T ss_pred             eeeEEEEeccCcCCccc--------------cCccHHHHHHHhHHHHHHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHH
Confidence            89998888853322110              012222223223333444444444433222211112333333321  22


Q ss_pred             hHHHHHHHHHHhcC------CHHHHHHHHHHHHHhcCCCHH
Q 021660          267 PKDIEQISYWLLNE------SFADSFKRISEMKMRKGLALV  301 (309)
Q Consensus       267 ~~~~~~~~~~~~~~------~~~~~~~~l~~~~~~~g~~~~  301 (309)
                      .+.+.++++..+..      ....++..+..|+.+.|..|.
T Consensus       259 ~d~v~~Fi~e~~~~~~~~~~~~~~ly~~y~~wc~~~g~~~~  299 (304)
T TIGR01613       259 NDVVARFLEECCDDSEGEKVPVRFVYEAYKEWCEEGGYPIL  299 (304)
T ss_pred             CCcHHHHHHhheEeCCCcEEEHHHHHHHHHHHHHHcCCCcc
Confidence            23455555554432      235688889999988887653

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.

>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=98.16  E-value=0.0003  Score=57.41  Aligned_cols=139  Identities=14%  Similarity=0.206  Sum_probs=75.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc---------------hHHHH-------HHHHHhhhccc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG---------------IDVVR-------QQIQDFASTQS  133 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~-------~~~~~~~~~~~  133 (309)
                      ++++.|++|+|||+++..+...+....  ..++.+.......               .+.+.       ..+.+......
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            499999999999999999988764322  1222222221110               11111       11112211111


Q ss_pred             cccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-cCCceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHH
Q 021660          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-TKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHV  212 (309)
Q Consensus       134 ~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~  212 (309)
                        ......+.+||+||+..- .-....+..++... .-+..+|+++-....+++.++.....+-+-..+..++..+++..
T Consensus        93 --~~k~~~~~LiIlDD~~~~-~~k~~~l~~~~~~gRH~~is~i~l~Q~~~~lp~~iR~n~~y~i~~~~s~~dl~~i~~~~  169 (241)
T PF04665_consen   93 --QKKNNPRFLIILDDLGDK-KLKSKILRQFFNNGRHYNISIIFLSQSYFHLPPNIRSNIDYFIIFNNSKRDLENIYRNM  169 (241)
T ss_pred             --ccCCCCCeEEEEeCCCCc-hhhhHHHHHHHhcccccceEEEEEeeecccCCHHHhhcceEEEEecCcHHHHHHHHHhc
Confidence              011124779999998541 11223355555432 23556777787788889988777744443356777776666554


Q ss_pred             HHHcCCCCCHH
Q 021660          213 IEAEGLDVTEG  223 (309)
Q Consensus       213 ~~~~~~~~~~~  223 (309)
                          ++..+.+
T Consensus       170 ----~~~~~~~  176 (241)
T PF04665_consen  170 ----NIKGPKE  176 (241)
T ss_pred             ----ccccchH
Confidence                4444444

This is thought to be an ATPase involved in viral DNA packaging [].

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.16  E-value=2.5e-05  Score=60.29  Aligned_cols=26  Identities=35%  Similarity=0.673  Sum_probs=22.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      ++|+||||+|||+++..++......+
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~   27 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKG   27 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcC
Confidence            68999999999999999999885433

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=98.12  E-value=9e-06  Score=58.81  Aligned_cols=59  Identities=17%  Similarity=0.173  Sum_probs=42.9

Q ss_pred             cccccChHHHHHHHH----HHhcCCCCe---EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           53 ADVAAHRDIVDTIDR----LTSENRLPH---LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~----~~~~~~~~~---~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      ..+.||.-+.+.+.+    .+.+..+..   +-|.|++|||||.+++.+|+.+...+....++...
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f   90 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQF   90 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeee
Confidence            467888766665444    444432222   67999999999999999999998888777666543

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

>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]

Probab=98.12  E-value=3.3e-05  Score=69.20  Aligned_cols=151  Identities=17%  Similarity=0.177  Sum_probs=94.7

Q ss_pred             cccccChHHHHHHHHHHhcCC-----------CC-eEEEECCCCCcHHHHHHHHHHHHcc----CcccccEEE----Eec
Q 021660           53 ADVAAHRDIVDTIDRLTSENR-----------LP-HLLLYGPPGTGKTSTILAVARKLYG----AQYHNMILE----LNA  112 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~-----------~~-~~ll~G~~G~GKT~l~~~l~~~~~~----~~~~~~~~~----~~~  112 (309)
                      ..+.|++.+++.+.-++-++.           .. ++|+.|-|.+.||.|++.+.+...-    .|.+..-+-    +..
T Consensus       301 PSI~GH~~vKkAillLLlGGvEk~L~NGshlRGDINiLlvGDPSvAKSQLLRyVLntAplAI~TTGRGSSGVGLTAAVTt  380 (818)
T KOG0479|consen  301 PSIYGHDYVKKAILLLLLGGVEKNLENGSHLRGDINILLVGDPSVAKSQLLRYVLNTAPLAIATTGRGSSGVGLTAAVTT  380 (818)
T ss_pred             cccccHHHHHHHHHHHHhccceeccCCCceeccceeEEEecCchHHHHHHHHHHHhcccccccccCCCCCCccceeEEee
Confidence            367899999998887765431           11 3999999999999999999887521    111111111    111


Q ss_pred             CCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHH-------------hcCCceEEEEec
Q 021660          113 SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK-------------YTKNTRFALICN  179 (309)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~-------------~~~~~~~i~~~~  179 (309)
                      ....+.    ..++    .....++   .++|++|||+|+++.-..-++.++|+.             .+..|.++.++|
T Consensus       381 D~eTGE----RRLE----AGAMVLA---DRGVVCIDEFDKMsDiDRvAIHEVMEQqtVTIaKAGIHasLNARCSVlAAAN  449 (818)
T KOG0479|consen  381 DQETGE----RRLE----AGAMVLA---DRGVVCIDEFDKMSDIDRVAIHEVMEQQTVTIAKAGIHASLNARCSVLAAAN  449 (818)
T ss_pred             ccccch----hhhh----cCceEEc---cCceEEehhcccccchhHHHHHHHHhcceEEeEeccchhhhccceeeeeecC
Confidence            111111    1121    1111122   588999999999998888999999995             345778888887


Q ss_pred             CCc-------------ccchhhhcce--eEEEecCCChHHHHHHHHHHHH
Q 021660          180 QVN-------------KIIPALQSRC--TRFRFAPLEPVHVTERLKHVIE  214 (309)
Q Consensus       180 ~~~-------------~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~  214 (309)
                      +.+             .++..|++||  ..+-+...+.+.-+.+-.+.++
T Consensus       450 PvyG~Yd~~k~P~eNIgLpDSLLSRFDLlFv~lD~~d~~~D~~iSeHVLR  499 (818)
T KOG0479|consen  450 PVYGQYDQSKTPMENIGLPDSLLSRFDLLFVVLDDIDADIDRMISEHVLR  499 (818)
T ss_pred             ccccccCCCCChhhccCCcHHHHhhhcEEEEEeccccchHHHHHHHHHHH
Confidence            543             4678899999  3344555554443444444443

>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=98.10  E-value=1.1e-05  Score=64.26  Aligned_cols=37  Identities=14%  Similarity=0.417  Sum_probs=22.2

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      ...+|||||++.+++..   +..++-+...++.+|++++.
T Consensus       119 ~~~~iIvDEaQN~t~~~---~k~ilTR~g~~skii~~GD~  155 (205)
T PF02562_consen  119 DNAFIIVDEAQNLTPEE---LKMILTRIGEGSKIIITGDP  155 (205)
T ss_dssp             -SEEEEE-SGGG--HHH---HHHHHTTB-TT-EEEEEE--
T ss_pred             cceEEEEecccCCCHHH---HHHHHcccCCCcEEEEecCc
Confidence            46799999999998755   44456666678889888753

; GO: 0005524 ATP binding; PDB: 3B85_A.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.07  E-value=3.2e-05  Score=73.66  Aligned_cols=190  Identities=13%  Similarity=0.168  Sum_probs=116.8

Q ss_pred             ccccccC-hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccc-----cEEEEecCC----CcchHHH
Q 021660           52 LADVAAH-RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHN-----MILELNASD----DRGIDVV  121 (309)
Q Consensus        52 ~~~~ig~-~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~-----~~~~~~~~~----~~~~~~~  121 (309)
                      ++.++|+ ++..+.+.+.+......|-+|.|.||+|||.++..+++.+.......     .+..++...    ...-.++
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            5778888 78888888888777767899999999999999999999985443221     222222211    1122334


Q ss_pred             HHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH--------HHHHHHHHHHhcCCceEEEEec-CC----cccchhh
Q 021660          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA--------QFALRRVIEKYTKNTRFALICN-QV----NKIIPAL  188 (309)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~--------~~~l~~~l~~~~~~~~~i~~~~-~~----~~l~~~l  188 (309)
                      ...++........    ..++-||+|||++.+....        .+.|...+...  ...+|.+|+ ..    -..+|++
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----GGGGVILFLGELHWLVGSGSNYGAIDAANLLKPLLARG--GLWCIGATTLETYRKCIEKDPAL  338 (898)
T ss_pred             HHHHHHHHHHHhc----CCCcEEEEecceeeeecCCCcchHHHHHHhhHHHHhcC--CeEEEecccHHHHHHHHhhCcch
Confidence            4445544432111    1157789999999886332        23333333322  256677654 22    2456889


Q ss_pred             hcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHh------cCCHHHHHHHHHHHH
Q 021660          189 QSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLC------NGDMRKALNILQSTH  247 (309)
Q Consensus       189 ~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~------~g~~r~~~~~l~~~~  247 (309)
                      .+|++.+.++-|+..+...++.....+    .|..+++.++...+..+      .+-+..+++..+.++
T Consensus       339 Errw~l~~v~~pS~~~~~~iL~~l~~~~e~~hg~~~s~~a~~~a~~~s~~~~t~r~lpd~aidl~dEa~  407 (898)
T KOG1051|consen  339 ERRWQLVLVPIPSVENLSLILPGLSERYEVHHGVRISDESLFSAAQLSARYITLSFLPDCAIDLEDEAA  407 (898)
T ss_pred             hhCcceeEeccCcccchhhhhhhhhhhhccccCCcccccccccccchhhhhcccCcCchhcccHHHHHH
Confidence            999988889889988777777665544    35556655554444433      244555555555444

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=98.05  E-value=9.7e-05  Score=55.92  Aligned_cols=97  Identities=19%  Similarity=0.214  Sum_probs=57.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccE-----EEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMI-----LELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDE  149 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe  149 (309)
                      ..+.|.||+|+||||+++.++.........+.+     +.+... ..+ ...+. + .+...    +..  ++.++++||
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~~~~~-lS~-G~~~r-v-~lara----l~~--~p~illlDE   96 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIGYFEQ-LSG-GEKMR-L-ALAKL----LLE--NPNLLLLDE   96 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEEEEcc-CCH-HHHHH-H-HHHHH----Hhc--CCCEEEEeC
Confidence            348999999999999999998876322211111     111111 111 11111 1 11111    111  678999999


Q ss_pred             C-CCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          150 A-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       150 ~-~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      . ..+.......+.+++.+.  ...+++++++...
T Consensus        97 P~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~  129 (144)
T cd03221          97 PTNHLDLESIEALEEALKEY--PGTVILVSHDRYF  129 (144)
T ss_pred             CccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHH
Confidence            5 467778888888888876  3456666665543

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.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=98.04  E-value=0.00011  Score=57.63  Aligned_cols=100  Identities=16%  Similarity=0.189  Sum_probs=57.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccE----EEEecCCC-cchHHHHHHHHHhhhccccccCCCCccEEEEEeC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMI----LELNASDD-RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDE  149 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~----~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe  149 (309)
                      ..+.|.||.|+|||||++.++.........+.+    +.+..... .+... ++. -.+...    +..  ++.++++||
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq-~qr-v~lara----l~~--~p~lllLDE   97 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGE-LQR-VAIAAA----LLR--NATFYLFDE   97 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHH-HHH-HHHHHH----Hhc--CCCEEEEEC
Confidence            448999999999999999998876432211111    11111110 11111 111 111111    111  678999999


Q ss_pred             CC-CCCHHHHHHHHHHHHHhcC-C-ceEEEEecCCc
Q 021660          150 AD-AMTKDAQFALRRVIEKYTK-N-TRFALICNQVN  182 (309)
Q Consensus       150 ~~-~l~~~~~~~l~~~l~~~~~-~-~~~i~~~~~~~  182 (309)
                      .. .+.......+.+++.+... . ..+|+++++..
T Consensus        98 Pts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~  133 (177)
T cd03222          98 PSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLA  133 (177)
T ss_pred             CcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHH
Confidence            64 5667777888888876532 2 45667776554

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.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.04  E-value=5.6e-05  Score=59.11  Aligned_cols=30  Identities=33%  Similarity=0.594  Sum_probs=26.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCccc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (309)
                      +.++|+|+||+||||+++.+++.+....+.
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~   31 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEIWR   31 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhhhh
Confidence            568999999999999999999999766543

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=98.02  E-value=9.1e-05  Score=57.88  Aligned_cols=44  Identities=18%  Similarity=0.379  Sum_probs=33.3

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l  184 (309)
                      ++.++++||. ..+.......+.+++.+......+|+++++...+
T Consensus       114 ~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~  158 (171)
T cd03228         114 DPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTI  158 (171)
T ss_pred             CCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHH
Confidence            6889999995 4677778888899988775556677777766544

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.

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.02  E-value=0.00017  Score=70.09  Aligned_cols=181  Identities=12%  Similarity=0.066  Sum_probs=102.7

Q ss_pred             ccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc-cCc-c-cccEEEEecCCCcchHHHHHHHHHhhhcc
Q 021660           56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-GAQ-Y-HNMILELNASDDRGIDVVRQQIQDFASTQ  132 (309)
Q Consensus        56 ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (309)
                      +|++..++.+.+.+-......+-++|-.|+||||+++.+.+... ..+ + ...++.++.  ......+...+..-....
T Consensus       161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk--~f~~~~iq~~Il~~l~~~  238 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSK--EFTTRKIQQTILERLGLL  238 (889)
T ss_pred             ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcc--cccHHhHHHHHHHHhccC
Confidence            99999999999998887777799999999999999999998875 222 1 122222222  222222222222111000


Q ss_pred             cc----------------ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh----cCCceEEEEecCCcccchhhhcce
Q 021660          133 SF----------------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY----TKNTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       133 ~~----------------~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~----~~~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      ..                .+.  ..+-+|++||+-.  +..    ++.+.-+    ...+.+++||+...--.... ...
T Consensus       239 ~~~~~~~~~~~~~~~i~~~L~--~krfllvLDDIW~--~~d----w~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m-~~~  309 (889)
T KOG4658|consen  239 DEEWEDKEEDELASKLLNLLE--GKRFLLVLDDIWE--EVD----WDKIGVPFPSRENGSKVVLTTRSEEVCGRAM-GVD  309 (889)
T ss_pred             CcccchhhHHHHHHHHHHHhc--cCceEEEEecccc--ccc----HHhcCCCCCCccCCeEEEEEeccHhhhhccc-cCC
Confidence            00                011  2677999999843  111    3333322    12367888876543222111 123


Q ss_pred             eEEEecCCChHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          193 TRFRFAPLEPVHVTERLKHVIEAEGLD---VTEGGLAALVRLCNGDMRKALNILQSTH  247 (309)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~---~~~~~l~~i~~~~~g~~r~~~~~l~~~~  247 (309)
                      ..++..-+++++.=..+.+.+-.....   .-++....+++.|+|.|-.+.-+-..++
T Consensus       310 ~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma  367 (889)
T KOG4658|consen  310 YPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLA  367 (889)
T ss_pred             ccccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhc
Confidence            445566677776666666655322111   1367778888999997765554444443

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.02  E-value=9.5e-05  Score=58.93  Aligned_cols=102  Identities=20%  Similarity=0.289  Sum_probs=56.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccC----------------CCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG----------------VKA  140 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~  140 (309)
                      ++|.||+|+||||++-.+|..+...+..+.++..+.......+.++...+. .........                ...
T Consensus         4 i~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~-l~vp~~~~~~~~~~~~~~~~~l~~~~~~   82 (196)
T PF00448_consen    4 IALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEI-LGVPFYVARTESDPAEIAREALEKFRKK   82 (196)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHH-HTEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHH-hccccchhhcchhhHHHHHHHHHHHhhc
Confidence            899999999999999999999876666666666655543333332222221 111100000                001


Q ss_pred             ccEEEEEeCCCCCCH--HHHHHHHHHHHHhcCC-ceEEEEec
Q 021660          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKN-TRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~~-~~~i~~~~  179 (309)
                      +..+|+||=..+...  +....+.++++...+. ..+++.++
T Consensus        83 ~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~  124 (196)
T PF00448_consen   83 GYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSAT  124 (196)
T ss_dssp             TSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGG
T ss_pred             CCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecc
Confidence            346899998766553  3355666666665433 34444443

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 ....

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=98.02  E-value=8.2e-05  Score=59.92  Aligned_cols=53  Identities=21%  Similarity=0.327  Sum_probs=39.9

Q ss_pred             CccEEEEEeC-CCCCCHHHHHHHHHHHHHhc---CCceEEEEecCCcccchhhhcce
Q 021660          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT---KNTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       140 ~~~~lliiDe-~~~l~~~~~~~l~~~l~~~~---~~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      .+|.++|+|| ++.+.....+.|++.+++..   ..+.+|++|...+.+++-+-.+.
T Consensus       188 ~~P~LLiLDEP~~GLDl~~re~ll~~l~~~~~~~~~~~ll~VtHh~eEi~~~~th~l  244 (257)
T COG1119         188 KDPELLILDEPAQGLDLIAREQLLNRLEELAASPGAPALLFVTHHAEEIPPCFTHRL  244 (257)
T ss_pred             cCCCEEEecCccccCChHHHHHHHHHHHHHhcCCCCceEEEEEcchhhcccccceEE
Confidence            4788999999 56777777788888888653   35678889988888777654443

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

Probab=98.00  E-value=0.00013  Score=56.52  Aligned_cols=56  Identities=14%  Similarity=0.296  Sum_probs=42.0

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEE
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFR  196 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~  196 (309)
                      ++.+++-||- .++.++....+++++++.+....-|++++....+...+..|+..++
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            7889999995 5788888899999999988666555555555566667777765544

>COG1485 Predicted ATPase [General function prediction only]

Probab=98.00  E-value=1e-05  Score=68.33  Aligned_cols=96  Identities=20%  Similarity=0.252  Sum_probs=54.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCc-ccccEEEEecCCCcchHHHHHHHHHhhhcccc------ccCCCCccEEEEEe
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSF------SFGVKASVKLVLLD  148 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~lliiD  148 (309)
                      .+++||+-|.|||.|.......+..+. ...++..+..       .+.+.+........+      .+.  .+.+||++|
T Consensus        67 GlYl~GgVGrGKT~LMD~Fy~~lp~~~k~R~HFh~FM~-------~vH~~l~~l~g~~dpl~~iA~~~~--~~~~vLCfD  137 (367)
T COG1485          67 GLYLWGGVGRGKTMLMDLFYESLPGERKRRLHFHRFMA-------RVHQRLHTLQGQTDPLPPIADELA--AETRVLCFD  137 (367)
T ss_pred             eEEEECCCCccHHHHHHHHHhhCCccccccccHHHHHH-------HHHHHHHHHcCCCCccHHHHHHHH--hcCCEEEee
Confidence            399999999999999999999985433 2222221111       111111111100000      011  167899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhcCCceEEE-EecC
Q 021660          149 EADAMTKDAQFALRRVIEKYTKNTRFAL-ICNQ  180 (309)
Q Consensus       149 e~~~l~~~~~~~l~~~l~~~~~~~~~i~-~~~~  180 (309)
                      |++.-.....-.|-.+++..-.+.++++ |+|.
T Consensus       138 EF~VtDI~DAMiL~rL~~~Lf~~GV~lvaTSN~  170 (367)
T COG1485         138 EFEVTDIADAMILGRLLEALFARGVVLVATSNT  170 (367)
T ss_pred             eeeecChHHHHHHHHHHHHHHHCCcEEEEeCCC
Confidence            9987665555566677776554555544 4553

>PRK14974 cell division protein FtsY; Provisional

Probab=97.99  E-value=0.0001  Score=63.58  Aligned_cols=32  Identities=34%  Similarity=0.452  Sum_probs=25.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMI  107 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~  107 (309)
                      .++|+|++|+||||++..++..+...+..+.+
T Consensus       142 vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~l  173 (336)
T PRK14974        142 VIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVI  173 (336)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEE
Confidence            39999999999999999999888655544333

>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=97.99  E-value=4.4e-05  Score=60.54  Aligned_cols=34  Identities=32%  Similarity=0.361  Sum_probs=25.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      ++++||||+|||+++..++......+....++.+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~   35 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL   35 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence            6899999999999999988876555544444433

A related protein is found in archaea.

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.99  E-value=1.6e-05  Score=69.64  Aligned_cols=89  Identities=25%  Similarity=0.287  Sum_probs=52.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH--ccCcccccEEEEecCCCcchHHHHHHHHHh----------------hhccccccC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL--YGAQYHNMILELNASDDRGIDVVRQQIQDF----------------ASTQSFSFG  137 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~  137 (309)
                      .+++.|.||||||.++..+++.+  ...+....+...+....   ..+...+...                .......-.
T Consensus         3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~---~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~   79 (352)
T PF09848_consen    3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLR---NKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDK   79 (352)
T ss_pred             EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHH---HHHHHHHhhhcccchhhhhhhhhHHHHhhcccccc
Confidence            38999999999999999999998  44444444444433321   1122122111                111000001


Q ss_pred             CCCccEEEEEeCCCCCCHH--------HHHHHHHHHHH
Q 021660          138 VKASVKLVLLDEADAMTKD--------AQFALRRVIEK  167 (309)
Q Consensus       138 ~~~~~~lliiDe~~~l~~~--------~~~~l~~~l~~  167 (309)
                      ......+||+||+|++...        ..+.|..+++.
T Consensus        80 ~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~  117 (352)
T PF09848_consen   80 EKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKR  117 (352)
T ss_pred             cCCcCCEEEEehhHhhhhccccccccccHHHHHHHHhc
Confidence            1235789999999999872        23667777775

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PRK08118 topology modulation protein; Reviewed

Probab=97.97  E-value=8e-05  Score=57.84  Aligned_cols=24  Identities=29%  Similarity=0.564  Sum_probs=22.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+++.||+|+||||+++.+++.+
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999999999998

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.97  E-value=0.0001  Score=61.64  Aligned_cols=33  Identities=36%  Similarity=0.540  Sum_probs=26.8

Q ss_pred             HHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           68 LTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        68 ~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +...+...+++|.||+|+||||+++.++..+..
T Consensus       105 l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~~  137 (270)
T TIGR02858       105 LVRNNRVLNTLIISPPQCGKTTLLRDLARILST  137 (270)
T ss_pred             HHhCCCeeEEEEEcCCCCCHHHHHHHHhCccCC
Confidence            334444567999999999999999999998743

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.96  E-value=6.3e-05  Score=66.06  Aligned_cols=139  Identities=17%  Similarity=0.221  Sum_probs=72.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc----CcccccEEEEecCCCcchHHHHHHHHHhhhcccccc-------------CC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG----AQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF-------------GV  138 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~  138 (309)
                      .++|+||+|+||||++..+|..+..    .+..+.++..++-.......    +..........+             ..
T Consensus       176 vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQ----L~~~a~~lgvpv~~~~~~~~l~~~L~~  251 (388)
T PRK12723        176 VFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQ----IQTYGDIMGIPVKAIESFKDLKEEITQ  251 (388)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHH----HHHHhhcCCcceEeeCcHHHHHHHHHH
Confidence            4999999999999999999988742    24455555555432211111    222221111000             11


Q ss_pred             CCccEEEEEeCCCCCCHH--HHHHHHHHHHHhcC--CceEEEEecCCcccchhhhcce-----eEEEecCCChHHHHHHH
Q 021660          139 KASVKLVLLDEADAMTKD--AQFALRRVIEKYTK--NTRFALICNQVNKIIPALQSRC-----TRFRFAPLEPVHVTERL  209 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~--~~~~l~~~l~~~~~--~~~~i~~~~~~~~l~~~l~~r~-----~~i~~~~~~~~~~~~~l  209 (309)
                      ..+..+|+||.+.+...+  ....+..+++....  ...+++.++....-...+..++     .-+.|..++....-..+
T Consensus       252 ~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~~~~~I~TKlDet~~~G~~  331 (388)
T PRK12723        252 SKDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFSYKTVIFTKLDETTCVGNL  331 (388)
T ss_pred             hCCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCCCCEEEEEeccCCCcchHH
Confidence            135789999999887643  23556666664432  3444444433322222332332     34556666654443334


Q ss_pred             HHHHHHcCC
Q 021660          210 KHVIEAEGL  218 (309)
Q Consensus       210 ~~~~~~~~~  218 (309)
                      -..+...+.
T Consensus       332 l~~~~~~~~  340 (388)
T PRK12723        332 ISLIYEMRK  340 (388)
T ss_pred             HHHHHHHCC
Confidence            344433343

>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=97.96  E-value=0.00013  Score=56.04  Aligned_cols=98  Identities=17%  Similarity=0.249  Sum_probs=57.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC-----------------cchHHHHHHHHHhhhccccccC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-----------------RGIDVVRQQIQDFASTQSFSFG  137 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~~~~~~~~  137 (309)
                      ..+.|.|+.|+||||+++.++..+......   +.++....                 .+....+ . -.+...    +.
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~~~~G~---i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~~-r-~~l~~~----l~   96 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLKPTSGE---ILIDGKDIAKLPLEELRRRIGYVPQLSGGQRQ-R-VALARA----LL   96 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCccE---EEECCEEcccCCHHHHHhceEEEeeCCHHHHH-H-HHHHHH----Hh
Confidence            448999999999999999998876322111   11211100                 0011110 0 111111    11


Q ss_pred             CCCccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCC-ceEEEEecCCcc
Q 021660          138 VKASVKLVLLDEAD-AMTKDAQFALRRVIEKYTKN-TRFALICNQVNK  183 (309)
Q Consensus       138 ~~~~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~-~~~i~~~~~~~~  183 (309)
                        .++.++++||.. .+.......+.+++...... ..++++++....
T Consensus        97 --~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~  142 (157)
T cd00267          97 --LNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPEL  142 (157)
T ss_pred             --cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHH
Confidence              157899999965 56677788888888865433 456666665543

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.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.95  E-value=0.00012  Score=63.52  Aligned_cols=140  Identities=16%  Similarity=0.237  Sum_probs=72.2

Q ss_pred             HHHHHHHHHHhcC----CCCeEEEECCCCCcHHHHHHHHHHHHc--cCcccccEEEEecCCCcchHHHHHHHHHhhhccc
Q 021660           60 DIVDTIDRLTSEN----RLPHLLLYGPPGTGKTSTILAVARKLY--GAQYHNMILELNASDDRGIDVVRQQIQDFASTQS  133 (309)
Q Consensus        60 ~~~~~l~~~~~~~----~~~~~ll~G~~G~GKT~l~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  133 (309)
                      +....+..++...    +...+.|.||.|+||||.+..+|....  .....+.++..++-.....+.    +..+..-..
T Consensus       185 ~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQ----Lk~Ya~im~  260 (407)
T COG1419         185 EKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQ----LKTYADIMG  260 (407)
T ss_pred             HHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHH----HHHHHHHhC
Confidence            3444444444333    234599999999999999988888875  444555555555443221111    222221111


Q ss_pred             cc-------------cCCCCccEEEEEeCCCCCC--HHHHHHHHHHHHHh-cCCceEEEEecCCcccchhhhcce-----
Q 021660          134 FS-------------FGVKASVKLVLLDEADAMT--KDAQFALRRVIEKY-TKNTRFALICNQVNKIIPALQSRC-----  192 (309)
Q Consensus       134 ~~-------------~~~~~~~~lliiDe~~~l~--~~~~~~l~~~l~~~-~~~~~~i~~~~~~~~l~~~l~~r~-----  192 (309)
                      ..             ........+|++|=+.+-.  ......|..+++.. +-...+++.++....-...+..+|     
T Consensus       261 vp~~vv~~~~el~~ai~~l~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i  340 (407)
T COG1419         261 VPLEVVYSPKELAEAIEALRDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPI  340 (407)
T ss_pred             CceEEecCHHHHHHHHHHhhcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhccCCc
Confidence            10             0012246788888765533  23345555555543 334455555555444444444443     


Q ss_pred             eEEEecCCChH
Q 021660          193 TRFRFAPLEPV  203 (309)
Q Consensus       193 ~~i~~~~~~~~  203 (309)
                      .-+.|..++..
T Consensus       341 ~~~I~TKlDET  351 (407)
T COG1419         341 DGLIFTKLDET  351 (407)
T ss_pred             ceeEEEccccc
Confidence            23445555543

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.94  E-value=8.6e-05  Score=57.32  Aligned_cols=107  Identities=13%  Similarity=0.116  Sum_probs=65.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC-CcchHHHH-------------------------HHHHHh
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGIDVVR-------------------------QQIQDF  128 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-------------------------~~~~~~  128 (309)
                      +-+.+++++|.||||+|..++-+..+.+..+.++++--.. ..+.....                         ......
T Consensus         6 Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~   85 (173)
T TIGR00708         6 GIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKAA   85 (173)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHHH
Confidence            3488999999999999999999988777777666554332 11110000                         001000


Q ss_pred             hhccccccCCCCccEEEEEeCCCCCCHH---HHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          129 ASTQSFSFGVKASVKLVLLDEADAMTKD---AQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       129 ~~~~~~~~~~~~~~~lliiDe~~~l~~~---~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                      .......+ ......+||+||+.....-   ..+.+.++++..|++..+|+|++..+
T Consensus        86 ~~~a~~~l-~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p  141 (173)
T TIGR00708        86 WQHAKEML-ADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCP  141 (173)
T ss_pred             HHHHHHHH-hcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCC
Confidence            00000000 0125789999998532211   13568889998898999999998654

Alternate name: corrinoid adenosyltransferase.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.94  E-value=7.3e-05  Score=65.75  Aligned_cols=43  Identities=28%  Similarity=0.407  Sum_probs=35.1

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      |..+++.+.+.+....+.++++.|+.|||||++++++...+..
T Consensus         6 Q~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen    6 QRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             HHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            5566777777776666667999999999999999999998844

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=97.93  E-value=0.00017  Score=68.92  Aligned_cols=102  Identities=21%  Similarity=0.236  Sum_probs=58.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHH-------HHHHhhhcccccc-----CCCCcc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ-------QIQDFASTQSFSF-----GVKASV  142 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~-----~~~~~~  142 (309)
                      +.++|+|+||||||++++.+...+...+....+. +..........+.+       .+..+........     ......
T Consensus       339 ~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~-l~ApTg~AA~~L~e~~g~~a~Tih~lL~~~~~~~~~~~~~~~~~~  417 (720)
T TIGR01448       339 KVVILTGGPGTGKTTITRAIIELAEELGGLLPVG-LAAPTGRAAKRLGEVTGLTASTIHRLLGYGPDTFRHNHLEDPIDC  417 (720)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEE-EEeCchHHHHHHHHhcCCccccHHHHhhccCCccchhhhhccccC
Confidence            3599999999999999999988875443112222 22222222222211       1112221111000     001246


Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       143 ~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      .+|||||+..+.......|+.   ..+....+|++++.
T Consensus       418 ~llIvDEaSMvd~~~~~~Ll~---~~~~~~rlilvGD~  452 (720)
T TIGR01448       418 DLLIVDESSMMDTWLALSLLA---ALPDHARLLLVGDT  452 (720)
T ss_pred             CEEEEeccccCCHHHHHHHHH---hCCCCCEEEEECcc
Confidence            799999999998766555554   44567888888743

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.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.92  E-value=1.6e-05  Score=72.05  Aligned_cols=49  Identities=18%  Similarity=0.280  Sum_probs=40.9

Q ss_pred             CccccccChHHHHHHHHHHh----c--CCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           51 SLADVAAHRDIVDTIDRLTS----E--NRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~----~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .|++++|.++++..+...+.    +  .+.+.++|.||||+|||+|++.+++.+.
T Consensus        74 fF~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le  128 (644)
T PRK15455         74 AFEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLME  128 (644)
T ss_pred             chhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHH
Confidence            47899999999998888772    2  2334599999999999999999999874

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.92  E-value=6.1e-05  Score=58.99  Aligned_cols=107  Identities=13%  Similarity=0.095  Sum_probs=66.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC-CcchHHHHHH--------------------------HHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGIDVVRQQ--------------------------IQD  127 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~--------------------------~~~  127 (309)
                      ..+.++|++|.||||+|..++-+..+.+..+.++.+--.. ..+.....+.                          ...
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            4599999999999999999999987777666666654432 1111111110                          000


Q ss_pred             hhhccccccCCCCccEEEEEeCCCCCCHH---HHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          128 FASTQSFSFGVKASVKLVLLDEADAMTKD---AQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       128 ~~~~~~~~~~~~~~~~lliiDe~~~l~~~---~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                      ........+ ......+||+||+-....-   ..+.+.++|+..|....+|+|++..+
T Consensus       103 ~~~~a~~~l-~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p  159 (191)
T PRK05986        103 GWEEAKRML-ADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAP  159 (191)
T ss_pred             HHHHHHHHH-hCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            000000000 1125789999998543321   14678889998888999999997654

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=97.92  E-value=0.0019  Score=57.01  Aligned_cols=57  Identities=14%  Similarity=0.235  Sum_probs=41.6

Q ss_pred             cccChHHHHHHHHHHh---cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           55 VAAHRDIVDTIDRLTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~---~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      -||++..+..+.+.+.   .+....-++.|.-|+|||++++.+.......++-...+.++
T Consensus        27 ~VGr~~e~~~l~~~l~~v~~G~s~~kfi~G~YGsGKTf~l~~i~~~A~~~~fvvs~v~ls   86 (416)
T PF10923_consen   27 AVGREREIEALDRDLDRVADGGSSFKFIRGEYGSGKTFFLRLIRERALEKGFVVSEVDLS   86 (416)
T ss_pred             eechHHHHHHHHHHHHHHhCCCCeEEEEEeCCCCcHHHHHHHHHHHHHHcCCEEEEEecC
Confidence            3788888887776654   55444589999999999999999988876655544444333

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=97.90  E-value=0.00014  Score=67.55  Aligned_cols=103  Identities=19%  Similarity=0.313  Sum_probs=57.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCccc--ccEEEEecCCCcchHHHHHHHHH------------------------h
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILELNASDDRGIDVVRQQIQD------------------------F  128 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~------------------------~  128 (309)
                      +..+|+|+|||||||++..+...+......  ..-+.+..........+.+.+..                        +
T Consensus       161 ~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~~~~~~~~~~~~a~TiHrl  240 (586)
T TIGR01447       161 NFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNLAAAEALIAALPSEAVTIHRL  240 (586)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcccccchhhhhccccccchhhhh
Confidence            459999999999999999988876432211  11233333332222323222221                        1


Q ss_pred             hhccc----ccc--CCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          129 ASTQS----FSF--GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       129 ~~~~~----~~~--~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      .....    +.+  .......+|||||+-.+.......|+   +..++..++|++++.
T Consensus       241 Lg~~~~~~~~~~~~~~~l~~dvlIiDEaSMvd~~l~~~ll---~al~~~~rlIlvGD~  295 (586)
T TIGR01447       241 LGIKPDTKRFRHHERNPLPLDVLVVDEASMVDLPLMAKLL---KALPPNTKLILLGDK  295 (586)
T ss_pred             hcccCCcchhhhcccCCCcccEEEEcccccCCHHHHHHHH---HhcCCCCEEEEECCh
Confidence            11100    000  00113469999999988866555554   445668889988853

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.90  E-value=0.00031  Score=62.82  Aligned_cols=36  Identities=28%  Similarity=0.457  Sum_probs=27.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc--cCcccccEEEEe
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY--GAQYHNMILELN  111 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~--~~~~~~~~~~~~  111 (309)
                      .++|.||+|+||||++..++..+.  ..+..+.++..+
T Consensus       223 ~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D  260 (424)
T PRK05703        223 VVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLD  260 (424)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence            489999999999999999988874  334445554443

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

Probab=97.89  E-value=0.0002  Score=56.67  Aligned_cols=41  Identities=12%  Similarity=0.302  Sum_probs=30.4

Q ss_pred             ccEEEEEeCCCC-CCHHHHHHHHHHHHHhcCCc-eEEEEecCC
Q 021660          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNT-RFALICNQV  181 (309)
Q Consensus       141 ~~~lliiDe~~~-l~~~~~~~l~~~l~~~~~~~-~~i~~~~~~  181 (309)
                      +|.++++||... |.++.....+.+|....... ..|++|.+.
T Consensus       154 ~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivVTHEM  196 (240)
T COG1126         154 DPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIVTHEM  196 (240)
T ss_pred             CCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEEechh
Confidence            788999999864 56888889999998876554 445555544

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=97.88  E-value=0.00014  Score=67.82  Aligned_cols=103  Identities=17%  Similarity=0.241  Sum_probs=58.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCc-ccccEEEEecCCCcchHHHHHHHH------------------------Hhh
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQ------------------------DFA  129 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~------------------------~~~  129 (309)
                      +..+|+|+|||||||++..+...+.... .....+.+..........+.+.+.                        .+.
T Consensus       168 ~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrlL  247 (615)
T PRK10875        168 RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRLL  247 (615)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHHh
Confidence            3499999999999999999888763321 111233344443333333332222                        111


Q ss_pred             hccccc----cC--CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          130 STQSFS----FG--VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       130 ~~~~~~----~~--~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      ...+..    +.  ......+|||||+-.+.-.....|+.   ..++++++|++++.
T Consensus       248 g~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~---al~~~~rlIlvGD~  301 (615)
T PRK10875        248 GAQPGSQRLRYHAGNPLHLDVLVVDEASMVDLPMMARLID---ALPPHARVIFLGDR  301 (615)
T ss_pred             CcCCCccchhhccccCCCCCeEEEChHhcccHHHHHHHHH---hcccCCEEEEecch
Confidence            111100    00  00123699999998887555555544   45678899999854

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.88  E-value=0.00021  Score=56.23  Aligned_cols=44  Identities=23%  Similarity=0.281  Sum_probs=33.5

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l  184 (309)
                      ++.++++||. ..+.......+.+++.+......+|+++++...+
T Consensus       116 ~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~  160 (178)
T cd03247         116 DAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGI  160 (178)
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHH
Confidence            7889999995 4677777888888888765556677777766544

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.

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

Probab=97.88  E-value=4.5e-05  Score=63.03  Aligned_cols=29  Identities=24%  Similarity=0.402  Sum_probs=24.8

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      +...++|.||+|+|||++++.+++.+...
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~   43 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKN   43 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccc
Confidence            34559999999999999999999988554

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.

>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=97.88  E-value=0.00025  Score=55.52  Aligned_cols=43  Identities=16%  Similarity=0.311  Sum_probs=31.8

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCcc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~  183 (309)
                      ++.++++||. ..+.......+.+++..... ...+|+++++...
T Consensus       114 ~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~  158 (173)
T cd03246         114 NPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPET  158 (173)
T ss_pred             CCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHH
Confidence            6889999995 46777778888888887643 4567777776543

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

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.88  E-value=0.00017  Score=57.48  Aligned_cols=99  Identities=24%  Similarity=0.324  Sum_probs=65.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD  156 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~  156 (309)
                      ++|.|+.|+|||++.+.+........       +....  ..+. ...+.              +.-++-+||++.+...
T Consensus        55 lvl~G~QG~GKStf~~~L~~~~~~d~-------~~~~~--~kd~-~~~l~--------------~~~iveldEl~~~~k~  110 (198)
T PF05272_consen   55 LVLVGKQGIGKSTFFRKLGPEYFSDS-------INDFD--DKDF-LEQLQ--------------GKWIVELDELDGLSKK  110 (198)
T ss_pred             eeEecCCcccHHHHHHHHhHHhccCc-------cccCC--CcHH-HHHHH--------------HhHheeHHHHhhcchh
Confidence            89999999999999999966631111       11111  1111 11111              3468999999999888


Q ss_pred             HHHHHHHHHHHh---------------cCCceEEEEecCCcccc-hhhhcceeEEEecC
Q 021660          157 AQFALRRVIEKY---------------TKNTRFALICNQVNKII-PALQSRCTRFRFAP  199 (309)
Q Consensus       157 ~~~~l~~~l~~~---------------~~~~~~i~~~~~~~~l~-~~l~~r~~~i~~~~  199 (309)
                      ..+.|..++...               +..+.+|.+||....+. ++=.+|+..+.+..
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            888888887742               23456788888876543 34567887777766

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=97.87  E-value=0.00017  Score=69.12  Aligned_cols=115  Identities=13%  Similarity=0.227  Sum_probs=64.1

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHH-------HHHHhhh
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ-------QIQDFAS  130 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~  130 (309)
                      .+.-...+...+.+.  ..++|.|+||||||+++..+...+...+..+  .-+.++ ......+.+       .+..+..
T Consensus       354 s~~Q~~Av~~i~~s~--~~~il~G~aGTGKTtll~~i~~~~~~~g~~V--~~~ApT-g~Aa~~L~~~~g~~a~Ti~~~~~  428 (744)
T TIGR02768       354 SEEQYEAVRHVTGSG--DIAVVVGRAGTGKSTMLKAAREAWEAAGYRV--IGAALS-GKAAEGLQAESGIESRTLASLEY  428 (744)
T ss_pred             CHHHHHHHHHHhcCC--CEEEEEecCCCCHHHHHHHHHHHHHhCCCeE--EEEeCc-HHHHHHHHhccCCceeeHHHHHh
Confidence            344445555555443  3589999999999999999988875544332  222222 111111111       0111110


Q ss_pred             ccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          131 TQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       131 ~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      .............+|||||+..++......|+.....  ..+.+|+++.
T Consensus       429 ~~~~~~~~~~~~~llIvDEasMv~~~~~~~Ll~~~~~--~~~kliLVGD  475 (744)
T TIGR02768       429 AWANGRDLLSDKDVLVIDEAGMVGSRQMARVLKEAEE--AGAKVVLVGD  475 (744)
T ss_pred             hhccCcccCCCCcEEEEECcccCCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            0000001112578999999999987776666654432  3667777774

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.

>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=97.87  E-value=0.00013  Score=57.53  Aligned_cols=108  Identities=14%  Similarity=0.234  Sum_probs=59.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHH-------HHH-----hhhccccccC-----
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ-------IQD-----FASTQSFSFG-----  137 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~-----~~~~~~~~~~-----  137 (309)
                      ..+.|.||+|+||||+++.++.........+.+...+... .....+...       +..     ........++     
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~~~~~~G~v~~~g~~~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~~q  104 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGLLKPSSGEILLDGKDLAS-LSPKELARKIAYVPQALELLGLAHLADRPFNELSGGERQ  104 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCEECCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHHHH
Confidence            4499999999999999999988763322111111111111 001111111       110     0011111111     


Q ss_pred             -------CCCccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          138 -------VKASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       138 -------~~~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                             -..++.++++||. ..+.......+.+++.....  ...+|+++++...
T Consensus       105 rl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~  160 (180)
T cd03214         105 RVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNL  160 (180)
T ss_pred             HHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence                   1137889999995 46777888888888887643  4566777766543

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.

>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=97.87  E-value=1.6e-05  Score=58.20  Aligned_cols=22  Identities=36%  Similarity=0.853  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|+||+||||+++.+++.+
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            7899999999999999999997

...

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.86  E-value=0.00012  Score=55.50  Aligned_cols=24  Identities=29%  Similarity=0.560  Sum_probs=21.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.|+||+|||||++.+.+|...
T Consensus        30 e~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          30 EFIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             ceEEEeCCCCccHHHHHHHHHhcc
Confidence            349999999999999999999887

>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=97.85  E-value=3.4e-05  Score=58.29  Aligned_cols=22  Identities=41%  Similarity=0.918  Sum_probs=20.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++++||||+||||+++.+++.+
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            7899999999999999999886

...

>PRK14532 adenylate kinase; Provisional

Probab=97.83  E-value=0.00073  Score=53.61  Aligned_cols=23  Identities=30%  Similarity=0.696  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++|.||||+||||+++.+++..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999986

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.83  E-value=8.1e-05  Score=61.96  Aligned_cols=27  Identities=33%  Similarity=0.543  Sum_probs=23.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      ++|+|+||+||||+++.+++.+...+.
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~   28 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNI   28 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence            789999999999999999999854433

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.

>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=97.83  E-value=8.6e-05  Score=62.12  Aligned_cols=97  Identities=18%  Similarity=0.265  Sum_probs=50.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe-----cCC---CcchHHHHHHHHHhhhccccccCCCCccEEEE
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN-----ASD---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVL  146 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~-----~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lli  146 (309)
                      |.++|+|.||+|||++++.+...+...+..+.++.-.     ...   .......+..+........   +   ...+||
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~l---s---~~~iVI   75 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERAL---S---KDTIVI   75 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHH---T---T-SEEE
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhh---c---cCeEEE
Confidence            5689999999999999999999987655444333311     111   1112233333333332211   1   357999


Q ss_pred             EeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021660          147 LDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       147 iDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      +|+..++ +.....|+.+-.......++|.+.
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            9998876 456677777666655444444443

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.82  E-value=0.00038  Score=62.23  Aligned_cols=37  Identities=24%  Similarity=0.358  Sum_probs=29.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      .++|+|++|+||||++..++..+...+..+.++..++
T Consensus        97 vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~  133 (437)
T PRK00771         97 TIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADT  133 (437)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCC
Confidence            4899999999999999999999876665555554444

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.82  E-value=0.00034  Score=58.60  Aligned_cols=50  Identities=22%  Similarity=0.399  Sum_probs=37.2

Q ss_pred             CCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ..++++--.+...+.+..++... ...++|.||+|+||||+++.+...+..
T Consensus        57 ~~l~~lg~~~~~~~~l~~~~~~~-~GlilisG~tGSGKTT~l~all~~i~~  106 (264)
T cd01129          57 LDLEKLGLKPENLEIFRKLLEKP-HGIILVTGPTGSGKTTTLYSALSELNT  106 (264)
T ss_pred             CCHHHcCCCHHHHHHHHHHHhcC-CCEEEEECCCCCcHHHHHHHHHhhhCC
Confidence            34555555666677777776544 245999999999999999999888743

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.

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=97.81  E-value=0.00024  Score=55.88  Aligned_cols=43  Identities=26%  Similarity=0.337  Sum_probs=35.3

Q ss_pred             cChHHHHHHHHHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           57 AHRDIVDTIDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        57 g~~~~~~~l~~~~~~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .|.+++..+.+.+... ..++++|.+|+|+|||.++..++.++.
T Consensus         7 ~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~   50 (184)
T PF04851_consen    7 YQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA   50 (184)
T ss_dssp             HHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc
Confidence            3677788888887776 556799999999999999998777773

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.80  E-value=0.00012  Score=54.64  Aligned_cols=25  Identities=36%  Similarity=0.502  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +++++||+|+|||+.+..++..+..
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~   26 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLD   26 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHh
Confidence            4899999999999999888888754

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.80  E-value=0.00022  Score=62.13  Aligned_cols=37  Identities=27%  Similarity=0.458  Sum_probs=29.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      ..++|.||+|+||||++..++..+...+..+.++..+
T Consensus       242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aD  278 (436)
T PRK11889        242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTD  278 (436)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecC
Confidence            3489999999999999999999986655555554443

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.80  E-value=0.00035  Score=55.96  Aligned_cols=25  Identities=32%  Similarity=0.590  Sum_probs=22.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      .++|.||+|+||||++..++..+..
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~   27 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINK   27 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhh
Confidence            4899999999999999999988853

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.80  E-value=0.00017  Score=59.08  Aligned_cols=30  Identities=23%  Similarity=0.267  Sum_probs=22.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~  105 (309)
                      .+++.|++|+|||+++..++......+...
T Consensus        26 ~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~   55 (230)
T PRK08533         26 LILIEGDESTGKSILSQRLAYGFLQNGYSV   55 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCcE
Confidence            399999999999999876666553344333

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.78  E-value=0.00016  Score=58.39  Aligned_cols=32  Identities=28%  Similarity=0.506  Sum_probs=25.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEE
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (309)
                      +.|+||||+|||+++..++......+....|+
T Consensus        15 ~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi   46 (209)
T TIGR02237        15 TQIYGPPGSGKTNICMILAVNAARQGKKVVYI   46 (209)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            99999999999999999988775444333333

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

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=97.78  E-value=0.00039  Score=58.47  Aligned_cols=22  Identities=32%  Similarity=0.732  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.||+|+|||+++..+++.+
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~   23 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKL   23 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6899999999999999999987

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.78  E-value=0.00031  Score=57.84  Aligned_cols=44  Identities=18%  Similarity=0.188  Sum_probs=28.6

Q ss_pred             HHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHccCcccccEE
Q 021660           65 IDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (309)
Q Consensus        65 l~~~~~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (309)
                      |...+.++-+  ..++++|+||+|||+++.+++......+....++
T Consensus        14 LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~   59 (234)
T PRK06067         14 LDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVI   59 (234)
T ss_pred             HHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEE
Confidence            3444444422  2399999999999999999977653333333333

>PF13245 AAA_19: Part of AAA domain

Probab=97.78  E-value=0.00013  Score=48.46  Aligned_cols=25  Identities=48%  Similarity=0.834  Sum_probs=18.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +.+++.||||+|||+++...+..+.
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            4477799999999966666666653

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.77  E-value=0.00065  Score=54.28  Aligned_cols=36  Identities=31%  Similarity=0.426  Sum_probs=28.5

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        65 l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +...+......+.++.||||+||||+++-+++.+..
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~  163 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSD  163 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhc
Confidence            344445555567999999999999999999998843

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.76  E-value=0.00027  Score=57.87  Aligned_cols=46  Identities=26%  Similarity=0.395  Sum_probs=31.2

Q ss_pred             HHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           65 IDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        65 l~~~~~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      |...+.++-+.  .++|+|+||+|||+++..++......+....|+..
T Consensus        12 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~   59 (225)
T PRK09361         12 LDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDT   59 (225)
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEC
Confidence            34444444222  28999999999999999999877555444444433

>PRK07261 topology modulation protein; Provisional

Probab=97.76  E-value=0.00019  Score=56.03  Aligned_cols=23  Identities=17%  Similarity=0.427  Sum_probs=21.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+||||+++.++..+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            38999999999999999998886

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.74  E-value=8.2e-05  Score=64.63  Aligned_cols=29  Identities=24%  Similarity=0.363  Sum_probs=24.6

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      +....+|.||+|+|||++++.+++.+...
T Consensus       168 kGQR~lIvgppGvGKTTLaK~Ian~I~~n  196 (416)
T PRK09376        168 KGQRGLIVAPPKAGKTVLLQNIANSITTN  196 (416)
T ss_pred             cCceEEEeCCCCCChhHHHHHHHHHHHhh
Confidence            33459999999999999999999988654

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.74  E-value=7.9e-05  Score=60.15  Aligned_cols=22  Identities=55%  Similarity=0.801  Sum_probs=19.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      ..++|||+||+|||++++.++.
T Consensus        13 ~~~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        13 NMYLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             cEEEEECCCCCCHHHHHHhcCC
Confidence            3499999999999999998863

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.

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=97.73  E-value=0.00042  Score=59.07  Aligned_cols=23  Identities=30%  Similarity=0.700  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||+|+|||+++..+++.+
T Consensus         6 ~i~i~GptgsGKt~la~~la~~~   28 (307)
T PRK00091          6 VIVIVGPTASGKTALAIELAKRL   28 (307)
T ss_pred             EEEEECCCCcCHHHHHHHHHHhC
Confidence            48999999999999999999997

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.73  E-value=0.00073  Score=60.30  Aligned_cols=115  Identities=15%  Similarity=0.202  Sum_probs=71.5

Q ss_pred             CCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEE--------------EEecCC
Q 021660           49 PQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL--------------ELNASD  114 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~--------------~~~~~~  114 (309)
                      ..+++.+.........+.+++.... +-+|++||.|+||||+...+.+.++....++..+              .++...
T Consensus       234 ~l~l~~Lg~~~~~~~~~~~~~~~p~-GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~~~gI~Q~qVN~k~  312 (500)
T COG2804         234 ILDLEKLGMSPFQLARLLRLLNRPQ-GLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQLPGINQVQVNPKI  312 (500)
T ss_pred             cCCHHHhCCCHHHHHHHHHHHhCCC-eEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeeecCCcceeeccccc
Confidence            4456777777888888888887753 3399999999999999999999997665432211              111111


Q ss_pred             CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                      ...   +...++.+...         .|.+|+|.|+--  .++.....+.-.    .+.++++|=...
T Consensus       313 glt---fa~~LRa~LRq---------DPDvImVGEIRD--~ETAeiavqAal----TGHLVlSTlHtn  362 (500)
T COG2804         313 GLT---FARALRAILRQ---------DPDVIMVGEIRD--LETAEIAVQAAL----TGHLVLSTLHTN  362 (500)
T ss_pred             CCC---HHHHHHHHhcc---------CCCeEEEeccCC--HHHHHHHHHHHh----cCCeEeeecccC
Confidence            111   22233333322         789999999964  233333333322    566788774433

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.73  E-value=3.6e-05  Score=56.86  Aligned_cols=33  Identities=33%  Similarity=0.536  Sum_probs=27.1

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      ..|+++++|-||+||||++..++...     +..++.+
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae~~-----~~~~i~i   38 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAEKT-----GLEYIEI   38 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHHHh-----CCceEeh
Confidence            35789999999999999999999876     5555543

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.72  E-value=0.00036  Score=61.23  Aligned_cols=39  Identities=33%  Similarity=0.582  Sum_probs=28.5

Q ss_pred             HHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           64 TIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        64 ~l~~~~~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      .+.+.+.++-.+  .++|+|+||+|||+++..++..+...+
T Consensus        70 eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g  110 (372)
T cd01121          70 ELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG  110 (372)
T ss_pred             HHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcC
Confidence            445555544333  289999999999999999998875443

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.

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=97.71  E-value=0.00099  Score=55.33  Aligned_cols=186  Identities=18%  Similarity=0.205  Sum_probs=101.7

Q ss_pred             CccccccChHHHHHHHHHHh-cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHH--
Q 021660           51 SLADVAAHRDIVDTIDRLTS-ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD--  127 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~-~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  127 (309)
                      ...++++-+...+.+..... ........++|.+|.|||+.++.+++..    ....+.+.+..... ...+......  
T Consensus        70 ~~~~~l~tkt~r~~~~~~~~A~k~g~l~~vyg~~g~gKt~a~~~y~~s~----p~~~l~~~~p~~~a-~~~i~~i~~~~~  144 (297)
T COG2842          70 LAPDFLETKTVRRIFFRTRPASKTGSLVVVYGYAGLGKTQAAKNYAPSN----PNALLIEADPSYTA-LVLILIICAAAF  144 (297)
T ss_pred             ccccccccchhHhHhhhhhhhhhcCceEEEeccccchhHHHHHhhcccC----ccceeecCChhhHH-HHHHHHHHHHHh
Confidence            56678887665443332221 1122348999999999999999998874    23333333332210 0000000000  


Q ss_pred             ---------hhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC--------cccchhhhc
Q 021660          128 ---------FASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV--------NKIIPALQS  190 (309)
Q Consensus       128 ---------~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~--------~~l~~~l~~  190 (309)
                               .........  +...+++++||++.++....+.|....+...  .-++++.++.        ......+.+
T Consensus       145 ~~~~~~~~d~~~~~~~~l--~~~~~~iivDEA~~L~~~ale~lr~i~d~~G--i~~vLvG~prL~~~l~~~~~~~~rl~s  220 (297)
T COG2842         145 GATDGTINDLTERLMIRL--RDTVRLIIVDEADRLPYRALEELRRIHDKTG--IGVVLVGMPRLFKVLRRPEDELSRLYS  220 (297)
T ss_pred             cccchhHHHHHHHHHHHH--ccCcceeeeehhhccChHHHHHHHHHHHhhC--ceEEEecChHHHhccccchHHHHHHHH
Confidence                     000000001  2267899999999999999999888888664  3344444322        111223344


Q ss_pred             ceeE---EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Q 021660          191 RCTR---FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       191 r~~~---i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      |..+   +...-++..+...+....+.    ....+.+..+.....|++|.+-..+..+...
T Consensus       221 rv~v~~~~~~~~~d~d~~~~~~~~~l~----~~~~~~v~~~~~~~~g~~~~L~~~l~~~~~~  278 (297)
T COG2842         221 RVRVGKLLGEKFPDADELAEIAALVLP----TEDELVLMQVIKETEGNIRRLDKILAGAVGT  278 (297)
T ss_pred             HhhhHhhhhhhhhhhHHHHHHHHhhCc----cchHHHHHHHHHhcchhHhHHHHHHhhhhhh
Confidence            4311   11122333444444433221    2567778888888899999988888665543

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=97.71  E-value=0.00039  Score=55.51  Aligned_cols=52  Identities=13%  Similarity=0.225  Sum_probs=34.7

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCcccchhhhcce
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      ++.++++||. ..+.......+.+++.+... ...+|+++.+.......+..+.
T Consensus       129 ~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~~~~~d~v  182 (194)
T cd03213         129 NPSLLFLDEPTSGLDSSSALQVMSLLRRLADTGRTIICSIHQPSSEIFELFDKL  182 (194)
T ss_pred             CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEecCchHHHHHhcCEE
Confidence            6889999995 45677778888888887643 4566777776543233333443

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.

>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=97.69  E-value=0.0003  Score=59.28  Aligned_cols=52  Identities=25%  Similarity=0.390  Sum_probs=37.6

Q ss_pred             CCccccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      .+++++.-.....+.+.+++...  ...+++|+|++|+||||++.+++..+...
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            36777776665555555555443  22559999999999999999999988554

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 ....

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.69  E-value=0.00032  Score=56.14  Aligned_cols=24  Identities=17%  Similarity=0.355  Sum_probs=20.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+||.|+||||+++.++...
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHH
Confidence            348999999999999999998654

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

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.69  E-value=0.00038  Score=56.40  Aligned_cols=22  Identities=27%  Similarity=0.477  Sum_probs=19.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      ..++|+||.|+|||++++.++.
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            4499999999999999999984

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

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=97.68  E-value=0.00053  Score=54.36  Aligned_cols=38  Identities=29%  Similarity=0.435  Sum_probs=23.9

Q ss_pred             cEEEEEeCCCCCCH-HHHHHHHHHHHHhcCCceEEEEec
Q 021660          142 VKLVLLDEADAMTK-DAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       142 ~~lliiDe~~~l~~-~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      ..++||||+|.+.. .....+..++...+....+++.+.
T Consensus       130 ~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~sa  168 (201)
T smart00487      130 VDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSA  168 (201)
T ss_pred             CCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEEEEec
Confidence            34899999999886 445555555555544444444443

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.68  E-value=0.00034  Score=58.52  Aligned_cols=35  Identities=14%  Similarity=0.157  Sum_probs=27.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      ++++|+||+|||+++..++......+....|+.+.
T Consensus        39 ~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~E   73 (259)
T TIGR03878        39 INITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVE   73 (259)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec
Confidence            89999999999999999887754455556666554

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

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.67  E-value=0.00038  Score=62.74  Aligned_cols=44  Identities=32%  Similarity=0.521  Sum_probs=30.4

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHccCcccccE
Q 021660           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMI  107 (309)
Q Consensus        64 ~l~~~~~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~  107 (309)
                      .+.+.+.++-.+.  ++|+|+||+|||+++..++......+....|
T Consensus        68 ~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlY  113 (446)
T PRK11823         68 ELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLY  113 (446)
T ss_pred             HHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEE
Confidence            4555555543322  8999999999999999999887533333333

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=97.67  E-value=0.00068  Score=53.05  Aligned_cols=42  Identities=14%  Similarity=0.332  Sum_probs=30.8

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCC-ceEEEEecCCc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKN-TRFALICNQVN  182 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~-~~~i~~~~~~~  182 (309)
                      ++.++++||. ..+.......+.+++...... ..+|+++++..
T Consensus       113 ~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~  156 (173)
T cd03230         113 DPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILE  156 (173)
T ss_pred             CCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHH
Confidence            7889999995 456677788888888876433 55666666554

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.

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

Probab=97.67  E-value=0.00046  Score=56.00  Aligned_cols=23  Identities=43%  Similarity=0.814  Sum_probs=20.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||+||||||+.+.+-+.+
T Consensus        29 f~vliGpSGsGKTTtLkMINrLi   51 (309)
T COG1125          29 FLVLIGPSGSGKTTTLKMINRLI   51 (309)
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            38999999999999999886655

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=97.66  E-value=0.00024  Score=69.38  Aligned_cols=115  Identities=14%  Similarity=0.150  Sum_probs=63.1

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH-------HHHHHHhhh
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV-------RQQIQDFAS  130 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~  130 (309)
                      .++-...+..++.+.  ..++|.|++||||||++..+...+...++.+  +-+..+. .....+       ...+..+..
T Consensus       348 s~eQr~Av~~il~s~--~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V--~~~ApTG-kAA~~L~e~tGi~a~TI~sll~  422 (988)
T PRK13889        348 SGEQADALAHVTDGR--DLGVVVGYAGTGKSAMLGVAREAWEAAGYEV--RGAALSG-IAAENLEGGSGIASRTIASLEH  422 (988)
T ss_pred             CHHHHHHHHHHhcCC--CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeE--EEecCcH-HHHHHHhhccCcchhhHHHHHh
Confidence            334444555555433  2488999999999999998877765444332  2222211 111111       111222211


Q ss_pred             ccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          131 TQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       131 ~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      .............+|||||+..+.......|+.....  ..+.+|+++.
T Consensus       423 ~~~~~~~~l~~~~vlIVDEASMv~~~~m~~LL~~a~~--~garvVLVGD  469 (988)
T PRK13889        423 GWGQGRDLLTSRDVLVIDEAGMVGTRQLERVLSHAAD--AGAKVVLVGD  469 (988)
T ss_pred             hhcccccccccCcEEEEECcccCCHHHHHHHHHhhhh--CCCEEEEECC
Confidence            1000000111467999999999988777766665543  3677888874

>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=97.65  E-value=0.00047  Score=53.91  Aligned_cols=34  Identities=29%  Similarity=0.355  Sum_probs=26.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      ++++|+||+|||+++..++..+...+..+.++..
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~   36 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAA   36 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Confidence            6899999999999999999988655444444433

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.

>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=97.65  E-value=0.00097  Score=52.18  Aligned_cols=42  Identities=21%  Similarity=0.259  Sum_probs=30.6

Q ss_pred             cEEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCceEEEEecCCcc
Q 021660          142 VKLVLLDEA-DAMTKDAQFALRRVIEKYT-KNTRFALICNQVNK  183 (309)
Q Consensus       142 ~~lliiDe~-~~l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~~  183 (309)
                      +.++++||. ..+.......+.+.+.+.. ....+|+++.+...
T Consensus       108 p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~  151 (176)
T cd03238         108 GTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDV  151 (176)
T ss_pred             CCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHH
Confidence            899999995 4567777888888887654 34567777776543

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.64  E-value=0.00071  Score=53.39  Aligned_cols=22  Identities=23%  Similarity=0.610  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++++|+||+||||+++.+++.+
T Consensus         2 i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6899999999999999999987

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.

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

Probab=97.63  E-value=0.00014  Score=58.89  Aligned_cols=24  Identities=25%  Similarity=0.451  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .+-|.||+|||||||.+.++....
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~~   54 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLEK   54 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            489999999999999999998764

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.63  E-value=0.0014  Score=50.88  Aligned_cols=103  Identities=22%  Similarity=0.231  Sum_probs=58.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCccccc------EEEEecCCCcchHHHHHHHHHhhhccccccC-----------
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNM------ILELNASDDRGIDVVRQQIQDFASTQSFSFG-----------  137 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------  137 (309)
                      ..+.|.||.|+|||||++.++..+....-.+.      +..+..........+.+.+...   ....++           
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~rv~lar  104 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYP---WDDVLSGGEQQRLAFAR  104 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEECCCCccccccHHHHhhcc---CCCCCCHHHHHHHHHHH
Confidence            34999999999999999999987643211111      1111111100011222222110   000011           


Q ss_pred             -CCCccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          138 -VKASVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       138 -~~~~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                       -..++.++++||.. .+.......+.+++.+.  ...+|+++++..
T Consensus       105 al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~  149 (166)
T cd03223         105 LLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPS  149 (166)
T ss_pred             HHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChh
Confidence             11378899999964 56777788888888876  355677776653

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

>PRK14528 adenylate kinase; Provisional

Probab=97.62  E-value=0.0015  Score=51.69  Aligned_cols=24  Identities=29%  Similarity=0.735  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++++.||||+||||+++.+++.+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999999886

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=97.62  E-value=0.0001  Score=60.64  Aligned_cols=21  Identities=29%  Similarity=0.659  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|+||+|||++++.++..
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

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=97.62  E-value=0.0039  Score=53.95  Aligned_cols=38  Identities=21%  Similarity=0.329  Sum_probs=29.4

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        61 ~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ....+..++...  .+++++|++|+||||++++++..+..
T Consensus       149 ~~~~L~~~v~~~--~nili~G~tgSGKTTll~aL~~~ip~  186 (332)
T PRK13900        149 IKEFLEHAVISK--KNIIISGGTSTGKTTFTNAALREIPA  186 (332)
T ss_pred             HHHHHHHHHHcC--CcEEEECCCCCCHHHHHHHHHhhCCC
Confidence            344555555554  56999999999999999999998843

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=97.62  E-value=0.0061  Score=52.92  Aligned_cols=102  Identities=12%  Similarity=0.037  Sum_probs=61.6

Q ss_pred             cEEEEEeCCCCCCH--------------H---HHHHHHHHHHHhcCCceEEEEec--CCc---------------ccch-
Q 021660          142 VKLVLLDEADAMTK--------------D---AQFALRRVIEKYTKNTRFALICN--QVN---------------KIIP-  186 (309)
Q Consensus       142 ~~lliiDe~~~l~~--------------~---~~~~l~~~l~~~~~~~~~i~~~~--~~~---------------~l~~-  186 (309)
                      +.++.||++..+..              .   ..+.+..++..-.....+|++.+  ...               .+.+ 
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            55899999987753              1   13445555655444445555544  111               0111 


Q ss_pred             --hhhcceeEEEecCCChHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHhcCCHHHHHHHH
Q 021660          187 --ALQSRCTRFRFAPLEPVHVTERLKHVIEAEGL---DVTEGGLAALVRLCNGDMRKALNIL  243 (309)
Q Consensus       187 --~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~l~~i~~~~~g~~r~~~~~l  243 (309)
                        ..+..|..+++++++.+|...++.-++.+.=+   -.+++....+.=.++|||+....++
T Consensus       396 gfe~lqpf~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~Ee~~kql~fLSngNP~l~~~lc  457 (461)
T KOG3928|consen  396 GFEALQPFVPIEVENYTLDEFEALIDYYLQSNWLLKKVPGEENIKQLYFLSNGNPSLMERLC  457 (461)
T ss_pred             chhhccCcCccccCCCCHHHHHHHHHHHHHhhHHHhhcCcccchhhhhhhcCCCHHHHHHHH
Confidence              22345677899999999999888776654311   1236667777778899995544443

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.61  E-value=0.0008  Score=59.32  Aligned_cols=35  Identities=26%  Similarity=0.441  Sum_probs=25.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH-ccCcccccEEEEe
Q 021660           77 LLLYGPPGTGKTSTILAVARKL-YGAQYHNMILELN  111 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~-~~~~~~~~~~~~~  111 (309)
                      ++|.||+|+||||++..++... ...+..+.++..+
T Consensus       226 i~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~D  261 (432)
T PRK12724        226 VFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTD  261 (432)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEeccc
Confidence            8899999999999999999865 2334444444433

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.61  E-value=0.00054  Score=53.29  Aligned_cols=23  Identities=22%  Similarity=0.267  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|+||+|||+++..++...
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            48999999999999999999886

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.61  E-value=0.0012  Score=57.69  Aligned_cols=26  Identities=27%  Similarity=0.543  Sum_probs=23.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ..++|+||+|+||||+++.+...+..
T Consensus       123 g~ili~G~tGSGKTT~l~al~~~i~~  148 (343)
T TIGR01420       123 GLILVTGPTGSGKSTTLASMIDYINK  148 (343)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCc
Confidence            56999999999999999999988753

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.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.60  E-value=0.00013  Score=59.77  Aligned_cols=37  Identities=38%  Similarity=0.595  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .-...+..++....  ..+++||||||||+++..++..+
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            33445555555432  38999999999999888888887

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

Probab=97.60  E-value=0.00027  Score=56.93  Aligned_cols=51  Identities=20%  Similarity=0.335  Sum_probs=34.6

Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhcC--CceEEEEecCCcccchhhhcce
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTK--NTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      ++++||+||.- .|....+..+++++.+...  +..+|+++.+... ...+-+|+
T Consensus       159 ~PklLIlDEptSaLD~siQa~IlnlL~~l~~~~~lt~l~IsHdl~~-v~~~cdRi  212 (252)
T COG1124         159 EPKLLILDEPTSALDVSVQAQILNLLLELKKERGLTYLFISHDLAL-VEHMCDRI  212 (252)
T ss_pred             CCCEEEecCchhhhcHHHHHHHHHHHHHHHHhcCceEEEEeCcHHH-HHHHhhhe
Confidence            78899999964 4455668888888886543  4467788876543 34455554

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.60  E-value=0.00028  Score=55.70  Aligned_cols=42  Identities=19%  Similarity=0.397  Sum_probs=30.5

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~  182 (309)
                      ++.++++||. ..+.......+.+++..... ...+|+++++..
T Consensus       122 ~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  165 (182)
T cd03215         122 DPRVLILDEPTRGVDVGAKAEIYRLIRELADAGKAVLLISSELD  165 (182)
T ss_pred             CCCEEEECCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            7889999995 56677778888888887643 456666666543

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.

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.60  E-value=0.00018  Score=62.34  Aligned_cols=34  Identities=21%  Similarity=0.269  Sum_probs=27.2

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccc
Q 021660           72 NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (309)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~  105 (309)
                      ++....+|+||+|+|||++++.+++.+..+....
T Consensus       131 GkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv  164 (380)
T PRK12608        131 GKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEV  164 (380)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCc
Confidence            4455699999999999999999999886543333

>PRK06762 hypothetical protein; Provisional

Probab=97.59  E-value=0.0026  Score=49.31  Aligned_cols=23  Identities=26%  Similarity=0.547  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|+|+||+||||+++.+++.+
T Consensus         4 li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999987

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=97.57  E-value=0.0012  Score=60.14  Aligned_cols=52  Identities=25%  Similarity=0.461  Sum_probs=39.5

Q ss_pred             CCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           49 PQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      +..++++--.++.++.+..++.... +.++++||+|+||||++..+.+.+...
T Consensus       218 ~~~l~~Lg~~~~~~~~l~~~~~~~~-GlilitGptGSGKTTtL~a~L~~l~~~  269 (486)
T TIGR02533       218 RLDLETLGMSPELLSRFERLIRRPH-GIILVTGPTGSGKTTTLYAALSRLNTP  269 (486)
T ss_pred             CCCHHHcCCCHHHHHHHHHHHhcCC-CEEEEEcCCCCCHHHHHHHHHhccCCC
Confidence            4456666557777778887776543 348999999999999999988887543

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=97.57  E-value=0.00065  Score=62.36  Aligned_cols=41  Identities=20%  Similarity=0.287  Sum_probs=32.0

Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      +|++++|||+- .+.++....+++.+++.-+.+.+|-++...
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            78999999985 456777889999999865677777776543

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=97.56  E-value=0.00072  Score=57.66  Aligned_cols=49  Identities=20%  Similarity=0.262  Sum_probs=36.2

Q ss_pred             CCCcccccc----ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           49 PQSLADVAA----HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        49 p~~~~~~ig----~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +.++++++.    .+.....|..++...  .+++++|++|+||||++++++..+.
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            335566652    344556677777654  5699999999999999999998874

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.56  E-value=0.00085  Score=55.37  Aligned_cols=47  Identities=21%  Similarity=0.220  Sum_probs=30.9

Q ss_pred             HHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           65 IDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        65 l~~~~~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      |.+.+.++-++  .++++||||+|||+++..++......+....++.+.
T Consensus        10 LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~e   58 (237)
T TIGR03877        10 MDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALE   58 (237)
T ss_pred             HHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEee
Confidence            44445544332  399999999999999998877643444444454443

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.

>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=97.56  E-value=0.0039  Score=47.08  Aligned_cols=22  Identities=36%  Similarity=0.712  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|++|+||||+++.++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999999997

>TIGR00767 rho transcription termination factor Rho

Probab=97.56  E-value=0.00032  Score=61.31  Aligned_cols=29  Identities=24%  Similarity=0.371  Sum_probs=24.5

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      +...++|.||+|+|||++++.+++.+...
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n  195 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITRN  195 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhccc
Confidence            33459999999999999999999987544

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

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.56  E-value=0.00097  Score=58.24  Aligned_cols=24  Identities=38%  Similarity=0.567  Sum_probs=21.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.||+|+||||++..++..+
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            349999999999999999999875

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=97.55  E-value=0.0012  Score=51.94  Aligned_cols=43  Identities=16%  Similarity=0.348  Sum_probs=31.6

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      ++.++++||. ..+.......+.+++.+...  ...+|+++++...
T Consensus       118 ~p~llilDEP~~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~~  163 (178)
T cd03229         118 DPDVLLLDEPTSALDPITRREVRALLKSLQAQLGITVVLVTHDLDE  163 (178)
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            6889999995 56677888888888887654  3566777765543

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.

>KOG1808 consensus AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.53  E-value=0.00088  Score=68.45  Aligned_cols=150  Identities=23%  Similarity=0.378  Sum_probs=94.1

Q ss_pred             cccChHHHH---HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhc
Q 021660           55 VAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (309)
Q Consensus        55 ~ig~~~~~~---~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (309)
                      +|-.+.+.+   .+..+...++.| ++|.||.|+|||.++..++++.     +-.+++++.......   .+.+.+....
T Consensus       419 ~i~T~~vq~~la~~~~a~~~~~~p-illqG~tssGKtsii~~la~~~-----g~~~vrinnhehtd~---qeyig~y~~~  489 (1856)
T KOG1808|consen  419 YIITPRVQKNLADLARAISSGKFP-ILLQGPTSSGKTSIIKELARAT-----GKNIVRINNHEHTDL---QEYIGTYVAD  489 (1856)
T ss_pred             eeccHHHHHHHHHHHHHHhcCCCC-eEEecCcCcCchhHHHHHHHHh-----ccCceehhccccchH---HHHHHhhhcC
Confidence            455444444   444444455444 9999999999999999999998     555666655443322   2223311111


Q ss_pred             ccc--cc------CCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----cCCce-------EE-EEe-cCC------cc
Q 021660          132 QSF--SF------GVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----TKNTR-------FA-LIC-NQV------NK  183 (309)
Q Consensus       132 ~~~--~~------~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----~~~~~-------~i-~~~-~~~------~~  183 (309)
                      ...  .+      ....++..+++|+++....+..+.|.+++++.     +...+       +. +.+ |..      ..
T Consensus       490 ~~g~l~freg~LV~Alr~G~~~vlD~lnla~~dvL~aLnrllddnRel~ipe~~rlv~~h~~f~lfatqn~~~~y~grk~  569 (1856)
T KOG1808|consen  490 DNGDLVFREGVLVQALRNGDWIVLDELNLAPHDVLEALNRLLDDNRELFIPETQRLVKAHPEFMLFATQNPPGTYGGRKI  569 (1856)
T ss_pred             CCCCeeeehhHHHHHHHhCCEEEeccccccchHHHHHHHhhhhhhccccccccceeeccCcchhhhhhccCccccchhhh
Confidence            000  00      11225778999999999999999999999862     21222       11 122 222      23


Q ss_pred             cchhhhcceeEEEecCCChHHHHHHHHHHH
Q 021660          184 IIPALQSRCTRFRFAPLEPVHVTERLKHVI  213 (309)
Q Consensus       184 l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~  213 (309)
                      +..++.+|+..++|...+.+++..++.+++
T Consensus       570 lsRa~~~rf~e~~f~~~~e~e~~~i~~~~~  599 (1856)
T KOG1808|consen  570 LSRALRNRFIELHFDDIGEEELEEILEHRC  599 (1856)
T ss_pred             hhhcccccchhhhhhhcCchhhhhhhcccc
Confidence            446777888889999999988888887754

>cd01394 radB RadB

Probab=97.53  E-value=0.0013  Score=53.60  Aligned_cols=44  Identities=30%  Similarity=0.444  Sum_probs=30.7

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHccCcccccEE
Q 021660           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (309)
Q Consensus        65 l~~~~~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (309)
                      |...+.++-++.  ++++|+||+|||+++..++......+....++
T Consensus         8 LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi   53 (218)
T cd01394           8 LDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYI   53 (218)
T ss_pred             HHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            444444443222  89999999999999999998875554444444

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

>PRK06547 hypothetical protein; Provisional

Probab=97.52  E-value=0.00021  Score=55.75  Aligned_cols=34  Identities=26%  Similarity=0.324  Sum_probs=26.9

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        65 l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +...+.......++|.|++|+||||+++.+++.+
T Consensus         6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          6 IAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3344455555558999999999999999999986

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.52  E-value=0.0029  Score=57.41  Aligned_cols=26  Identities=38%  Similarity=0.639  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ..+.|+||+|+||||++..++..+..
T Consensus       351 ~vIaLVGPtGvGKTTtaakLAa~la~  376 (559)
T PRK12727        351 GVIALVGPTGAGKTTTIAKLAQRFAA  376 (559)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            34899999999999999999887643

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.51  E-value=0.02  Score=52.26  Aligned_cols=119  Identities=18%  Similarity=0.266  Sum_probs=85.0

Q ss_pred             ccEEEEEeCCCCCCH--HHHHHHHHHHHHhcCCc-eEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcC
Q 021660          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNT-RFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEG  217 (309)
Q Consensus       141 ~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~~~-~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~  217 (309)
                      ++.++++.|+|.+..  .....|.++........ .+|+++ ....++..|.+-+.+++++-|+.+|+..+++..+...+
T Consensus        81 ~~~~~vl~d~h~~~~~~~~~r~l~~l~~~~~~~~~~~i~~~-~~~~~p~el~~~~~~~~~~lP~~~ei~~~l~~~~~~~~  159 (489)
T CHL00195         81 TPALFLLKDFNRFLNDISISRKLRNLSRILKTQPKTIIIIA-SELNIPKELKDLITVLEFPLPTESEIKKELTRLIKSLN  159 (489)
T ss_pred             CCcEEEEecchhhhcchHHHHHHHHHHHHHHhCCCEEEEEc-CCCCCCHHHHhceeEEeecCcCHHHHHHHHHHHHHhcC
Confidence            367999999998843  33444555444333233 344444 45567888888889999999999999999999888888


Q ss_pred             CCCCHHHHHHHHHHhcCC-HHHHHHHHHHHHhhcCCcCHHHHHh
Q 021660          218 LDVTEGGLAALVRLCNGD-MRKALNILQSTHMASQQITEEAVYL  260 (309)
Q Consensus       218 ~~~~~~~l~~i~~~~~g~-~r~~~~~l~~~~~~~~~i~~~~v~~  260 (309)
                      ..++++.++.+++.+.|- ...+.+.+.......+.++.+++..
T Consensus       160 ~~~~~~~~~~l~~~~~gls~~~~~~~~~~~~~~~~~~~~~~~~~  203 (489)
T CHL00195        160 IKIDSELLENLTRACQGLSLERIRRVLSKIIATYKTIDENSIPL  203 (489)
T ss_pred             CCCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHHcCCCChhhHHH
Confidence            899999999999998875 5555566665544446677765543

>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=97.50  E-value=0.0026  Score=50.48  Aligned_cols=144  Identities=18%  Similarity=0.182  Sum_probs=67.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCC---
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA---  152 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~---  152 (309)
                      .++|+||+|+|||.++-.+|++.     +..++..+...-..  .+.  +.. .......+..  -++ +++||-..   
T Consensus         3 v~~i~GpT~tGKt~~ai~lA~~~-----g~pvI~~Driq~y~--~l~--v~S-grp~~~el~~--~~R-iyL~~r~l~~G   69 (233)
T PF01745_consen    3 VYLIVGPTGTGKTALAIALAQKT-----GAPVISLDRIQCYP--ELS--VGS-GRPTPSELKG--TRR-IYLDDRPLSDG   69 (233)
T ss_dssp             EEEEE-STTSSHHHHHHHHHHHH-------EEEEE-SGGG-G--GGT--TTT-T---SGGGTT---EE-EES----GGG-
T ss_pred             EEEEECCCCCChhHHHHHHHHHh-----CCCEEEecceeccc--ccc--ccc-CCCCHHHHcc--cce-eeeccccccCC
Confidence            47999999999999999999998     55555554332100  000  000 0000000111  244 77876322   


Q ss_pred             -CC-HHHHHHHHHHHHHhcCCceEEEEecCCcccchhhh-----cce--eEEEecCCChHHHHHHHHHHHHHcC--CCCC
Q 021660          153 -MT-KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQ-----SRC--TRFRFAPLEPVHVTERLKHVIEAEG--LDVT  221 (309)
Q Consensus       153 -l~-~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~-----~r~--~~i~~~~~~~~~~~~~l~~~~~~~~--~~~~  221 (309)
                       ++ .+..+.|...+.+.....-+|+-+....-+..-..     ..+  .+..++-++.+......+++.++--  -.-.
T Consensus        70 ~i~a~ea~~~Li~~v~~~~~~~~~IlEGGSISLl~~m~~~~~w~~~f~w~i~rl~l~d~~~f~~ra~~Rv~~ML~p~~~~  149 (233)
T PF01745_consen   70 IINAEEAHERLISEVNSYSAHGGLILEGGSISLLNCMAQDPYWSLDFRWHIRRLRLPDEEVFMARAKRRVRQMLRPDSSG  149 (233)
T ss_dssp             S--HHHHHHHHHHHHHTTTTSSEEEEEE--HHHHHHHHH-TTTSSSSEEEEEE-----HHHHHHHHHHHHHHHHS--SSS
T ss_pred             CcCHHHHHHHHHHHHHhccccCceEEeCchHHHHHHHHhcccccCCCeEEEEEEECCChHHHHHHHHHHHHHhcCCCCCC
Confidence             22 34466788888887777777776654433222111     122  3444555555555555555554421  1234


Q ss_pred             HHHHHHHHHHh
Q 021660          222 EGGLAALVRLC  232 (309)
Q Consensus       222 ~~~l~~i~~~~  232 (309)
                      +..++++++..
T Consensus       150 ~Sll~EL~~lW  160 (233)
T PF01745_consen  150 PSLLEELVALW  160 (233)
T ss_dssp             --HHHHHHHHH
T ss_pred             CcHHHHHHHHH
Confidence            57777787776

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

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

Probab=97.49  E-value=0.001  Score=53.67  Aligned_cols=41  Identities=12%  Similarity=0.294  Sum_probs=30.7

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCC
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQV  181 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~  181 (309)
                      +|.+|+-||- ..+..+....++.++.+...  ...+|++|.+.
T Consensus       160 ~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~  203 (226)
T COG1136         160 NPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDP  203 (226)
T ss_pred             CCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCH
Confidence            7889999995 56777778888888887743  45677777644

>PLN02840 tRNA dimethylallyltransferase

Probab=97.49  E-value=0.0033  Score=55.59  Aligned_cols=24  Identities=33%  Similarity=0.697  Sum_probs=22.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .++|.||+|+|||+++..+++.+.
T Consensus        23 vi~I~GptgsGKTtla~~La~~~~   46 (421)
T PLN02840         23 VIVISGPTGAGKSRLALELAKRLN   46 (421)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCC
Confidence            499999999999999999999983

>PRK14531 adenylate kinase; Provisional

Probab=97.49  E-value=0.0018  Score=51.21  Aligned_cols=23  Identities=35%  Similarity=0.676  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++++||||+||||+++.+++.+
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999997

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=97.48  E-value=0.0016  Score=55.88  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|+||+||||+++.+++.+
T Consensus         4 liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          4 IILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHC
Confidence            38899999999999999999986

>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=97.48  E-value=0.00012  Score=58.40  Aligned_cols=60  Identities=13%  Similarity=0.156  Sum_probs=34.0

Q ss_pred             ccEEEEEeCCCCCCHHHH------HHHHHHHHHhc-CCceEEEEecCCcccchhhhcce-eEEEecCC
Q 021660          141 SVKLVLLDEADAMTKDAQ------FALRRVIEKYT-KNTRFALICNQVNKIIPALQSRC-TRFRFAPL  200 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~------~~l~~~l~~~~-~~~~~i~~~~~~~~l~~~l~~r~-~~i~~~~~  200 (309)
                      ...++||||++...+...      ....+.+...- ...-++++|-.+..+++.++..+ ..+++..+
T Consensus        79 ~~~liviDEa~~~~~~r~~~~~~~~~~~~~l~~hRh~g~diiliTQ~~~~id~~ir~lve~~~~~~k~  146 (193)
T PF05707_consen   79 KGSLIVIDEAQNFFPSRSWKGKKVPEIIEFLAQHRHYGWDIILITQSPSQIDKFIRDLVEYHYHCRKL  146 (193)
T ss_dssp             TT-EEEETTGGGTSB---T-T----HHHHGGGGCCCTT-EEEEEES-GGGB-HHHHCCEEEEEEEEE-
T ss_pred             CCcEEEEECChhhcCCCccccccchHHHHHHHHhCcCCcEEEEEeCCHHHHhHHHHHHHheEEEEEee
Confidence            468999999998764322      22334444332 34568888888888888887765 44544433

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.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.48  E-value=0.00054  Score=54.14  Aligned_cols=45  Identities=22%  Similarity=0.324  Sum_probs=31.5

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ++.-+.|..++++.+.--+..+  ...-|.||+||||||+++.+-+-
T Consensus        12 ~l~~yYg~~~aL~~i~l~i~~~--~VTAlIGPSGcGKST~LR~lNRm   56 (253)
T COG1117          12 DLNLYYGDKHALKDINLDIPKN--KVTALIGPSGCGKSTLLRCLNRM   56 (253)
T ss_pred             ceeEEECchhhhccCceeccCC--ceEEEECCCCcCHHHHHHHHHhh
Confidence            4455667666666655444444  33789999999999999988544

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=97.48  E-value=0.0024  Score=56.00  Aligned_cols=26  Identities=19%  Similarity=0.258  Sum_probs=23.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ..++++||+|+||||++++++..+..
T Consensus       150 GlilI~G~TGSGKTT~l~al~~~i~~  175 (372)
T TIGR02525       150 GLGLICGETGSGKSTLAASIYQHCGE  175 (372)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            45999999999999999999988743

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).

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.48  E-value=0.0013  Score=52.46  Aligned_cols=42  Identities=17%  Similarity=0.340  Sum_probs=30.8

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~  182 (309)
                      ++.++++||. ..+.......+.+++.+... ...+|+++++..
T Consensus       126 ~p~vlllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiiivtH~~~  169 (192)
T cd03232         126 KPSILFLDEPTSGLDSQAAYNIVRFLKKLADSGQAILCTIHQPS  169 (192)
T ss_pred             CCcEEEEeCCCcCCCHHHHHHHHHHHHHHHHcCCEEEEEEcCCh
Confidence            7889999995 45667778888888887543 456777777654

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.

>PRK04328 hypothetical protein; Provisional

Probab=97.47  E-value=0.0012  Score=54.86  Aligned_cols=46  Identities=22%  Similarity=0.196  Sum_probs=30.1

Q ss_pred             HHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           65 IDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        65 l~~~~~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      |.+.+.++-+  ..++++|+||+|||+++..++......+....++.+
T Consensus        12 LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~   59 (249)
T PRK04328         12 MDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVAL   59 (249)
T ss_pred             HHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEe
Confidence            3444444422  239999999999999999887765444444444443

>TIGR00416 sms DNA repair protein RadA

Probab=97.47  E-value=0.0017  Score=58.70  Aligned_cols=42  Identities=33%  Similarity=0.553  Sum_probs=30.3

Q ss_pred             HHHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           62 VDTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        62 ~~~l~~~~~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      +..+.+.+.++-.+.  +++.|+||+|||+++..++..+...+.
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~  123 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQM  123 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCC
Confidence            345556565543333  899999999999999999888754433

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)).

>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=97.47  E-value=0.0013  Score=50.29  Aligned_cols=22  Identities=36%  Similarity=0.505  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|+|++|+||||+++.++..+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999998

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.47  E-value=0.0011  Score=57.60  Aligned_cols=37  Identities=22%  Similarity=0.347  Sum_probs=28.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      .++|.||+|+||||++..++..+...+..+.++..+.
T Consensus       208 ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDt  244 (407)
T PRK12726        208 IISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDT  244 (407)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCc
Confidence            3899999999999999999988755555555544443

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=97.46  E-value=0.00096  Score=57.22  Aligned_cols=47  Identities=21%  Similarity=0.308  Sum_probs=35.0

Q ss_pred             Ccccccc----ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           51 SLADVAA----HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        51 ~~~~~ig----~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ++++++.    .++....|..++..+  .+++++|++|+||||++++++..+.
T Consensus       119 tl~~lv~~g~~~~~~~~~L~~~v~~~--~nilI~G~tGSGKTTll~aL~~~i~  169 (323)
T PRK13833        119 PLDDYVTSKIMTEAQASVIRSAIDSR--LNIVISGGTGSGKTTLANAVIAEIV  169 (323)
T ss_pred             CHHHHHHcCCCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHHHh
Confidence            4455553    234456677777765  4699999999999999999999873

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=97.46  E-value=0.00065  Score=57.83  Aligned_cols=51  Identities=16%  Similarity=0.309  Sum_probs=34.7

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCCc--eEEEEecCCcccchhhhcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNT--RFALICNQVNKIIPALQSR  191 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~~--~~i~~~~~~~~l~~~l~~r  191 (309)
                      .++.++|+||. ..|.+.....+.+++.......  .++++|.....+ ..+.+|
T Consensus       153 ~~P~lliLDEPt~GLDp~~~~~~~~~l~~l~~~g~~tvlissH~l~e~-~~~~d~  206 (293)
T COG1131         153 HDPELLILDEPTSGLDPESRREIWELLRELAKEGGVTILLSTHILEEA-EELCDR  206 (293)
T ss_pred             cCCCEEEECCCCcCCCHHHHHHHHHHHHHHHhCCCcEEEEeCCcHHHH-HHhCCE
Confidence            37889999995 5677888899999999877654  455555444333 333444

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=97.46  E-value=0.00092  Score=63.42  Aligned_cols=43  Identities=19%  Similarity=0.352  Sum_probs=33.0

Q ss_pred             CccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          140 ASVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                      .+|+++++||+- .+..+....+.+.|........+|+++++..
T Consensus       626 ~~P~ILlLDEaTSaLD~~sE~~I~~~L~~~~~~~T~I~IaHRl~  669 (709)
T COG2274         626 SKPKILLLDEATSALDPETEAIILQNLLQILQGRTVIIIAHRLS  669 (709)
T ss_pred             cCCCEEEEeCcccccCHhHHHHHHHHHHHHhcCCeEEEEEccch
Confidence            378999999975 4566777788888888776777788887554

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.46  E-value=0.00018  Score=56.25  Aligned_cols=25  Identities=32%  Similarity=0.505  Sum_probs=22.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +..++|+|+||+|||++++.+++.+
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            3459999999999999999999998

>PRK06696 uridine kinase; Validated

Probab=97.45  E-value=0.00026  Score=57.83  Aligned_cols=45  Identities=13%  Similarity=0.203  Sum_probs=32.7

Q ss_pred             ChHHHHHHHHHHhc---CCCCeEEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           58 HRDIVDTIDRLTSE---NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        58 ~~~~~~~l~~~~~~---~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      +...++.|...+..   ..+..+.|.|++|+||||+++.++..+...+
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g   50 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKKRG   50 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            34556666666542   2333499999999999999999999985443

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.44  E-value=0.0016  Score=53.51  Aligned_cols=45  Identities=13%  Similarity=0.304  Sum_probs=33.9

Q ss_pred             ccEEEEEeC-CCCCCHHHHHHHHHHHHHhcC-CceEEEEecCCcccc
Q 021660          141 SVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVNKII  185 (309)
Q Consensus       141 ~~~lliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~l~  185 (309)
                      ++.++++|| +..+....+..+..+|.+... ...+++++.+...+.
T Consensus       157 ~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~eg~tIl~vtHDL~~v~  203 (254)
T COG1121         157 NPDLLLLDEPFTGVDVAGQKEIYDLLKELRQEGKTVLMVTHDLGLVM  203 (254)
T ss_pred             CCCEEEecCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCcHHhH
Confidence            788999999 567778888999999997765 445666666665544

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=97.44  E-value=0.00052  Score=67.59  Aligned_cols=114  Identities=12%  Similarity=0.208  Sum_probs=63.7

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHH-------HHHHhhhc
Q 021660           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ-------QIQDFAST  131 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~  131 (309)
                      ++-...+......  ....++.|++|+||||++..+...+...++.  ++-+..+ ......+.+       .+..+...
T Consensus       384 ~eQ~~Av~~i~~~--~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~--V~g~ApT-gkAA~~L~e~~Gi~a~TIas~ll~  458 (1102)
T PRK13826        384 DEQKTAIEHVAGP--ARIAAVVGRAGAGKTTMMKAAREAWEAAGYR--VVGGALA-GKAAEGLEKEAGIQSRTLSSWELR  458 (1102)
T ss_pred             HHHHHHHHHHhcc--CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCe--EEEEcCc-HHHHHHHHHhhCCCeeeHHHHHhh
Confidence            3334444443322  2348999999999999999998877554443  2222222 111111111       11111100


Q ss_pred             cccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          132 QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       132 ~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      ....-..-....+|||||+..+.......|+.....  ....+|+++.
T Consensus       459 ~~~~~~~l~~~~vlVIDEAsMv~~~~m~~Ll~~~~~--~garvVLVGD  504 (1102)
T PRK13826        459 WNQGRDQLDNKTVFVLDEAGMVASRQMALFVEAVTR--AGAKLVLVGD  504 (1102)
T ss_pred             hccCccCCCCCcEEEEECcccCCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            000001111467999999999988888877777653  3677888874

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.44  E-value=0.0017  Score=54.61  Aligned_cols=36  Identities=31%  Similarity=0.371  Sum_probs=28.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      .++|+||+|+||||++..++..+...+..+.++..+
T Consensus        74 vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D  109 (272)
T TIGR00064        74 VILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGD  109 (272)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCC
Confidence            388889999999999999999886665555555444

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.

>PRK10436 hypothetical protein; Provisional

Probab=97.43  E-value=0.0037  Score=56.48  Aligned_cols=50  Identities=22%  Similarity=0.341  Sum_probs=37.8

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      +++++--.+...+.+.+.+... .+.++++||+|+||||++.++.+.+...
T Consensus       196 ~L~~LG~~~~~~~~l~~~~~~~-~GliLvtGpTGSGKTTtL~a~l~~~~~~  245 (462)
T PRK10436        196 DLETLGMTPAQLAQFRQALQQP-QGLILVTGPTGSGKTVTLYSALQTLNTA  245 (462)
T ss_pred             CHHHcCcCHHHHHHHHHHHHhc-CCeEEEECCCCCChHHHHHHHHHhhCCC
Confidence            5566655666777777777554 2459999999999999999988887543

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.43  E-value=0.0004  Score=58.82  Aligned_cols=36  Identities=25%  Similarity=0.415  Sum_probs=27.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccC-c-ccccEEEEe
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGA-Q-YHNMILELN  111 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~-~-~~~~~~~~~  111 (309)
                      .++|.||+|+||||++..++..+... + ..+.++..+
T Consensus       196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D  233 (282)
T TIGR03499       196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTD  233 (282)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECC
Confidence            48999999999999999999887543 2 455555444

>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=97.43  E-value=0.00027  Score=46.02  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.+.|++|+|||++++.+++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999997

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.

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=97.43  E-value=0.002  Score=50.55  Aligned_cols=56  Identities=13%  Similarity=0.244  Sum_probs=36.1

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCcccchhhhcceeEEE
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNKIIPALQSRCTRFR  196 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~l~~~l~~r~~~i~  196 (309)
                      ..++++++||. ..+.-.....+.+.+..... +-.+|+++...+. .+++-+|+.+++
T Consensus       150 h~P~i~vlDEP~sGLDi~~~r~~~dfi~q~k~egr~viFSSH~m~E-vealCDrvivlh  207 (245)
T COG4555         150 HDPSILVLDEPTSGLDIRTRRKFHDFIKQLKNEGRAVIFSSHIMQE-VEALCDRVIVLH  207 (245)
T ss_pred             cCCCeEEEcCCCCCccHHHHHHHHHHHHHhhcCCcEEEEecccHHH-HHHhhheEEEEe
Confidence            47899999995 34444556777788876655 4455666655544 356767765543

>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]

Probab=97.43  E-value=0.0016  Score=54.98  Aligned_cols=159  Identities=21%  Similarity=0.294  Sum_probs=80.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC-----CcchHHHHHHHHHhhhccccccCCCCccEEEEEeC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-----DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDE  149 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe  149 (309)
                      +.++|+||+++|||.++-.+|+++     +..++..++-.     +.+.....  ....           .+-.--+||.
T Consensus         4 ~~i~I~GPTAsGKT~lai~LAk~~-----~~eIIs~DSmQvYr~mdIGTAKps--~~e~-----------~~vpHhliDi   65 (308)
T COG0324           4 KLIVIAGPTASGKTALAIALAKRL-----GGEIISLDSMQVYRGLDIGTAKPS--LEEL-----------AGVPHHLIDI   65 (308)
T ss_pred             cEEEEECCCCcCHHHHHHHHHHHc-----CCcEEecchhhhcCCCcccCCCCC--HHHH-----------cCCCEEEecc
Confidence            348999999999999999999998     44555444321     11111100  0010           0222355665


Q ss_pred             CCCC---C-HHHHHHHHHHHHHhcCCc-eEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCC-----
Q 021660          150 ADAM---T-KDAQFALRRVIEKYTKNT-RFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLD-----  219 (309)
Q Consensus       150 ~~~l---~-~~~~~~l~~~l~~~~~~~-~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~-----  219 (309)
                      ++--   + .+........+++..... ..|+++.. .....++..-   +...|....+.+..++..+...|..     
T Consensus        66 ~~p~e~ysa~~f~~~a~~~i~~i~~rgk~pIlVGGT-glY~~aL~~g---~~~~p~~~~~~r~~~~~~~~~~g~~~L~~~  141 (308)
T COG0324          66 RDPTESYSAAEFQRDALAAIDDILARGKLPILVGGT-GLYLKALLEG---LSLLPEADPEVRRRLEAELAELGNDALHAE  141 (308)
T ss_pred             cCccccccHHHHHHHHHHHHHHHHhCCCCcEEEccH-HHHHHHHHcC---CCCCCCCCHHHHHHHHHHHHhcCHHHHHHH
Confidence            4422   2 233455666677665543 33333321 1222222221   2322333444444445555444431     


Q ss_pred             CCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCH
Q 021660          220 VTEGGLAALVRLCNGDMRKALNILQSTHMASQQITE  255 (309)
Q Consensus       220 ~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~  255 (309)
                      +..-.-...++....|++.++..|+-.-..++.++.
T Consensus       142 L~~~Dp~~a~~i~pnD~~Ri~RALEv~~~tGk~~s~  177 (308)
T COG0324         142 LKKIDPEAAAKIHPNDPQRIIRALEVYYLTGKPISE  177 (308)
T ss_pred             HHhhCHHHHHhcCCCchhHHHHHHHHHHHHCCCHHH
Confidence            111111223445578999999999887776654433

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=97.42  E-value=0.0031  Score=58.74  Aligned_cols=49  Identities=18%  Similarity=0.272  Sum_probs=37.9

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +++++--.+...+.+.+++.... +.++++||+|+||||++..+.+.++.
T Consensus       294 ~l~~lg~~~~~~~~l~~~~~~~~-Glilv~G~tGSGKTTtl~a~l~~~~~  342 (564)
T TIGR02538       294 DIDKLGFEPDQKALFLEAIHKPQ-GMVLVTGPTGSGKTVSLYTALNILNT  342 (564)
T ss_pred             CHHHcCCCHHHHHHHHHHHHhcC-CeEEEECCCCCCHHHHHHHHHHhhCC
Confidence            45666557777778877775543 45999999999999999999988854

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>TIGR02012 tigrfam_recA protein RecA

Probab=97.42  E-value=0.0025  Score=54.56  Aligned_cols=26  Identities=31%  Similarity=0.493  Sum_probs=22.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      +.|+||||+|||+|+..++......+
T Consensus        58 teI~G~~GsGKTtLaL~~~~~~~~~g   83 (321)
T TIGR02012        58 IEIYGPESSGKTTLALHAIAEAQKAG   83 (321)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            89999999999999998887765443

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.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=97.42  E-value=0.0022  Score=55.11  Aligned_cols=25  Identities=20%  Similarity=0.483  Sum_probs=22.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .+++|.||+|+||||++++++..+.
T Consensus       145 ~~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       145 KNIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             CEEEEECCCCCCHHHHHHHHHccCC
Confidence            5699999999999999999998874

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.

>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=97.42  E-value=0.0018  Score=51.51  Aligned_cols=22  Identities=45%  Similarity=0.860  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|+||+||||+++.+++.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7999999999999999999986

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd01878 HflX HflX subfamily

Probab=97.41  E-value=0.018  Score=46.22  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=20.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ..++|.|++|+|||+++..+...
T Consensus        42 ~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          42 PTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             CeEEEECCCCCCHHHHHHHHhcc
Confidence            45999999999999999998876

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.

>PRK04040 adenylate kinase; Provisional

Probab=97.41  E-value=0.0029  Score=50.14  Aligned_cols=23  Identities=35%  Similarity=0.583  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++++|+||+||||+++.+++.+
T Consensus         4 ~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          4 VVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999998

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=97.41  E-value=0.0032  Score=48.64  Aligned_cols=102  Identities=22%  Similarity=0.221  Sum_probs=52.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCc----------cc--ccEEE----EecCCCcchHHHHHHHHHhhhccccccCCC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQ----------YH--NMILE----LNASDDRGIDVVRQQIQDFASTQSFSFGVK  139 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~----------~~--~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (309)
                      ..+++||.|+|||++++.++-.+....          .+  .....    +......+...-...+........     .
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            599999999999999999765553222          11  11111    001111111111111222211100     0


Q ss_pred             CccEEEEEeCCCC-CCHHHHHHHHHHHHHhc-CCceEEEEecCCc
Q 021660          140 ASVKLVLLDEADA-MTKDAQFALRRVIEKYT-KNTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~~~-l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~  182 (309)
                      .++.++++||... +.+.....+...+.+.. ....+|++|....
T Consensus        98 ~~~~llllDEp~~gld~~~~~~l~~~l~~~~~~~~~vii~TH~~~  142 (162)
T cd03227          98 KPRPLYILDEIDRGLDPRDGQALAEAILEHLVKGAQVIVITHLPE  142 (162)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEcCCHH
Confidence            1468999999754 45555566666665442 2356666665554

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.

>PRK13764 ATPase; Provisional

Probab=97.41  E-value=0.00078  Score=62.38  Aligned_cols=28  Identities=29%  Similarity=0.421  Sum_probs=24.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      .+++++||+|+||||++++++..+...+
T Consensus       258 ~~ILIsG~TGSGKTTll~AL~~~i~~~~  285 (602)
T PRK13764        258 EGILIAGAPGAGKSTFAQALAEFYADMG  285 (602)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhhCC
Confidence            4599999999999999999999986443

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.41  E-value=0.0016  Score=52.62  Aligned_cols=46  Identities=13%  Similarity=0.065  Sum_probs=33.6

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHh-cCCceEEEEecCCcccch
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKY-TKNTRFALICNQVNKIIP  186 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~-~~~~~~i~~~~~~~~l~~  186 (309)
                      ++.++++||. ..+.......+.+++.+. .....+|+++++...+..
T Consensus       145 ~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~~~~  192 (207)
T PRK13539        145 NRPIWILDEPTAALDAAAVALFAELIRAHLAQGGIVIAATHIPLGLPG  192 (207)
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCchhhcc
Confidence            6789999995 466777788888888764 335567777877665543

>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.41  E-value=0.00029  Score=57.60  Aligned_cols=45  Identities=13%  Similarity=0.375  Sum_probs=33.3

Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCC--ceEEEEecCCcccc
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKN--TRFALICNQVNKII  185 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~--~~~i~~~~~~~~l~  185 (309)
                      ++.++++||.- .+.+.....+.+++.+....  ..+|++|++.+.+.
T Consensus       156 ~P~iliLDEPta~LD~~~~~~l~~~l~~L~~~~~~tii~~tHd~~~~~  203 (235)
T COG1122         156 GPEILLLDEPTAGLDPKGRRELLELLKKLKEEGGKTIIIVTHDLELVL  203 (235)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHHHHHHhcCCCeEEEEeCcHHHHH
Confidence            67899999964 56677788889998887654  36777777665543

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=97.41  E-value=0.0013  Score=56.56  Aligned_cols=48  Identities=19%  Similarity=0.283  Sum_probs=34.8

Q ss_pred             CCCcccccc----ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           49 PQSLADVAA----HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        49 p~~~~~~ig----~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.++++++.    .+.....+..++..+  .+++++|++|+||||++++++..+
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            335666653    234455666666654  569999999999999999999875

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.40  E-value=0.0023  Score=51.92  Aligned_cols=23  Identities=43%  Similarity=0.790  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++++|+||+||||+++.+++.+
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999987

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.40  E-value=0.0014  Score=58.25  Aligned_cols=35  Identities=20%  Similarity=0.294  Sum_probs=27.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      .++|+|++|+||||++..+|..+...+..+.++..
T Consensus       102 vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~  136 (429)
T TIGR01425       102 VIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCA  136 (429)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcC
Confidence            38999999999999999999988665554444433

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.

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 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=97.39  E-value=0.001  Score=51.89  Aligned_cols=101  Identities=17%  Similarity=0.263  Sum_probs=51.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCc---------------ccccEEEEecCCCcchHHHHHHHHHh-hhccccccCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ---------------YHNMILELNASDDRGIDVVRQQIQDF-ASTQSFSFGV  138 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  138 (309)
                      +.++|.||+|+|||+|...+...-..+.               ....+.-++.+   |...++..+.+. ......    
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~e~n~~~~~~~~~~~~~~lvD~P---GH~rlr~~~~~~~~~~~~~----   76 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPTVTSMENNIAYNVNNSKGKKLRLVDIP---GHPRLRSKLLDELKYLSNA----   76 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B---SSEEEECCGSSTCGTCECEEEET---T-HCCCHHHHHHHHHHGGE----
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCeeccccCCceEEeecCCCCEEEEEECC---CcHHHHHHHHHhhhchhhC----
Confidence            5599999999999999998887632110               00111111211   222222222221 111111    


Q ss_pred             CCccEEEEEeCCCCC--CHHHHHHHHHHHHHhc---CCceEEEEecCCccc
Q 021660          139 KASVKLVLLDEADAM--TKDAQFALRRVIEKYT---KNTRFALICNQVNKI  184 (309)
Q Consensus       139 ~~~~~lliiDe~~~l--~~~~~~~l~~~l~~~~---~~~~~i~~~~~~~~l  184 (309)
                        ..-|.+||-...-  ..+..+.|+.++....   ..++++++||..+..
T Consensus        77 --k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~  125 (181)
T PF09439_consen   77 --KGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLF  125 (181)
T ss_dssp             --EEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTST
T ss_pred             --CEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccc
Confidence              4567788854211  1344677888887654   677888889887654

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 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>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=97.38  E-value=0.00015  Score=53.46  Aligned_cols=22  Identities=36%  Similarity=0.616  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|++|+||||+++.+++.+
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            6899999999999999999996

...

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.38  E-value=0.002  Score=50.98  Aligned_cols=24  Identities=21%  Similarity=0.347  Sum_probs=21.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+||+|+|||++++.+.+..
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcC
Confidence            349999999999999999998875

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=97.37  E-value=0.00038  Score=56.92  Aligned_cols=41  Identities=29%  Similarity=0.429  Sum_probs=32.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (309)
                      .+-|+||||.|||||+..+...+...+..+-++.++++...
T Consensus        31 ~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~   71 (266)
T PF03308_consen   31 VIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPF   71 (266)
T ss_dssp             EEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGC
T ss_pred             EEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCC
Confidence            38999999999999999999999888888888888877543

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>PRK05973 replicative DNA helicase; Provisional

Probab=97.37  E-value=0.0023  Score=52.36  Aligned_cols=35  Identities=29%  Similarity=0.348  Sum_probs=26.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      ++|.|+||+|||+++..++......+....|+.+.
T Consensus        67 ~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlE  101 (237)
T PRK05973         67 VLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLE  101 (237)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEe
Confidence            89999999999999999888764444444444443

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.37  E-value=0.0017  Score=51.45  Aligned_cols=39  Identities=18%  Similarity=0.159  Sum_probs=31.2

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +...+.+...+..+  ..++|.||+|+||||+++.++..+.
T Consensus        12 ~~~~~~l~~~v~~g--~~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          12 PLQAAYLWLAVEAR--KNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             HHHHHHHHHHHhCC--CEEEEECCCCCCHHHHHHHHHhhcC
Confidence            45566666666665  4599999999999999999998874

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK13947 shikimate kinase; Provisional

Probab=97.37  E-value=0.00025  Score=55.34  Aligned_cols=24  Identities=42%  Similarity=0.477  Sum_probs=22.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++|.|+||+|||++++.+++.+
T Consensus         2 ~~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          2 KNIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            369999999999999999999998

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.37  E-value=0.01  Score=49.59  Aligned_cols=28  Identities=29%  Similarity=0.528  Sum_probs=24.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      +.+|++||.|+||||.+.++...++...
T Consensus       126 GLILVTGpTGSGKSTTlAamId~iN~~~  153 (353)
T COG2805         126 GLILVTGPTGSGKSTTLAAMIDYINKHK  153 (353)
T ss_pred             ceEEEeCCCCCcHHHHHHHHHHHHhccC
Confidence            4599999999999999999999986543

>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=97.36  E-value=0.0019  Score=49.22  Aligned_cols=20  Identities=35%  Similarity=0.816  Sum_probs=18.9

Q ss_pred             EECCCCCcHHHHHHHHHHHH
Q 021660           79 LYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        79 l~G~~G~GKT~l~~~l~~~~   98 (309)
                      |.||||+||||+++.+++..
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            68999999999999999997

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 ....

>PRK03839 putative kinase; Provisional

Probab=97.36  E-value=0.00022  Score=56.24  Aligned_cols=23  Identities=39%  Similarity=0.605  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|+||+||||+++.+++.+
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999998

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=97.36  E-value=0.0006  Score=55.19  Aligned_cols=44  Identities=11%  Similarity=0.319  Sum_probs=33.1

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..+.......+.+++.+......+|+++++...
T Consensus       147 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~tii~vsH~~~~  191 (211)
T cd03264         147 GDPSILIVDEPTAGLDPEERIRFRNLLSELGEDRIVILSTHIVED  191 (211)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHhCCCEEEEEcCCHHH
Confidence            37889999995 466778888899999877655667777765543

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.

>KOG2383 consensus Predicted ATPase [General function prediction only]

Probab=97.36  E-value=0.00035  Score=60.16  Aligned_cols=40  Identities=23%  Similarity=0.285  Sum_probs=27.3

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe-cC
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC-NQ  180 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~-~~  180 (309)
                      .-.+|.+||++.-.-...-.|..+++..-.+++|+++| |.
T Consensus       193 ea~lLCFDEfQVTDVADAmiL~rLf~~Lf~~GvVlvATSNR  233 (467)
T KOG2383|consen  193 EAILLCFDEFQVTDVADAMILKRLFEHLFKNGVVLVATSNR  233 (467)
T ss_pred             hceeeeechhhhhhHHHHHHHHHHHHHHHhCCeEEEEeCCC
Confidence            45799999998866655556667777665556555554 54

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=97.36  E-value=0.0022  Score=51.82  Aligned_cols=43  Identities=21%  Similarity=0.274  Sum_probs=31.1

Q ss_pred             CccEEEEEeCCC-CCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021660          140 ASVKLVLLDEAD-AMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~  182 (309)
                      .++.++++||.. .+.......+.+++..... ...+|+++.+..
T Consensus       145 ~~p~~lllDEP~~~LD~~~~~~~~~~l~~~~~~~~tii~~sH~~~  189 (210)
T cd03269         145 HDPELLILDEPFSGLDPVNVELLKDVIRELARAGKTVILSTHQME  189 (210)
T ss_pred             cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHH
Confidence            367899999954 6677788888888887543 456666666554

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=97.35  E-value=0.0032  Score=51.80  Aligned_cols=44  Identities=23%  Similarity=0.428  Sum_probs=34.0

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l  184 (309)
                      ++.++++||. ..+.......+.+++........+|+++++...+
T Consensus       156 ~p~lllLDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~  200 (234)
T cd03251         156 DPPILILDEATSALDTESERLVQAALERLMKNRTTFVIAHRLSTI  200 (234)
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHH
Confidence            6889999995 5677778888999998776566677777766554

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.

>PRK02496 adk adenylate kinase; Provisional

Probab=97.35  E-value=0.0035  Score=49.49  Aligned_cols=23  Identities=39%  Similarity=0.853  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||||+||||+++.+++.+
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=97.34  E-value=0.00079  Score=62.56  Aligned_cols=41  Identities=17%  Similarity=0.240  Sum_probs=29.8

Q ss_pred             CccEEEEEeCCCC-CCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          140 ASVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       140 ~~~~lliiDe~~~-l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      .++.++++||+.. +..+....+.+.+....++..+|+++++
T Consensus       487 ~~~~iliLDE~TSaLD~~te~~I~~~l~~~~~~~TvIiItHr  528 (529)
T TIGR02868       487 ADAPILLLDEPTEHLDAGTESELLEDLLAALSGKTVVVITHH  528 (529)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEEecC
Confidence            3678999999754 5667778888888876556666666653

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.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=97.34  E-value=0.0023  Score=51.45  Aligned_cols=23  Identities=22%  Similarity=0.359  Sum_probs=19.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ..++|+||.|+|||++++.++..
T Consensus        30 ~~~~l~G~n~~GKstll~~i~~~   52 (204)
T cd03282          30 RFHIITGPNMSGKSTYLKQIALL   52 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            34999999999999999988644

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

>PRK07667 uridine kinase; Provisional

Probab=97.33  E-value=0.00054  Score=54.63  Aligned_cols=36  Identities=17%  Similarity=0.208  Sum_probs=28.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      .+.|.|++|+||||+++.++..+...+....++..+
T Consensus        19 iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~D   54 (193)
T PRK07667         19 ILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHID   54 (193)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcC
Confidence            389999999999999999999986655544444444

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=97.33  E-value=0.016  Score=44.07  Aligned_cols=123  Identities=15%  Similarity=0.157  Sum_probs=63.7

Q ss_pred             EECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC-CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH
Q 021660           79 LYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA  157 (309)
Q Consensus        79 l~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~  157 (309)
                      =.+..||||||++.++.+.+..    +..+.-+... ......+...+..+...         ...+||.|--+.+. ..
T Consensus         4 PIAtiGCGKTTva~aL~~LFg~----wgHvQnDnI~~k~~~~f~~~~l~~L~~~---------~~~vViaDRNNh~~-re   69 (168)
T PF08303_consen    4 PIATIGCGKTTVALALSNLFGE----WGHVQNDNITGKRKPKFIKAVLELLAKD---------THPVVIADRNNHQK-RE   69 (168)
T ss_pred             eecCCCcCHHHHHHHHHHHcCC----CCccccCCCCCCCHHHHHHHHHHHHhhC---------CCCEEEEeCCCchH-HH
Confidence            3578999999999999988722    1112111111 11222222233333111         56789999766554 34


Q ss_pred             HHHHHHHHHHhcC-------CceEEEEecCC-c---cc----chhhhcce---eEEEecCCChHHHHHHHHHHHHH
Q 021660          158 QFALRRVIEKYTK-------NTRFALICNQV-N---KI----IPALQSRC---TRFRFAPLEPVHVTERLKHVIEA  215 (309)
Q Consensus       158 ~~~l~~~l~~~~~-------~~~~i~~~~~~-~---~l----~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~  215 (309)
                      ...|+..++....       ...+|...=.. .   .+    ...+..|.   +.+............++...+++
T Consensus        70 R~ql~~~~~~~~~~yl~~~~~~r~VaL~fv~~~~~~~i~~it~~RV~~RGDNHQTika~~~~~~~~~~Im~gFi~r  145 (168)
T PF08303_consen   70 RKQLFEDVSQLKPDYLPYDTNVRFVALNFVHDDDLDEIRRITQDRVLARGDNHQTIKADSKDEKKVEGIMEGFIKR  145 (168)
T ss_pred             HHHHHHHHHHhcccccccCCCeEEEEEEccCCCCHHHHHHHHHHHHHhcCcCcceeecCCCCHHHHHHHHHHHHHh
Confidence            5777777776544       44555443111 1   11    12233343   44555555555566666555554

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional

Probab=97.33  E-value=0.0017  Score=54.95  Aligned_cols=22  Identities=18%  Similarity=0.635  Sum_probs=20.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.||+|+|||.|+-.+|+.
T Consensus         6 ii~I~GpTasGKS~LAl~LA~~   27 (300)
T PRK14729          6 IVFIFGPTAVGKSNILFHFPKG   27 (300)
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            4899999999999999999988

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.32  E-value=0.0034  Score=50.47  Aligned_cols=40  Identities=10%  Similarity=0.179  Sum_probs=28.2

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecC
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQ  180 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~  180 (309)
                      ++.++++||. ..+.......+.+++.+...  ...+|++++.
T Consensus       136 ~p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~~t~ii~~~h  178 (202)
T cd03233         136 RASVLCWDNSTRGLDSSTALEILKCIRTMADVLKTTTFVSLYQ  178 (202)
T ss_pred             CCCEEEEcCCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEEcC
Confidence            6789999995 56677778888888887643  3344555544

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.

>TIGR00959 ffh signal recognition particle protein

Probab=97.30  E-value=0.02  Score=51.30  Aligned_cols=35  Identities=26%  Similarity=0.338  Sum_probs=26.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHc-cCcccccEEEEe
Q 021660           77 LLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELN  111 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~  111 (309)
                      ++++|++|+||||++..+|..+. ..+..+.++..+
T Consensus       102 i~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D  137 (428)
T TIGR00959       102 ILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACD  137 (428)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEecc
Confidence            89999999999999999998874 344444444444

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

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

Probab=97.30  E-value=0.0025  Score=54.63  Aligned_cols=26  Identities=27%  Similarity=0.447  Sum_probs=22.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      +.++||||+|||+++..++......+
T Consensus        58 teI~Gp~GsGKTtLal~~~~~~~~~g   83 (325)
T cd00983          58 IEIYGPESSGKTTLALHAIAEAQKLG   83 (325)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            89999999999999999887765443

RecA couples ATP hydrolysis to DNA strand exchange.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.30  E-value=0.0024  Score=51.99  Aligned_cols=44  Identities=18%  Similarity=0.309  Sum_probs=33.2

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..+.......+.+++........+|+++++...
T Consensus       150 ~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sH~~~~  194 (220)
T cd03263         150 GGPSVLLLDEPTSGLDPASRRAIWDLILEVRKGRSIILTTHSMDE  194 (220)
T ss_pred             cCCCEEEECCCCCCCCHHHHHHHHHHHHHHhcCCEEEEEcCCHHH
Confidence            37889999995 566777888899999876655667777776553

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=97.30  E-value=0.0023  Score=51.66  Aligned_cols=42  Identities=19%  Similarity=0.320  Sum_probs=30.1

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~  182 (309)
                      ++.++++||. ..+.......+.+++.+... ...+|+++++..
T Consensus       144 ~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~tH~~~  187 (208)
T cd03268         144 NPDLLILDEPTNGLDPDGIKELRELILSLRDQGITVLISSHLLS  187 (208)
T ss_pred             CCCEEEECCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEcCCHH
Confidence            6789999995 45667778888888886543 455666666554

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=97.29  E-value=0.0026  Score=50.31  Aligned_cols=20  Identities=25%  Similarity=0.454  Sum_probs=18.4

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (309)
                      ++|+||.|.|||++++.++-
T Consensus         2 ~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            68999999999999999983

>PRK00625 shikimate kinase; Provisional

Probab=97.28  E-value=0.00033  Score=54.64  Aligned_cols=23  Identities=43%  Similarity=0.522  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++|.|.||+||||+++.+++.+
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999998

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

Probab=97.28  E-value=0.0049  Score=53.64  Aligned_cols=41  Identities=32%  Similarity=0.605  Sum_probs=31.1

Q ss_pred             HHHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           62 VDTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        62 ~~~l~~~~~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      ...+.+.+-++-.+.  +||-|.||+|||||+..++..+...+
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~  121 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG  121 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC
Confidence            345566666654333  99999999999999999999985444

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.28  E-value=0.0018  Score=52.34  Aligned_cols=43  Identities=14%  Similarity=0.339  Sum_probs=31.4

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~  182 (309)
                      .++.++++||. ..+.......+.+++.+... ...+|+++++..
T Consensus       151 ~~p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tvi~~sH~~~  195 (211)
T cd03225         151 MDPDILLLDEPTAGLDPAGRRELLELLKKLKAEGKTIIIVTHDLD  195 (211)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence            37789999995 56677778888888887643 456777776654

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd04124 RabL2 RabL2 subfamily

Probab=97.28  E-value=0.0034  Score=48.37  Aligned_cols=22  Identities=18%  Similarity=0.297  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|.+|+|||+|+..+...-
T Consensus         3 i~vvG~~~vGKTsli~~~~~~~   24 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMDG   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999887643

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

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=97.27  E-value=0.0018  Score=56.73  Aligned_cols=60  Identities=15%  Similarity=0.304  Sum_probs=37.3

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCChHHH
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHV  205 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~  205 (309)
                      .+.|||+||. ..+.-+....|.+.|++...  -+|+++.+...+..   .-|..+-+..-+.+++
T Consensus       722 ~PDvlILDEPTNNLDIESIDALaEAIney~G--gVi~VsHDeRLi~e---T~C~LwVvE~Q~i~eI  782 (807)
T KOG0066|consen  722 GPDVLILDEPTNNLDIESIDALAEAINEYNG--GVIMVSHDERLIVE---TDCNLWVVENQGIDEI  782 (807)
T ss_pred             CCCEEEecCCCCCcchhhHHHHHHHHHhccC--cEEEEecccceeee---cCceEEEEccCChhhc
Confidence            6789999995 56777888999999998853  35555554332221   2354444444444333

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=97.27  E-value=0.0049  Score=50.04  Aligned_cols=101  Identities=16%  Similarity=0.244  Sum_probs=56.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEE---------------EecCCCcchHHHHHHHHHhhhccccccCCCC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE---------------LNASDDRGIDVVRQQIQDFASTQSFSFGVKA  140 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (309)
                      .++++|++|+||||++..+............+..               +..-+..+...+.........        ..
T Consensus         7 kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~--------~~   78 (219)
T COG1100           7 KIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYR--------GA   78 (219)
T ss_pred             EEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhc--------CC
Confidence            3899999999999999999988765433222111               111122233343333222211        11


Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhc-CCceEEEEecCCccc
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYT-KNTRFALICNQVNKI  184 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~~l  184 (309)
                      ...+++.|... .-..+....+...+.... ...+++++.|..+..
T Consensus        79 ~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~  124 (219)
T COG1100          79 NGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLF  124 (219)
T ss_pred             CEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccc
Confidence            45667777665 333344455555555544 367788888766543

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

Probab=97.27  E-value=0.0019  Score=53.31  Aligned_cols=41  Identities=12%  Similarity=0.326  Sum_probs=28.7

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCC
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQV  181 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~  181 (309)
                      ++.++++||- ..|.-..+-.+++++.+...  ...+|++..+.
T Consensus       156 ~~~iLLLDEPTs~LDi~~Q~evl~ll~~l~~~~~~tvv~vlHDl  199 (258)
T COG1120         156 ETPILLLDEPTSHLDIAHQIEVLELLRDLNREKGLTVVMVLHDL  199 (258)
T ss_pred             CCCEEEeCCCccccCHHHHHHHHHHHHHHHHhcCCEEEEEecCH
Confidence            6789999995 45566667788888887652  34566666544

>TIGR01351 adk adenylate kinases

Probab=97.27  E-value=0.0037  Score=50.56  Aligned_cols=22  Identities=45%  Similarity=0.841  Sum_probs=20.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.||||+||||+++.+++.+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999886

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=97.26  E-value=0.0018  Score=52.59  Aligned_cols=44  Identities=18%  Similarity=0.342  Sum_probs=31.6

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..+.......+.+++.+... ...+|+++++.+.
T Consensus       155 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~vsH~~~~  200 (216)
T TIGR00960       155 HKPPLLLADEPTGNLDPELSRDIMRLFEEFNRRGTTVLVATHDINL  200 (216)
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHH
Confidence            37889999995 45667778888888887532 4567777776543

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=97.26  E-value=0.0013  Score=52.80  Aligned_cols=42  Identities=24%  Similarity=0.312  Sum_probs=30.9

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~  182 (309)
                      ++.++++||. ..+.......+.+++.+... ...+|++++...
T Consensus       122 ~p~illlDEPt~~LD~~~~~~l~~~L~~~~~~~~tiii~sh~~~  165 (200)
T cd03217         122 EPDLAILDEPDSGLDIDALRLVAEVINKLREEGKSVLIITHYQR  165 (200)
T ss_pred             CCCEEEEeCCCccCCHHHHHHHHHHHHHHHHCCCEEEEEecCHH
Confidence            7889999995 46677778888888887643 456677776654

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.26  E-value=0.00093  Score=54.84  Aligned_cols=48  Identities=21%  Similarity=0.284  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccE
Q 021660           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMI  107 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~  107 (309)
                      .+++.+..+......+. +.|.||+|+||||+++.++..+...+....+
T Consensus        18 ~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~~g~~~v   66 (229)
T PRK09270         18 PLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLAEFLEALLQQDGELPAI   66 (229)
T ss_pred             HHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHhhhccCCceE
Confidence            34455566655533333 8999999999999999999998654443333

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.25  E-value=0.00072  Score=49.98  Aligned_cols=24  Identities=33%  Similarity=0.445  Sum_probs=22.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .++|.|+.|+||||+++.+++.+.
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            499999999999999999999983

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.

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

Probab=97.25  E-value=0.00064  Score=55.70  Aligned_cols=23  Identities=39%  Similarity=0.632  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|+||+|||+++..++...
T Consensus        21 ~~li~G~~GsGKT~l~~q~l~~~   43 (226)
T PF06745_consen   21 VVLISGPPGSGKTTLALQFLYNG   43 (226)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHh
Confidence            39999999999999999877554

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 ....

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=97.25  E-value=0.0043  Score=51.45  Aligned_cols=82  Identities=13%  Similarity=0.249  Sum_probs=48.9

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcccchhhhcceeEE------EecCCChHHHHHHHH
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNKIIPALQSRCTRF------RFAPLEPVHVTERLK  210 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~l~~~l~~r~~~i------~~~~~~~~~~~~~l~  210 (309)
                      .++.++++||. ..+.......+.+++.+...  ...+|+++++...+ ..+..++..+      .-..-++..+.+.+.
T Consensus       132 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tiiivsHd~~~~-~~~~d~i~~l~~~~~~~~~~~~~~~~~~~~~  210 (246)
T cd03237         132 KDADIYLLDEPSAYLDVEQRLMASKVIRRFAENNEKTAFVVEHDIIMI-DYLADRLIVFEGEPSVNGVANPPQSLRSGMN  210 (246)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH-HHhCCEEEEEcCCCeeEEEeCCchHHHHHHH
Confidence            36789999995 46677778888888887532  45677777665432 2333443221      111223445556777


Q ss_pred             HHHHHcCCCCCH
Q 021660          211 HVIEAEGLDVTE  222 (309)
Q Consensus       211 ~~~~~~~~~~~~  222 (309)
                      ..++..++.+..
T Consensus       211 ~~l~~~~~~~~~  222 (246)
T cd03237         211 RFLKNLDITFRR  222 (246)
T ss_pred             HHHHHCCCEEec
Confidence            777766665543

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.24  E-value=0.0018  Score=55.69  Aligned_cols=34  Identities=29%  Similarity=0.368  Sum_probs=27.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      .++|.||+|+||||++..++..+...+..+.++.
T Consensus       116 vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~  149 (318)
T PRK10416        116 VILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAA  149 (318)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEe
Confidence            3899999999999999999999865554444443

>COG3378 Phage associated DNA primase [General function prediction only]

Probab=97.24  E-value=0.0048  Score=56.08  Aligned_cols=134  Identities=19%  Similarity=0.304  Sum_probs=71.9

Q ss_pred             cccccc-ChHHHHHHHHHHh---cCCC---CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHH
Q 021660           52 LADVAA-HRDIVDTIDRLTS---ENRL---PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (309)
Q Consensus        52 ~~~~ig-~~~~~~~l~~~~~---~~~~---~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (309)
                      +.++.+ +.+....+.+++.   .++.   ..+.|+||-|.||++++..+...+.......          .....    
T Consensus       201 L~~~~~~d~el~~ll~~i~g~~l~g~~~~~k~~~l~G~G~nGKstf~~li~~llG~~n~~s----------~~~~~----  266 (517)
T COG3378         201 LDRVAGGDPELRNLLQRIIGASLTGRVSEQKLFWLYGPGGNGKSTFVDLISNLLGRYNVTS----------APLTD----  266 (517)
T ss_pred             HHHhhcCCHHHHHHHHHHHhheecCcccceeEEEEEcCCCCChHHHHHHHHHHhccchhcc----------ccHHH----
Confidence            345555 6666666666653   2222   2389999999999999999988872221110          00000    


Q ss_pred             HHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHH--------------HhcCCceEEEEecCCccc---chh
Q 021660          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIE--------------KYTKNTRFALICNQVNKI---IPA  187 (309)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~--------------~~~~~~~~i~~~~~~~~l---~~~  187 (309)
                      +.. ........+.-.+.+++..+|-+.=.-.....+..+.-              ...+...+|+++|..+.+   ..+
T Consensus       267 ~~~-~~~~~~~~A~Lvg~~~v~~~E~~kg~l~~~~~lK~ltgGD~i~a~~K~kd~~~f~p~a~~i~~~N~~P~~~~~d~a  345 (517)
T COG3378         267 LEA-DDRHPFGLAALVGKRLVTVSETEKGRLDDEGKLKALTGGDVISAERKRKDFFSFTPNAKLIQATNHPPRIRGDDEA  345 (517)
T ss_pred             hhh-hccCcchHHHhhCceEEEecCccccccccccceeeeccCCeeeehhccCCceEeccceeEEeecCCCCcccccchh
Confidence            000 11111112222267788888866521111111111100              112356778888887654   578


Q ss_pred             hhcceeEEEecCC
Q 021660          188 LQSRCTRFRFAPL  200 (309)
Q Consensus       188 l~~r~~~i~~~~~  200 (309)
                      +.+|..++.|+..
T Consensus       346 i~rR~~ivpF~~~  358 (517)
T COG3378         346 IWRRLLIVPFEKQ  358 (517)
T ss_pred             hhheeEEEecccc
Confidence            9999988888544

>PLN02348 phosphoribulokinase

Probab=97.24  E-value=0.028  Score=49.31  Aligned_cols=43  Identities=12%  Similarity=0.121  Sum_probs=30.6

Q ss_pred             ChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHcc
Q 021660           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      .......+.........+. +-|.|++|+||||+++.++..+..
T Consensus        32 ~~~~~~~~~~~~~~~~~p~IIGIaG~SGSGKSTfA~~L~~~Lg~   75 (395)
T PLN02348         32 KSPAASSVVVALAADDGTVVIGLAADSGCGKSTFMRRLTSVFGG   75 (395)
T ss_pred             cCchhHHHHHhhccCCCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3344444555444443344 789999999999999999999853

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.24  E-value=0.0051  Score=52.80  Aligned_cols=22  Identities=18%  Similarity=0.167  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.|+||||+|||+++..++-..
T Consensus        99 teI~G~~GsGKTql~lqla~~~  120 (313)
T TIGR02238        99 TEVFGEFRCGKTQLSHTLCVTA  120 (313)
T ss_pred             EEEECCCCCCcCHHHHHHHHHH
Confidence            8899999999999998877543

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

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=97.23  E-value=0.0014  Score=53.90  Aligned_cols=44  Identities=18%  Similarity=0.274  Sum_probs=31.8

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..+.......+.+++.+... ...+|+++++...
T Consensus       150 ~~p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tii~~sH~~~~  195 (232)
T cd03218         150 TNPKFLLLDEPFAGVDPIAVQDIQKIIKILKDRGIGVLITDHNVRE  195 (232)
T ss_pred             cCCCEEEecCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHH
Confidence            37889999995 56677778888888876643 4567777776543

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=97.23  E-value=0.0093  Score=45.76  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|++|+|||+++..+...-
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            7899999999999999988754

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>PRK10867 signal recognition particle protein; Provisional

Probab=97.23  E-value=0.0028  Score=56.68  Aligned_cols=36  Identities=22%  Similarity=0.379  Sum_probs=28.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccC-cccccEEEEec
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNA  112 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~  112 (309)
                      ++++|++|+||||++..+|..+... +..+.++..+.
T Consensus       103 I~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~  139 (433)
T PRK10867        103 IMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADV  139 (433)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccc
Confidence            8999999999999999999887655 55555554443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	309
1sxj_C	340	Crystal Structure Of The Eukaryotic Clamp Loader (R		3e-75
1iqp_A	327	Crystal Structure Of The Clamp Loader Small Subunit		4e-65
2chq_A	319	Replication Factor C Adpnp Complex Length = 319		7e-58
2chg_A	226	Replication Factor C Domains 1 And 2 Length = 226		7e-55
1sxj_B	323	Crystal Structure Of The Eukaryotic Clamp Loader (R		3e-54
1sxj_D	353	Crystal Structure Of The Eukaryotic Clamp Loader (R		1e-49
1sxj_E	354	Crystal Structure Of The Eukaryotic Clamp Loader (R		4e-26
3u5z_B	324	Structure Of T4 Bacteriophage Clamp Loader Bound To		8e-17
3glf_B	395	Crystal Structure Of The Ecoli Clamp Loader Bound T		2e-10
3glg_B	395	Crystal Structure Of A Mutant (Gammat157a) E. Coli		2e-10
3glh_B	376	Crystal Structure Of The E. Coli Clamp Loader Bound		4e-10
1jr3_A	373	Crystal Structure Of The Processivity Clamp Loader		6e-10
1xxi_B	368	Adp Bound E. Coli Clamp Loader Complex Length = 368		6e-10
1njg_A	250	Nucleotide-Free Form Of An Isolated E. Coli Clamp L		2e-09
1sxj_A	516	Crystal Structure Of The Eukaryotic Clamp Loader (R		2e-07
3pvs_A	447	Structure And Biochemical Activities Of Escherichia		2e-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 =  278 bits (711), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 134/272 (49%), Positives = 187/272 (68%), Gaps = 10/272 (3%)
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 WLLNESFADSFKRISEMKMRKGLALVDIVREV 307
            +L + +  +   +++++  KGLAL+D++  +
Sbjct: 250 SILEDDWGTAHYTLNKVRSAKGLALIDLIEGI 281

>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From Pyrococcus Furiosus Length = 327

Iteration: 1
 Score =  244 bits (623), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 114/263 (43%), Positives = 174/263 (66%), Gaps = 3/263 (1%)
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 FADSFKRISEMKMRKGLALVDIV 304
           F  + +++ E+ +++GL+  D++
Sbjct: 251 FLKAREKLREILLKQGLSGEDVL 273

>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex Length = 319

Iteration: 1
 Score =  220 bits (561), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 106/265 (40%), Positives = 164/265 (61%), Gaps = 3/265 (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 GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESF 282
            GL AL+ +  GD RKA+N LQ      + +  + +Y  T    P+++ ++    L  +F
Sbjct: 184 DGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATARPEEMTELIQTALKGNF 243
Query: 283 ADSFKRISEMKMRKGLALVDIVREV 307
            ++ + +  + +  G++  DIV ++
Sbjct: 244 MEARELLDRLMVEYGMSGEDIVAQL 268

>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2 Length = 226

Iteration: 1
 Score =  210 bits (535), Expect = 7e-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|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 =  208 bits (530), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 109/263 (41%), Positives = 163/263 (61%), Gaps = 5/263 (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   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 FADSFKRISEMKMRKGLALVDIV 304
             DS + +     +KG + +DIV
Sbjct: 245 LEDSIQILRTDLWKKGYSSIDIV 267

>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 =  193 bits (491), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 96/220 (43%), Positives = 139/220 (63%), Gaps = 8/220 (3%)
Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP++L +V A    V  + +      LPH+L YGPPGTGKTSTILA+ ++LYG 
Sbjct: 26  PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 85
Query: 102 Q-YHNMILELNASDDRGIDVVRQQIQDFA-------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 EAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQI 253
           E E +   +G L  ++ +  GD+R+ + +LQS    +Q +
Sbjct: 206 EQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYL 245

>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 (287), Expect = 4e-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 = 84.3 bits (207), Expect = 8e-17,   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 = 63.2 bits (152), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 57/261 (21%), Positives = 111/261 (42%), Gaps = 30/261 (11%)
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 QSTHMASQQITEEAVYLCTGN 264
           Q+      Q++ +AV    G 
Sbjct: 245 QAIASGDGQVSTQAVSAMLGT 265

>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 = 62.8 bits (151), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 57/261 (21%), Positives = 111/261 (42%), Gaps = 30/261 (11%)
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 QSTHMASQQITEEAVYLCTGN 264
           Q+      Q++ +AV    G 
Sbjct: 245 QAIASGDGQVSTQAVSAMLGT 265

>pdb|3GLH|B Chain B, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi Peptide Length = 376

Iteration: 1
 Score = 62.0 bits (149), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 54/251 (21%), Positives = 107/251 (42%), Gaps = 28/251 (11%)
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 TEEAVYLCTGN 264
           + +AV    G 
Sbjct: 236 STQAVSAMLGT 246

>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 = 61.2 bits (147), Expect = 6e-10,   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: 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 N 264
Sbjct: 243 T 243

>pdb|1XXI|B Chain B, Adp Bound E. Coli Clamp Loader Complex Length = 368

Iteration: 1
 Score = 61.2 bits (147), Expect = 6e-10,   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: 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 N 264
Sbjct: 243 T 243

>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|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 = 2e-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

>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  PWVEKYRPQSLADVAAHRDIVDT---IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL 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

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	309
2chq_A	319	Replication factor C small subunit; DNA-binding pr	1e-137
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	1e-137
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	1e-131
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	1e-129
2chg_A	226	Replication factor C small subunit; DNA-binding pr	1e-128
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	1e-122
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	1e-107
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	1e-105
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	8e-91
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	1e-26
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	2e-24
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	5e-20
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-16
3pvs_A	447	Replication-associated recombination protein A; ma	2e-14
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	5e-11
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	5e-11
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	4e-09
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	1e-08
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	1e-05
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-05
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	3e-05
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	2e-04
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	3e-04
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	8e-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 =  390 bits (1003), Expect = e-137
 Identities = 106/266 (39%), Positives = 164/266 (61%), Gaps = 3/266 (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        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 FADSFKRISEMKMRKGLALVDIVREV 307
           F ++ + +  + +  G++  DIV ++
Sbjct: 243 FMEARELLDRLMVEYGMSGEDIVAQL 268

>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 =  389 bits (1002), Expect = e-137
 Identities = 114/272 (41%), Positives = 177/272 (65%), Gaps = 3/272 (1%)

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 WLLNESFADSFKRISEMKMRKGLALVDIVREV 307
             L  +F  + +++ E+ +++GL+  D++ ++
Sbjct: 245 LALKGNFLKAREKLREILLKQGLSGEDVLVQM 276

>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 =  375 bits (965), Expect = e-131
 Identities = 131/281 (46%), Positives = 186/281 (66%), Gaps = 8/281 (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 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV 307
           P D++ +   +L + +  +   +++++  KGLAL+D++  +
Sbjct: 241 PSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGI 281

>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 =  369 bits (950), Expect = e-129
 Identities = 108/266 (40%), Positives = 161/266 (60%), Gaps = 5/266 (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 FADSFKRISEMKMRKGLALVDIVREV 307
             DS + +     +KG + +DIV   
Sbjct: 245 LEDSIQILRTDLWKKGYSSIDIVTTS 270

>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 =  364 bits (937), Expect = e-128
 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_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 =  352 bits (905), Expect = e-122
 Identities = 104/301 (34%), Positives = 163/301 (54%), Gaps = 15/301 (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 M 309
            
Sbjct: 306 E 306

>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 =  313 bits (805), Expect = e-107
 Identities = 70/286 (24%), Positives = 123/286 (43%), Gaps = 23/286 (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 TGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV 307
           T +     I+ +   L N+          +        +  +  E+
Sbjct: 234 TND--RGAIDDVLESLKNKDVKQLRALAPKYAADYSWFVGKLAEEI 277

>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 =  311 bits (798), Expect = e-105
 Identities = 77/305 (25%), Positives = 150/305 (49%), Gaps = 37/305 (12%)

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 REVTM 309
           +E+T 
Sbjct: 301 KELTF 305

>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 =  278 bits (713), Expect = 8e-91
 Identities = 54/267 (20%), Positives = 99/267 (37%), Gaps = 34/267 (12%)

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 272
               ++ I  E +   +     K+I  
Sbjct: 255 ISTTTKTINHENINEISKAW-EKNIAL 280

>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 =  105 bits (265), Expect = 1e-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 = 2e-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 = 88.4 bits (220), Expect = 5e-20
 Identities = 59/285 (20%), Positives = 119/285 (41%), Gaps = 33/285 (11%)

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 TGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVRE 306
            G         +   ++  +       I+E    +G+    ++ E
Sbjct: 241 LGTLDDDQALSLVEAMVEANGERVMALINEA-AARGIEWEALLVE 284

>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 = 78.0 bits (191), Expect = 4e-16
 Identities = 51/322 (15%), Positives = 91/322 (28%), Gaps = 78/322 (24%)

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 KMRK---GLAL----VDIVREV 307
           + RK    L++      I   +
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTIL 391

>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 = 2e-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 = 62.1 bits (150), Expect = 5e-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 = 5e-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 = 56.3 bits (135), Expect = 4e-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 = 54.7 bits (131), Expect = 1e-08
 Identities = 54/254 (21%), Positives = 92/254 (36%), 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--NQV---NKIIPALQSRC--TR 194
           +LDE DA  K    D  + L R+  +    ++ + I   N 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

>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 = 1e-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 = 3e-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 = 41.4 bits (96), Expect = 2e-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

>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 = 40.5 bits (95), Expect = 3e-04
 Identities = 38/255 (14%), Positives = 98/255 (38%), Gaps = 25/255 (9%)

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 KRISEMKMRKGLALV 301
            +++     K   L+
Sbjct: 230 DQVTNTITGKDAFLL 244

>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* Length = 334

 Score = 39.5 bits (93), Expect = 8e-04
 Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 9/68 (13%)

Query: 34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTID------RLTSENRLPHLLLYGPPGTGK 87
          TP        V+  RP+SL +     ++   +       ++  E  L H+LL GPPG GK
Sbjct: 6  TPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEV-LDHVLLAGPPGLGK 64

Query: 88 T--STILA 93
          T  + I+A
Sbjct: 65 TTLAHIIA 72

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	309
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
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
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	100.0
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	100.0
3pvs_A	447	Replication-associated recombination protein A; ma	100.0
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	100.0
2chg_A	226	Replication factor C small subunit; DNA-binding pr	100.0
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.96
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.96
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.96
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.94
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.94
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	99.94
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.93
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.93
3bos_A	242	Putative DNA replication factor; P-loop containing	99.92
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.91
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.9
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.89
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.89
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.89
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.89
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.88
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.88
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.88
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.88
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.87
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.87
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.86
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.86
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.86
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.86
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.86
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.86
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.86
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.86
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.85
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.85
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.85
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.85
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.85
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.84
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.84
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.84
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.82
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.81
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.8
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.8
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.79
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.78
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.78
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.77
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.77
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.77
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.76
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.76
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.75
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.74
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.74
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.73
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.73
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.73
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.72
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.72
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.71
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.71
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.71
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.7
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.69
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.68
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.65
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.63
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.61
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.61
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.61
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.6
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.58
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.56
3co5_A	143	Putative two-component system transcriptional RES	99.54
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.53
2fna_A	357	Conserved hypothetical protein; structural genomic	99.5
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.48
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.45
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.43
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.4
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.38
1tue_A	212	Replication protein E1; helicase, replication, E1E	99.2
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	99.19
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	99.18
3f8t_A	506	Predicted ATPase involved in replication control,	99.18
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	99.15
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	99.15
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.11
2qgz_A	308	Helicase loader, putative primosome component; str	99.09
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.08
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.96
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	98.94
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	98.85
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.79
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	98.7
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.7
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.59
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.55
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.52
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.34
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.32
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	98.26
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	98.16
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	98.09
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	98.03
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.96
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.93
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	97.81
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.8
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.79
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.79
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.77
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.77
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.74
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.71
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.7
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.68
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.65
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.64
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.63
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.63
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	97.62
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.61
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.61
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.61
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.61
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.59
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.58
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.57
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	97.56
3io5_A	333	Recombination and repair protein; storage dimer, i	97.56
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	97.55
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.53
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.52
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	97.51
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.48
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.48
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.41
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.41
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.41
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.4
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.4
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.4
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.39
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.39
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.37
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.37
3b6e_A	216	Interferon-induced helicase C domain-containing P;	97.37
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.37
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.36
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.36
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.36
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.35
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.34
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	97.34
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.33
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	97.32
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.31
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.28
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	97.27
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.26
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.26
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	97.26
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	97.25
1via_A	175	Shikimate kinase; structural genomics, transferase	97.25
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	97.24
1jql_B	140	DNA polymerase III, delta subunit; processivity cl	97.24
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.24
3h1t_A	590	Type I site-specific restriction-modification syst	97.23
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	97.22
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.21
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.2
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.2
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	97.2
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.2
2r6a_A	454	DNAB helicase, replicative helicase; replication,	97.19
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	97.19
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	97.17
3llu_A	196	RAS-related GTP-binding protein C; structural geno	97.16
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.15
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.15
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	97.15
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	97.15
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.14
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.14
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.14
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	97.13
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	97.13
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	97.13
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.13
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.13
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.12
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.12
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.11
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.11
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	97.09
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.08
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.08
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.08
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	97.07
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.07
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.07
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	97.05
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.04
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	97.04
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.03
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	97.03
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.03
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.02
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	97.01
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.01
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	97.0
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	96.99
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.99
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.99
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	96.99
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.98
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.98
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.98
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.97
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	96.97
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.96
3bor_A	237	Human initiation factor 4A-II; translation initiat	96.96
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.96
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.96
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	96.94
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.94
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.94
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	96.94
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.93
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.93
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.92
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	96.92
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.92
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.92
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.92
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.91
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.9
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	96.9
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.89
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.89
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	96.88
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.88
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	96.87
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	96.87
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.87
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.86
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.85
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	96.85
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.85
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.84
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	96.84
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.83
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	96.83
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.83
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.81
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	96.81
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	96.81
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.81
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.8
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.8
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	96.79
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	96.79
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	96.79
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	96.79
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	96.78
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.77
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.77
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	96.76
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.76
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	96.76
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.75
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.75
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	96.74
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	96.74
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	96.73
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.73
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	96.73
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	96.72
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.72
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.71
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	96.71
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	96.7
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	96.7
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	96.69
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.69
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.68
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.68
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.66
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.66
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.66
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	96.65
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	96.65
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.64
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	96.64
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	96.63
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.63
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.63
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.62
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.62
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.62
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.62
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.61
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	96.6
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	96.6
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	96.6
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	96.6
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	96.59
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	96.58
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	96.58
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.58
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	96.57
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.57
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	96.56
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	96.56
3ice_A	422	Transcription termination factor RHO; transcriptio	96.56
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	96.55
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	96.55
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	96.55
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	96.55
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	96.54
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.53
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	96.52
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	96.5
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.5
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	96.5
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	96.49
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.49
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.49
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	96.48
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	96.47
2xxa_A	433	Signal recognition particle protein; protein trans	96.47
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	96.47
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	96.47
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.46
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	96.46
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	96.46
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	96.46
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	96.46
3ctd_A	213	Putative ATPase, AAA family; structural genomics,	96.46
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	96.44
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.44
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	96.44
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	96.44
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.44
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	96.43
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	96.43
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.43
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.4
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.39
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	96.39
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	96.38
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	96.38
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	96.38
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.38
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	96.37
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.37
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	96.37
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.36
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	96.36
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.35
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	96.35
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	96.35
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.35
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.34
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	96.34
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	96.33
2fh5_B	214	SR-beta, signal recognition particle receptor beta	96.33
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.33
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	96.32
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.32
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	96.32
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	96.31
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	96.31
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	96.31
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	96.3
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	96.3
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.29
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	96.29
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	96.28
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	96.27
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.26
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	96.26
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	96.26
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	96.26
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.26
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.25
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	96.24
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	96.24
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.23
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.23
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	96.23
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	96.23
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	96.22
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	96.22
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.21
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	96.21
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	96.21
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	96.2
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.19
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.18
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	96.17
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	96.17
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	96.17
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	96.16
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.14
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	96.13
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	96.13
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.12
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.12
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.11
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	96.09
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	96.08
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	96.08
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.08
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.06
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	96.06
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	96.06
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	96.06
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	96.05
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.01
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	96.01
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	96.01
2zpa_A	671	Uncharacterized protein YPFI; RNA modification enz	96.01
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	96.01
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	96.01
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.98
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.97
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	95.95
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.94
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	95.94
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.93
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	95.93
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	95.93
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	95.93
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.91
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	95.9
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.89
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	95.89
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.89
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.88
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	95.88
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.87
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	95.85
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	95.85
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.85
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.84
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.84
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.83
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.82
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.8
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.8
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	95.78
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.76
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	95.76
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.74
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.73
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.73
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	95.73
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.71
1z63_A	500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	95.69
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	95.68
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	95.67
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	95.66
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	95.65
2og2_A	359	Putative signal recognition particle receptor; nuc	95.65
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	95.64
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.64
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.63
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.61
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	95.59
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.59
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.59
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.58
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.57
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.56
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	95.56
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.55
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.52
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.51
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.5
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	95.48
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.45
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.46
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	95.45
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	95.44
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.44
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.43
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.43
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.42
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	95.41
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	95.41

>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=3.3e-37  Score=267.40  Aligned_cols=267  Identities=49%  Similarity=0.875  Sum_probs=239.6

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      ...||.++|+|.++++++|++++++.+..++..++.++++|+||+|+|||++++.+++.+.+......+..++..+..+.
T Consensus        11 ~~~~~~~k~rp~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~   90 (340)
T 1sxj_C           11 ENLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGI   90 (340)
T ss_dssp             -CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSH
T ss_pred             cCCchHHHhCCCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccH
Confidence            45789999999999999999999999999999998888999999999999999999999987777778888888776667


Q ss_pred             HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021660          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (309)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~  198 (309)
                      +.++..+..+...... +..  ++++++|||+|.+..+.++.|++++++++..+.+|+++|....+.+++.+||..+.|.
T Consensus        91 ~~ir~~i~~~~~~~~~-~~~--~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~  167 (340)
T 1sxj_C           91 DVVRNQIKDFASTRQI-FSK--GFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQ  167 (340)
T ss_dssp             HHHHTHHHHHHHBCCS-SSC--SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             HHHHHHHHHHHhhccc-CCC--CceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEecc
Confidence            7777666666543222 222  5799999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcC-----CcCHHHHHhhhCCCChHHHHHH
Q 021660          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-----QITEEAVYLCTGNPLPKDIEQI  273 (309)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~-----~i~~~~v~~~~~~~~~~~~~~~  273 (309)
                      +++.+++.+++..+++.+++.+++++++.+++.++|++|.+++.++.++....     .++.+.+..+++......++++
T Consensus       168 ~l~~~~~~~~l~~~~~~~~~~i~~~~~~~i~~~s~G~~r~~~~~l~~~~~~~~~~~~~~it~~~v~~~~~~~~~~~i~~l  247 (340)
T 1sxj_C          168 PLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDLKAV  247 (340)
T ss_dssp             CCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTTCCCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCcccccccHHHHHHHhCCCCHHHHHHH
Confidence            99999999999999998999999999999999999999999999998876654     6999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          274 SYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       274 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ++++.+++...++..+.+++.+.|++|.+++..|.
T Consensus       248 ~~~i~~~~~~~al~~l~~l~~~~g~~~~~i~~~l~  282 (340)
T 1sxj_C          248 LKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIV  282 (340)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            99999999999999999999338999999988764

>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=6e-37  Score=263.63  Aligned_cols=267  Identities=40%  Similarity=0.729  Sum_probs=235.0

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      +..||.++|+|..+++++|++..++.+.+++..++.++++|+||+|+|||++++.+++.+.+.++...++.+++....+.
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            45789999999999999999999999999999988878999999999999999999999877766677888888765555


Q ss_pred             HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021660          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (309)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~  198 (309)
                      ..+...+..+....+.  . ..++++++|||+|.+..+.++.|.+++++++.++++|++++....+.+++.+||..+.|.
T Consensus        83 ~~~~~~~~~~~~~~~~--~-~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~  159 (319)
T 2chq_A           83 DVVRHKIKEFARTAPI--G-GAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFK  159 (319)
T ss_dssp             TTSSHHHHHHHHSCCS--S-SCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECC
T ss_pred             HHHHHHHHHHHhcCCC--C-CCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEec
Confidence            5555555554422221  1 125789999999999999999999999998889999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHHHHHh
Q 021660          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (309)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~  278 (309)
                      +++.+++..++..++.+.++.+++++++.+++.++||+|.+++.++.++...+.|+.+++..++.......++++++++.
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            99999999999999999999999999999999999999999999999988777899999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          279 NESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       279 ~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .++...++..+.+++...|.+|..++..+.
T Consensus       240 ~~~~~~a~~~l~~l~~~~g~~~~~i~~~l~  269 (319)
T 2chq_A          240 KGNFMEARELLDRLMVEYGMSGEDIVAQLF  269 (319)
T ss_dssp             HTCHHHHHHHHHHHHHHSCCCHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            999999999999999338999999987764

>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=3.6e-36  Score=259.61  Aligned_cols=267  Identities=43%  Similarity=0.784  Sum_probs=236.9

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      ...||.++|+|.++++++|+++.++.+..++..++.++++|+||+|+|||++++.+++.+.+......++.+++.+..+.
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            35689999999999999999999999999999998888999999999999999999999876666667888888765555


Q ss_pred             HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021660          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (309)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~  198 (309)
                      ..+...+..+....+. ..  .++++|+|||++.++.+.++.|+.++++++.++++|++++....+.+.+.+||..+.|+
T Consensus        91 ~~~~~~~~~~~~~~~~-~~--~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~  167 (327)
T 1iqp_A           91 NVIREKVKEFARTKPI-GG--ASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFR  167 (327)
T ss_dssp             HTTHHHHHHHHHSCCG-GG--CSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECC
T ss_pred             HHHHHHHHHHHhhCCc-CC--CCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEec
Confidence            5555555555432221 11  25789999999999999999999999998889999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHHHHHh
Q 021660          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (309)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~  278 (309)
                      +++.+++..++..++.+.++.+++++++.+++.++||+|.+++.++.+......++.+++...+.......++++++++.
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             cCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          279 NESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       279 ~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .++...++..+++++...|.+|.+++..|.
T Consensus       248 ~~~~~~~~~~~~~ll~~~g~~~~~i~~~l~  277 (327)
T 1iqp_A          248 KGNFLKAREKLREILLKQGLSGEDVLVQMH  277 (327)
T ss_dssp             HTCHHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            999999999999998677999999988764

>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=2.6e-35  Score=256.92  Aligned_cols=274  Identities=38%  Similarity=0.652  Sum_probs=230.7

Q ss_pred             CCCCCCCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC-cccccEEEEec
Q 021660           34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNA  112 (309)
Q Consensus        34 ~~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~  112 (309)
                      ..++.+..||.++|+|..+++++|+++.++.+..++..+..++++|+||||+|||++++.+++.+.+. .....+..+++
T Consensus        18 ~~~~~~~~~~~~k~~p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~   97 (353)
T 1sxj_D           18 AEQSLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA   97 (353)
T ss_dssp             --------CHHHHTCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS
T ss_pred             hhhcccCccHHHhcCCCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcc
Confidence            34455668999999999999999999999999999999887789999999999999999999998532 23456777887


Q ss_pred             CCCcchHHHHHHHHHhhhccccc-------cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccc
Q 021660          113 SDDRGIDVVRQQIQDFASTQSFS-------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKII  185 (309)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~  185 (309)
                      .+..+...+.+.+..+.......       ......+.+|+|||++.+....++.|++++++.+...++|++++....+.
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~  177 (353)
T 1sxj_D           98 SDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRII  177 (353)
T ss_dssp             SSCCCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSC
T ss_pred             ccccchHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCc
Confidence            77556666655555444321110       01112568999999999999999999999999988889999999999999


Q ss_pred             hhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcC------CcCHHHHH
Q 021660          186 PALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ------QITEEAVY  259 (309)
Q Consensus       186 ~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~------~i~~~~v~  259 (309)
                      +.+.+||..+.|.+++.+++..++..++...++.+++++++.+++.++||+|.+++.++.++...+      .|+.++|.
T Consensus       178 ~~l~sR~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~l~~~~~~~~~~~~~~~It~~~v~  257 (353)
T 1sxj_D          178 DPLASQCSKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVE  257 (353)
T ss_dssp             HHHHHHSEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHH
T ss_pred             chhhccCceEEeCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCccCccccHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999998876542      69999999


Q ss_pred             hhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .++.......++++++++.+++...++..+++++ ..|.+|..|+..|.
T Consensus       258 ~~~~~~~~~~~~~l~~~~~~~~~~~a~~~l~~l~-~~g~~~~~i~~~l~  305 (353)
T 1sxj_D          258 ELAGVVPHDILIEIVEKVKSGDFDEIKKYVNTFM-KSGWSAASVVNQLH  305 (353)
T ss_dssp             HHHTCCCSHHHHHHHHHHHSCCHHHHHHHHHHHH-HTSCCCTTHHHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHH-HhCCCHHHHHHHHH
Confidence            9999988889999999999999999999999999 89999998887654

>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=1.1e-34  Score=249.81  Aligned_cols=264  Identities=40%  Similarity=0.682  Sum_probs=232.2

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      +..||.++|+|..+++++|++..++.+.+++..++.++++|+||+|+|||++++.+++.+.+..+...++.+++.+..+.
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            35689999999999999999999999999999988888999999999999999999999877666677888888776666


Q ss_pred             HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021660          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (309)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~  198 (309)
                      ..+...+..+...... +. ...+.+|+|||++.+..+..+.|++++++++..+.+|++++....+.+.+.+||..+.|.
T Consensus        87 ~~i~~~~~~~~~~~~~-~~-~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~  164 (323)
T 1sxj_B           87 DVVRNQIKHFAQKKLH-LP-PGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYS  164 (323)
T ss_dssp             HHHHTHHHHHHHBCCC-CC-TTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             HHHHHHHHHHHhcccc-CC-CCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeec
Confidence            6666666655422111 10 114789999999999999999999999999889999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHHHHHh
Q 021660          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (309)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~  278 (309)
                      +++.+++..++..++...++.+++++++.+++.++|++|.+++.++.++...+.++.+++..+++......+++++++  
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            999999999999999999999999999999999999999999999998876678999999999999988888888887  


Q ss_pred             cCCHHHHHHHHHH-HHHhcCCCHHHHHHHhh
Q 021660          279 NESFADSFKRISE-MKMRKGLALVDIVREVT  308 (309)
Q Consensus       279 ~~~~~~~~~~l~~-~~~~~g~~~~~~~~~l~  308 (309)
                       ++...++..+.+ ++ ..|.++.+++..+.
T Consensus       243 -~~~~~~l~~l~~dl~-~~g~~~~~i~~~l~  271 (323)
T 1sxj_B          243 -SNLEDSIQILRTDLW-KKGYSSIDIVTTSF  271 (323)
T ss_dssp             -SSHHHHHHHHHHTTT-TTTCCHHHHHHHHH
T ss_pred             -CCHHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence             788889999998 88 78999999887663

>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=7.8e-34  Score=244.75  Aligned_cols=254  Identities=27%  Similarity=0.387  Sum_probs=209.8

Q ss_pred             CCCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc
Q 021660           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (309)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (309)
                      ....+|.++|+|.++++++|+++.++.+.+++..+..++ ++++||||+|||++++.+++.+     +..++.+++... 
T Consensus        11 ~~~~~~~~k~rP~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l-----~~~~~~i~~~~~-   84 (324)
T 3u61_B           11 EKEHILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV-----NADMMFVNGSDC-   84 (324)
T ss_dssp             TTCSSHHHHSCCCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT-----TEEEEEEETTTC-
T ss_pred             cccchHHHhhCCCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh-----CCCEEEEccccc-
Confidence            456789999999999999999999999999999888777 6778889999999999999998     677888888763 


Q ss_pred             chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-HHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEE
Q 021660          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (309)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i  195 (309)
                      +...+...+..+....+.  .  ..+++|+|||+|.+. .+.++.|+.+++.++.++++|+++|....+.+++.+||.++
T Consensus        85 ~~~~i~~~~~~~~~~~~~--~--~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~i  160 (324)
T 3u61_B           85 KIDFVRGPLTNFASAASF--D--GRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVI  160 (324)
T ss_dssp             CHHHHHTHHHHHHHBCCC--S--SCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEEE
T ss_pred             CHHHHHHHHHHHHhhccc--C--CCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcEE
Confidence            366666666665544322  1  258899999999999 88999999999999889999999999999999999999999


Q ss_pred             EecCCChHH-------HHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCCh
Q 021660          196 RFAPLEPVH-------VTERLKHVIEAEGLDVTE-GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLP  267 (309)
Q Consensus       196 ~~~~~~~~~-------~~~~l~~~~~~~~~~~~~-~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~  267 (309)
                      .|++|+.++       +..++...+..+++.+++ ++++.+++.++||+|.+++.|+.++ ..+.|+.+++..++..  .
T Consensus       161 ~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a~~~L~~~~-~~~~i~~~~v~~~~~~--~  237 (324)
T 3u61_B          161 TFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSYS-SKGVLDAGILSLVTND--R  237 (324)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHHHHHHHHHG-GGTCBCC------------
T ss_pred             EeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHHHHHHHHHh-ccCCCCHHHHHHHhCC--H
Confidence            999999877       445566667788999998 9999999999999999999999998 5577999999988765  4


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          268 KDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       268 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ..++.+++++..++...++..+.+++ .   +|..|+..|.
T Consensus       238 ~~i~~~~~~~~~~~~~~a~~~~~~l~-~---~~~~i~~~l~  274 (324)
T 3u61_B          238 GAIDDVLESLKNKDVKQLRALAPKYA-A---DYSWFVGKLA  274 (324)
T ss_dssp             --CHHHHHHHHTTCHHHHHHHHHHHS-S---CHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhc-c---CHHHHHHHHH
Confidence            56789999999999999999999999 4   8888887664

>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=2.8e-33  Score=245.92  Aligned_cols=263  Identities=21%  Similarity=0.344  Sum_probs=226.2

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc---------------
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (309)
                      ..+|.++|+|..+++++|+++.++.+..++..++.++ ++|+||+|+|||++++.+++.+.+...               
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            4679999999999999999999999999999887666 899999999999999999999865431               


Q ss_pred             ----cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                          ...+..++.....+.+.+...+..+....     ...++++|+|||+|.+..+..+.|++++++++.++.+|++++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~  157 (373)
T 1jr3_A           83 EQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAP-----ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT  157 (373)
T ss_dssp             HTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCC-----SSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEES
T ss_pred             hccCCCceEEecccccCCHHHHHHHHHHHhhcc-----ccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeC
Confidence                11345555544344445555554433211     112578999999999999999999999999888999999999


Q ss_pred             CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHH
Q 021660          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (309)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v  258 (309)
                      ....+.+.+.+||..+.|.+++.+++..++..++.+.|+.+++++++.+++.++|++|.+.+.++.+...+ +.|+.++|
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            88899999999999999999999999999999999999999999999999999999999999998877544 67999999


Q ss_pred             HhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ..++.......++++++++..++...++..+.++. ..|.++..++..|.
T Consensus       238 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~-~~g~~~~~~l~~l~  286 (373)
T 1jr3_A          238 SAMLGTLDDDQALSLVEAMVEANGERVMALINEAA-ARGIEWEALLVEML  286 (373)
T ss_dssp             HHHTTCCCHHHHHHHHHHHHHTCHHHHHHHHHHHH-HTTCCHHHHHHHHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCcCHHHHHHHHH
Confidence            99999999999999999999999999999999999 89999998876653

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=100.00  E-value=4.1e-33  Score=248.03  Aligned_cols=254  Identities=21%  Similarity=0.315  Sum_probs=212.0

Q ss_pred             cChhhhcCCCCccccccChHHH---HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc
Q 021660           41 SPWVEKYRPQSLADVAAHRDIV---DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~---~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (309)
                      .||.++++|.++++++|+++.+   ..+...+..++.++++|+||||||||++++.+++.+     ...+..+++.. .+
T Consensus        14 ~pla~r~rP~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~-----~~~f~~l~a~~-~~   87 (447)
T 3pvs_A           14 QPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA-----NADVERISAVT-SG   87 (447)
T ss_dssp             CCHHHHTCCCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT-----TCEEEEEETTT-CC
T ss_pred             CChHHHhCCCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh-----CCCeEEEEecc-CC
Confidence            6899999999999999999999   799999999988889999999999999999999997     56677777765 45


Q ss_pred             hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe--cCCcccchhhhcceeEE
Q 021660          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCTRF  195 (309)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~--~~~~~l~~~l~~r~~~i  195 (309)
                      ...++..+........     ...+.+|+|||++.++...++.|+..+++  ....+|++|  +....+.+++.+||.++
T Consensus        88 ~~~ir~~~~~a~~~~~-----~~~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~aL~sR~~v~  160 (447)
T 3pvs_A           88 VKEIREAIERARQNRN-----AGRRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSALLSRARVY  160 (447)
T ss_dssp             HHHHHHHHHHHHHHHH-----TTCCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHHHHTTEEEE
T ss_pred             HHHHHHHHHHHHHhhh-----cCCCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHHHhCceeEE
Confidence            5556655554433211     12578999999999999999999999996  356677666  34457889999999999


Q ss_pred             EecCCChHHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcC-------CcCHHHHHhh
Q 021660          196 RFAPLEPVHVTERLKHVIEA-------EGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-------QITEEAVYLC  261 (309)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~-------~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~-------~i~~~~v~~~  261 (309)
                      .|.+++.+++..++.+.+..       .++.+++++++.+++.++||+|.+++.|+.+...+.       .||.+++.++
T Consensus       161 ~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~a~~~a~~~~~~~~~It~e~v~~~  240 (447)
T 3pvs_A          161 LLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMMADMAEVDDSGKRVLKPELLTEI  240 (447)
T ss_dssp             ECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHHHHHHSCBCTTSCEECCHHHHHHH
T ss_pred             eeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccccCCCCccCHHHHHHH
Confidence            99999999999999999987       557799999999999999999999999999887653       5999999999


Q ss_pred             hCCCC----------hHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          262 TGNPL----------PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       262 ~~~~~----------~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +....          ++.++.+++++.+++++.+++++.+|+ ..|.+|..|.+.|+
T Consensus       241 l~~~~~~~dk~gd~~yd~isal~ksirgsd~daAl~~la~ml-~~Gedp~~i~rrl~  296 (447)
T 3pvs_A          241 AGERSARFDNKGDRFYDLISALHKSVRGSAPDAALYWYARII-TAGGDPLYVARRCL  296 (447)
T ss_dssp             HTCCCCC---CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HTTCCHHHHHHHHH
T ss_pred             HhhhhhccCCccchHHHHHHHHHHHHhCCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            98653          356888999999999999999999999 99999999998875

>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=6.9e-33  Score=241.75  Aligned_cols=265  Identities=27%  Similarity=0.482  Sum_probs=205.1

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHH-hcCCCCeEEEECCCCCcHHHHHHHHHHHHccCccc---------------
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLT-SENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH---------------  104 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~-~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~---------------  104 (309)
                      .+|.++|+|.++++++|++.+++.+.+++ ..++.++++|+||+|+||||+++.+++.+.+...+               
T Consensus         2 ~~w~~kyrP~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~   81 (354)
T 1sxj_E            2 SLWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNR   81 (354)
T ss_dssp             --CTTTTCCCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC--------------
T ss_pred             CcchhccCCCCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccc
Confidence            37999999999999999999999999999 88877789999999999999999999987543321               


Q ss_pred             ---------ccEEEEecCCCcchH--HHHHHHHHhhhccccc----cCC-CCccEEEEEeCCCCCCHHHHHHHHHHHHHh
Q 021660          105 ---------NMILELNASDDRGID--VVRQQIQDFASTQSFS----FGV-KASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (309)
Q Consensus       105 ---------~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~----~~~-~~~~~lliiDe~~~l~~~~~~~l~~~l~~~  168 (309)
                               ..+..++........  .++..+..+.......    ++. ..++++++|||++.+....++.|++.++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~  161 (354)
T 1sxj_E           82 KLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKY  161 (354)
T ss_dssp             ----CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHS
T ss_pred             cceeeeecccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhh
Confidence                     123344433211111  2444455443322210    011 226889999999999999999999999998


Q ss_pred             cCCceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          169 TKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRKALNILQSTH  247 (309)
Q Consensus       169 ~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~l~~i~~~~~g~~r~~~~~l~~~~  247 (309)
                      +.+..+|++|+....+.+.+.+||..+.|.+++.+++..++..++.++|+.++ +++++.+++.++||+|.+++.++.+.
T Consensus       162 ~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~i~~~~~G~~r~a~~~l~~~~  241 (354)
T 1sxj_E          162 SKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMA  241 (354)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHHHHHHHTHHH
T ss_pred             cCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            88899999999999999999999999999999999999999999999999999 99999999999999999999999988


Q ss_pred             hhcC-CcCHHHHHhhhCCCChHHHHHHHHHHhcCCHH----HHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          248 MASQ-QITEEAVYLCTGNPLPKDIEQISYWLLNESFA----DSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       248 ~~~~-~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      .... .|+.+.+  .........++++++++...+..    .+...+.+++ ..|.++.+|+..|.
T Consensus       242 ~~~~~~i~~~~~--~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~l~~l~-~~g~~~~~i~~~l~  304 (354)
T 1sxj_E          242 LNNELALKSSSP--IIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLL-AHCIPANIILKELT  304 (354)
T ss_dssp             HTTTTEECSSCC--CCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHH-TTTCCHHHHHHHHH
T ss_pred             HhCCCCcCcCcC--CCCccHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            7664 5776543  11222345678999998875544    4445566666 78999999988764

>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=9.9e-31  Score=213.13  Aligned_cols=222  Identities=45%  Similarity=0.799  Sum_probs=195.3

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      ...+|.++|+|..+++++|++..++.+..++.....++++|+||+|+|||++++.+++.+...+....++.+++....+.
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            45789999999999999999999999999999887777999999999999999999999877777788888888776666


Q ss_pred             HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021660          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (309)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~  198 (309)
                      ..+...+..+......   ....+.+|+|||++.+.....+.|..+++..+....+|++++....+.+.+.+|+..+.|+
T Consensus        83 ~~~~~~~~~~~~~~~~---~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~  159 (226)
T 2chg_A           83 DVVRHKIKEFARTAPI---GGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFK  159 (226)
T ss_dssp             HHHHHHHHHHHTSCCS---TTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             HHHHHHHHHHhcccCC---CccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecC
Confidence            6666655555433211   1125789999999999999999999999998888899999998888999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhC
Q 021660          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTG  263 (309)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~  263 (309)
                      +++.+++..++..++...+..+++++++.+++.++||+|.+++.++.++..++.|+.+++..+++
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            99999999999999999999999999999999999999999999999998888899999988775

>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=7.3e-28  Score=198.78  Aligned_cols=220  Identities=23%  Similarity=0.389  Sum_probs=178.9

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCccc-------------
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYH-------------  104 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~-------------  104 (309)
                      +..+|.++|+|..+++++|++..++.+..++..+..++ ++|+||+|+|||++++.+++.+......             
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            45789999999999999999999999999998876554 9999999999999999999988543211             


Q ss_pred             ------ccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021660          105 ------NMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       105 ------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                            ..+..+..........+...+..+..     .....++.+|+|||++.+.....+.|+..++..+....+|+++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t  163 (250)
T 1njg_A           89 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQY-----APARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLAT  163 (250)
T ss_dssp             HHTTCCSSEEEEETTCGGGHHHHHHHHHSCCC-----SCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEE
T ss_pred             HhccCCcceEEecCcccccHHHHHHHHHHhhh-----chhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEe
Confidence                  13344444433333333333332211     1112257899999999999999999999999887788899999


Q ss_pred             cCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHH
Q 021660          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEA  257 (309)
Q Consensus       179 ~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~  257 (309)
                      +....+.+.+.+|+..+.+++++.+++.+++..++.+.+..+++++++.+++.++|++|.+.+.++.+...+ +.|+.++
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            988888899999999999999999999999999999999999999999999999999999999999887655 5799999


Q ss_pred             HHhhhC
Q 021660          258 VYLCTG  263 (309)
Q Consensus       258 v~~~~~  263 (309)
                      ++++++
T Consensus       244 v~~~~~  249 (250)
T 1njg_A          244 VSAMLG  249 (250)
T ss_dssp             HHHHSC
T ss_pred             HHHHhC
Confidence            988764

>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=99.96  E-value=3.6e-28  Score=205.88  Aligned_cols=236  Identities=17%  Similarity=0.186  Sum_probs=189.8

Q ss_pred             cChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc-cCcccccEEEEecCC-CcchHHHHHHHHHhhhcccc
Q 021660           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASD-DRGIDVVRQQIQDFASTQSF  134 (309)
Q Consensus        57 g~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  134 (309)
                      |++++++.+.+.++.++.++++|+||||+|||++++.+++.+. +.....++..++... ..+.+.++..+..+...+. 
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~-   79 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPE-   79 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCS-
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhccc-
Confidence            6889999999999988866799999999999999999998642 222355778888764 5677778876666543322 


Q ss_pred             ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHH
Q 021660          135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE  214 (309)
Q Consensus       135 ~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~  214 (309)
                        .  .+++|+||||+|.+..+.++.|++.++++++++++|++|+.+.++.+++++|  .+.|.+++.+++..++.+.+ 
T Consensus        80 --~--~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR--~~~f~~l~~~~i~~~L~~~~-  152 (305)
T 2gno_A           80 --L--YTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR--VFRVVVNVPKEFRDLVKEKI-  152 (305)
T ss_dssp             --S--SSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT--SEEEECCCCHHHHHHHHHHH-
T ss_pred             --c--CCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce--eEeCCCCCHHHHHHHHHHHh-
Confidence              1  2589999999999999999999999999999999999999999999999999  99999999999999999887 


Q ss_pred             HcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh--------cCCcCHHHHHhhhCCCChH--HHHHHHHHHhcCCHHH
Q 021660          215 AEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA--------SQQITEEAVYLCTGNPLPK--DIEQISYWLLNESFAD  284 (309)
Q Consensus       215 ~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~--------~~~i~~~~v~~~~~~~~~~--~~~~~~~~~~~~~~~~  284 (309)
                          .++++++    +.+.|++|.+++.++.....        ....+.++|...+......  +++++++++..++...
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                3566655    55799999999888532210        0112467788888777644  8999999999999999


Q ss_pred             HHHHHHHHHHh-cCCCHHHHHHHhh
Q 021660          285 SFKRISEMKMR-KGLALVDIVREVT  308 (309)
Q Consensus       285 ~~~~l~~~~~~-~g~~~~~~~~~l~  308 (309)
                      ++..+++++.. .|.+|.+++..++
T Consensus       225 a~~~~~~l~~~~~g~~~~~~i~~~~  249 (305)
T 2gno_A          225 FFALFDQVTNTITGKDAFLLIQRLT  249 (305)
T ss_dssp             HHHHHHHHHHHSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCCHHHHHHHHH
Confidence            99999999933 8999988887765

>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=2.3e-27  Score=215.97  Aligned_cols=241  Identities=24%  Similarity=0.387  Sum_probs=184.1

Q ss_pred             CCCCCCCCcChhhhcCCCCccccccChHHHHHHHHHHhcC-----------------CCCeEEEECCCCCcHHHHHHHHH
Q 021660           33 GTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN-----------------RLPHLLLYGPPGTGKTSTILAVA   95 (309)
Q Consensus        33 ~~~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~-----------------~~~~~ll~G~~G~GKT~l~~~l~   95 (309)
                      ..+......+|.++|+|.++++++|++..++.+..++...                 ..+.++|+||||+|||++|+.++
T Consensus        19 ~~~~~~~~~lW~ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la   98 (516)
T 1sxj_A           19 QGPHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVA   98 (516)
T ss_dssp             -------CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHH
T ss_pred             cCCCCccCCCcccccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHH
Confidence            3344556788999999999999999999999999998751                 23469999999999999999999


Q ss_pred             HHHccCcccccEEEEecCCCcchHHHHHHHHHhhhcccc--cc-------CCCCccEEEEEeCCCCCCHHHH---HHHHH
Q 021660           96 RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF--SF-------GVKASVKLVLLDEADAMTKDAQ---FALRR  163 (309)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-------~~~~~~~lliiDe~~~l~~~~~---~~l~~  163 (309)
                      +++     +..++.+++........+...+.........  .+       .....+.+|+|||+|.+....+   +.|..
T Consensus        99 ~~l-----~~~~i~in~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~  173 (516)
T 1sxj_A           99 QEL-----GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQ  173 (516)
T ss_dssp             HHT-----TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHH
T ss_pred             HHc-----CCCEEEEeCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHH
Confidence            998     6778888888765554444333322211110  01       1123678999999999976443   67777


Q ss_pred             HHHHhcCCceEEEEecCCc-ccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHH
Q 021660          164 VIEKYTKNTRFALICNQVN-KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNI  242 (309)
Q Consensus       164 ~l~~~~~~~~~i~~~~~~~-~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~  242 (309)
                      +++..  ..++|++++... ...+.+.+|+..+.|.+|+.+++.+++..++.++++.+++++++.|++.++||+|.+++.
T Consensus       174 ~l~~~--~~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~~l~~la~~s~GdiR~~i~~  251 (516)
T 1sxj_A          174 FCRKT--STPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINL  251 (516)
T ss_dssp             HHHHC--SSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHhc--CCCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHH
Confidence            77753  455777776543 344568889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCcCHHHHHhhhC---CCChHHHHHHHHHHhcC
Q 021660          243 LQSTHMASQQITEEAVYLCTG---NPLPKDIEQISYWLLNE  280 (309)
Q Consensus       243 l~~~~~~~~~i~~~~v~~~~~---~~~~~~~~~~~~~~~~~  280 (309)
                      |+.++...+.|+.+++..++.   ......++++++.+..+
T Consensus       252 L~~~~~~~~~It~~~v~~~~~~~~~~~~~~~f~~~~~il~~  292 (516)
T 1sxj_A          252 LSTISTTTKTINHENINEISKAWEKNIALKPFDIAHKMLDG  292 (516)
T ss_dssp             HTHHHHHSSCCCTTHHHHHHHHHHTTTTSHHHHHHHHHTBG
T ss_pred             HHHHHhcCCCCchHHHHHHHHhhccCCCCCHHHHHHHHhcC
Confidence            999888778899998887765   44455677888887763

>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=99.94  E-value=4.3e-26  Score=196.72  Aligned_cols=223  Identities=22%  Similarity=0.291  Sum_probs=175.1

Q ss_pred             ChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcc-------------------cccEEEEecC---C
Q 021660           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------------HNMILELNAS---D  114 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~-------------------~~~~~~~~~~---~  114 (309)
                      +++..+.+.+.+..++.++ ++|+||+|+|||++++.+++.+.+...                   ..++..++..   .
T Consensus         7 ~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   86 (334)
T 1a5t_A            7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKN   86 (334)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCS
T ss_pred             hHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCC
Confidence            5688899999999988877 999999999999999999999976542                   1456666664   3


Q ss_pred             CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeE
Q 021660          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (309)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~  194 (309)
                      ..+.+.++..+..+...+.     ..+++|+||||+|.++.+..+.|++.+++++.++.+|++++...++++++++||..
T Consensus        87 ~~~i~~ir~l~~~~~~~~~-----~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~  161 (334)
T 1a5t_A           87 TLGVDAVREVTEKLNEHAR-----LGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRL  161 (334)
T ss_dssp             SBCHHHHHHHHHHTTSCCT-----TSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             CCCHHHHHHHHHHHhhccc-----cCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhccee
Confidence            4566677766555443221     12689999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhCCCChHHHHHHH
Q 021660          195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQIS  274 (309)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~~~  274 (309)
                      +.|.+++.+++.+++..++     .+++++++.+++.++|++|.+++.++........+..+.+...+..   ..+..++
T Consensus       162 ~~~~~~~~~~~~~~L~~~~-----~~~~~~~~~l~~~s~G~~r~a~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~~~~  233 (334)
T 1a5t_A          162 HYLAPPPEQYAVTWLSREV-----TMSQDALLAALRLSAGSPGAALALFQGDNWQARETLCQALAYSVPS---GDWYSLL  233 (334)
T ss_dssp             EECCCCCHHHHHHHHHHHC-----CCCHHHHHHHHHHTTTCHHHHHHTTSSHHHHHHHHHHHHHHHHHHH---CCCGGGH
T ss_pred             eeCCCCCHHHHHHHHHHhc-----CCCHHHHHHHHHHcCCCHHHHHHHhccchHHHHHHHHHHHHHHHhC---hHHHHHH
Confidence            9999999999999998764     6899999999999999999999998765543333445555555431   1223455


Q ss_pred             HHHhcCCHHHHHHHHHHHH
Q 021660          275 YWLLNESFADSFKRISEMK  293 (309)
Q Consensus       275 ~~~~~~~~~~~~~~l~~~~  293 (309)
                      +.+.+.+....+..+..++
T Consensus       234 ~~l~~~~~~~~l~~l~~~~  252 (334)
T 1a5t_A          234 AALNHEQAPARLHWLATLL  252 (334)
T ss_dssp             HHHCSTTHHHHHHHHHHHH
T ss_pred             HHHhcccHHHHHHHHHHHH
Confidence            6666667777666665543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.94  E-value=2.2e-25  Score=193.05  Aligned_cols=209  Identities=15%  Similarity=0.205  Sum_probs=166.8

Q ss_pred             CCCcChhhhcCCCCccccccChHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      .....|.++|+|.++++++|++..++.+..++..     ...++++|+||||||||++|+.+++.+     ...++.+++
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            4556799999999999999999999999888864     334569999999999999999999997     556777777


Q ss_pred             CCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCceE
Q 021660          113 SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRF  174 (309)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~~  174 (309)
                      ........+...+...           ..+.+|+|||++.++.+.++.|+..+++..                  +...+
T Consensus        89 ~~~~~~~~~~~~~~~~-----------~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (338)
T 3pfi_A           89 PMIEKSGDLAAILTNL-----------SEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTL  157 (338)
T ss_dssp             GGCCSHHHHHHHHHTC-----------CTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEE
T ss_pred             hhccchhHHHHHHHhc-----------cCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEE
Confidence            6554444444433321           157899999999999999999999998642                  12578


Q ss_pred             EEEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh----
Q 021660          175 ALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----  249 (309)
Q Consensus       175 i~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~----  249 (309)
                      |++||....+.+.+.+|+ ..+.|++|+.+++..++...+...+..+++++++.+++.++|++|.+.+.++.+...    
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            888898888999999999 899999999999999999999999999999999999999999999999999886432    


Q ss_pred             -cCCcCHHHHHhhh
Q 021660          250 -SQQITEEAVYLCT  262 (309)
Q Consensus       250 -~~~i~~~~v~~~~  262 (309)
                       .+.|+.+++..++
T Consensus       238 ~~~~i~~~~~~~~~  251 (338)
T 3pfi_A          238 DEEIITEKRANEAL  251 (338)
T ss_dssp             TCSEECHHHHHHHH
T ss_pred             cCCccCHHHHHHHH
Confidence             2458888887665

>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=99.94  E-value=3.9e-26  Score=198.02  Aligned_cols=232  Identities=12%  Similarity=0.079  Sum_probs=192.1

Q ss_pred             HHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccc-cEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEE
Q 021660           66 DRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHN-MILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL  144 (309)
Q Consensus        66 ~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  144 (309)
                      .+.+++.-.+.++|+||+|+||++.+..+++.+.+.++.. .++.++.  .   ..+.+.+.... ..+. ++   ++++
T Consensus        10 ~~~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~--~---~~~~~l~~~~~-~~pl-f~---~~kv   79 (343)
T 1jr3_D           10 RAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP--N---TDWNAIFSLCQ-AMSL-FA---SRQT   79 (343)
T ss_dssp             HHHHHHCCCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT--T---CCHHHHHHHHH-HHHH-CC---SCEE
T ss_pred             HHHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC--C---CCHHHHHHHhc-CcCC-cc---CCeE
Confidence            3344433445599999999999999999999886554322 3334432  2   22333333322 2121 22   5899


Q ss_pred             EEEeCCCC-CCHHHHHHHHHHHHHhcCCceEEEEecCC------cccchhhhcceeEEEecCCChHHHHHHHHHHHHHcC
Q 021660          145 VLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQV------NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEG  217 (309)
Q Consensus       145 liiDe~~~-l~~~~~~~l~~~l~~~~~~~~~i~~~~~~------~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~  217 (309)
                      ++|||++. ++.+..+.|.++++++++++++|++++..      .++.+++.+||.++.|.+++.+++..|+.++++++|
T Consensus        80 vii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~~~~g  159 (343)
T 1jr3_D           80 LLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQLN  159 (343)
T ss_dssp             EEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHHHHcC
Confidence            99999999 99888999999999999999999998753      467889999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc--CCcCHHHHHhhhCCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 021660          218 LDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMR  295 (309)
Q Consensus       218 ~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~--~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  295 (309)
                      +.+++++++.+++.++||++.+.+.|++++.+.  +.||.++|...+.......++++++++.+++...++..+++++ .
T Consensus       160 ~~i~~~a~~~l~~~~~gdl~~~~~elekl~l~~~~~~It~e~V~~~~~~~~~~~if~l~~ai~~~d~~~al~~l~~l~-~  238 (343)
T 1jr3_D          160 LELDDAANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHILQQLR-L  238 (343)
T ss_dssp             CEECHHHHHHHHHSSTTCHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHCCCCHHHHHHHHTTSCHHHHHHHHTSST-T
T ss_pred             CCCCHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHH-H
Confidence            999999999999999999999999999999863  5799999999998888889999999999999999999999999 9


Q ss_pred             cCCCHHHHHHHhh
Q 021660          296 KGLALVDIVREVT  308 (309)
Q Consensus       296 ~g~~~~~~~~~l~  308 (309)
                      .|.+|..+++.|.
T Consensus       239 ~g~~~~~il~~l~  251 (343)
T 1jr3_D          239 EGSEPVILLRTLQ  251 (343)
T ss_dssp             TTCCHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            9999999988764

>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=99.93  E-value=2.8e-24  Score=185.02  Aligned_cols=205  Identities=19%  Similarity=0.240  Sum_probs=165.4

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (309)
                      |.++|+|.++++++|++..+..+..++..     ....+++|+||+|||||++++.+++.+     +..+..+++.....
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            45789999999999999999988888753     233559999999999999999999998     45566677665444


Q ss_pred             hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCceEEEEec
Q 021660          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALICN  179 (309)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~~i~~~~  179 (309)
                      ...+...+..          ....+.+|+|||++.+....++.|+.++++..                  +...+|++++
T Consensus        77 ~~~l~~~l~~----------~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~  146 (324)
T 1hqc_A           77 PGDLAAILAN----------SLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATT  146 (324)
T ss_dssp             HHHHHHHHTT----------TCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEES
T ss_pred             hHHHHHHHHH----------hccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCC
Confidence            3333332221          01257799999999999999999999999753                  2467888888


Q ss_pred             CCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-----CCc
Q 021660          180 QVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQI  253 (309)
Q Consensus       180 ~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-----~~i  253 (309)
                      ....+.+.+.+|+ ..+.+.+|+.+++..++...+...+..+++++++.++++++|++|.+.+.++.+...+     +.+
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            8888888999999 7999999999999999999999989999999999999999999999999998876543     368


Q ss_pred             CHHHHHhhh
Q 021660          254 TEEAVYLCT  262 (309)
Q Consensus       254 ~~~~v~~~~  262 (309)
                      +.+++..++
T Consensus       227 ~~~~~~~~~  235 (324)
T 1hqc_A          227 TRERALEAL  235 (324)
T ss_dssp             CHHHHHHHH
T ss_pred             CHHHHHHHH
Confidence            888876654

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.93  E-value=2.5e-24  Score=188.54  Aligned_cols=226  Identities=16%  Similarity=0.207  Sum_probs=166.3

Q ss_pred             CCCCCCcChhhhcCCCC-ccccccChHHHHH---HHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHccCcccccEE
Q 021660           35 PPDIKASPWVEKYRPQS-LADVAAHRDIVDT---IDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (309)
Q Consensus        35 ~~~~~~~~~~~~~~p~~-~~~~ig~~~~~~~---l~~~~~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (309)
                      .+......+.++++|.. |++++|++..+..   +...+..+..+  +++|+||||+|||++++.+++.+.+.   ..++
T Consensus        25 ~~~~~~l~l~~~~~p~~~~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~---~~~~  101 (368)
T 3uk6_A           25 HSHIRGLGLDDALEPRQASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD---TPFT  101 (368)
T ss_dssp             CTTCCSCCBCTTSCBCSEETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSS---CCEE
T ss_pred             hhhhhccCcccccCcCcchhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhccc---CCcc
Confidence            33445566788999998 9999999999776   45555665544  69999999999999999999998432   2333


Q ss_pred             EEecCC-----C--------------------------------------------------cchHHHHHHHHHhhhccc
Q 021660          109 ELNASD-----D--------------------------------------------------RGIDVVRQQIQDFASTQS  133 (309)
Q Consensus       109 ~~~~~~-----~--------------------------------------------------~~~~~~~~~~~~~~~~~~  133 (309)
                      .+++..     .                                                  .....++..+........
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~  181 (368)
T 3uk6_A          102 AIAGSEIFSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWR  181 (368)
T ss_dssp             EEEGGGGSCSSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHH
T ss_pred             cccchhhhhcccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhh
Confidence            333211     0                                                  001222222222221111


Q ss_pred             cccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec------------CCcccchhhhcceeEEEecCCC
Q 021660          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN------------QVNKIIPALQSRCTRFRFAPLE  201 (309)
Q Consensus       134 ~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~------------~~~~l~~~l~~r~~~i~~~~~~  201 (309)
                      ..-.....+.+|+|||++.+..+.++.|++.+++.... .++++++            ....+++++.+||..+.|++|+
T Consensus       182 ~~g~~~~~~~vl~IDEi~~l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~  260 (368)
T 3uk6_A          182 EEGKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYS  260 (368)
T ss_dssp             HHTC---CBCEEEEESGGGSBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCC
T ss_pred             hhccccccCceEEEhhccccChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCC
Confidence            00000002469999999999999999999999876644 4444553            3556889999999889999999


Q ss_pred             hHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhc-CCHHHHHHHHHHHHhhc-----CCcCHHHHHhhhCC
Q 021660          202 PVHVTERLKHVIEAEGLDVTEGGLAALVRLCN-GDMRKALNILQSTHMAS-----QQITEEAVYLCTGN  264 (309)
Q Consensus       202 ~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~-g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~~  264 (309)
                      .+++..+++.++...+..+++++++.+++.+. |++|.++++|+.+...+     ..|+.+++..++..
T Consensus       261 ~~e~~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~~~It~~~v~~a~~~  329 (368)
T 3uk6_A          261 EKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSL  329 (368)
T ss_dssp             HHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999998 99999999998877643     57999999988864

>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=99.92  E-value=2.1e-23  Score=171.72  Aligned_cols=210  Identities=14%  Similarity=0.210  Sum_probs=161.0

Q ss_pred             CCcChhhhcCC-CCcccccc---ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           39 KASPWVEKYRP-QSLADVAA---HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        39 ~~~~~~~~~~p-~~~~~~ig---~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      ...+|..+++| .+|+++++   +...++.+..+.......+++|+||||+|||++++.+++.+...+..  +..+++..
T Consensus        13 ~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~--~~~~~~~~   90 (242)
T 3bos_A           13 LQLSLPVHLPDDETFTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANELERR--SFYIPLGI   90 (242)
T ss_dssp             CCCEEECCCCTTCSTTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCC--EEEEEGGG
T ss_pred             hhcCCCCCCCCCCChhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCe--EEEEEHHH
Confidence            34568888888 68999997   35788888888887666779999999999999999999998655433  33344332


Q ss_pred             CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH--HHHHHHHHHHhcCC-c-eEEEEecCCc----ccch
Q 021660          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA--QFALRRVIEKYTKN-T-RFALICNQVN----KIIP  186 (309)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~--~~~l~~~l~~~~~~-~-~~i~~~~~~~----~l~~  186 (309)
                      ...  .+    ....       ....++.+|+|||++.+....  ++.|+.+++..... . .+|++++...    ...+
T Consensus        91 ~~~--~~----~~~~-------~~~~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~  157 (242)
T 3bos_A           91 HAS--IS----TALL-------EGLEQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLP  157 (242)
T ss_dssp             GGG--SC----GGGG-------TTGGGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCH
T ss_pred             HHH--HH----HHHH-------HhccCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhh
Confidence            111  00    0000       111256899999999987655  77888888865432 2 4777776443    4458


Q ss_pred             hhhcce---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc----CCcCHHHHH
Q 021660          187 ALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVY  259 (309)
Q Consensus       187 ~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~----~~i~~~~v~  259 (309)
                      .+.+|+   ..+.|++|+.+++.+++..++...++.+++++++.+++.++||+|.+.+.++.+...+    +.||.+++.
T Consensus       158 ~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~a~~~~~~It~~~v~  237 (242)
T 3bos_A          158 DLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRMARDLRTLFDVLDRLDKASMVHQRKLTIPFVK  237 (242)
T ss_dssp             HHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCCCHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHH
T ss_pred             hhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            899998   8999999999999999999999999999999999999999999999999998877543    569999988


Q ss_pred             hhhC
Q 021660          260 LCTG  263 (309)
Q Consensus       260 ~~~~  263 (309)
                      +++.
T Consensus       238 ~~l~  241 (242)
T 3bos_A          238 EMLR  241 (242)
T ss_dssp             HHHT
T ss_pred             HHhh
Confidence            8764

>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=99.91  E-value=2.6e-22  Score=173.05  Aligned_cols=208  Identities=17%  Similarity=0.227  Sum_probs=158.3

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcC-----CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN-----RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~-----~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      ...|.++++|.++++++|++.+++.+...+..+     ...+++|+||||+||||+++.++..+.     ..+...+...
T Consensus        12 ~~~~~~~lr~~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~-----~~~~~~sg~~   86 (334)
T 1in4_A           12 YDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ-----TNIHVTSGPV   86 (334)
T ss_dssp             -----CTTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT-----CCEEEEETTT
T ss_pred             HHHHHHHcCCccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhC-----CCEEEEechH
Confidence            345899999999999999999999888777542     335699999999999999999999983     3333334333


Q ss_pred             CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCceEEE
Q 021660          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFAL  176 (309)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~~i~  176 (309)
                      ......+...+...           ....+++|||++.+.+...+.|+..++...                  +...++.
T Consensus        87 ~~~~~~l~~~~~~~-----------~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~  155 (334)
T 1in4_A           87 LVKQGDMAAILTSL-----------ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVG  155 (334)
T ss_dssp             CCSHHHHHHHHHHC-----------CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEE
T ss_pred             hcCHHHHHHHHHHc-----------cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEE
Confidence            22233332222111           135799999999999877788877776431                  1234556


Q ss_pred             EecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-----
Q 021660          177 ICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----  250 (309)
Q Consensus       177 ~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-----  250 (309)
                      +++....+.+.+++|| ..+.|++++.+++.+++++.++..++.++++++..|++++.|++|.+.++|+.+...+     
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            6788888999999999 5789999999999999999999999999999999999999999999999998765332     


Q ss_pred             CCcCHHHHHhhhC
Q 021660          251 QQITEEAVYLCTG  263 (309)
Q Consensus       251 ~~i~~~~v~~~~~  263 (309)
                      +.||.+++..++.
T Consensus       236 ~~It~~~v~~al~  248 (334)
T 1in4_A          236 DRINTDIVLKTME  248 (334)
T ss_dssp             SSBCHHHHHHHHH
T ss_pred             CCcCHHHHHHHHH
Confidence            5799998888774

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.90  E-value=8.2e-22  Score=173.54  Aligned_cols=242  Identities=17%  Similarity=0.196  Sum_probs=165.9

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      .|.++++|..|++++|++.+++.+..++..            ....++||+||||||||++|+++++++     +..++.
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            588899999999999999999999988731            223569999999999999999999997     677888


Q ss_pred             EecCCCcch------HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-----------HHHHHHHHHHHHHh----
Q 021660          110 LNASDDRGI------DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY----  168 (309)
Q Consensus       110 ~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-----------~~~~~~l~~~l~~~----  168 (309)
                      +++....+.      ..+...+.....         ..+.+|+|||+|.+.           ...+..|+..++..    
T Consensus       179 v~~~~l~~~~~g~~~~~~~~~~~~a~~---------~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  249 (389)
T 3vfd_A          179 ISAASLTSKYVGEGEKLVRALFAVARE---------LQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAG  249 (389)
T ss_dssp             ECSCCC-------CHHHHHHHHHHHHH---------SSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC---
T ss_pred             eeHHHhhccccchHHHHHHHHHHHHHh---------cCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccC
Confidence            887653221      112222222211         146899999999883           23355677777644    


Q ss_pred             cCCceEEEEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH-HH
Q 021660          169 TKNTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ-ST  246 (309)
Q Consensus       169 ~~~~~~i~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~-~~  246 (309)
                      +...++|+++|....+.+++.+|| ..+.++.|+.++...++..++...+..++++.+..+++.+.|..+..+..|. .+
T Consensus       250 ~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L~~~a  329 (389)
T 3vfd_A          250 DDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDA  329 (389)
T ss_dssp             --CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             CCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            235677888899999999999999 6799999999999999999999999999999999999999998886665553 33


Q ss_pred             Hhhc-CCcCHHHHHhhh----CCCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcC
Q 021660          247 HMAS-QQITEEAVYLCT----GNPLPKDIEQISYWLLNESFADSFKRISEMKMRKG  297 (309)
Q Consensus       247 ~~~~-~~i~~~~v~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  297 (309)
                      ...+ ..+....+....    ......++...+..+........+..+.+|...-|
T Consensus       330 ~~~~~rel~~~~~~~~~~~~~~~i~~~d~~~al~~~~~s~~~~~l~~~~~~~~~~g  385 (389)
T 3vfd_A          330 ALGPIRELKPEQVKNMSASEMRNIRLSDFTESLKKIKRSVSPQTLEAYIRWNKDFG  385 (389)
T ss_dssp             TTHHHHTSCCC---CCSSSCCCCCCHHHHHHHHHHCCCSSCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHhhhhhhhhccchhhcCCcCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhC
Confidence            3221 111111111111    11223333344444444434456666777764434

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.89  E-value=7.7e-22  Score=173.68  Aligned_cols=217  Identities=20%  Similarity=0.269  Sum_probs=160.9

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhc----CCCCeEEEECCCCCcHHHHHHHHHHHHccC----cccccEEEEecC
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNAS  113 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~----~~~~~~~~~~~~  113 (309)
                      +|..+|.|   ++++|++..++.+..++..    ....+++|+||||+|||++++.+++.+...    +....++.+++.
T Consensus        11 ~l~~~~~p---~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~   87 (387)
T 2v1u_A           11 VLLPDYVP---DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNAR   87 (387)
T ss_dssp             HHSTTCCC---SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETT
T ss_pred             hcCCccCC---CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECC
Confidence            35556666   7799999999999998853    344569999999999999999999987432    225667778876


Q ss_pred             CCcchHHHHHHH-------------------HHhhhccccccCCCCccEEEEEeCCCCCCHH--HHHHHHHHHHHh----
Q 021660          114 DDRGIDVVRQQI-------------------QDFASTQSFSFGVKASVKLVLLDEADAMTKD--AQFALRRVIEKY----  168 (309)
Q Consensus       114 ~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--~~~~l~~~l~~~----  168 (309)
                      .......+...+                   ..+...    +.....+.+|+|||++.+...  .++.|..+++..    
T Consensus        88 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~----l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~  163 (387)
T 2v1u_A           88 HRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKR----LSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELG  163 (387)
T ss_dssp             TSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHH----HTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-
T ss_pred             cCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHH----HhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcC
Confidence            543322211111                   111110    111124779999999999766  677788888755    


Q ss_pred             -cCCceEEEEecCC---cccchhhhcce--eEEEecCCChHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHhc---CCHH
Q 021660          169 -TKNTRFALICNQV---NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVRLCN---GDMR  237 (309)
Q Consensus       169 -~~~~~~i~~~~~~---~~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~l~~i~~~~~---g~~r  237 (309)
                       +....+|++++..   ..+.+.+.+|+  ..+.|++++.+++..++..++..  .+..+++++++.+++.++   |++|
T Consensus       164 ~~~~~~~I~~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r  243 (387)
T 2v1u_A          164 DRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDAR  243 (387)
T ss_dssp             ----CEEEEECSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHH
T ss_pred             CCceEEEEEEECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHH
Confidence             4466788888776   56788899998  68999999999999999999876  467889999999999998   9999


Q ss_pred             HHHHHHHHHHhhc-----CCcCHHHHHhhhCCC
Q 021660          238 KALNILQSTHMAS-----QQITEEAVYLCTGNP  265 (309)
Q Consensus       238 ~~~~~l~~~~~~~-----~~i~~~~v~~~~~~~  265 (309)
                      .+++.++.+...+     ..|+.+++..++...
T Consensus       244 ~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~~~  276 (387)
T 2v1u_A          244 RALDLLRVAGEIAERRREERVRREHVYSARAEI  276 (387)
T ss_dssp             HHHHHHHHHHHHHHHTTCSCBCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence            9999998877543     569999988877544

>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=99.89  E-value=1.4e-21  Score=175.30  Aligned_cols=123  Identities=17%  Similarity=0.231  Sum_probs=109.1

Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe---------cC----CcccchhhhcceeEEEecCCChHHHHHHH
Q 021660          143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC---------NQ----VNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (309)
Q Consensus       143 ~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~---------~~----~~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (309)
                      +|++|||++.+..+.++.|++.+++++.. .+|+.+         +.    +..+++++++||..+.|++++.+++.++|
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            69999999999999999999999998877 677677         43    66888999999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc-----CCcCHHHHHhhhCCCC
Q 021660          210 KHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS-----QQITEEAVYLCTGNPL  266 (309)
Q Consensus       210 ~~~~~~~~~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~~~~  266 (309)
                      +.++..+++.++++++..+++.+ .|++|.++++++.+...+     +.|+.++|..++....
T Consensus       376 ~~~~~~~~~~~~~~~~~~i~~~a~~g~~r~a~~ll~~a~~~A~~~~~~~v~~~~v~~~~~~~~  438 (456)
T 2c9o_A          376 KIRAQTEGINISEEALNHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFY  438 (456)
T ss_dssp             HHHHHHHTCCBCHHHHHHHHHHHHHSCHHHHHHTHHHHHHHHHHTTCSSBCHHHHHHHHHHSC
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhhcCCCccCHHHHHHHHHHhc
Confidence            99999999999999999999999 999999999998774332     5799999998876543

>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=99.89  E-value=2.2e-21  Score=166.45  Aligned_cols=196  Identities=16%  Similarity=0.199  Sum_probs=145.9

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHh----------c-C-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTS----------E-N-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~----------~-~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      .|...+.+..|++++|++.+++.+..++.          . . ...+++|+||||||||++|+++++++     +..++.
T Consensus         7 ~~~~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~-----~~~~~~   81 (322)
T 3eie_A            7 AILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA-----NSTFFS   81 (322)
T ss_dssp             CSEEECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH-----TCEEEE
T ss_pred             ceeecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH-----CCCEEE
Confidence            36678888899999999999999998872          1 1 23359999999999999999999998     566777


Q ss_pred             EecCCC--cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHh---cCCce
Q 021660          110 LNASDD--RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY---TKNTR  173 (309)
Q Consensus       110 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~---~~~~~  173 (309)
                      +++...  .........+........     ...+.+|+|||+|.+..           ...+.++..++..   .....
T Consensus        82 v~~~~l~~~~~g~~~~~~~~~f~~a~-----~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~  156 (322)
T 3eie_A           82 VSSSDLVSKWMGESEKLVKQLFAMAR-----ENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVL  156 (322)
T ss_dssp             EEHHHHHTTTGGGHHHHHHHHHHHHH-----HTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEE
T ss_pred             EchHHHhhcccchHHHHHHHHHHHHH-----hcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceE
Confidence            776431  111112222222221111     11568999999998864           2356777777754   34556


Q ss_pred             EEEEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q 021660          174 FALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTH  247 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~  247 (309)
                      +|++||.+..+++++.+|| ..+.++.|+.++..++++.++...+..+++..+..+++.+.| +.+.+.++++.+.
T Consensus       157 vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~~a~  232 (322)
T 3eie_A          157 VLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDAL  232 (322)
T ss_dssp             EEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHHHHT
T ss_pred             EEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            7778899999999999999 789999999999999999999888888899999999999987 5556666665554

>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=99.89  E-value=3.1e-21  Score=170.02  Aligned_cols=220  Identities=18%  Similarity=0.223  Sum_probs=161.6

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhc----CCCC--eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~----~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (309)
                      ..+|..+|.|   ++++|++..++.+..++..    ....  +++|+||+|+|||++++.+++.+.... ...++.+++.
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            3457778887   6799999999988888765    3333  799999999999999999999985442 3566777765


Q ss_pred             CCcchHHH-HHHHHHhhhcccc-c-------------cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc----CCceE
Q 021660          114 DDRGIDVV-RQQIQDFASTQSF-S-------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT----KNTRF  174 (309)
Q Consensus       114 ~~~~~~~~-~~~~~~~~~~~~~-~-------------~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~----~~~~~  174 (309)
                      .......+ ...+..+...... .             +....++.+|+|||++.+.......|..+++..+    ....+
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 2212211100000 0             0001247799999999998888889988887654    37788


Q ss_pred             EEEecCC---cccchhhhccee--EEEecCCChHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHh---------cCCHHH
Q 021660          175 ALICNQV---NKIIPALQSRCT--RFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLC---------NGDMRK  238 (309)
Q Consensus       175 i~~~~~~---~~l~~~l~~r~~--~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~l~~i~~~~---------~g~~r~  238 (309)
                      |++++..   ..+.+.+.+|+.  .+.|+|++.+++.+++..++...  ...+++++++.+++.+         +|++|.
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            8888876   456777888874  79999999999999999998762  3478999999999999         899999


Q ss_pred             HHHHHHHHHhhc-----CCcCHHHHHhhhC
Q 021660          239 ALNILQSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       239 ~~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                      +++.++.+...+     ..++.+++..++.
T Consensus       243 ~~~~l~~a~~~a~~~~~~~i~~~~v~~~~~  272 (389)
T 1fnn_A          243 AIDILYRSAYAAQQNGRKHIAPEDVRKSSK  272 (389)
T ss_dssp             HHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCCcCHHHHHHHHH
Confidence            999998877532     5688888876654

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.88  E-value=6.8e-21  Score=161.79  Aligned_cols=192  Identities=18%  Similarity=0.225  Sum_probs=146.1

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      .|.+++.+..|++++|++..++.+..++..            ....+++|+||||||||++++.+++.+     ...++.
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            366788899999999999999999988743            123459999999999999999999997     566777


Q ss_pred             EecCCCcc------hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-----------HHHHHHHHHHHHHhcC--
Q 021660          110 LNASDDRG------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKYTK--  170 (309)
Q Consensus       110 ~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-----------~~~~~~l~~~l~~~~~--  170 (309)
                      +++.....      ...+...+.....         ..+.+|+|||++.+.           ......|+..++..+.  
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      1122222222211         157899999998874           2345567777776542  


Q ss_pred             ---CceEEEEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHH-HHHHH
Q 021660          171 ---NTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKAL-NILQS  245 (309)
Q Consensus       171 ---~~~~i~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~-~~l~~  245 (309)
                         ...+|++||.+..+.+++.+|| ..+.++.|+.++...++..++...+..++++.++.+++.+.|..+..+ .+++.
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               4567778898889999999999 788999999999999999999888888999999999999999887555 44454


Q ss_pred             HH
Q 021660          246 TH  247 (309)
Q Consensus       246 ~~  247 (309)
                      ++
T Consensus       236 a~  237 (297)
T 3b9p_A          236 AA  237 (297)
T ss_dssp             HT
T ss_pred             HH
Confidence            43

>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=99.88  E-value=1.4e-20  Score=163.28  Aligned_cols=192  Identities=18%  Similarity=0.208  Sum_probs=140.0

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHhc-----------CC-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~~-----------~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      +...+.+..|++++|++.+++.+..++..           .. ..+++|+||||||||++|+++++.+     ...++.+
T Consensus        41 ~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~-----~~~~~~v  115 (355)
T 2qp9_X           41 ILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA-----NSTFFSV  115 (355)
T ss_dssp             ------CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH-----TCEEEEE
T ss_pred             hcccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh-----CCCEEEe
Confidence            55667788999999999999999988731           12 2349999999999999999999998     5566666


Q ss_pred             ecCCC------cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH-----------HHHHHHHHHHHh---cC
Q 021660          111 NASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKY---TK  170 (309)
Q Consensus       111 ~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~-----------~~~~l~~~l~~~---~~  170 (309)
                      ++...      .....+...+.....         ..+.+|+|||+|.+...           ..+.|+..++..   ..
T Consensus       116 ~~~~l~~~~~g~~~~~~~~~f~~a~~---------~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~  186 (355)
T 2qp9_X          116 SSSDLVSKWMGESEKLVKQLFAMARE---------NKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  186 (355)
T ss_dssp             EHHHHHSCC---CHHHHHHHHHHHHH---------TSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---C
T ss_pred             eHHHHhhhhcchHHHHHHHHHHHHHH---------cCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCC
Confidence            65421      111122222222111         15789999999998732           356777777743   34


Q ss_pred             CceEEEEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 021660          171 NTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM  248 (309)
Q Consensus       171 ~~~~i~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~~  248 (309)
                      .+.+|++||.+..+++++.+|| ..+.+++|+.++...+++.++...+..+++..++.|++.+.| +.+.+.++++.++.
T Consensus       187 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~~~A~~  266 (355)
T 2qp9_X          187 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALM  266 (355)
T ss_dssp             CEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHHH
T ss_pred             CeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            5677778899999999999999 889999999999999999999888777899999999999988 55566666665544

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.88  E-value=2e-20  Score=161.71  Aligned_cols=200  Identities=21%  Similarity=0.286  Sum_probs=140.6

Q ss_pred             CCCCccccccChHHHHHHHHHHhc------------CCC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSE------------NRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~------------~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      ...+|+++.|.++.++.|++.+..            ..+ ..+|||||||||||++|+++|+++     +..++.++++.
T Consensus       143 p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~-----~~~f~~v~~s~  217 (405)
T 4b4t_J          143 PDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT-----DCKFIRVSGAE  217 (405)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH-----TCEEEEEEGGG
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh-----CCCceEEEhHH
Confidence            345899999999999999887641            222 349999999999999999999998     77788887764


Q ss_pred             Cc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHHHHhc--CCc
Q 021660          115 DR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYT--KNT  172 (309)
Q Consensus       115 ~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l~~~~--~~~  172 (309)
                      ..      +...++..+......         .+.+|+|||+|.+...              ....|+..|+...  ...
T Consensus       218 l~sk~vGese~~vr~lF~~Ar~~---------aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V  288 (405)
T 4b4t_J          218 LVQKYIGEGSRMVRELFVMAREH---------APSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNI  288 (405)
T ss_dssp             GSCSSTTHHHHHHHHHHHHHHHT---------CSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCE
T ss_pred             hhccccchHHHHHHHHHHHHHHh---------CCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCe
Confidence            22      222333333332221         5789999999988521              2345666666433  355


Q ss_pred             eEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC-HHHHHHHHHHHHh
Q 021660          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTHM  248 (309)
Q Consensus       173 ~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~-~r~~~~~l~~~~~  248 (309)
                      .+|++||.++.+++++.+  || ..|+|+.|+.++..++++.+++...+. ++..++.+++.+.|- ...+.+++..++.
T Consensus       289 ~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~-~dvdl~~lA~~t~G~SGADi~~l~~eA~~  367 (405)
T 4b4t_J          289 KIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLT-RGINLRKVAEKMNGCSGADVKGVCTEAGM  367 (405)
T ss_dssp             EEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCC-SSCCHHHHHHHCCSCCHHHHHHHHHHHHH
T ss_pred             EEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCC-ccCCHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence            678889999999999988  88 889999999999999998887654432 223478999998773 3344444444443


Q ss_pred             hc-----CCcCHHHHHhhh
Q 021660          249 AS-----QQITEEAVYLCT  262 (309)
Q Consensus       249 ~~-----~~i~~~~v~~~~  262 (309)
                      .+     ..|+.+++..++
T Consensus       368 ~Air~~~~~vt~~Df~~Al  386 (405)
T 4b4t_J          368 YALRERRIHVTQEDFELAV  386 (405)
T ss_dssp             HHHHTTCSBCCHHHHHHHH
T ss_pred             HHHHcCCCCcCHHHHHHHH
Confidence            22     356777666554

>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=99.88  E-value=9.8e-21  Score=164.59  Aligned_cols=195  Identities=15%  Similarity=0.190  Sum_probs=142.9

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      +.+++.|..|++++|++.+++.+.+++..            ....+++|+||||||||++|+++++.+     ...++.+
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            34567888999999999999999988752            234459999999999999999999997     5667777


Q ss_pred             ecCCCcc--hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHh----cCCce
Q 021660          111 NASDDRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY----TKNTR  173 (309)
Q Consensus       111 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~----~~~~~  173 (309)
                      ++.....  .......+........     ...+.+|+|||+|.+..           ..++.|+..++..    .....
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            7654221  1111112222111110     11468999999988742           2345666666642    24566


Q ss_pred             EEEEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q 021660          174 FALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTH  247 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~  247 (309)
                      +|++||....+.+++.+|| ..+.++.|+.++..+++..++...+..++++.++.+++.+.| ..+.+..+++.+.
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            7778899889999999999 688999999999999999999988889999999999999998 4445555555544

>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=99.87  E-value=1.3e-21  Score=172.13  Aligned_cols=221  Identities=17%  Similarity=0.134  Sum_probs=158.2

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHh----cCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----c-cccEE
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTS----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----Y-HNMIL  108 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~----~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~-~~~~~  108 (309)
                      +...|..+|.|   ++++|++..++.+..++.    .....+++|+||+|+|||++++.+++.+....     . ...++
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            34568888888   779999999998886664    34445699999999999999999999874431     2 56677


Q ss_pred             EEecCCCc-chH-HHHHHHHHhhhcc---------------ccccCCCCccEEEEEeCCCCCCHHH-HHH-HHHHHHHhc
Q 021660          109 ELNASDDR-GID-VVRQQIQDFASTQ---------------SFSFGVKASVKLVLLDEADAMTKDA-QFA-LRRVIEKYT  169 (309)
Q Consensus       109 ~~~~~~~~-~~~-~~~~~~~~~~~~~---------------~~~~~~~~~~~lliiDe~~~l~~~~-~~~-l~~~l~~~~  169 (309)
                      .+++.... ... .+...+..+....               ...+..  .+.+|+|||+|.+.... .+. +..+++.. 
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 111 1111121110000               000111  23399999999986542 445 55555444 


Q ss_pred             CCceEEEEecCC---cccchhhhcce-eEEEecCCChHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHhc---CCHHHHH
Q 021660          170 KNTRFALICNQV---NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVRLCN---GDMRKAL  240 (309)
Q Consensus       170 ~~~~~i~~~~~~---~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~l~~i~~~~~---g~~r~~~  240 (309)
                      ....+|++++..   ..+.+.+.+|+ ..+.|+|++.+++.+++..++..  .+..+++++++.+++.++   ||+|.++
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            577888888876   56788888886 79999999999999999999875  356789999999999998   9999999


Q ss_pred             HHHHHHHhhc---CCcCHHHHHhhhCCC
Q 021660          241 NILQSTHMAS---QQITEEAVYLCTGNP  265 (309)
Q Consensus       241 ~~l~~~~~~~---~~i~~~~v~~~~~~~  265 (309)
                      +.|+.+...+   ..|+.+++..++...
T Consensus       243 ~~l~~a~~~a~~~~~i~~~~v~~~~~~~  270 (384)
T 2qby_B          243 NLLFRAAQLASGGGIIRKEHVDKAIVDY  270 (384)
T ss_dssp             HHHHHHHHHTTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCccCHHHHHHHHHHH
Confidence            9998887654   569999988776543

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.87  E-value=8.2e-21  Score=162.19  Aligned_cols=187  Identities=20%  Similarity=0.275  Sum_probs=142.9

Q ss_pred             ccccChHHHHHHHHHHh---------------cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcc--cccEEEEecCCCc
Q 021660           54 DVAAHRDIVDTIDRLTS---------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY--HNMILELNASDDR  116 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~---------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~--~~~~~~~~~~~~~  116 (309)
                      +++|++.+++.+.+++.               .....+++|+||||||||++++.+++.+...+.  ...++.+++....
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            69999999998887764               233345999999999999999999999855433  3356666654321


Q ss_pred             c--hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCC---------CHHHHHHHHHHHHHhcCCceEEEEecCCc---
Q 021660          117 G--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM---------TKDAQFALRRVIEKYTKNTRFALICNQVN---  182 (309)
Q Consensus       117 ~--~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l---------~~~~~~~l~~~l~~~~~~~~~i~~~~~~~---  182 (309)
                      .  .......+.......        .+.+|+|||++.+         ....++.|+.+++.......+|++++...   
T Consensus       112 ~~~~g~~~~~~~~~~~~~--------~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~  183 (309)
T 3syl_A          112 GQYIGHTAPKTKEVLKRA--------MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMEN  183 (309)
T ss_dssp             CSSTTCHHHHHHHHHHHH--------TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHH
T ss_pred             hhcccccHHHHHHHHHhc--------CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHH
Confidence            1  111111112211110        3569999999987         67778999999998877888888886432   


Q ss_pred             --ccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh--------cCCHHHHHHHHHHHHh
Q 021660          183 --KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC--------NGDMRKALNILQSTHM  248 (309)
Q Consensus       183 --~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~--------~g~~r~~~~~l~~~~~  248 (309)
                        .+.+.+.+|| ..++|++|+.+++..++..++.+.+..+++++++.+++++        .||+|.+.+.++.+..
T Consensus       184 ~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~gn~r~l~~~l~~a~~  260 (309)
T 3syl_A          184 FFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQPHFANARSIRNALDRARL  260 (309)
T ss_dssp             HHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHTTSSSCCHHHHHHHHHHHHHH
T ss_pred             HHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHHHH
Confidence              3458899999 9999999999999999999999999999999999999974        4999999999988774

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.86  E-value=2e-20  Score=155.51  Aligned_cols=207  Identities=19%  Similarity=0.213  Sum_probs=147.5

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      .|.+++.+..|++++|.+..++.+...+..            ..+.+++|+||||+|||++++.+++.+     ...++.
T Consensus         1 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~-----~~~~~~   75 (257)
T 1lv7_A            1 MLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFT   75 (257)
T ss_dssp             CEEECSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH-----TCCEEE
T ss_pred             CCCccCCCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc-----CCCEEE
Confidence            478889999999999999999987766432            123459999999999999999999997     445666


Q ss_pred             EecCCCc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH--------------HHHHHHHHHHHHh-
Q 021660          110 LNASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKY-  168 (309)
Q Consensus       110 ~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--------------~~~~~l~~~l~~~-  168 (309)
                      +++....      ....+...+.....         ..+.+++|||+|.+..              ...+.++..++.. 
T Consensus        76 i~~~~~~~~~~~~~~~~~~~~~~~a~~---------~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  146 (257)
T 1lv7_A           76 ISGSDFVEMFVGVGASRVRDMFEQAKK---------AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFE  146 (257)
T ss_dssp             ECSCSSTTSCCCCCHHHHHHHHHHHHT---------TCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCC
T ss_pred             EeHHHHHHHhhhhhHHHHHHHHHHHHH---------cCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcc
Confidence            6665421      12223333332211         1467999999976642              2334555555543 


Q ss_pred             -cCCceEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHH
Q 021660          169 -TKNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNIL  243 (309)
Q Consensus       169 -~~~~~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l  243 (309)
                       .....+|+++|....+++++.+  || ..+.+++|+.++..++++.++++..+. ++..+..++..+.| ++|.+.+++
T Consensus       147 ~~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~-~~~~~~~la~~~~G~~~~dl~~l~  225 (257)
T 1lv7_A          147 GNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADLANLV  225 (257)
T ss_dssp             SSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHH
T ss_pred             cCCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCC-ccccHHHHHHHcCCCCHHHHHHHH
Confidence             3356677788888888888887  77 778999999999999998887654322 23336788899999 999999998


Q ss_pred             HHHHhhc-----CCcCHHHHHhhhC
Q 021660          244 QSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       244 ~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                      +.+...+     ..|+.+++..++.
T Consensus       226 ~~a~~~a~~~~~~~i~~~~~~~a~~  250 (257)
T 1lv7_A          226 NEAALFAARGNKRVVSMVEFEKAKD  250 (257)
T ss_dssp             HHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcccHHHHHHHHH
Confidence            8776543     4688888776653

>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=99.86  E-value=1.1e-20  Score=168.34  Aligned_cols=216  Identities=11%  Similarity=0.174  Sum_probs=155.8

Q ss_pred             cCCC-Cccccc-c--ChHHHHHHHHHHhcCC-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH
Q 021660           47 YRPQ-SLADVA-A--HRDIVDTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (309)
Q Consensus        47 ~~p~-~~~~~i-g--~~~~~~~l~~~~~~~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (309)
                      +.|. +|++++ |  +......+..+..... ..+++|+||+|+|||++++.+++.+........++.+++...  ...+
T Consensus        98 l~~~~tfd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~--~~~~  175 (440)
T 2z4s_A           98 LNPDYTFENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF--LNDL  175 (440)
T ss_dssp             CCTTCSGGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHH--HHHH
T ss_pred             CCCCCChhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHH--HHHH
Confidence            4454 688888 5  4445556666666543 456999999999999999999999855433455566655431  1112


Q ss_pred             HHHHHHhh-hccccccCCCCccEEEEEeCCCCCCH--HHHHHHHHHHHHhc-CCceEEEEecCCc----ccchhhhcce-
Q 021660          122 RQQIQDFA-STQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSRC-  192 (309)
Q Consensus       122 ~~~~~~~~-~~~~~~~~~~~~~~lliiDe~~~l~~--~~~~~l~~~l~~~~-~~~~~i~~~~~~~----~l~~~l~~r~-  192 (309)
                      ...+.... ......+.  ..+.+|+|||++.+..  ..++.|+..++... ....+|++++...    .+.+.+.+|+ 
T Consensus       176 ~~~~~~~~~~~~~~~~~--~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~  253 (440)
T 2z4s_A          176 VDSMKEGKLNEFREKYR--KKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQ  253 (440)
T ss_dssp             HHHHHTTCHHHHHHHHT--TTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHhc--CCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhcc
Confidence            21111100 00000011  0467999999999985  67888888888754 3456666666533    2678999998 


Q ss_pred             --eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc----CCcCHHHHHhhhCCCC
Q 021660          193 --TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLCTGNPL  266 (309)
Q Consensus       193 --~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~----~~i~~~~v~~~~~~~~  266 (309)
                        ..+.+.+|+.+++..++.+.+...++.+++++++.|++.++||+|.+.+.|+.+...+    ..||.+++.+++....
T Consensus       254 ~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~~~~l~~~~  333 (440)
T 2z4s_A          254 MGLVAKLEPPDEETRKSIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEAILLLKDFI  333 (440)
T ss_dssp             SSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHTSTTT
T ss_pred             CCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Confidence              6899999999999999999999999999999999999999999999999998877543    5699999998887644

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.86  E-value=7.8e-20  Score=158.43  Aligned_cols=202  Identities=20%  Similarity=0.271  Sum_probs=139.8

Q ss_pred             hhcCCCCccccccChHHHHHHHHHHhc------------CCC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           45 EKYRPQSLADVAAHRDIVDTIDRLTSE------------NRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        45 ~~~~p~~~~~~ig~~~~~~~l~~~~~~------------~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      +.-...+|+++.|.++.++.|.+.+..            ..+ ..+|||||||||||++|+++|.++     +..++.++
T Consensus       174 ~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~-----~~~fi~v~  248 (437)
T 4b4t_I          174 DKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT-----SATFLRIV  248 (437)
T ss_dssp             ESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH-----TCEEEEEE
T ss_pred             ccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh-----CCCEEEEE
Confidence            333455899999999999988887641            122 349999999999999999999998     77777777


Q ss_pred             cCCCc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------H---HHHHHHHHHHHhc--
Q 021660          112 ASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------D---AQFALRRVIEKYT--  169 (309)
Q Consensus       112 ~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~---~~~~l~~~l~~~~--  169 (309)
                      .....      +...++..+......         .+.||+|||+|.+..           .   ....|+..++...  
T Consensus       249 ~s~l~sk~vGesek~ir~lF~~Ar~~---------aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~  319 (437)
T 4b4t_I          249 GSELIQKYLGDGPRLCRQIFKVAGEN---------APSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDR  319 (437)
T ss_dssp             SGGGCCSSSSHHHHHHHHHHHHHHHT---------CSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCS
T ss_pred             HHHhhhccCchHHHHHHHHHHHHHhc---------CCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCC
Confidence            65421      122233333322221         578999999998752           1   2344555555433  


Q ss_pred             CCceEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCC-HHHHHHHHH
Q 021660          170 KNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTE-GGLAALVRLCNGD-MRKALNILQ  244 (309)
Q Consensus       170 ~~~~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~l~~i~~~~~g~-~r~~~~~l~  244 (309)
                      ....+|++||.++.+++++++  || ..|+|+.|+.++..++++.+++...  +++ ..++.|++.+.|- -..+.+++.
T Consensus       320 ~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~--l~~dvdl~~LA~~T~GfSGADI~~l~~  397 (437)
T 4b4t_I          320 GDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMN--LSEDVNLETLVTTKDDLSGADIQAMCT  397 (437)
T ss_dssp             SSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSC--BCSCCCHHHHHHHCCSCCHHHHHHHHH
T ss_pred             CCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCC--CCCcCCHHHHHHhCCCCCHHHHHHHHH
Confidence            355788899999999999988  88 7799999999999999998876543  333 2478899998763 334444444


Q ss_pred             HHHhhc-----CCcCHHHHHhhh
Q 021660          245 STHMAS-----QQITEEAVYLCT  262 (309)
Q Consensus       245 ~~~~~~-----~~i~~~~v~~~~  262 (309)
                      .++..+     ..|+.+++..++
T Consensus       398 eA~~~Air~~~~~It~eDf~~Al  420 (437)
T 4b4t_I          398 EAGLLALRERRMQVTAEDFKQAK  420 (437)
T ss_dssp             HHHHHHHHTTCSCBCHHHHHHHH
T ss_pred             HHHHHHHHcCCCccCHHHHHHHH
Confidence            444322     357777766554

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.86  E-value=4.1e-20  Score=156.06  Aligned_cols=205  Identities=19%  Similarity=0.228  Sum_probs=143.7

Q ss_pred             CCCCccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      .+..|++++|.+..++.+..++..             ....+++|+||||||||++++.+++.+     ...++.+++..
T Consensus        12 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~-----~~~~~~v~~~~   86 (285)
T 3h4m_A           12 PNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET-----NATFIRVVGSE   86 (285)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT-----TCEEEEEEGGG
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEehHH
Confidence            345789999999999999888753             234559999999999999999999997     55666666543


Q ss_pred             Cc--chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCC-----------CHHHHHHHHHHHHHh-----cCCceEEE
Q 021660          115 DR--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM-----------TKDAQFALRRVIEKY-----TKNTRFAL  176 (309)
Q Consensus       115 ~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l-----------~~~~~~~l~~~l~~~-----~~~~~~i~  176 (309)
                      ..  ........+.........     ..+.+|+|||+|.+           ....+..+..+++..     .....+|+
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~-----~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~  161 (285)
T 3h4m_A           87 LVKKFIGEGASLVKDIFKLAKE-----KAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIG  161 (285)
T ss_dssp             GCCCSTTHHHHHHHHHHHHHHH-----TCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEE
T ss_pred             HHHhccchHHHHHHHHHHHHHH-----cCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEE
Confidence            21  111112222221111110     14689999999987           344556666666643     23567788


Q ss_pred             EecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHHhhc--
Q 021660          177 ICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHMAS--  250 (309)
Q Consensus       177 ~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~~~~--  250 (309)
                      ++|....+.+++.+  || ..+.+++|+.++..++++.++...+.. .+..+..+++.+.| .++.+..+++.+...+  
T Consensus       162 ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~a~~  240 (285)
T 3h4m_A          162 ATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLA-EDVNLEEIAKMTEGCVGAELKAICTEAGMNAIR  240 (285)
T ss_dssp             ECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             eCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCC-CcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            88988999999988  88 689999999999999999988765543 33347888888877 5666666665554432  


Q ss_pred             ---CCcCHHHHHhhhC
Q 021660          251 ---QQITEEAVYLCTG  263 (309)
Q Consensus       251 ---~~i~~~~v~~~~~  263 (309)
                         ..|+.+++..++.
T Consensus       241 ~~~~~I~~~d~~~al~  256 (285)
T 3h4m_A          241 ELRDYVTMDDFRKAVE  256 (285)
T ss_dssp             TTCSSBCHHHHHHHHH
T ss_pred             hccCcCCHHHHHHHHH
Confidence               4688888877664

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.86  E-value=3.9e-19  Score=152.18  Aligned_cols=189  Identities=19%  Similarity=0.197  Sum_probs=139.1

Q ss_pred             hcCCCCccccccChHHHHHHHHHHhc-----------C-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC
Q 021660           46 KYRPQSLADVAAHRDIVDTIDRLTSE-----------N-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (309)
Q Consensus        46 ~~~p~~~~~~ig~~~~~~~l~~~~~~-----------~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (309)
                      .+.+..|++++|.+.+++.+.+.+..           . ...+++|+||||||||++|+++++++.    ...++.+++.
T Consensus         5 ~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~----~~~~~~i~~~   80 (322)
T 1xwi_A            5 ERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN----NSTFFSISSS   80 (322)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT----SCEEEEEECC
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC----CCcEEEEEhH
Confidence            34566899999999999999887631           1 224599999999999999999999972    3455666655


Q ss_pred             CCc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHh---cCCce
Q 021660          114 DDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY---TKNTR  173 (309)
Q Consensus       114 ~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~---~~~~~  173 (309)
                      ...      ....+...+.....         ..+.+|+|||+|.+..           ...+.|+..++..   .....
T Consensus        81 ~l~~~~~g~~~~~~~~lf~~a~~---------~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~  151 (322)
T 1xwi_A           81 DLVSKWLGESEKLVKNLFQLARE---------NKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGIL  151 (322)
T ss_dssp             SSCCSSCCSCHHHHHHHHHHHHH---------TSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEE
T ss_pred             HHHhhhhhHHHHHHHHHHHHHHh---------cCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEE
Confidence            321      12223333322221         1578999999998832           2345667777653   34566


Q ss_pred             EEEEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC-HHHHHHHHHHHH
Q 021660          174 FALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTH  247 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~-~r~~~~~l~~~~  247 (309)
                      +|++||.+..+++++.+|| ..+.++.|+.++..++++.++...+..+++..+..|++.+.|. .+.+..+++.++
T Consensus       152 vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~A~  227 (322)
T 1xwi_A          152 VLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDAL  227 (322)
T ss_dssp             EEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHHHHH
T ss_pred             EEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            7778899999999999999 7899999999999999999998887788999999999999886 444555555544

>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=99.86  E-value=9.8e-20  Score=151.76  Aligned_cols=186  Identities=20%  Similarity=0.193  Sum_probs=129.3

Q ss_pred             CCccccccChHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc
Q 021660           50 QSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (309)
                      ..|++++|.+..++.+.+++..            ....+++|+||||||||++++.+++++     ...++.+++.....
T Consensus         3 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~   77 (262)
T 2qz4_A            3 VSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA-----QVPFLAMAGAEFVE   77 (262)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCCEEEEETTTTSS
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEechHHHHh
Confidence            4688999999999988777531            223459999999999999999999998     55677777654311


Q ss_pred             ------hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH------------HHHHHHHHHHHHh-----cCCceE
Q 021660          118 ------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIEKY-----TKNTRF  174 (309)
Q Consensus       118 ------~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~------------~~~~~l~~~l~~~-----~~~~~~  174 (309)
                            ...+...+.....         ..+.+|+|||+|.+..            .....+..+++..     +....+
T Consensus        78 ~~~~~~~~~~~~~~~~a~~---------~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~v  148 (262)
T 2qz4_A           78 VIGGLGAARVRSLFKEARA---------RAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIV  148 (262)
T ss_dssp             SSTTHHHHHHHHHHHHHHH---------TCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEE
T ss_pred             hccChhHHHHHHHHHHHHh---------cCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEE
Confidence                  1122222222211         1468999999999842            2223344444432     235677


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHhcCC-HHHHHHHHHHHHhh
Q 021660          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNGD-MRKALNILQSTHMA  249 (309)
Q Consensus       175 i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-l~~i~~~~~g~-~r~~~~~l~~~~~~  249 (309)
                      |+++|....+++++.+  || ..+.+++|+.++..++++.++...+...+.+. +..+++.+.|. .+.+.++++.++..
T Consensus       149 i~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~a~~~  228 (262)
T 2qz4_A          149 LASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALH  228 (262)
T ss_dssp             EEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHHHHHTC
T ss_pred             EecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence            7788888888889988  88 78999999999999999999999888777664 57888888775 45666677666544

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.86  E-value=1e-19  Score=159.72  Aligned_cols=199  Identities=18%  Similarity=0.215  Sum_probs=138.8

Q ss_pred             CCCccccccChHHHHHHHHHHhc------------CCC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           49 PQSLADVAAHRDIVDTIDRLTSE------------NRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~~------------~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ..+|+++.|.++.++.|...+..            ..+ ..+|||||||||||++|+++|+++     +..++.++++..
T Consensus       177 ~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~-----~~~~~~v~~s~l  251 (437)
T 4b4t_L          177 EITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI-----GANFIFSPASGI  251 (437)
T ss_dssp             SSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCEEEEEEGGGT
T ss_pred             CCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEehhhh
Confidence            34799999999999998887642            222 349999999999999999999998     677777776543


Q ss_pred             c------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH--------------HHHHHHHHHHHHhc--CCce
Q 021660          116 R------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT--KNTR  173 (309)
Q Consensus       116 ~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--------------~~~~~l~~~l~~~~--~~~~  173 (309)
                      .      +...++..+.....         ..+.||+|||+|.+..              .....|+..|+...  ..+.
T Consensus       252 ~sk~~Gese~~ir~~F~~A~~---------~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vi  322 (437)
T 4b4t_L          252 VDKYIGESARIIREMFAYAKE---------HEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTK  322 (437)
T ss_dssp             CCSSSSHHHHHHHHHHHHHHH---------SCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSE
T ss_pred             ccccchHHHHHHHHHHHHHHh---------cCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeE
Confidence            2      12222332222221         1578999999998852              12345666666443  3467


Q ss_pred             EEEEecCCcccchhhhcc--e-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC-HHHHHHHHHHHHhh
Q 021660          174 FALICNQVNKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTHMA  249 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~-~r~~~~~l~~~~~~  249 (309)
                      +|++||.++.++++++++  | ..|+|+.|+.++..++++.+++..... ++..++.+++.+.|- ...+.+++..++..
T Consensus       323 vI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~-~d~dl~~lA~~t~G~sGADi~~l~~eA~~~  401 (437)
T 4b4t_L          323 IIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKT-GEFDFEAAVKMSDGFNGADIRNCATEAGFF  401 (437)
T ss_dssp             EEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBC-SCCCHHHHHHTCCSCCHHHHHHHHHHHHHH
T ss_pred             EEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence            888999999999999875  6 779999999999999999888765432 223478899988763 33444444444432


Q ss_pred             c-----CCcCHHHHHhhh
Q 021660          250 S-----QQITEEAVYLCT  262 (309)
Q Consensus       250 ~-----~~i~~~~v~~~~  262 (309)
                      +     ..|+.+++..++
T Consensus       402 air~~~~~i~~~d~~~Al  419 (437)
T 4b4t_L          402 AIRDDRDHINPDDLMKAV  419 (437)
T ss_dssp             HHHTTCSSBCHHHHHHHH
T ss_pred             HHHcCCCCCCHHHHHHHH
Confidence            2     457777666554

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.86  E-value=4.4e-20  Score=161.92  Aligned_cols=202  Identities=19%  Similarity=0.259  Sum_probs=140.1

Q ss_pred             CCCCccccccChHHHHHHHHHHh------------cCC-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTS------------ENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~------------~~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      .+.+|+++.|.++.++.|...+.            +.+ +..+|||||||||||++|+++|+++     +..++.++...
T Consensus       176 p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~-----~~~f~~v~~s~  250 (434)
T 4b4t_M          176 PTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT-----NATFLKLAAPQ  250 (434)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCEEEEEEGGG
T ss_pred             CCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh-----CCCEEEEehhh
Confidence            34479999999999999887653            122 3349999999999999999999998     77778777654


Q ss_pred             Cc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HH---HHHHHHHHHHhc--CCc
Q 021660          115 DR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DA---QFALRRVIEKYT--KNT  172 (309)
Q Consensus       115 ~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~---~~~l~~~l~~~~--~~~  172 (309)
                      ..      +...++..+......         .+.||+|||+|.+..           ..   ...|+..|+...  ...
T Consensus       251 l~~~~vGese~~ir~lF~~A~~~---------aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~V  321 (434)
T 4b4t_M          251 LVQMYIGEGAKLVRDAFALAKEK---------APTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRV  321 (434)
T ss_dssp             GCSSCSSHHHHHHHHHHHHHHHH---------CSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSS
T ss_pred             hhhcccchHHHHHHHHHHHHHhc---------CCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCE
Confidence            21      122233333322221         578999999987631           11   234555555433  345


Q ss_pred             eEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 021660          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM  248 (309)
Q Consensus       173 ~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~~  248 (309)
                      .+|++||.++.+++++.+  || ..|+|+.|+.++..++++.+++..... ++-.++.|++.+.| +...+.+++..++.
T Consensus       322 iVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~-~dvdl~~lA~~t~G~sGADi~~l~~eA~~  400 (434)
T 4b4t_M          322 KVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTD-DDINWQELARSTDEFNGAQLKAVTVEAGM  400 (434)
T ss_dssp             EEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBC-SCCCHHHHHHHCSSCCHHHHHHHHHHHHH
T ss_pred             EEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCC-CcCCHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            677789999999999987  88 789999999999999999888765432 12237889999876 34444444444443


Q ss_pred             hc-----CCcCHHHHHhhhCC
Q 021660          249 AS-----QQITEEAVYLCTGN  264 (309)
Q Consensus       249 ~~-----~~i~~~~v~~~~~~  264 (309)
                      .+     ..|+.+++..++..
T Consensus       401 ~a~r~~~~~i~~~Df~~Al~~  421 (434)
T 4b4t_M          401 IALRNGQSSVKHEDFVEGISE  421 (434)
T ss_dssp             HHHHHTCSSBCHHHHHHHHHS
T ss_pred             HHHHcCCCCcCHHHHHHHHHH
Confidence            22     46788877776643

>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=99.85  E-value=1.7e-20  Score=160.26  Aligned_cols=208  Identities=19%  Similarity=0.261  Sum_probs=145.5

Q ss_pred             cccccChHHHHHHHHHHhc--------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc-
Q 021660           53 ADVAAHRDIVDTIDRLTSE--------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-  117 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~--------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-  117 (309)
                      ++++|++.+++.+...+..              ....+++|+||||||||++++.+++.+     ...++.+++..... 
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l-----~~~~~~i~~~~~~~~   89 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA-----NAPFIKVEATKFTEV   89 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH-----TCCEEEEEGGGGSSC
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEcchhcccC
Confidence            4589999999998887754              234569999999999999999999998     44566666543211 


Q ss_pred             ---hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH------------HHHHHHHHHHh----------cCCc
Q 021660          118 ---IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA------------QFALRRVIEKY----------TKNT  172 (309)
Q Consensus       118 ---~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~------------~~~l~~~l~~~----------~~~~  172 (309)
                         .......+..........+.....+.+|+|||++.+....            ++.|+.+++..          ....
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               0000111222111110000000136799999999997554            78899999863          2345


Q ss_pred             eEEEEe----cCCcccchhhhcce-eEEEecCCChHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHh--
Q 021660          173 RFALIC----NQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLC--  232 (309)
Q Consensus       173 ~~i~~~----~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~l~~i~~~~--  232 (309)
                      .+|+++    +....+.+++.+|| ..+.|++|+.+++..++++           .+...+.  .+++++++.|++++  
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    34567889999999 6799999999999999883           2333453  68999999999998  


Q ss_pred             ------cCCHHHHHHHHHHHHhh-----c---C---CcCHHHHHhhhCCC
Q 021660          233 ------NGDMRKALNILQSTHMA-----S---Q---QITEEAVYLCTGNP  265 (309)
Q Consensus       233 ------~g~~r~~~~~l~~~~~~-----~---~---~i~~~~v~~~~~~~  265 (309)
                            .|++|.+.+.++.+...     .   +   .|+.+++..++...
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                  79999999999886521     1   1   38899998888654

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.5e-19  Score=158.13  Aligned_cols=198  Identities=20%  Similarity=0.308  Sum_probs=136.6

Q ss_pred             CCccccccChHHHHHHHHHHh------------cC-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc
Q 021660           50 QSLADVAAHRDIVDTIDRLTS------------EN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~------------~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (309)
                      .+|+++.|.++.++.|++.+.            +. .+..+|||||||||||++|+++|+++     +..++.++.....
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            479999999999999988753            11 23349999999999999999999998     7777777765421


Q ss_pred             ------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------H---HHHHHHHHHHHhc--CCceE
Q 021660          117 ------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------D---AQFALRRVIEKYT--KNTRF  174 (309)
Q Consensus       117 ------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~---~~~~l~~~l~~~~--~~~~~  174 (309)
                            +...++..+......         .+.||+|||+|.+..           .   ....++..|+...  ..+.+
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                  122333333322221         578999999998852           1   1234445555332  34567


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC-HHHHHHHHHHHHhhc
Q 021660          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTHMAS  250 (309)
Q Consensus       175 i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~-~r~~~~~l~~~~~~~  250 (309)
                      |++||.++.+++++++  || ..|+|+.|+.++..++|+.+++...+. .+-.++.|++.+.|- -..+.+++..++..+
T Consensus       352 IaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~-~dvdl~~LA~~T~GfSGADI~~l~~eAa~~A  430 (467)
T 4b4t_H          352 MFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVE-RGIRWELISRLCPNSTGAELRSVCTEAGMFA  430 (467)
T ss_dssp             EEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBC-SSCCHHHHHHHCCSCCHHHHHHHHHHHHHHH
T ss_pred             EeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHHCCCCCHHHHHHHHHHHHHHH
Confidence            8889999999999988  88 889999999999999999887654332 122478899998773 333444444443322


Q ss_pred             -----CCcCHHHHHhhh
Q 021660          251 -----QQITEEAVYLCT  262 (309)
Q Consensus       251 -----~~i~~~~v~~~~  262 (309)
                           ..++.+++..++
T Consensus       431 ir~~~~~it~~Df~~Al  447 (467)
T 4b4t_H          431 IRARRKVATEKDFLKAV  447 (467)
T ss_dssp             HHHTCSSBCHHHHHHHH
T ss_pred             HHcCCCccCHHHHHHHH
Confidence                 456776665544

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.85  E-value=2e-19  Score=151.95  Aligned_cols=201  Identities=10%  Similarity=0.095  Sum_probs=141.1

Q ss_pred             hhhhcCCCCccccccChHHHHHHHH----HHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecC
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDR----LTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNAS  113 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~----~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~  113 (309)
                      +.+.|.|...  +.+++..+..+..    .+..+.+++++|+||||||||++++.+++++....     ....++.+++.
T Consensus        12 l~~~~~~~~~--L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~   89 (318)
T 3te6_A           12 IRESLQKREL--LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDAL   89 (318)
T ss_dssp             HHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETT
T ss_pred             hhhccCCccc--cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEecc
Confidence            3345555332  7788777776654    45567778899999999999999999999995322     14578888887


Q ss_pred             CCcchHHHHHHHH-Hh-----------------hhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh---cCCc
Q 021660          114 DDRGIDVVRQQIQ-DF-----------------ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY---TKNT  172 (309)
Q Consensus       114 ~~~~~~~~~~~~~-~~-----------------~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~---~~~~  172 (309)
                      .......+...+. ++                 .....   .....+.+++|||+|.+.  .++.|+.+++..   ..+.
T Consensus        90 ~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~---~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~  164 (318)
T 3te6_A           90 ELAGMDALYEKIWFAISKENLCGDISLEALNFYITNVP---KAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKL  164 (318)
T ss_dssp             CCC--HHHHHHHHHHHSCCC--CCCCHHHHHHHHHHSC---GGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCE
T ss_pred             ccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHhh---hccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcE
Confidence            6433322221111 11                 11100   012256799999999998  567777777643   2345


Q ss_pred             eEEEEecCCcc----cchhhhcce--eEEEecCCChHHHHHHHHHHHHHcCC----------------------------
Q 021660          173 RFALICNQVNK----IIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAEGL----------------------------  218 (309)
Q Consensus       173 ~~i~~~~~~~~----l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~~~----------------------------  218 (309)
                      .+|+++|..+.    +.+.+.+|+  .++.|+|++.+|+.+++++++....-                            
T Consensus       165 ~vI~i~n~~d~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~  244 (318)
T 3te6_A          165 SIICVGGHNVTIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPD  244 (318)
T ss_dssp             EEEEECCSSCCCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CT
T ss_pred             EEEEEecCcccchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccc
Confidence            67777877653    345567787  67999999999999999999987421                            


Q ss_pred             -------CCCHHHHHHHHH---HhcCCHHHHHHHHHHHHhhc
Q 021660          219 -------DVTEGGLAALVR---LCNGDMRKALNILQSTHMAS  250 (309)
Q Consensus       219 -------~~~~~~l~~i~~---~~~g~~r~~~~~l~~~~~~~  250 (309)
                             .+++++++.+++   ...||.|.++++|+.+...+
T Consensus       245 ~~~~~~~~i~~~ai~~~A~~vA~~~GD~R~Al~ilr~A~~~a  286 (318)
T 3te6_A          245 NVIVINHKINNKITQLIAKNVANVSGSTEKAFKICEAAVEIS  286 (318)
T ss_dssp             TEEEECEECCHHHHHHHHHHHHHHHCSHHHHHHHHHHHHHHH
T ss_pred             cccccccccCHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHH
Confidence                   369999999999   56899999999999887654

>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=99.85  E-value=2.8e-20  Score=159.89  Aligned_cols=203  Identities=13%  Similarity=0.173  Sum_probs=143.0

Q ss_pred             Cccccc-c--ChHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           51 SLADVA-A--HRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        51 ~~~~~i-g--~~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      +|++++ |  +......+..++....  ..+++|+||||+|||++++.+++.+...  +..++.+++...  ...+...+
T Consensus         9 ~f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~--~~~~~~i~~~~~--~~~~~~~~   84 (324)
T 1l8q_A            9 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSADDF--AQAMVEHL   84 (324)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEHHHH--HHHHHHHH
T ss_pred             CcccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC--CCEEEEEEHHHH--HHHHHHHH
Confidence            567776 4  5555667777776652  3459999999999999999999998544  344555554321  11111111


Q ss_pred             HHhh-hccccccCCCCccEEEEEeCCCCCCH--HHHHHHHHHHHHhc-CCceEEEEecCCc----ccchhhhcce---eE
Q 021660          126 QDFA-STQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSRC---TR  194 (309)
Q Consensus       126 ~~~~-~~~~~~~~~~~~~~lliiDe~~~l~~--~~~~~l~~~l~~~~-~~~~~i~~~~~~~----~l~~~l~~r~---~~  194 (309)
                      .... ......+   ..+.+|+|||++.+..  ..+..++.+++... ....+|++++...    .+.+.+.+|+   ..
T Consensus        85 ~~~~~~~~~~~~---~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~  161 (324)
T 1l8q_A           85 KKGTINEFRNMY---KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGIL  161 (324)
T ss_dssp             HHTCHHHHHHHH---HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEE
T ss_pred             HcCcHHHHHHHh---cCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceE
Confidence            1100 0000000   1367999999999885  66778888887643 3456666665432    5778999998   78


Q ss_pred             EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh-------c--CCc-CHHHHHhhh
Q 021660          195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-------S--QQI-TEEAVYLCT  262 (309)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~-------~--~~i-~~~~v~~~~  262 (309)
                      +.++| +.++...++...+...++.+++++++.+++.+ ||+|.+.+.++.+...       .  ..+ +.+++.+++
T Consensus       162 i~l~~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~~~~-g~~r~l~~~l~~~~~~~~~~l~~~~~~~i~t~~~i~~~~  237 (324)
T 1l8q_A          162 VEIEL-DNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIKLKGFEGLERKERKERDKLMQIVEFV  237 (324)
T ss_dssp             EECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC-CCHHHHHHHHHHHHHcCHHHhccccccCCCCHHHHHHHH
Confidence            99999 99999999999999999999999999999999 9999999999887765       1  236 666666555

>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=99.85  E-value=1.3e-20  Score=165.62  Aligned_cols=214  Identities=21%  Similarity=0.326  Sum_probs=149.9

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhc----CCCCeEEEECCCCCcHHHHHHHHHHHHccCcc-cccEEEEecCCCc
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNASDDR  116 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-~~~~~~~~~~~~~  116 (309)
                      +|..+|.|   ++++|++..++.+..++..    .....++|+||+|+|||++++.+++.+..... ...++.+++....
T Consensus        12 ~l~~~~~p---~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~   88 (386)
T 2qby_A           12 YLLPDYIP---DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQID   88 (386)
T ss_dssp             GGSSSCCC---SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHC
T ss_pred             hCCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCC
Confidence            34455665   6789999999999998873    34456999999999999999999998743311 3455555543211


Q ss_pred             c----------------------hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH----HHHHHHHHHHHHh-c
Q 021660          117 G----------------------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK----DAQFALRRVIEKY-T  169 (309)
Q Consensus       117 ~----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~----~~~~~l~~~l~~~-~  169 (309)
                      .                      ...+...+......       ...+.+|+|||++.+..    +....|+..++.. .
T Consensus        89 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~-------~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~  161 (386)
T 2qby_A           89 TPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRD-------YGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNK  161 (386)
T ss_dssp             SHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHT-------CCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC
T ss_pred             CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhc-------cCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCC
Confidence            1                      11112222222211       11378999999998753    3344555555432 3


Q ss_pred             CCceEEEEecCC---cccchhhhcce--eEEEecCCChHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhc---CCHHHH
Q 021660          170 KNTRFALICNQV---NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLCN---GDMRKA  239 (309)
Q Consensus       170 ~~~~~i~~~~~~---~~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~l~~i~~~~~---g~~r~~  239 (309)
                      ....+|++++..   ..+.+.+.+|+  ..+.|++++.+++.+++..++...  ...+++++++.+++.++   |++|.+
T Consensus       162 ~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~  241 (386)
T 2qby_A          162 SKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRA  241 (386)
T ss_dssp             --EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHH
T ss_pred             CeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHH
Confidence            356677888765   35667788888  789999999999999999988753  35789999999999998   999999


Q ss_pred             HHHHHHHHhhc-----CCcCHHHHHhhhCCC
Q 021660          240 LNILQSTHMAS-----QQITEEAVYLCTGNP  265 (309)
Q Consensus       240 ~~~l~~~~~~~-----~~i~~~~v~~~~~~~  265 (309)
                      ++.++.+...+     ..++.+++..++...
T Consensus       242 ~~ll~~a~~~a~~~~~~~i~~~~v~~a~~~~  272 (386)
T 2qby_A          242 LDLLRVSGEIAERMKDTKVKEEYVYMAKEEI  272 (386)
T ss_dssp             HHHHHHHHHHHHHTTCSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCccCHHHHHHHHHHH
Confidence            99998776532     478999888766443

>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=99.84  E-value=1.2e-19  Score=162.05  Aligned_cols=193  Identities=18%  Similarity=0.199  Sum_probs=140.5

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHh------------cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTS------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      +...+.+..|++++|++.+++.+..++.            .....+++|+||||||||++|+++++.+.    ...++.+
T Consensus       124 i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~----~~~~~~v  199 (444)
T 2zan_A          124 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN----NSTFFSI  199 (444)
T ss_dssp             CBCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC----SSEEEEE
T ss_pred             eeccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC----CCCEEEE
Confidence            3455677899999999999999998773            12234599999999999999999999972    3455556


Q ss_pred             ecCCCcc------hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHh---cC
Q 021660          111 NASDDRG------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY---TK  170 (309)
Q Consensus       111 ~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~---~~  170 (309)
                      ++.....      ...+...+.....         ..+.+|+|||+|.+..           ...+.|+..++..   +.
T Consensus       200 ~~~~l~~~~~g~~~~~~~~~f~~a~~---------~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  270 (444)
T 2zan_A          200 SSSDLVSKWLGESEKLVKNLFQLARE---------NKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  270 (444)
T ss_dssp             CCC---------CCCTHHHHHHHHHH---------SCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCS
T ss_pred             eHHHHHhhhcchHHHHHHHHHHHHHH---------cCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCC
Confidence            5543211      1112222222211         1578999999998842           2345566656542   34


Q ss_pred             CceEEEEecCCcccchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 021660          171 NTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM  248 (309)
Q Consensus       171 ~~~~i~~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~~  248 (309)
                      .+.||++||.+..+++++.+|| ..+.++.|+.++...+++.++...+..+++..++.|++.+.| +.+.+..+++.++.
T Consensus       271 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~a~~  350 (444)
T 2zan_A          271 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALM  350 (444)
T ss_dssp             SCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHHHHHHHHHHT
T ss_pred             CEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            6778888999999999999999 789999999999999999998877777899999999999998 45555555555543

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.84  E-value=3.4e-19  Score=156.21  Aligned_cols=198  Identities=21%  Similarity=0.270  Sum_probs=138.2

Q ss_pred             CCccccccChHHHHHHHHHHh------------cCCC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc
Q 021660           50 QSLADVAAHRDIVDTIDRLTS------------ENRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~------------~~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (309)
                      .+|+++.|.+..++.+...+.            +..+ ..+|||||||||||++|+++|+++     +..++.+++....
T Consensus       169 v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~-----~~~~~~v~~~~l~  243 (428)
T 4b4t_K          169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST-----KAAFIRVNGSEFV  243 (428)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH-----TCEEEEEEGGGTC
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCeEEEecchhh
Confidence            479999999999998888764            1222 349999999999999999999998     7778887766421


Q ss_pred             ------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH--------------HHHHHHHHHHHHhc--CCceE
Q 021660          117 ------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT--KNTRF  174 (309)
Q Consensus       117 ------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--------------~~~~~l~~~l~~~~--~~~~~  174 (309)
                            +...++..+......         .+.+++|||+|.+..              .....|+..++...  .++.+
T Consensus       244 ~~~~Ge~e~~ir~lF~~A~~~---------aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~v  314 (428)
T 4b4t_K          244 HKYLGEGPRMVRDVFRLAREN---------APSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKV  314 (428)
T ss_dssp             CSSCSHHHHHHHHHHHHHHHT---------CSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEE
T ss_pred             ccccchhHHHHHHHHHHHHHc---------CCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEE
Confidence                  122333333332221         578999999986531              12456777777543  34577


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEec-CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC-HHHHHHHHHHHHhh
Q 021660          175 ALICNQVNKIIPALQS--RC-TRFRFA-PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTHMA  249 (309)
Q Consensus       175 i~~~~~~~~l~~~l~~--r~-~~i~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~-~r~~~~~l~~~~~~  249 (309)
                      |++||.++.+++++++  || ..|+|+ .|+..+...+++.+++...+. ++..++.+++.+.|- ...+.++++.++..
T Consensus       315 I~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~-~~~dl~~lA~~t~G~sgadi~~l~~eA~~~  393 (428)
T 4b4t_K          315 IMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLA-PEADLDSLIIRNDSLSGAVIAAIMQEAGLR  393 (428)
T ss_dssp             EEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBC-TTCCHHHHHHHTTTCCHHHHHHHHHHHHHH
T ss_pred             EEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence            8889999999999988  77 678896 678888999998888755432 223478899998763 33444444444432


Q ss_pred             c-----CCcCHHHHHhhh
Q 021660          250 S-----QQITEEAVYLCT  262 (309)
Q Consensus       250 ~-----~~i~~~~v~~~~  262 (309)
                      +     ..|+.+++..++
T Consensus       394 a~r~~~~~i~~~d~~~A~  411 (428)
T 4b4t_K          394 AVRKNRYVILQSDLEEAY  411 (428)
T ss_dssp             HHHTTCSSBCHHHHHHHH
T ss_pred             HHHCCCCCCCHHHHHHHH
Confidence            2     457777776655

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.84  E-value=4.4e-20  Score=159.16  Aligned_cols=212  Identities=15%  Similarity=0.155  Sum_probs=153.2

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (309)
                      +|.++++|..+++++|+++.+..+...+..+  .+++|+||||||||++++.+++.+     +..+..+++........+
T Consensus        16 ~~~~~~~~~~~~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~-----~~~~~~i~~~~~~~~~~l   88 (331)
T 2r44_A           16 NKIKEVIDEVGKVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTM-----DLDFHRIQFTPDLLPSDL   88 (331)
T ss_dssp             HHHHHHHHHHTTTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHT-----TCCEEEEECCTTCCHHHH
T ss_pred             HHHHHHHHHhccceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHh-----CCCeEEEecCCCCChhhc
Confidence            5889999999999999999999998888775  469999999999999999999987     444555665432222111


Q ss_pred             HHHHHHhhhc---cccccCC-CCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEEEecCCc----
Q 021660          122 RQQIQDFAST---QSFSFGV-KASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVN----  182 (309)
Q Consensus       122 ~~~~~~~~~~---~~~~~~~-~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~~~~----  182 (309)
                         +......   ....+.. .....+++|||++.+.+..++.|+..+++.           +....+|.++|...    
T Consensus        89 ---~g~~~~~~~~~~~~~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~~~  165 (331)
T 2r44_A           89 ---IGTMIYNQHKGNFEVKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQEGT  165 (331)
T ss_dssp             ---HEEEEEETTTTEEEEEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCSCC
T ss_pred             ---CCceeecCCCCceEeccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcccCc
Confidence               1100000   0000000 001369999999999999999999999963           33445555556432    


Q ss_pred             -ccchhhhccee-EEEecCCChHHHHHHHHHHHHH----------------------cCCCCCHHHHHHHHHHh-----c
Q 021660          183 -KIIPALQSRCT-RFRFAPLEPVHVTERLKHVIEA----------------------EGLDVTEGGLAALVRLC-----N  233 (309)
Q Consensus       183 -~l~~~l~~r~~-~i~~~~~~~~~~~~~l~~~~~~----------------------~~~~~~~~~l~~i~~~~-----~  233 (309)
                       .+.+++.+||. .+.+.+|+.++..++++..+..                      .++.+++++++++++.+     .
T Consensus       166 ~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~i~~~~~~~r~~  245 (331)
T 2r44_A          166 YPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISESLEKYIIELVFATRFP  245 (331)
T ss_dssp             CCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHHHHHHHHHHHHHHHSG
T ss_pred             ccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcc
Confidence             37899999995 6999999999999999887654                      26778999999998765     2


Q ss_pred             C---------------CHHHHHHHHHHHHhhc-----CCcCHHHHHhhhC
Q 021660          234 G---------------DMRKALNILQSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       234 g---------------~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                      +               ++|.++++++.+...+     ..++.+++..++.
T Consensus       246 ~~~~~~~~~~~~~~~~s~R~~~~ll~~a~a~A~l~g~~~v~~~dv~~~~~  295 (331)
T 2r44_A          246 AEYGLEAEASYILYGASTRAAINLNRVAKAMAFFNNRDYVLPEDIKEVAY  295 (331)
T ss_dssp             GGGTCHHHHHHEEECCCHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHH
T ss_pred             ccccccccccccccCcChhHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            2               6999999887655332     4588888877664

>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=99.82  E-value=1.3e-18  Score=154.94  Aligned_cols=201  Identities=20%  Similarity=0.268  Sum_probs=142.5

Q ss_pred             CCCCccccccChHHHHHHHHHHhc-----------CC-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSE-----------NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~-----------~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ...+|++++|.++.++.+.+.+..           .+ +.+++|+||||||||+++++++.++     +..++.+++...
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            344789999999999888877542           12 2349999999999999999999998     566677766532


Q ss_pred             c------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH--------------HHHHHHHHHHHHh--cCCce
Q 021660          116 R------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKY--TKNTR  173 (309)
Q Consensus       116 ~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--------------~~~~~l~~~l~~~--~~~~~  173 (309)
                      .      +...++..+.....         ..+.+|+|||+|.+..              ...+.|+..++..  .....
T Consensus        86 ~~~~~g~~~~~~r~lf~~A~~---------~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~vi  156 (476)
T 2ce7_A           86 VELFVGVGAARVRDLFAQAKA---------HAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGII  156 (476)
T ss_dssp             TTCCTTHHHHHHHHHHHHHHH---------TCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEE
T ss_pred             HHHHhcccHHHHHHHHHHHHh---------cCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEE
Confidence            1      11223333332221         1578999999998753              1345566666632  34567


Q ss_pred             EEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCH-HHHHHHHHHHHhh
Q 021660          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDM-RKALNILQSTHMA  249 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~-r~~~~~l~~~~~~  249 (309)
                      +|++||.++.+++++.+  || ..+.+++|+.++..++++.+++...+. ++..+..+++.+.|+. +.+.++++.++..
T Consensus       157 VIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~-~~v~l~~la~~t~G~sgadL~~lv~~Aal~  235 (476)
T 2ce7_A          157 VMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLA-EDVNLEIIAKRTPGFVGADLENLVNEAALL  235 (476)
T ss_dssp             EEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHH
T ss_pred             EEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCc-chhhHHHHHHhcCCCcHHHHHHHHHHHHHH
Confidence            78888998888888876  77 688999999999999998887654332 2233788999999987 6777888766543


Q ss_pred             c-----CCcCHHHHHhhhC
Q 021660          250 S-----QQITEEAVYLCTG  263 (309)
Q Consensus       250 ~-----~~i~~~~v~~~~~  263 (309)
                      +     ..|+.+++..++.
T Consensus       236 A~~~~~~~I~~~dl~~al~  254 (476)
T 2ce7_A          236 AAREGRDKITMKDFEEAID  254 (476)
T ss_dssp             HHHTTCSSBCHHHHHHHHH
T ss_pred             HHHcCCCeecHHHHHHHHH
Confidence            2     4688888877664

>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=99.81  E-value=9.1e-19  Score=152.09  Aligned_cols=216  Identities=14%  Similarity=0.154  Sum_probs=142.3

Q ss_pred             hcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC----ccc-----------------
Q 021660           46 KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA----QYH-----------------  104 (309)
Q Consensus        46 ~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~----~~~-----------------  104 (309)
                      .-+|..|++++|++..+..+..........+++|+||||||||++++.+++.+...    +..                 
T Consensus        17 ~~~~~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (350)
T 1g8p_A           17 TRPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS   96 (350)
T ss_dssp             -CCCCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSC
T ss_pred             CCCCCCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCccccccccccccccccccccchhhhhc
Confidence            34567899999999988776655554444569999999999999999999987421    000                 


Q ss_pred             -------ccEEEEecCCCcchHHH------HHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh---
Q 021660          105 -------NMILELNASDDRGIDVV------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY---  168 (309)
Q Consensus       105 -------~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~---  168 (309)
                             ..++.+....  ....+      ...+...........-..+.+.+|+|||++.++.+.++.|+.+++..   
T Consensus        97 ~~~~~~~~~~~~~~~~~--~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~~~~~~Ll~~le~~~~~  174 (350)
T 1g8p_A           97 TNVIRKPTPVVDLPLGV--SEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENV  174 (350)
T ss_dssp             CCEEEECCCEEEECTTC--CHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEE
T ss_pred             cccccCCCcccccCCCc--chhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCCHHHHHHHHHHHhcCceE
Confidence                   0111111111  01111      11111110000000001113679999999999999999999999963   


Q ss_pred             ----------cCCceEEEEecCCc-ccchhhhcce-eEEEecCCCh-HHHHHHHHHH-----------------------
Q 021660          169 ----------TKNTRFALICNQVN-KIIPALQSRC-TRFRFAPLEP-VHVTERLKHV-----------------------  212 (309)
Q Consensus       169 ----------~~~~~~i~~~~~~~-~l~~~l~~r~-~~i~~~~~~~-~~~~~~l~~~-----------------------  212 (309)
                                +....+|+++|... .+.+++.+|| ..+.+++|+. ++..+++.++                       
T Consensus       175 ~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~R~~~~~~l~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (350)
T 1g8p_A          175 VERDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRN  254 (350)
T ss_dssp             ECCTTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHH
T ss_pred             EEecceEEeeCCceEEEEEeCCCCCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHHHhcccCchhhccccccchHHHHH
Confidence                      23556677777644 7889999999 4599999954 4444666542                       


Q ss_pred             ------HHHcCCCCCHHHHHHHHHHhcC----CHHHHHHHHHHHHhhc-----CCcCHHHHHhhhC
Q 021660          213 ------IEAEGLDVTEGGLAALVRLCNG----DMRKALNILQSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       213 ------~~~~~~~~~~~~l~~i~~~~~g----~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                            ....++.+++++++.|++++.+    ++|.+.++++.+...+     ..|+.+++..++.
T Consensus       255 ~i~~~~~~~~~~~ls~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~~A~~~~~~~v~~~~v~~a~~  320 (350)
T 1g8p_A          255 QILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEGATAVGRDHLKRVAT  320 (350)
T ss_dssp             HHHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence                  2233568999999999999876    8999999997665433     4599999887764

>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=99.80  E-value=1.9e-18  Score=146.70  Aligned_cols=188  Identities=19%  Similarity=0.225  Sum_probs=130.9

Q ss_pred             hcCCCCccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           46 KYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        46 ~~~p~~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      ...+..|++++|.+.+++.+.+++..             .....++|+||||||||++++++++.+     ...++.+++
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            34566789999999999999888753             223449999999999999999999997     456666664


Q ss_pred             CCCc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHHHHh--cC
Q 021660          113 SDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKY--TK  170 (309)
Q Consensus       113 ~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l~~~--~~  170 (309)
                      ....      ....+...+.....         ..+.+|+|||++.+...              ....|+..++..  ..
T Consensus        83 ~~l~~~~~g~~~~~~~~~f~~a~~---------~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~  153 (301)
T 3cf0_A           83 PELLTMWFGESEANVREIFDKARQ---------AAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK  153 (301)
T ss_dssp             HHHHHHHHTTCTTHHHHHHHHHHH---------TCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTS
T ss_pred             HHHHhhhcCchHHHHHHHHHHHHh---------cCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCC
Confidence            3211      11112222222211         14689999999987543              256778888743  34


Q ss_pred             CceEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC-HHHHHHHHHHH
Q 021660          171 NTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQST  246 (309)
Q Consensus       171 ~~~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~-~r~~~~~l~~~  246 (309)
                      +..+|++||..+.+++++.+  |+ ..+++++|+.++..++++.+++..+.. .+..++.++..+.|- .+.+.++++.+
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            56788888999899999887  88 789999999999999999988776543 223356677776553 33444555544


Q ss_pred             Hh
Q 021660          247 HM  248 (309)
Q Consensus       247 ~~  248 (309)
                      +.
T Consensus       233 ~~  234 (301)
T 3cf0_A          233 CK  234 (301)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.80  E-value=9.3e-19  Score=157.23  Aligned_cols=194  Identities=15%  Similarity=0.216  Sum_probs=140.0

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCC
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~  114 (309)
                      ...|.++++|..+++++|++..++.+...+.....++++|+||||||||++++.+++.+....     .+..++.+++..
T Consensus       167 ~~~l~~~~r~~~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~  246 (468)
T 3pxg_A          167 ARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGT  246 (468)
T ss_dssp             CCBHHHHTTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----
T ss_pred             HHHHHHHHhcCCCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCc
Confidence            456889999999999999999999999999888778899999999999999999999985432     233455555441


Q ss_pred             C-c--chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc-----ccch
Q 021660          115 D-R--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN-----KIIP  186 (309)
Q Consensus       115 ~-~--~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~-----~l~~  186 (309)
                      . .  ....+...+......         ++.+|+||    ...+..+.|...++  .....+|++++...     .+++
T Consensus       247 ~~~g~~e~~~~~~~~~~~~~---------~~~iLfiD----~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~~~  311 (468)
T 3pxg_A          247 KYRGEFEDRLKKVMDEIRQA---------GNIILFID----AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDA  311 (468)
T ss_dssp             ------CTTHHHHHHHHHTC---------CCCEEEEC----C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCS
T ss_pred             cccchHHHHHHHHHHHHHhc---------CCeEEEEe----CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhcCH
Confidence            1 0  011223333333211         46799999    33345566666665  33567777777665     5788


Q ss_pred             hhhcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHhcC------CHHHHHHHHHHHHh
Q 021660          187 ALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTHM  248 (309)
Q Consensus       187 ~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~~g------~~r~~~~~l~~~~~  248 (309)
                      ++.+||..+.|++|+.++...+++.++.+    .++.++++++..+++.+.+      .++.++++++.++.
T Consensus       312 al~~Rf~~i~v~~p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~~a~~  383 (468)
T 3pxg_A          312 ALERRFQPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGS  383 (468)
T ss_dssp             HHHHSEEEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHH
T ss_pred             HHHHhCccceeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHHHHHH
Confidence            99999999999999999999999987766    6889999999999998753      36789998877664

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.79  E-value=1.2e-18  Score=148.90  Aligned_cols=194  Identities=16%  Similarity=0.224  Sum_probs=138.2

Q ss_pred             cccccChHHHHHHHHHHhcCC--------C-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHH
Q 021660           53 ADVAAHRDIVDTIDRLTSENR--------L-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~--------~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (309)
                      .+++|++.+++.+...+....        + .+++|+||||||||++++.+++.+...+.  .++.+++...........
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            468899999998888876531        1 24999999999999999999999854433  345555543222111111


Q ss_pred             HHHHhhhcccc----c---cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecC-----
Q 021660          124 QIQDFASTQSF----S---FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQ-----  180 (309)
Q Consensus       124 ~~~~~~~~~~~----~---~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~-----  180 (309)
                      .+.........    .   ......+.+|+|||++.+.+..++.|+.+++...           .++.+|+++|.     
T Consensus        95 l~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~ttn~~~~~i  174 (311)
T 4fcw_A           95 LIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMTSNLGSPLI  174 (311)
T ss_dssp             HHCCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEEESTTHHHH
T ss_pred             hcCCCCccccccccchHHHHHHhCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEecccCHHHH
Confidence            11000000000    0   0000135799999999999999999999999754           24558888887     


Q ss_pred             ---------------------Ccccchhhhcce-eEEEecCCChHHHHHHHHHHHHHc---------CCCCCHHHHHHHH
Q 021660          181 ---------------------VNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVTEGGLAALV  229 (309)
Q Consensus       181 ---------------------~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~~l~~i~  229 (309)
                                           ...+.+.+.+|+ ..+.|.||+.+++..++...+.+.         ...+++++++.++
T Consensus       175 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~  254 (311)
T 4fcw_A          175 LEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYLRARLAEKRISLELTEAAKDFLA  254 (311)
T ss_dssp             HTTTTSCCCSSTHHHHTHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHHHHHHHTTTCEEEECHHHHHHHH
T ss_pred             HhhhcccccHHHHHHHHHHHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHhCCcEEEeCHHHHHHHH
Confidence                                 345677889999 889999999999999998877653         3568999999999


Q ss_pred             HHh---cCCHHHHHHHHHHHHh
Q 021660          230 RLC---NGDMRKALNILQSTHM  248 (309)
Q Consensus       230 ~~~---~g~~r~~~~~l~~~~~  248 (309)
                      ++.   +|++|.+.+.++.+..
T Consensus       255 ~~~~~~~gn~R~L~~~i~~~~~  276 (311)
T 4fcw_A          255 ERGYDPVFGARPLRRVIQRELE  276 (311)
T ss_dssp             HHSCBTTTBTTTHHHHHHHHTH
T ss_pred             HhCCCccCCchhHHHHHHHHHH
Confidence            976   4999999999987765

>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=99.78  E-value=1.2e-18  Score=167.50  Aligned_cols=202  Identities=14%  Similarity=0.188  Sum_probs=139.0

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCCC
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD  115 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~  115 (309)
                      .+|.++++|..+++++|++..+..+..++.....++++|+||||||||++++.+++.+....     .+..++.+++...
T Consensus       158 ~~l~~~~r~~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l  237 (854)
T 1qvr_A          158 IDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL  237 (854)
T ss_dssp             EEHHHHHHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---
T ss_pred             HhHHHHHhcCCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHh
Confidence            35788899999999999999999999999888777899999999999999999999984422     1445566655432


Q ss_pred             cc----hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC--------HHHHHHHHHHHHHhcCCceEEEEecCCc-
Q 021660          116 RG----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--------KDAQFALRRVIEKYTKNTRFALICNQVN-  182 (309)
Q Consensus       116 ~~----~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~--------~~~~~~l~~~l~~~~~~~~~i~~~~~~~-  182 (309)
                      ..    .......+.........    ..++.+|+|||++.+.        .+..+.|..+++.  ....+|++++... 
T Consensus       238 ~~g~~~~g~~~~~l~~~~~~~~~----~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~--~~i~~I~at~~~~~  311 (854)
T 1qvr_A          238 LAGAKYRGEFEERLKAVIQEVVQ----SQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEY  311 (854)
T ss_dssp             --------CHHHHHHHHHHHHHT----TCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHH
T ss_pred             hccCccchHHHHHHHHHHHHHHh----cCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC--CCeEEEEecCchHH
Confidence            11    11112222222211110    1146799999999986        2334556666654  3556777776543 


Q ss_pred             ---ccchhhhcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHhcC------CHHHHHHHHHHHHh
Q 021660          183 ---KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTHM  248 (309)
Q Consensus       183 ---~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~~g------~~r~~~~~l~~~~~  248 (309)
                         .+.+++.+||..+.+++|+.++...+++..+.+    .++.++++++..+++.+.|      .++.++.+++.++.
T Consensus       312 ~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp~kai~lldea~a  390 (854)
T 1qvr_A          312 REIEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAA  390 (854)
T ss_dssp             HHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHH
T ss_pred             hhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccChHHHHHHHHHHHH
Confidence               367899999988999999999999999876653    4788999999999998843      48888888876664

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.78  E-value=2.8e-17  Score=139.44  Aligned_cols=203  Identities=16%  Similarity=0.187  Sum_probs=140.1

Q ss_pred             cccccChHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhh
Q 021660           53 ADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  130 (309)
                      ++++|+...+..+...+..  ....+++|+||||||||++|+.+++.....  ...++.+++..... ..+.+.+..   
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~--~~~~v~v~~~~~~~-~l~~~~lfg---   75 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSARS--DRPLVTLNCAALNE-SLLESELFG---   75 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSSCS--SSCCCEEECSSCCH-HHHHHHHTC---
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCccc--CCCeEEEeCCCCCh-HHHHHHhcC---
Confidence            3688999888888777654  233459999999999999999999976322  34566777765322 222221111   


Q ss_pred             ccccccC----------CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------
Q 021660          131 TQSFSFG----------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------  182 (309)
Q Consensus       131 ~~~~~~~----------~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~-------  182 (309)
                      .....+.          ..+.+.+|+|||++.++.+.+..|+.++++..           .++++|++||...       
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          01135699999999999999999999999642           4577888887641       


Q ss_pred             ccchhhhcce--eEEEecCCC--hHHHHHHHHHHHHH----cC---CCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc
Q 021660          183 KIIPALQSRC--TRFRFAPLE--PVHVTERLKHVIEA----EG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (309)
Q Consensus       183 ~l~~~l~~r~--~~i~~~~~~--~~~~~~~l~~~~~~----~~---~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~  250 (309)
                      .+.+.+..|+  ..+.++|+.  .+++..++...+.+    .+   ..+++++++.+..+. +||+|.+.+.++.+...+
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            3456788887  446677777  46666666655443    33   468999999999987 999999999999887654


Q ss_pred             --CCcCHHHHHhh
Q 021660          251 --QQITEEAVYLC  261 (309)
Q Consensus       251 --~~i~~~~v~~~  261 (309)
                        ..|+.+++...
T Consensus       236 ~~~~i~~~~l~~~  248 (304)
T 1ojl_A          236 TGEYISERELPLA  248 (304)
T ss_dssp             CSSSBCGGGSCGG
T ss_pred             CCCcccHHhhhhh
Confidence              45777766443

>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=99.77  E-value=1.1e-17  Score=139.58  Aligned_cols=204  Identities=16%  Similarity=0.136  Sum_probs=133.8

Q ss_pred             CccccccChHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           51 SLADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      +|++++|+...+..+.+.+..  ....+++|+||||||||++++.+++.....  ...++.+++.... ...+...+...
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            578899999888877766543  223459999999999999999999886322  3457777776532 12222211100


Q ss_pred             hh-----c---cccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEEEecCCc-------
Q 021660          129 AS-----T---QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVN-------  182 (309)
Q Consensus       129 ~~-----~---~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~~~~-------  182 (309)
                      ..     .   ....+ ....+.+|+|||++.++.+.+..|+.+++..           +.+..+|+++|...       
T Consensus        81 ~~~~~~g~~~~~~~~l-~~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~~~~~~~~~~  159 (265)
T 2bjv_A           81 EAGAFTGAQKRHPGRF-ERADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVNEG  159 (265)
T ss_dssp             C---------CCCCHH-HHTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESSCHHHHHHHT
T ss_pred             cccccccccccccchh-hhcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCcCHHHHHHcC
Confidence            00     0   00000 0124579999999999999999999999963           34677888888642       


Q ss_pred             ccchhhhcce--eEEEecCCCh--HHHHHHHHHH----HHHcCC----CCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhh
Q 021660          183 KIIPALQSRC--TRFRFAPLEP--VHVTERLKHV----IEAEGL----DVTEGGLAALVRLC-NGDMRKALNILQSTHMA  249 (309)
Q Consensus       183 ~l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~----~~~~~~----~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~  249 (309)
                      .+.+.+.+|+  ..+.++++..  +++..++..+    ..+.+.    .+++++++.+..+. +||+|.+.+.++.+...
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            3567888888  4577777765  5666554444    344554    68999999998775 89999999999987754


Q ss_pred             c--CCcCHHHH
Q 021660          250 S--QQITEEAV  258 (309)
Q Consensus       250 ~--~~i~~~~v  258 (309)
                      +  ..|+.+++
T Consensus       240 ~~~~~i~~~~l  250 (265)
T 2bjv_A          240 HGTSDYPLDDI  250 (265)
T ss_dssp             HCCSSSCBCCC
T ss_pred             CCCCcCcHHHc
Confidence            3  45666554

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.77  E-value=4.6e-19  Score=140.46  Aligned_cols=163  Identities=14%  Similarity=0.168  Sum_probs=115.0

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCCC
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD  115 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~  115 (309)
                      .+|.++++|..+++++|++..++.+..++......+++|+||+|+|||++++.+++.+....     ....++.+++...
T Consensus        10 ~~l~~~~~~~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (195)
T 1jbk_A           10 IDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL   89 (195)
T ss_dssp             EEHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHH
T ss_pred             HHHHHHHhhccccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHH
Confidence            46889999999999999999999999999887777799999999999999999999985421     1233444443211


Q ss_pred             ----cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------HHHHHHHHHHHhcCCceEEEEecCCc-
Q 021660          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICNQVN-  182 (309)
Q Consensus       116 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------~~~~l~~~l~~~~~~~~~i~~~~~~~-  182 (309)
                          .........+........    ...++.+|+|||++.+...        ..+.|..+++.  ....+|++++... 
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~----~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~--~~~~~i~~~~~~~~  163 (195)
T 1jbk_A           90 VAGAKYRGEFEERLKGVLNDLA----KQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEY  163 (195)
T ss_dssp             HTTTCSHHHHHHHHHHHHHHHH----HSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHHH
T ss_pred             hccCCccccHHHHHHHHHHHHh----hcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhcc--CCeEEEEeCCHHHH
Confidence                111222222332222110    0114679999999998632        25566666653  3567777777654 


Q ss_pred             ----ccchhhhcceeEEEecCCChHHHHHHH
Q 021660          183 ----KIIPALQSRCTRFRFAPLEPVHVTERL  209 (309)
Q Consensus       183 ----~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (309)
                          .+.+++.+||..+.+.+|+.++..+++
T Consensus       164 ~~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          164 RQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence                567999999988999999999887764

>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=99.77  E-value=6.2e-18  Score=141.64  Aligned_cols=181  Identities=14%  Similarity=0.220  Sum_probs=118.7

Q ss_pred             cccccChHHHHHHHH-------HHh---cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc---ch-
Q 021660           53 ADVAAHRDIVDTIDR-------LTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---GI-  118 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~-------~~~---~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~---~~-  118 (309)
                      ..++|+...++.+..       .+.   .....+++|+||||||||++|+.+++.+     +..++.+++....   .. 
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            456777666554443       333   2233459999999999999999999997     5566666654321   11 


Q ss_pred             ---HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCC----------CHHHHHHHHHHHHHh---cCCceEEEEecCCc
Q 021660          119 ---DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM----------TKDAQFALRRVIEKY---TKNTRFALICNQVN  182 (309)
Q Consensus       119 ---~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l----------~~~~~~~l~~~l~~~---~~~~~~i~~~~~~~  182 (309)
                         ..+...+.....         ..+.+|+|||++.+          .....+.|...++..   .....+|+++|...
T Consensus       108 ~~~~~~~~~~~~~~~---------~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~  178 (272)
T 1d2n_A          108 AKCQAMKKIFDDAYK---------SQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKD  178 (272)
T ss_dssp             HHHHHHHHHHHHHHT---------SSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHH
T ss_pred             HHHHHHHHHHHHHHh---------cCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChh
Confidence               122222222211         15789999999887          233344555555432   22334666677776


Q ss_pred             ccch-hhhcce-eEEEecCCCh-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-----CHHHHHHHHHHHHhhcCC
Q 021660          183 KIIP-ALQSRC-TRFRFAPLEP-VHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-----DMRKALNILQSTHMASQQ  252 (309)
Q Consensus       183 ~l~~-~l~~r~-~~i~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-----~~r~~~~~l~~~~~~~~~  252 (309)
                      .+.+ .+.+|+ ..+.+++++. +++..++.+.     ..++++.+..+++.+.|     ++|.+++.++.+...+..
T Consensus       179 ~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~-----~~~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~~~  251 (272)
T 1d2n_A          179 VLQEMEMLNAFSTTIHVPNIATGEQLLEALELL-----GNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPE  251 (272)
T ss_dssp             HHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH-----TCSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSCGG
T ss_pred             hcchhhhhcccceEEcCCCccHHHHHHHHHHhc-----CCCCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhchH
Confidence            6665 577886 8889988877 5666665542     25789999999999988     999999999988765433

>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=99.76  E-value=2.9e-17  Score=147.46  Aligned_cols=189  Identities=20%  Similarity=0.263  Sum_probs=136.2

Q ss_pred             hhcCCCCccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           45 EKYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        45 ~~~~p~~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      +...+..+++++|.+..++.+.+++..             ....++||+||||||||++|+++++++     +..++.++
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            345677899999999999999888753             233459999999999999999999987     56777777


Q ss_pred             cCCCc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--CCc
Q 021660          112 ASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNT  172 (309)
Q Consensus       112 ~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~~--~~~  172 (309)
                      +....      ....+...+.....         ..+.+|+|||+|.+..           ..+..|+..++...  .+.
T Consensus       271 ~~~l~~~~~g~~~~~~~~~f~~A~~---------~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v  341 (489)
T 3hu3_A          271 GPEIMSKLAGESESNLRKAFEEAEK---------NAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  341 (489)
T ss_dssp             HHHHHTSCTTHHHHHHHHHHHHHHH---------TCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCE
T ss_pred             chHhhhhhcchhHHHHHHHHHHHHh---------cCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCce
Confidence            64311      11122222222221         1467999999977653           45678899998643  356


Q ss_pred             eEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC-HHHHHHHHHHHHh
Q 021660          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTHM  248 (309)
Q Consensus       173 ~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~-~r~~~~~l~~~~~  248 (309)
                      ++|.+||....+.+++.+  || ..+.+..|+.++..++++.+++..... .+..+..+++.+.|. .+.+..+++.++.
T Consensus       342 ~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~-~~~~l~~la~~t~g~s~~dL~~L~~~A~~  420 (489)
T 3hu3_A          342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAALCSEAAL  420 (489)
T ss_dssp             EEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHH
T ss_pred             EEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCc-chhhHHHHHHHccCCcHHHHHHHHHHHHH
Confidence            777788988889999988  67 679999999999999999887655443 233467888888775 4445555555554

>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=99.76  E-value=9.3e-20  Score=152.46  Aligned_cols=205  Identities=20%  Similarity=0.233  Sum_probs=135.3

Q ss_pred             hcCCCCccccccChHHHHHHHHHHhc-----------CC-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC
Q 021660           46 KYRPQSLADVAAHRDIVDTIDRLTSE-----------NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (309)
Q Consensus        46 ~~~p~~~~~~ig~~~~~~~l~~~~~~-----------~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (309)
                      .+.+..|++++|++..++.+.+++..           .. ..+++|+||||||||++++.+++.+.     ..++.+++.
T Consensus         4 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~-----~~~~~v~~~   78 (268)
T 2r62_A            4 EKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAH-----VPFFSMGGS   78 (268)
T ss_dssp             CCCCCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHT-----CCCCCCCSC
T ss_pred             cCCCCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhC-----CCEEEechH
Confidence            34566789999999999888877651           12 33499999999999999999999983     333333333


Q ss_pred             CCc------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH---------------HHHHHHHHHHhc---
Q 021660          114 DDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA---------------QFALRRVIEKYT---  169 (309)
Q Consensus       114 ~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~---------------~~~l~~~l~~~~---  169 (309)
                      ...      +...+...+.....         ..+.+|+|||+|.+....               .+.|+..++...   
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~a~~---------~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  149 (268)
T 2r62_A           79 SFIEMFVGLGASRVRDLFETAKK---------QAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSEN  149 (268)
T ss_dssp             TTTTSCSSSCSSSSSTTHHHHHH---------SCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSC
T ss_pred             HHHHhhcchHHHHHHHHHHHHHh---------cCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCC
Confidence            211      00111111111111         146799999999986532               234555554332   


Q ss_pred             CCceEEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHH
Q 021660          170 KNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQS  245 (309)
Q Consensus       170 ~~~~~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~  245 (309)
                      ....+|+++|....+++++.+  |+ ..+.|++|+.++..++++.+++..... ++..++.+++.+.| ..+.+.++++.
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            235667777888888888887  66 679999999999999998887644322 23336667777776 34577777776


Q ss_pred             HHhhc-----CCcCHHHHHhhhCCC
Q 021660          246 THMAS-----QQITEEAVYLCTGNP  265 (309)
Q Consensus       246 ~~~~~-----~~i~~~~v~~~~~~~  265 (309)
                      +...+     ..|+.+++..++...
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            66543     469999998877643

>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=99.75  E-value=1.4e-17  Score=151.94  Aligned_cols=203  Identities=20%  Similarity=0.246  Sum_probs=138.2

Q ss_pred             ccccccChHHHHHHHHHHh------cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH----
Q 021660           52 LADVAAHRDIVDTIDRLTS------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV----  121 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----  121 (309)
                      ..+++|.+.+...+...+.      ..+.++++|+||||||||++++.++..+     ...+..+++........+    
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            4568999999887766543      2234569999999999999999999998     445555555432111111    


Q ss_pred             -------HHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH----HHHHHHHHHHhc---------------CCceEE
Q 021660          122 -------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA----QFALRRVIEKYT---------------KNTRFA  175 (309)
Q Consensus       122 -------~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~----~~~l~~~l~~~~---------------~~~~~i  175 (309)
                             ...+........      ....+++|||++.+..+.    ++.|+++++...               .++.+|
T Consensus       155 ~~~ig~~~~~~~~~~~~a~------~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI  228 (543)
T 3m6a_A          155 RTYVGAMPGRIIQGMKKAG------KLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFI  228 (543)
T ss_dssp             ---------CHHHHHHTTC------SSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEE
T ss_pred             HHHhccCchHHHHHHHHhh------ccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEE
Confidence                   111111111110      134599999999998763    467777776321               356788


Q ss_pred             EEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHH-----Hc-----CCCCCHHHHHHHHHHhc--CCHHHHHHHH
Q 021660          176 LICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE-----AE-----GLDVTEGGLAALVRLCN--GDMRKALNIL  243 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~-----~~-----~~~~~~~~l~~i~~~~~--g~~r~~~~~l  243 (309)
                      +++|....+++++++||.++.|++|+.++...++..++.     ..     ++.++++++..+++.+.  |++|.+.+.+
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            888999999999999999999999999999999888663     22     34678999999888664  7888888877


Q ss_pred             HHHHhhc-----------CCcCHHHHHhhhCCC
Q 021660          244 QSTHMAS-----------QQITEEAVYLCTGNP  265 (309)
Q Consensus       244 ~~~~~~~-----------~~i~~~~v~~~~~~~  265 (309)
                      +.++..+           ..|+.+++...++..
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            6655422           247777887777654

>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=99.74  E-value=3.1e-17  Score=156.22  Aligned_cols=217  Identities=12%  Similarity=0.119  Sum_probs=150.5

Q ss_pred             CCcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcc-----cccEEEEecC
Q 021660           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNAS  113 (309)
Q Consensus        39 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-----~~~~~~~~~~  113 (309)
                      -..+|.++++|..+++++|++..++.+.+.+......+++|+||||||||++++.+++.+.+...     ...+..++..
T Consensus       172 ~~~~l~~~~~~~~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~  251 (758)
T 1r6b_X          172 FTTNLNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG  251 (758)
T ss_dssp             SSCBHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC
T ss_pred             HhHhHHHHHhcCCCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHH
Confidence            34568999999999999999999999999998887788999999999999999999999854321     2223333222


Q ss_pred             CCc----chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC---------HHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          114 DDR----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT---------KDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       114 ~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~---------~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      ...    ....+...+.........     .++.+|+|||++.+.         .+..+.|..+++  .....+|++++.
T Consensus       252 ~l~~~~~~~g~~e~~l~~~~~~~~~-----~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I~at~~  324 (758)
T 1r6b_X          252 SLLAGTKYRGDFEKRFKALLKQLEQ-----DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTY  324 (758)
T ss_dssp             ---CCCCCSSCHHHHHHHHHHHHSS-----SSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECH
T ss_pred             HHhccccccchHHHHHHHHHHHHHh-----cCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEEEEeCc
Confidence            110    111222223322221111     146899999999983         122233333333  234566777764


Q ss_pred             C-----cccchhhhcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHhcC------CHHHHHHHHHH
Q 021660          181 V-----NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQS  245 (309)
Q Consensus       181 ~-----~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~~g------~~r~~~~~l~~  245 (309)
                      .     ...++++.+||..+.|++|+.++..+++..++..    .++.++++++..+++.+.|      .+..+++.++.
T Consensus       325 ~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~~~~~~~~~v~~~~~al~~~~~~s~~~i~~~~lp~~~i~lld~  404 (758)
T 1r6b_X          325 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDE  404 (758)
T ss_dssp             HHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHH
T ss_pred             hHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhcccccCchHHHHHHHH
Confidence            3     2456789999999999999999999999887765    6788999999999988754      46678888866


Q ss_pred             HHhh---------cCCcCHHHHHhhh
Q 021660          246 THMA---------SQQITEEAVYLCT  262 (309)
Q Consensus       246 ~~~~---------~~~i~~~~v~~~~  262 (309)
                      ++..         ...++.+++..++
T Consensus       405 a~~~~~~~~~~~~~~~v~~~di~~~~  430 (758)
T 1r6b_X          405 AGARARLMPVSKRKKTVNVADIESVV  430 (758)
T ss_dssp             HHHHHHHSSSCCCCCSCCHHHHHHHH
T ss_pred             HHHHHhcccccccCCccCHHHHHHHH
Confidence            5532         2458888887665

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.74  E-value=2.4e-17  Score=156.78  Aligned_cols=194  Identities=15%  Similarity=0.204  Sum_probs=139.4

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCC
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~  114 (309)
                      ...|.++++|..+++++|++..++.+..++.....++++|+||||||||++|+.+++.+.+..     .+..++.++...
T Consensus       167 ~~~l~~~~~~~~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~  246 (758)
T 3pxi_A          167 ARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGT  246 (758)
T ss_dssp             CCBHHHHTTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----
T ss_pred             HHHHHHHHhhCCCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccc
Confidence            456889999999999999999999999999988888899999999999999999999984432     133344444311


Q ss_pred             C---cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc-----ccch
Q 021660          115 D---RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN-----KIIP  186 (309)
Q Consensus       115 ~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~-----~l~~  186 (309)
                      .   .....+...+.....         .++.+|+||    ...+.++.|...++  .....+|++||...     .+++
T Consensus       247 ~~~G~~e~~l~~~~~~~~~---------~~~~iLfiD----~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~  311 (758)
T 3pxi_A          247 KYRGEFEDRLKKVMDEIRQ---------AGNIILFID----AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDA  311 (758)
T ss_dssp             ------CTTHHHHHHHHHT---------CCCCEEEEC----C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCS
T ss_pred             cccchHHHHHHHHHHHHHh---------cCCEEEEEc----CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccH
Confidence            0   011123333333322         156799999    33345566666665  34667788887766     5789


Q ss_pred             hhhcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHhc------CCHHHHHHHHHHHHh
Q 021660          187 ALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (309)
Q Consensus       187 ~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~~------g~~r~~~~~l~~~~~  248 (309)
                      ++.+||..+.|++|+.++...+++..+..    .++.++++++..+++.+.      ..++.++.+++.++.
T Consensus       312 al~rRf~~i~v~~p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~ll~~a~~  383 (758)
T 3pxi_A          312 ALERRFQPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGS  383 (758)
T ss_dssp             HHHHSEEEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHH
T ss_pred             HHHhhCcEEEeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHHHHHHHHH
Confidence            99999999999999999999999977665    578899999999998874      356788888876653

>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=99.73  E-value=1.5e-16  Score=131.85  Aligned_cols=206  Identities=21%  Similarity=0.238  Sum_probs=133.6

Q ss_pred             hhcCCCCccccccChHHHHHHHHHHhcC------------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           45 EKYRPQSLADVAAHRDIVDTIDRLTSEN------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        45 ~~~~p~~~~~~ig~~~~~~~l~~~~~~~------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      ....+.+|++++|.++.+..+.+....-            ...+++|+||+|+|||++++.++..+     ...++.+++
T Consensus         8 ~~~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~-----~~~~i~~~~   82 (254)
T 1ixz_A            8 TEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITASG   82 (254)
T ss_dssp             CCCCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEH
T ss_pred             cCCCCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh-----CCCEEEeeH
Confidence            3445567899999998888777664311            12349999999999999999999987     344555554


Q ss_pred             CCCc--chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HH---HHHHHHHHHHhcC-C-ceE
Q 021660          113 SDDR--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DA---QFALRRVIEKYTK-N-TRF  174 (309)
Q Consensus       113 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~---~~~l~~~l~~~~~-~-~~~  174 (309)
                      ....  ........+....+....     ..+.++++||++.+..           ..   .+.++..++.... . ..+
T Consensus        83 ~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~  157 (254)
T 1ixz_A           83 SDFVEMFVGVGAARVRDLFETAKR-----HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVV  157 (254)
T ss_dssp             HHHHHSCTTHHHHHHHHHHHHHTT-----SSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEE
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHh-----cCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEE
Confidence            3210  011111222222221110     1467999999976531           11   2334444443222 2 345


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCH-HHHHHHHHHHHhh
Q 021660          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNGDM-RKALNILQSTHMA  249 (309)
Q Consensus       175 i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~l~~i~~~~~g~~-r~~~~~l~~~~~~  249 (309)
                      +.+++.++.+++++.+  || ..+.++.|+.++..++++.+++  +..++++ .+..+++.+.|+. +.+.++++.++..
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            5567888889999987  56 7799999999999999987764  4455444 3788999999876 6777777766543


Q ss_pred             c-----CCcCHHHHHhhh
Q 021660          250 S-----QQITEEAVYLCT  262 (309)
Q Consensus       250 ~-----~~i~~~~v~~~~  262 (309)
                      +     ..|+.+++.+++
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     468888887765

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.73  E-value=4.7e-17  Score=145.86  Aligned_cols=203  Identities=21%  Similarity=0.274  Sum_probs=138.6

Q ss_pred             CCCCccccccChHHHHHHHHHHhc-----------CC-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSE-----------NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~-----------~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      .+.+|++++|.++.+..+.+.+..           .. +..++|+||||||||+++++++..+     ...++.+++...
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~-----~~~~i~i~g~~~  100 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITASGSDF  100 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT-----TCCEEEEEGGGG
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEehhHH
Confidence            567899999999999888777542           11 2349999999999999999999987     456667776532


Q ss_pred             c--chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHh---c--CCceEEEE
Q 021660          116 R--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY---T--KNTRFALI  177 (309)
Q Consensus       116 ~--~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~---~--~~~~~i~~  177 (309)
                      .  ........+....+...     ...+.+++|||++.+..           +....+..++...   .  ....++.+
T Consensus       101 ~~~~~g~~~~~v~~lfq~a~-----~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAa  175 (499)
T 2dhr_A          101 VEMFVGVGAARVRDLFETAK-----RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAA  175 (499)
T ss_dssp             TSSCTTHHHHHHHHHTTTSS-----SSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEEC
T ss_pred             HHhhhhhHHHHHHHHHHHHH-----hcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEe
Confidence            1  11222333333333211     11467999999987742           1123333444332   2  23455556


Q ss_pred             ecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCH-HHHHHHHHHHHhhc--
Q 021660          178 CNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNGDM-RKALNILQSTHMAS--  250 (309)
Q Consensus       178 ~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~l~~i~~~~~g~~-r~~~~~l~~~~~~~--  250 (309)
                      +|.++.+++++.+  || ..+.+++|+.++..++++.+++  +..++++ .+..++..+.|+. +.+.++++.++..+  
T Consensus       176 tn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~--~~~l~~dv~l~~lA~~t~G~~gadL~~lv~~Aa~~A~~  253 (499)
T 2dhr_A          176 TNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAR  253 (499)
T ss_dssp             CSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTS--SSCCCCSSTTHHHHTTSCSCCHHHHHHHHHHHHHHHTT
T ss_pred             cCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence            6888888888887  55 6799999999999999987654  4455544 4788999999988 78888887766533  


Q ss_pred             ---CCcCHHHHHhhh
Q 021660          251 ---QQITEEAVYLCT  262 (309)
Q Consensus       251 ---~~i~~~~v~~~~  262 (309)
                         ..|+.+++..++
T Consensus       254 ~~~~~It~~dl~~al  268 (499)
T 2dhr_A          254 EGRRKITMKDLEEAA  268 (499)
T ss_dssp             TCCSSCCSHHHHHHH
T ss_pred             hCCCccCHHHHHHHH
Confidence               368888887666

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.73  E-value=3.7e-18  Score=134.52  Aligned_cols=156  Identities=15%  Similarity=0.168  Sum_probs=107.5

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCC
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~  114 (309)
                      ..+|.++++|..+++++|++..++.+..++......+++|+||+|+|||++++.+++.+....     ....+..++...
T Consensus         9 ~~~l~~~~~~~~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (187)
T 2p65_A            9 SRDLTALARAGKLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSS   88 (187)
T ss_dssp             EEEHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHH
T ss_pred             HHHHHHHHhccccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHH
Confidence            456899999999999999999999999999887777899999999999999999999985421     123344443221


Q ss_pred             C----cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC---------HHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          115 D----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT---------KDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       115 ~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~---------~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      .    .........+.........    ..++.+|+|||++.+.         .+..+.|..+++.  ....+|++++..
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~--~~~~ii~~~~~~  162 (187)
T 2p65_A           89 LIAGAKYRGDFEERLKSILKEVQD----AEGQVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLAR--GELRCIGATTVS  162 (187)
T ss_dssp             HHHHCCSHHHHHHHHHHHHHHHHH----TTTSEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHT--TCSCEEEEECHH
T ss_pred             hhcCCCchhHHHHHHHHHHHHHHh----cCCceEEEEeCHHHhcccccccccchHHHHHHHHHHhc--CCeeEEEecCHH
Confidence            1    0111112222222111110    1146799999999986         3345566666653  356777777755


Q ss_pred             c-----ccchhhhcceeEEEecCCC
Q 021660          182 N-----KIIPALQSRCTRFRFAPLE  201 (309)
Q Consensus       182 ~-----~l~~~l~~r~~~i~~~~~~  201 (309)
                      .     .+.+++.+||..+.+++|+
T Consensus       163 ~~~~~~~~~~~l~~R~~~i~i~~p~  187 (187)
T 2p65_A          163 EYRQFIEKDKALERRFQQILVEQPS  187 (187)
T ss_dssp             HHHHHTTTCHHHHHHEEEEECCSCC
T ss_pred             HHHHHHhccHHHHHhcCcccCCCCC
Confidence            4     5789999999889998875

>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=99.72  E-value=9e-17  Score=140.82  Aligned_cols=204  Identities=19%  Similarity=0.230  Sum_probs=135.3

Q ss_pred             ccccChHHHHHHHHHHh----c--------------------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           54 DVAAHRDIVDTIDRLTS----E--------------------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~----~--------------------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      .++|++.+++.+..++.    .                          ....+++|+||||||||++|+.+++.+     
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            58999999998887762    1                          123459999999999999999999998     


Q ss_pred             cccEEEEecCCCcc----hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHH
Q 021660          104 HNMILELNASDDRG----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVI  165 (309)
Q Consensus       104 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l  165 (309)
                      +..++.+++.....    .......+..........+ ....+.+|+|||++.+...              .++.|+.++
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            45566666543211    0111111222211111000 0114679999999999877              889999999


Q ss_pred             HHhc---------------------CCceEEEEecC-----------------------------------------Ccc
Q 021660          166 EKYT---------------------KNTRFALICNQ-----------------------------------------VNK  183 (309)
Q Consensus       166 ~~~~---------------------~~~~~i~~~~~-----------------------------------------~~~  183 (309)
                      +...                     .+..+|++++.                                         ...
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            9531                     23455655541                                         112


Q ss_pred             cchhhhcce-eEEEecCCChHHHHHHHHH----HHH-------H--cCCCCCHHHHHHHHHHhc---CCHHHHHHHHHHH
Q 021660          184 IIPALQSRC-TRFRFAPLEPVHVTERLKH----VIE-------A--EGLDVTEGGLAALVRLCN---GDMRKALNILQST  246 (309)
Q Consensus       184 l~~~l~~r~-~~i~~~~~~~~~~~~~l~~----~~~-------~--~~~~~~~~~l~~i~~~~~---g~~r~~~~~l~~~  246 (309)
                      +.+.+.+|+ .++.|++++.+++..++..    ++.       .  .++.+++++++.|++++.   |++|.+.+.++.+
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            457888998 8899999999999998862    211       1  235689999999999965   9999999999877


Q ss_pred             Hhhc-----C------CcCHHHHHhhhC
Q 021660          247 HMAS-----Q------QITEEAVYLCTG  263 (309)
Q Consensus       247 ~~~~-----~------~i~~~~v~~~~~  263 (309)
                      ....     .      .||.+++.....
T Consensus       336 ~~~~~~~~~~~~~~~~~i~~~~v~~~~~  363 (376)
T 1um8_A          336 CLDIMFDLPKLKGSEVRITKDCVLKQAE  363 (376)
T ss_dssp             HHHHHHTGGGGTTSEEEECHHHHTTSSC
T ss_pred             HHHHHhhccCCCCCEEEEeHHHhcCCCC
Confidence            6531     1      478888776553

>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=99.72  E-value=4e-16  Score=138.31  Aligned_cols=217  Identities=18%  Similarity=0.241  Sum_probs=140.1

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHH-h----c--CCCCeEEE--ECCCCCcHHHHHHHHHHHHccC----cccccEEE
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLT-S----E--NRLPHLLL--YGPPGTGKTSTILAVARKLYGA----QYHNMILE  109 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~-~----~--~~~~~~ll--~G~~G~GKT~l~~~l~~~~~~~----~~~~~~~~  109 (309)
                      +...|.|   +.++|++..++.+..++ .    +  .....++|  +||+|+|||++++.+++.+...    +....++.
T Consensus        15 ~~~~~~p---~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~   91 (412)
T 1w5s_A           15 FDENYIP---PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAY   91 (412)
T ss_dssp             GSTTCCC---SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cCCccCC---CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEE
Confidence            3344444   67899999999888877 4    2  23445889  9999999999999999987432    12344566


Q ss_pred             EecCCCcchHHH-HHHHHHhhhcccc--------------ccCCCCccEEEEEeCCCCCCH------HHHHHHHHHHHHh
Q 021660          110 LNASDDRGIDVV-RQQIQDFASTQSF--------------SFGVKASVKLVLLDEADAMTK------DAQFALRRVIEKY  168 (309)
Q Consensus       110 ~~~~~~~~~~~~-~~~~~~~~~~~~~--------------~~~~~~~~~lliiDe~~~l~~------~~~~~l~~~l~~~  168 (309)
                      +++........+ ...+..+....+.              .+.....+.+|+|||++.+..      +....+..++...
T Consensus        92 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~  171 (412)
T 1w5s_A           92 VNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEI  171 (412)
T ss_dssp             EEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHS
T ss_pred             EECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhc
Confidence            665322222221 1111111100000              000012467999999998753      4555666777654


Q ss_pred             c-----CCceEEEEecCCc---ccc---hhhhcce-eEEEecCCChHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHhc-
Q 021660          169 T-----KNTRFALICNQVN---KII---PALQSRC-TRFRFAPLEPVHVTERLKHVIEAEG--LDVTEGGLAALVRLCN-  233 (309)
Q Consensus       169 ~-----~~~~~i~~~~~~~---~l~---~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~l~~i~~~~~-  233 (309)
                      +     ....+|++++...   .+.   +.+.+++ ..+.|+|++.+++.+++..++...+  ..++++++..+++.++ 
T Consensus       172 ~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~  251 (412)
T 1w5s_A          172 PSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGE  251 (412)
T ss_dssp             CCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCG
T ss_pred             ccCCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHH
Confidence            4     3445666776543   222   4455555 4499999999999999998876543  3578999999999999 


Q ss_pred             -----CCHHHHHHHHHHHHhhc-----CCcCHHHHHhhh
Q 021660          234 -----GDMRKALNILQSTHMAS-----QQITEEAVYLCT  262 (309)
Q Consensus       234 -----g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~  262 (309)
                           |+|+.+..+++.+...+     ..++.+++..++
T Consensus       252 ~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~  290 (412)
T 1w5s_A          252 DKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAV  290 (412)
T ss_dssp             GGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHH
T ss_pred             hccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence                 99999999987654322     357777765443

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.71  E-value=9.7e-16  Score=128.65  Aligned_cols=203  Identities=21%  Similarity=0.250  Sum_probs=133.1

Q ss_pred             CCCCccccccChHHHHHHHHHHhcC------------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSEN------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~~------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      .+.+|++++|.++.+..+.+....-            ....++|+||+|+|||++++.++..+     ...++.+++...
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~-----~~~~i~~~~~~~  109 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITASGSDF  109 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEHHHH
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc-----CCCEEEecHHHH
Confidence            5568999999999988777665321            12349999999999999999999987     344555554321


Q ss_pred             c--chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC-----------HHHHHHHHHHHHHhc---C--CceEEEE
Q 021660          116 R--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKYT---K--NTRFALI  177 (309)
Q Consensus       116 ~--~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~-----------~~~~~~l~~~l~~~~---~--~~~~i~~  177 (309)
                      .  ........+....+....     ..+.++++||++.+.           ......+..++....   .  ...++.+
T Consensus       110 ~~~~~~~~~~~i~~~~~~~~~-----~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~  184 (278)
T 1iy2_A          110 VEMFVGVGAARVRDLFETAKR-----HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAA  184 (278)
T ss_dssp             HHSTTTHHHHHHHHHHHHHHT-----SCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEE
T ss_pred             HHHHhhHHHHHHHHHHHHHHh-----cCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEe
Confidence            0  011111222222221110     136799999997652           122333444444332   1  2345556


Q ss_pred             ecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCH-HHHHHHHHHHHhhc--
Q 021660          178 CNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNGDM-RKALNILQSTHMAS--  250 (309)
Q Consensus       178 ~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~l~~i~~~~~g~~-r~~~~~l~~~~~~~--  250 (309)
                      ++.++.+++++.+  || ..+.+++|+.++..++++.+++  +..++++ .+..+++.+.|+. +.+.++++.+...+  
T Consensus       185 t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~--~~~~~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~~  262 (278)
T 1iy2_A          185 TNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAR  262 (278)
T ss_dssp             ESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHT--TSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             cCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHc--cCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            7888889999887  56 7799999999999999987764  3455443 4788999999977 66777777665432  


Q ss_pred             ---CCcCHHHHHhhh
Q 021660          251 ---QQITEEAVYLCT  262 (309)
Q Consensus       251 ---~~i~~~~v~~~~  262 (309)
                         ..|+.+++.+++
T Consensus       263 ~~~~~I~~~dl~~a~  277 (278)
T 1iy2_A          263 EGRRKITMKDLEEAA  277 (278)
T ss_dssp             TTCCSBCHHHHHHHT
T ss_pred             hCCCCcCHHHHHHHh
Confidence               468888887765

>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=1e-16  Score=152.58  Aligned_cols=185  Identities=21%  Similarity=0.295  Sum_probs=134.0

Q ss_pred             cccccChHHHHHHHHHHhcCC-------CC--eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH-H
Q 021660           53 ADVAAHRDIVDTIDRLTSENR-------LP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV-R  122 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~-------~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  122 (309)
                      ..++|++..++.+...+....       .+  +++|+||||||||++|+++++.+...  ...++.+++......... .
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~--~~~~i~i~~s~~~~~~~~~~  568 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD--EESMIRIDMSEYMEKHSTSG  568 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC--TTCEEEEEGGGGCSSCCCC-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC--CcceEEEechhccccccccc
Confidence            568999999988887776321       12  59999999999999999999998443  345666666532211000 0


Q ss_pred             HHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHH-----------hcCCceEEEEecCCcc--------
Q 021660          123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK-----------YTKNTRFALICNQVNK--------  183 (309)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~-----------~~~~~~~i~~~~~~~~--------  183 (309)
                      ..+......        ..+++|+|||++.+.++.++.|++++++           ...++++|++||....        
T Consensus       569 ~~l~~~~~~--------~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~  640 (758)
T 3pxi_A          569 GQLTEKVRR--------KPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGE  640 (758)
T ss_dssp             --CHHHHHH--------CSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHH
T ss_pred             chhhHHHHh--------CCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHH
Confidence            111111111        1357999999999999999999999997           2346788888885432        


Q ss_pred             ----cchhhhcce-eEEEecCCChHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHH---hcCCHHHHHHHHHHH
Q 021660          184 ----IIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVTEGGLAALVRL---CNGDMRKALNILQST  246 (309)
Q Consensus       184 ----l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~~l~~i~~~---~~g~~r~~~~~l~~~  246 (309)
                          +.+.+.+|+ .++.|+|++.+++..++...+.+.         .+.+++++++.|++.   ..|+.|.+.+.++..
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                678899999 899999999999999988877652         346899999999886   368899888888765


Q ss_pred             H
Q 021660          247 H  247 (309)
Q Consensus       247 ~  247 (309)
                      .
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=99.71  E-value=1.8e-16  Score=146.78  Aligned_cols=218  Identities=17%  Similarity=0.206  Sum_probs=147.2

Q ss_pred             hhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC--------
Q 021660           44 VEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--------  115 (309)
Q Consensus        44 ~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--------  115 (309)
                      ..+|+|..+++++|+..+++.+...+..+  .+++|+||+|+|||++++.++..+.........+..+....        
T Consensus        32 ~~~~rp~~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~~~~~~~~~p~i~~~  109 (604)
T 3k1j_A           32 EIEVPEKLIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDENMPRIKTV  109 (604)
T ss_dssp             GSCCCSSHHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEECCTTCTTSCEEEEE
T ss_pred             cccccccccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEeCCcccccCCcEEEE
Confidence            46799999999999999999999999887  46999999999999999999998754331111111111000        


Q ss_pred             --cchHHHHHHHHH----------------------------------------------hhhcc---------------
Q 021660          116 --RGIDVVRQQIQD----------------------------------------------FASTQ---------------  132 (309)
Q Consensus       116 --~~~~~~~~~~~~----------------------------------------------~~~~~---------------  132 (309)
                        .....+......                                              +....               
T Consensus       110 p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~~~~~g~~~~g~~  189 (604)
T 3k1j_A          110 PACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHDPFQSGGLGTPAH  189 (604)
T ss_dssp             ETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCCCC----CCCCGG
T ss_pred             ecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEechhhcCCcccccc
Confidence              000000000000                                              00000               


Q ss_pred             ---ccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh---------------------cCCceEEEEecCC--cccch
Q 021660          133 ---SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY---------------------TKNTRFALICNQV--NKIIP  186 (309)
Q Consensus       133 ---~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~---------------------~~~~~~i~~~~~~--~~l~~  186 (309)
                         ....-..+++++|+|||++.+.+..++.|+.+|+..                     +.++++|+++|..  ..+.+
T Consensus       190 ~~i~~g~~~~a~~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~~~~~l~~  269 (604)
T 3k1j_A          190 ERVEPGMIHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLDTVDKMHP  269 (604)
T ss_dssp             GGEECCHHHHTTTSEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHHHHHHSCH
T ss_pred             ccccCceeeecCCCEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHHHHhhcCH
Confidence               000001124569999999999999999999999942                     2355688888865  57889


Q ss_pred             hhhccee----EEEecCC---ChHHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHh---cC-------CHHHHHHHHH
Q 021660          187 ALQSRCT----RFRFAPL---EPVHVTERLKHVIEAE-----GLDVTEGGLAALVRLC---NG-------DMRKALNILQ  244 (309)
Q Consensus       187 ~l~~r~~----~i~~~~~---~~~~~~~~l~~~~~~~-----~~~~~~~~l~~i~~~~---~g-------~~r~~~~~l~  244 (309)
                      ++.+||.    .+.|+..   ....+..++...++..     ...++++++..+++++   .|       ++|.+.++++
T Consensus       270 ~l~~R~~v~~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~~g~r~~l~~~~R~l~~llr  349 (604)
T 3k1j_A          270 ALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGIVR  349 (604)
T ss_dssp             HHHHHHHHHSEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHHHHHHHHHHTTCSTTEEECCHHHHHHHHH
T ss_pred             HHHHHhhccceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHHHHHHHHhhhhccccccccCHHHHHHHHH
Confidence            9999983    4555432   3455666665555432     2578999999999976   56       6999999998


Q ss_pred             HHHhhc-----CCcCHHHHHhhhC
Q 021660          245 STHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       245 ~~~~~~-----~~i~~~~v~~~~~  263 (309)
                      .+...+     ..|+.+++..++.
T Consensus       350 ~A~~~A~~~~~~~I~~edv~~A~~  373 (604)
T 3k1j_A          350 AAGDIAVKKGKKYVEREDVIEAVK  373 (604)
T ss_dssp             HHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHhcCcccccHHHHHHHHH
Confidence            766432     5799999988874

>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=99.70  E-value=3.1e-16  Score=149.39  Aligned_cols=184  Identities=17%  Similarity=0.215  Sum_probs=134.3

Q ss_pred             ccccccChHHHHHHHHHHhcC--------CC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc-----
Q 021660           52 LADVAAHRDIVDTIDRLTSEN--------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-----  117 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~--------~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-----  117 (309)
                      ...++|++..++.+...+...        ++ .+++|+||||||||++++.+++.+     +..++.+++.....     
T Consensus       457 ~~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l-----~~~~~~i~~s~~~~~~~~~  531 (758)
T 1r6b_X          457 KMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTVS  531 (758)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH-----TCEEEEEEGGGCSSSSCCS
T ss_pred             HhhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh-----cCCEEEEechhhcchhhHh
Confidence            346899999998887776532        12 259999999999999999999998     45566666543211     


Q ss_pred             ---------hH-HHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEE
Q 021660          118 ---------ID-VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFAL  176 (309)
Q Consensus       118 ---------~~-~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~  176 (309)
                               .. .....+......        ..+.+|+|||++.+.++.++.|+.++++..           .++.+|+
T Consensus       532 ~l~g~~~g~~g~~~~~~l~~~~~~--------~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~  603 (758)
T 1r6b_X          532 RLIGAPPGYVGFDQGGLLTDAVIK--------HPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVM  603 (758)
T ss_dssp             SSCCCCSCSHHHHHTTHHHHHHHH--------CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEE
T ss_pred             hhcCCCCCCcCccccchHHHHHHh--------CCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEE
Confidence                     00 000111111111        146899999999999999999999999642           3566888


Q ss_pred             EecCCc-------------------------ccchhhhcce-eEEEecCCChHHHHHHHHHHHHHc---------CCCCC
Q 021660          177 ICNQVN-------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVT  221 (309)
Q Consensus       177 ~~~~~~-------------------------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~  221 (309)
                      ++|...                         .+.+.+.+|+ .++.|++++.+++..++..++.+.         .+.++
T Consensus       604 tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~  683 (758)
T 1r6b_X          604 TTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVS  683 (758)
T ss_dssp             EECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEEC
T ss_pred             ecCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEEEeC
Confidence            887632                         5568889999 889999999999999999887643         34689


Q ss_pred             HHHHHHHHHHh---cCCHHHHHHHHHHHHh
Q 021660          222 EGGLAALVRLC---NGDMRKALNILQSTHM  248 (309)
Q Consensus       222 ~~~l~~i~~~~---~g~~r~~~~~l~~~~~  248 (309)
                      +++++.++++.   .++.|.+.+.++....
T Consensus       684 ~~a~~~l~~~~~~~~~g~R~l~~~i~~~~~  713 (758)
T 1r6b_X          684 QEARNWLAEKGYDRAMGARPMARVIQDNLK  713 (758)
T ss_dssp             HHHHHHHHHHHCBTTTBTTTHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCcCCCchHHHHHHHHHHH
Confidence            99999999876   4458888888776653

>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=99.69  E-value=2.5e-16  Score=147.78  Aligned_cols=179  Identities=20%  Similarity=0.264  Sum_probs=127.1

Q ss_pred             CCCCccccccChHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      ....|+++.|.++.++.|++++..             ..+..+||+||||||||++|+++|+++     +..++.+++..
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            345799999999999988887641             123349999999999999999999998     67777777653


Q ss_pred             C--cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--CCceEEEEec
Q 021660          115 D--RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNTRFALICN  179 (309)
Q Consensus       115 ~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~~~~~l~~~l~~~~--~~~~~i~~~~  179 (309)
                      .  .........+........     ...+.||+|||+|.+.+           ...+.|+..|+...  ..+.+|.+||
T Consensus       274 l~sk~~gese~~lr~lF~~A~-----~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN  348 (806)
T 3cf2_A          274 IMSKLAGESESNLRKAFEEAE-----KNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATN  348 (806)
T ss_dssp             HHSSCTTHHHHHHHHHHHHHT-----TSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECS
T ss_pred             hhcccchHHHHHHHHHHHHHH-----HcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecC
Confidence            1  111222222333222111     11578999999999863           23466777777643  3556777889


Q ss_pred             CCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHH
Q 021660          180 QVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMR  237 (309)
Q Consensus       180 ~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r  237 (309)
                      .++.+++++++  || ..++++.|+..+..++++.+++..... ++..+..+++.+.|...
T Consensus       349 ~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~-~dvdl~~lA~~T~Gfsg  408 (806)
T 3cf2_A          349 RPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVG  408 (806)
T ss_dssp             STTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEEC-TTCCHHHHHHHCCSCCH
T ss_pred             ChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhcCCCCH
Confidence            99999999988  78 789999999999999998776543222 23457889999877543

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.68  E-value=2.4e-15  Score=134.95  Aligned_cols=204  Identities=12%  Similarity=0.102  Sum_probs=131.4

Q ss_pred             cccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHH--HHHhhh
Q 021660           53 ADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ--IQDFAS  130 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  130 (309)
                      ..++|++++++.+...+..+  .+++|+||||||||++|+.+++.+..   ...+....+... ....+...  ......
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l~~---~~~f~~~~~~~~-t~~dL~G~~~~~~~~~   95 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQN---ARAFEYLMTRFS-TPEEVFGPLSIQALKD   95 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGBSS---CCEEEEECCTTC-CHHHHHCCBC------
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHHhh---hhHHHHHHHhcC-CHHHhcCcccHHHHhh
Confidence            46899999999998888776  46999999999999999999998722   122333333221 11111100  000000


Q ss_pred             cccc-ccCC--CCccEEEEEeCCCCCCHHHHHHHHHHHHHhc----------CCceEEEEecCCcc---cchhhhcce-e
Q 021660          131 TQSF-SFGV--KASVKLVLLDEADAMTKDAQFALRRVIEKYT----------KNTRFALICNQVNK---IIPALQSRC-T  193 (309)
Q Consensus       131 ~~~~-~~~~--~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~----------~~~~~i~~~~~~~~---l~~~l~~r~-~  193 (309)
                      .... .+..  ...+.+|+|||++.+++..++.|+.++++..          +...+|++||..+.   ..+++.+|| .
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  0135689999999999999999999998421          12234677775432   345888998 6


Q ss_pred             EEEecCCCh-HHHHHHHHHHH-----------------------HHcCCCCCHHHHHHHHHHh----------cCCHHHH
Q 021660          194 RFRFAPLEP-VHVTERLKHVI-----------------------EAEGLDVTEGGLAALVRLC----------NGDMRKA  239 (309)
Q Consensus       194 ~i~~~~~~~-~~~~~~l~~~~-----------------------~~~~~~~~~~~l~~i~~~~----------~g~~r~~  239 (309)
                      .+.+++|+. ++...++....                       ...++.+++++++++++..          +.++|.+
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            688888887 55667665532                       1236778999999998876          4588887


Q ss_pred             HHHHHHHHhhc-----CCcCHHHHHhhhC
Q 021660          240 LNILQSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       240 ~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                      +..+..+...+     +.++.+++. ++.
T Consensus       256 ~~llr~A~A~A~l~gr~~Vt~eDv~-~a~  283 (500)
T 3nbx_X          256 KKAIRLLQASAFFSGRSAVAPVDLI-LLK  283 (500)
T ss_dssp             HHHHHHHHHHHHHTTCSBCCGGGGG-GGG
T ss_pred             HHHHHHHHHHHhhcCCccccchHHH-HHH
Confidence            77775544322     468888888 443

>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=99.65  E-value=4.2e-16  Score=149.90  Aligned_cols=186  Identities=18%  Similarity=0.269  Sum_probs=135.8

Q ss_pred             cccccChHHHHHHHHHHhcCC--------C-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHH-
Q 021660           53 ADVAAHRDIVDTIDRLTSENR--------L-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR-  122 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~~--------~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  122 (309)
                      ..++|++..++.+...+...+        + .+++|+||+|||||++|+.+++.+.+.+  ..++.+++.......... 
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~--~~~i~i~~~~~~~~~~~s~  635 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE--EAMIRIDMTEYMEKHAVSR  635 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSG--GGEEEECTTTCCSSGGGGG
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCC--CcEEEEechhccchhHHHH
Confidence            568999999998887775421        1 2599999999999999999999985533  456666765432110000 


Q ss_pred             --------------HHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEE
Q 021660          123 --------------QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALI  177 (309)
Q Consensus       123 --------------~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~  177 (309)
                                    ..+.....        ...+++|+|||++.+.++.++.|+.++++..           .++.+|++
T Consensus       636 l~g~~~~~~G~~~~g~l~~~~~--------~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~t  707 (854)
T 1qvr_A          636 LIGAPPGYVGYEEGGQLTEAVR--------RRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILT  707 (854)
T ss_dssp             C--------------CHHHHHH--------HCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEE
T ss_pred             HcCCCCCCcCccccchHHHHHH--------hCCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEe
Confidence                          00111111        0136799999999999999999999999643           24558888


Q ss_pred             ecCC--------------------------cccchhhhcce-eEEEecCCChHHHHHHHHHHHHHc---------CCCCC
Q 021660          178 CNQV--------------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVT  221 (309)
Q Consensus       178 ~~~~--------------------------~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~  221 (309)
                      ||..                          ..+.+.|.+|+ .++.|.|++.+++..++...+.+.         .+.++
T Consensus       708 sn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~~~~~~~~~~~~~~~~  787 (854)
T 1qvr_A          708 SNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELT  787 (854)
T ss_dssp             CCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEEC
T ss_pred             cCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHHHHHHHHhCCceEEEC
Confidence            8851                          23456788898 788999999999999988877632         24689


Q ss_pred             HHHHHHHHHHhc---CCHHHHHHHHHHHHh
Q 021660          222 EGGLAALVRLCN---GDMRKALNILQSTHM  248 (309)
Q Consensus       222 ~~~l~~i~~~~~---g~~r~~~~~l~~~~~  248 (309)
                      +++++.|++++.   |++|.+.+.++....
T Consensus       788 ~~a~~~L~~~~~~~~gn~R~L~~~i~~~~~  817 (854)
T 1qvr_A          788 EAAKDFLAERGYDPVFGARPLRRVIQRELE  817 (854)
T ss_dssp             HHHHHHHHHHHCBTTTBTSTHHHHHHHHTH
T ss_pred             HHHHHHHHHcCCCCCCChHHHHHHHHHHHH
Confidence            999999999864   999999999987654

>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=99.63  E-value=8.8e-16  Score=133.86  Aligned_cols=189  Identities=22%  Similarity=0.271  Sum_probs=126.1

Q ss_pred             ccccChHHHHHHHHHHh-------------cC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch
Q 021660           54 DVAAHRDIVDTIDRLTS-------------EN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~-------------~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (309)
                      .++|++.+++.+...+.             ..  ...+++|+||||||||++|+.+++.+     +..++.+++......
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            47999999999888873             11  23459999999999999999999998     566777776532211


Q ss_pred             ----HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHHHHh------------
Q 021660          119 ----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKY------------  168 (309)
Q Consensus       119 ----~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l~~~------------  168 (309)
                          ......+..........+ ....+.+|+|||++.+...              .++.|+.+|+..            
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                111222222222111100 0114679999999988765              789999999821            


Q ss_pred             ---------cCCceEEEEecCC----------cc-----------------------------------cchhhhcce-e
Q 021660          169 ---------TKNTRFALICNQV----------NK-----------------------------------IIPALQSRC-T  193 (309)
Q Consensus       169 ---------~~~~~~i~~~~~~----------~~-----------------------------------l~~~l~~r~-~  193 (309)
                               ..+..+|++++..          ..                                   +.+.+.+|+ .
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                     1223445554421          11                                   567888999 6


Q ss_pred             EEEecCCChHHHHHHHHH----HHH-------HcC--CCCCHHHHHHHHHHh---cCCHHHHHHHHHHHHh
Q 021660          194 RFRFAPLEPVHVTERLKH----VIE-------AEG--LDVTEGGLAALVRLC---NGDMRKALNILQSTHM  248 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~----~~~-------~~~--~~~~~~~l~~i~~~~---~g~~r~~~~~l~~~~~  248 (309)
                      ++.|.|++.+++.+++..    .++       ..+  +.+++++++.|++.+   +++.|.+.+.++.+..
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            677999999998888765    222       223  357999999999753   5778888888877664

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.61  E-value=5.6e-14  Score=117.29  Aligned_cols=173  Identities=18%  Similarity=0.202  Sum_probs=109.2

Q ss_pred             CCCccccccChHHHHHHHHHHh------------c-CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           49 PQSLADVAAHRDIVDTIDRLTS------------E-NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~------------~-~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ..+|+++.|.+++++.+.+.+.            + .....++|+||||+|||++++.++..+     ...++.++....
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            4578899999999998887542            1 112349999999999999999999987     445677776543


Q ss_pred             cc--hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH-----------HHHHHHHHHHHhc--CCceEEEEecC
Q 021660          116 RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKYT--KNTRFALICNQ  180 (309)
Q Consensus       116 ~~--~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~-----------~~~~l~~~l~~~~--~~~~~i~~~~~  180 (309)
                      ..  .......+.........     ..+.++++||++.+...           ..+.++..|....  ....++.++|.
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            21  12222333333322110     14679999999986421           1234444444322  23455667799


Q ss_pred             Ccccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHc-CCCCC-HHHHHHHHHH
Q 021660          181 VNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAE-GLDVT-EGGLAALVRL  231 (309)
Q Consensus       181 ~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~-~~~~~-~~~l~~i~~~  231 (309)
                      ++.+++++.+  || ..+.++.|+.++..++++.+++.. ...++ +..+..+++.
T Consensus       156 p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~  211 (274)
T 2x8a_A          156 PDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGD  211 (274)
T ss_dssp             GGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTC
T ss_pred             hhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHh
Confidence            9999999987  88 889999999999999999876542 22222 3346667764

>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=99.61  E-value=4.9e-16  Score=145.76  Aligned_cols=178  Identities=19%  Similarity=0.268  Sum_probs=111.2

Q ss_pred             CCCccccccChHHHHHHHHHHhcC-------------CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC-
Q 021660           49 PQSLADVAAHRDIVDTIDRLTSEN-------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-  114 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~~~-------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-  114 (309)
                      ...++++.|.+++++.+.+.+...             .+..+|||||||||||.+|+++|.++     +..++.++... 
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            446889999999999998876421             12239999999999999999999998     66666665432 


Q ss_pred             -----CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHHHHhcC--Cce
Q 021660          115 -----DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYTK--NTR  173 (309)
Q Consensus       115 -----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l~~~~~--~~~  173 (309)
                           ..+...++..+......         .++||+|||+|.+...              ..+.|+..|+....  .+.
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                 12233444444433221         5789999999988532              24567777875543  345


Q ss_pred             EEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC----CHHHHHH
Q 021660          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG----DMRKALN  241 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g----~~r~~~~  241 (309)
                      +|.+||.++.+++++++  || ..++++.|+.++..++++.++++..+. ++..++.|++.+.|    ++..+.+
T Consensus       619 vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~-~~~dl~~la~~t~g~SGadi~~l~~  692 (806)
T 3cf2_A          619 IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQ  692 (806)
T ss_dssp             EECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--C-CC----------------CHHHHHH
T ss_pred             EEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCCHHHHHHHHH
Confidence            56678999999999998  88 789999999999999998877544322 22346777776654    5554443

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.61  E-value=2.7e-14  Score=120.56  Aligned_cols=148  Identities=16%  Similarity=0.217  Sum_probs=94.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc------chHHHHHHHHHhhhccccccCCCCccEEEEEeC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDE  149 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe  149 (309)
                      .++|+||||||||++++++++.+     +..++.+++....      ....+...+........     ...+.+|+|||
T Consensus        38 ~lLl~GppGtGKT~la~aiA~~l-----~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~-----~~~~~vl~iDE  107 (293)
T 3t15_A           38 ILGIWGGKGQGKSFQCELVFRKM-----GINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIR-----KGNMCCLFIND  107 (293)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH-----TCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHT-----TSSCCCEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHh-----cCCCeEEEEec
Confidence            49999999999999999999998     5666777654311      11222222222211000     12578999999


Q ss_pred             CCCCCHH-------------HHHHHHHHHHHh-------------cCCceEEEEecCCcccchhhhc--ceeEEEecCCC
Q 021660          150 ADAMTKD-------------AQFALRRVIEKY-------------TKNTRFALICNQVNKIIPALQS--RCTRFRFAPLE  201 (309)
Q Consensus       150 ~~~l~~~-------------~~~~l~~~l~~~-------------~~~~~~i~~~~~~~~l~~~l~~--r~~~i~~~~~~  201 (309)
                      +|.+...             ..+.|+.+++..             ..++.+|++||..+.+++++.+  |+..+.+ .|+
T Consensus       108 iD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~-~P~  186 (293)
T 3t15_A          108 LDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW-APT  186 (293)
T ss_dssp             CC--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE-CCC
T ss_pred             hhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe-CcC
Confidence            9988641             237788887621             2357888899999999999886  6644333 469


Q ss_pred             hHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CH
Q 021660          202 PVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DM  236 (309)
Q Consensus       202 ~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~  236 (309)
                      .++..++++.++...+  ++.+.+..+.....| ++
T Consensus       187 ~~~r~~Il~~~~~~~~--~~~~~l~~~~~~~~~~~l  220 (293)
T 3t15_A          187 REDRIGVCTGIFRTDN--VPAEDVVKIVDNFPGQSI  220 (293)
T ss_dssp             HHHHHHHHHHHHGGGC--CCHHHHHHHHHHSCSCCH
T ss_pred             HHHHHHHHHHhccCCC--CCHHHHHHHhCCCCcccH
Confidence            9999999998877554  556666666665543 44

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.60  E-value=7e-15  Score=110.98  Aligned_cols=132  Identities=17%  Similarity=0.217  Sum_probs=91.2

Q ss_pred             ccccChHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhc
Q 021660           54 DVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (309)
                      +++|+...++.+.+.+..  ....+++|+||||||||++|+.+++.....+  ..++ +++............+...   
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~--~~~v-~~~~~~~~~~~~~~~~~~a---   75 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQ--GEFV-YRELTPDNAPQLNDFIALA---   75 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTT--SCCE-EEECCTTTSSCHHHHHHHH---
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccC--CCEE-EECCCCCcchhhhcHHHHc---
Confidence            688999998888877653  2334599999999999999999988753322  3344 6665433222222222221   


Q ss_pred             cccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc-------ccchhhhcce--eEEEecCC
Q 021660          132 QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN-------KIIPALQSRC--TRFRFAPL  200 (309)
Q Consensus       132 ~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~-------~l~~~l~~r~--~~i~~~~~  200 (309)
                               ...+|+|||++.++.+.+..|+.+++..+.+.++|++||...       .+.+.+..|+  ..++++|+
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                     356899999999999999999999987777888999988642       3445666665  45666654

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.58  E-value=1.7e-13  Score=118.58  Aligned_cols=185  Identities=18%  Similarity=0.173  Sum_probs=123.2

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc------chHHHHHH
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR------GIDVVRQQ  124 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~  124 (309)
                      ....++|++..++.+.+++..+  +.++|+||+|+|||++++.+++..     +  ++.+++....      ....+...
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            4567999999999999998875  579999999999999999999885     2  3333332110      11111111


Q ss_pred             HHHhhhc------------------cc---cc-------c---CCCCccEEEEEeCCCCCCH-------HHHHHHHHHHH
Q 021660          125 IQDFAST------------------QS---FS-------F---GVKASVKLVLLDEADAMTK-------DAQFALRRVIE  166 (309)
Q Consensus       125 ~~~~~~~------------------~~---~~-------~---~~~~~~~lliiDe~~~l~~-------~~~~~l~~~l~  166 (309)
                      +......                  ..   ..       +   ....++.+|+|||+|.+..       +....|..+++
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                  00   00       0   0001378999999999764       34455555555


Q ss_pred             HhcCCceEEEEecCCccc---------chhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCH
Q 021660          167 KYTKNTRFALICNQVNKI---------IPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDM  236 (309)
Q Consensus       167 ~~~~~~~~i~~~~~~~~l---------~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~  236 (309)
                      .. ....+|++++....+         ...+..|. ..+.+.|++.++..+++...+...+..++++.+..+++.++|+|
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 366777777543211         11233344 68999999999999999998887888899999999999999999


Q ss_pred             HHHHHHHHH
Q 021660          237 RKALNILQS  245 (309)
Q Consensus       237 r~~~~~l~~  245 (309)
                      ..+......
T Consensus       240 ~~l~~~~~~  248 (350)
T 2qen_A          240 GWLVVFGVE  248 (350)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            877665543

>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=99.56  E-value=1.6e-13  Score=120.58  Aligned_cols=132  Identities=21%  Similarity=0.291  Sum_probs=90.0

Q ss_pred             ccEEEEEeCCCCCCHH------------HHHHHHHHHHHh----------cCCceEEEEe----cCCcccchhhhcce-e
Q 021660          141 SVKLVLLDEADAMTKD------------AQFALRRVIEKY----------TKNTRFALIC----NQVNKIIPALQSRC-T  193 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~------------~~~~l~~~l~~~----------~~~~~~i~~~----~~~~~l~~~l~~r~-~  193 (309)
                      +..++++||+|++...            .+..|+++++..          ..+..||+++    ..+..+.+.|.+|+ .
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            3568999999998632            467899999952          2344556555    13334568899999 5


Q ss_pred             EEEecCCChHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHh--------cCCHHHHHHHHHHHHhhc--
Q 021660          194 RFRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLC--------NGDMRKALNILQSTHMAS--  250 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~l~~i~~~~--------~g~~r~~~~~l~~~~~~~--  250 (309)
                      ++.|++++.+++..|+..           .+...++  .++++++..|++.+        ....|.+.+.++.+....  
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            699999999999998831           2222343  58999999999863        466788777776655421  


Q ss_pred             -------C--CcCHHHHHhhhCCC-ChHHHHH
Q 021660          251 -------Q--QITEEAVYLCTGNP-LPKDIEQ  272 (309)
Q Consensus       251 -------~--~i~~~~v~~~~~~~-~~~~~~~  272 (309)
                             .  .||.+.|...++.. .+.++.+
T Consensus       410 ~~~~~~~~~~~i~~~~v~~~l~~~~~~~dl~~  441 (444)
T 1g41_A          410 SASDMNGQTVNIDAAYVADALGEVVENEDLSR  441 (444)
T ss_dssp             HGGGCTTCEEEECHHHHHHHHTTTTTCHHHHH
T ss_pred             hccccCCCeEEEeHHHHHHhcCccccCCChhc
Confidence                   1  38888888877644 3333443

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.54  E-value=1.7e-14  Score=108.50  Aligned_cols=128  Identities=13%  Similarity=0.153  Sum_probs=87.0

Q ss_pred             ccccChHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhc
Q 021660           54 DVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (309)
                      +++|++..++.+.+.+..  ....+++|+||||||||++|+.+++..     . .++.+++..... ......+...   
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~-----~-~~~~~~~~~~~~-~~~~~~~~~a---   74 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG-----T-PWVSPARVEYLI-DMPMELLQKA---   74 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT-----S-CEECCSSTTHHH-HCHHHHHHHT---
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC-----C-CeEEechhhCCh-HhhhhHHHhC---
Confidence            688999888888777653  233459999999999999999998875     2 566666664211 1111211111   


Q ss_pred             cccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-CCceEEEEecCCc-c----cchhhhcce--eEEEecCC
Q 021660          132 QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-KNTRFALICNQVN-K----IIPALQSRC--TRFRFAPL  200 (309)
Q Consensus       132 ~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~-~----l~~~l~~r~--~~i~~~~~  200 (309)
                               .+.+|+|||++.++.+.+..|+.++++.. .+.++|+++|... .    +.+.+..|+  ..+.++|+
T Consensus        75 ---------~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn~~~~~~~~~~~~~L~~rl~~~~i~lPpL  142 (143)
T 3co5_A           75 ---------EGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCSYAAGSDGISCEEKLAGLFSESVVRIPPL  142 (143)
T ss_dssp             ---------TTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEEECTTTC--CHHHHHHHHSSSEEEEECCC
T ss_pred             ---------CCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecCCCHHHHHhCccHHHHHHhcCcEEeCCCC
Confidence                     35689999999999999999999999763 4677888886442 2    345566665  45666664

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.53  E-value=8.5e-15  Score=134.80  Aligned_cols=208  Identities=16%  Similarity=0.153  Sum_probs=125.2

Q ss_pred             ccccccChHHHHHHHHHHhcCCC-----------CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHH
Q 021660           52 LADVAAHRDIVDTIDRLTSENRL-----------PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~~-----------~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (309)
                      ...++|++.+++.+...+.++..           .+++|+||||||||++|+.+++.+....+.... ..++....+ ..
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            45789999998888777766631           169999999999999999999887322111000 000010000 00


Q ss_pred             HHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCceEEEEecCCc-----
Q 021660          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQVN-----  182 (309)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~~~~~~-----  182 (309)
                      .............. .-..+.+++++|||++.+.++.++.|+++|++.             +..+.+|+++|...     
T Consensus       372 ~~~~~~g~~~~~~G-~l~~A~~gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~  450 (595)
T 3f9v_A          372 VREKGTGEYYLEAG-ALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYIS  450 (595)
T ss_dssp             SSGGGTSSCSEEEC-HHHHHSSSEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCT
T ss_pred             eeccccccccccCC-eeEecCCCcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCc
Confidence            00000000000000 000113579999999999999999999999952             23566888888764     


Q ss_pred             --------ccchhhhcce-eEEEecCCChHHHHHHHHHHHHHc-------------------------CCCCCHHHHHHH
Q 021660          183 --------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE-------------------------GLDVTEGGLAAL  228 (309)
Q Consensus       183 --------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~-------------------------~~~~~~~~l~~i  228 (309)
                              .+++++.+|| ..+.+.+++..+...++++.+...                         ...+++++.+.|
T Consensus       451 ~~~~~~ni~l~~aLl~RFDl~~~~~~~~~~e~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~l  530 (595)
T 3f9v_A          451 ERPVSDNINLPPTILSRFDLIFILKDQPGEQDRELANYILDVHSGKSTKNIIDIDTLRKYIAYARKYVTPKITSEAKNLI  530 (595)
T ss_dssp             TSCSCTTTCSCSSSGGGCSCCEEECCTTHHHHHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHHHHHCCCCCCCTHHHH
T ss_pred             ccCchhccCCCHHHHhhCeEEEEeCCCCCHHHHHHHHHHHHHhhccccccCCCHHHHHHHHHHHHHhCCCCCCHHHHHHH
Confidence                    7888999999 455555555544444444444321                         125666666777


Q ss_pred             HHH---------------hcCCHHHHHHHHHHHHhhc-----CCcCHHHHHhhh
Q 021660          229 VRL---------------CNGDMRKALNILQSTHMAS-----QQITEEAVYLCT  262 (309)
Q Consensus       229 ~~~---------------~~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~  262 (309)
                      .+.               .++++|.+.++++.+...+     ..++.+++..++
T Consensus       531 ~~~y~~lR~~~~~~~~~~~~~s~R~l~~lirla~a~A~l~~~~~V~~~dv~~Ai  584 (595)
T 3f9v_A          531 TDFFVEMRKKSSETPDSPILITPRQLEALIRISEAYAKMALKAEVTREDAERAI  584 (595)
T ss_dssp             HHHHTTSSCSCCBCSSSCBCSSTTTTTHHHHHHHHHHHTTSSCCSSHHHHHHHH
T ss_pred             HHHHHHHHHhhccCCCccccccHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHH
Confidence            766               3567777777775543322     457777776654

>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=99.50  E-value=1.3e-12  Score=113.17  Aligned_cols=184  Identities=16%  Similarity=0.163  Sum_probs=118.4

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC-----cchHHHHHHH
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-----RGIDVVRQQI  125 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~  125 (309)
                      ....++|++..++.+.. +..   +.++|+||+|+|||++++.+++.+.     ..++.+++...     .....+...+
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELN-----LPYIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHT-----CCEEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcC-----CCEEEEEchhhccccCCCHHHHHHHH
Confidence            45679999999999999 765   5799999999999999999999873     22334443321     1111111111


Q ss_pred             HHhhh--------------cc------------------ccc-------cCCCC-ccEEEEEeCCCCCCH----HHHHHH
Q 021660          126 QDFAS--------------TQ------------------SFS-------FGVKA-SVKLVLLDEADAMTK----DAQFAL  161 (309)
Q Consensus       126 ~~~~~--------------~~------------------~~~-------~~~~~-~~~lliiDe~~~l~~----~~~~~l  161 (309)
                      .....              ..                  ...       +.... ++.+|+|||+|.+..    +....|
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       00001 377999999999754    234445


Q ss_pred             HHHHHHhcCCceEEEEecCCcccc---------hhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 021660          162 RRVIEKYTKNTRFALICNQVNKII---------PALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL  231 (309)
Q Consensus       162 ~~~l~~~~~~~~~i~~~~~~~~l~---------~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~  231 (309)
                      ..+.+.. ....+|++++....+.         ..+..|. ..+.+.|++.++..+++...+...+...++.  ..+++.
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            4455443 3667777776432111         1244454 7899999999999999998887667666554  889999


Q ss_pred             hcCCHHHHHHHHHHH
Q 021660          232 CNGDMRKALNILQST  246 (309)
Q Consensus       232 ~~g~~r~~~~~l~~~  246 (309)
                      ++|+|..+...+..+
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            999999877666543

>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=99.45  E-value=2e-12  Score=112.43  Aligned_cols=194  Identities=17%  Similarity=0.185  Sum_probs=130.4

Q ss_pred             cccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhh
Q 021660           53 ADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  130 (309)
                      .+++|....+..+...+..-  ....++++|++|+||+.+++.+.......+   .++.++|..... ..+.+.+.....
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            45788877777665554321  223499999999999999999987763322   288899986432 222332221111


Q ss_pred             cccc-c------cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------ccc
Q 021660          131 TQSF-S------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KII  185 (309)
Q Consensus       131 ~~~~-~------~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~-------~l~  185 (309)
                      .... .      .-..++++.|+|||++.++.+.+..|+.++++..           .++++|.+|+...       ...
T Consensus       205 g~~tga~~~~~g~~~~a~~gtlfldei~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~v~~g~fr  284 (368)
T 3dzd_A          205 GAFTGALTRKKGKLELADQGTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEEEIKKGNFR  284 (368)
T ss_dssp             CSSSSCCCCEECHHHHTTTSEEEEETGGGSCHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHHHHHTTSSC
T ss_pred             cccCCcccccCChHhhcCCCeEEecChhhCCHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHHHHHcCCcc
Confidence            0000 0      0001246789999999999999999999999632           2567888887432       334


Q ss_pred             hhhhcce--eEEEecCCCh--HHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc
Q 021660          186 PALQSRC--TRFRFAPLEP--VHVTERLKHVIE----AEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (309)
Q Consensus       186 ~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~~----~~~---~~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~  250 (309)
                      +.+..|+  ..++++|+..  +++..++...++    +.+   ..+++++++.+..+. +||+|.+.+.++.++..+
T Consensus       285 ~dL~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpGNvreL~n~i~~~~~~~  361 (368)
T 3dzd_A          285 EDLYYRLSVFQIYLPPLRERGKDVILLAEYFLKKFAKEYKKNCFELSEETKEYLMKQEWKGNVRELKNLIERAVILC  361 (368)
T ss_dssp             HHHHHHHTSEEEECCCGGGSTTHHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHTCCCTTHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhCCeEEeCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhC
Confidence            5677776  4567777765  677666555544    334   358999999999976 999999999999887654

>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=99.43  E-value=7.5e-12  Score=109.62  Aligned_cols=206  Identities=18%  Similarity=0.181  Sum_probs=136.6

Q ss_pred             ccccccChHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhh
Q 021660           52 LADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (309)
                      +..++|....++.+.+.+..-.  ...++|+|++|+||+++++.+.....  .....++.++|.... ...+.+.+....
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--RSKEPFVALNVASIP-RDIFEAELFGYE  212 (387)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHST--TTTSCEEEEETTTSC-HHHHHHHHHCBC
T ss_pred             chhhhhccHHhhHHHHHHHHhcCCCCCeEEecCCCcCHHHHHHHHHHhcC--CCCCCeEEEecCCCC-HHHHHHHhcCCC
Confidence            4567888777777766655322  22389999999999999999877642  224568888888643 222333222211


Q ss_pred             hcccc-------ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEEEecCC-------ccc
Q 021660          130 STQSF-------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQV-------NKI  184 (309)
Q Consensus       130 ~~~~~-------~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~~~-------~~l  184 (309)
                      .....       ..-..+++++|+|||++.++.+.+..|+.++++.           +.++++|++||..       ...
T Consensus       213 ~g~~tga~~~~~g~~~~a~~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~~~~g~f  292 (387)
T 1ny5_A          213 KGAFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGKF  292 (387)
T ss_dssp             TTSSTTCCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTSS
T ss_pred             CCCCCCcccccCCceeeCCCcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHHHHHHcCCc
Confidence            10000       0001135679999999999999999999999963           2356788888753       233


Q ss_pred             chhhhcce--eEEEecCCCh--HHHHHHHHHHHH----HcCC---CCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc--
Q 021660          185 IPALQSRC--TRFRFAPLEP--VHVTERLKHVIE----AEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--  250 (309)
Q Consensus       185 ~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~~----~~~~---~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~--  250 (309)
                      .+.+..|.  ..++++|+..  +++..++...++    +.+.   .+++++++.+..+. +||+|.+.+.++.++..+  
T Consensus       293 r~dl~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~l~~~~wpGNvreL~~~i~~~~~~~~~  372 (387)
T 1ny5_A          293 REDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSEG  372 (387)
T ss_dssp             CHHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCCS
T ss_pred             cHHHHHhhcCCeecCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhCCC
Confidence            45566665  4566666653  566655554443    3443   37899999999775 899999999999888755  


Q ss_pred             CCcCHHHHHh
Q 021660          251 QQITEEAVYL  260 (309)
Q Consensus       251 ~~i~~~~v~~  260 (309)
                      ..|+.+++..
T Consensus       373 ~~i~~~~l~~  382 (387)
T 1ny5_A          373 KFIDRGELSC  382 (387)
T ss_dssp             SEECHHHHHH
T ss_pred             CcCcHHHCcH
Confidence            3577776643

>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=99.40  E-value=4.5e-13  Score=104.83  Aligned_cols=131  Identities=13%  Similarity=0.161  Sum_probs=82.4

Q ss_pred             hhcCCCCcccccc----ChHHHHHHHHHHhcCC---CCeEEEECCCCCcHHHHHHHHHHHHc-cCcccccEEEEecCCCc
Q 021660           45 EKYRPQSLADVAA----HRDIVDTIDRLTSENR---LPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDDR  116 (309)
Q Consensus        45 ~~~~p~~~~~~ig----~~~~~~~l~~~~~~~~---~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~  116 (309)
                      ++|++.+|+++++    +..+++.+.+++.+..   ...++|+||+|+||||+++.++..+. ..+....++  +.    
T Consensus         2 ~r~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~--~~----   75 (180)
T 3ec2_A            2 KRYWNANLDTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFF--DT----   75 (180)
T ss_dssp             CSCTTCCSSSCCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEE--EH----
T ss_pred             chhhhCccccccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEE--EH----
Confidence            5788999999986    4566667777765432   34599999999999999999999984 333333332  21    


Q ss_pred             chHHHHHHHHHhhhcccc--ccCCCCccEEEEEeCCC--CCCHHHHHHHHHHHHHhc-CCceEEEEecCCcc
Q 021660          117 GIDVVRQQIQDFASTQSF--SFGVKASVKLVLLDEAD--AMTKDAQFALRRVIEKYT-KNTRFALICNQVNK  183 (309)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~lliiDe~~--~l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~~  183 (309)
                        ..+...+.........  ......++.+|+|||++  .+.+.....+..+++... ....+|++||....
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              1111111111100000  00001146799999998  466777788888887653 46678888876643

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=99.20  E-value=1.1e-10  Score=91.10  Aligned_cols=136  Identities=17%  Similarity=0.212  Sum_probs=81.8

Q ss_pred             hHHHHHHHHHHhcCCCC-eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccC
Q 021660           59 RDIVDTIDRLTSENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG  137 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (309)
                      ...+..++.++.+.... +++|+||||+|||+++.++++.+.+     .++.+..... ..  +       ..  .  +.
T Consensus        42 ~~f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~g-----~i~~fans~s-~f--~-------l~--~--l~  102 (212)
T 1tue_A           42 ITFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQG-----AVISFVNSTS-HF--W-------LE--P--LT  102 (212)
T ss_dssp             HHHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTC-----EECCCCCSSS-CG--G-------GG--G--GT
T ss_pred             HHHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCC-----CeeeEEeccc-hh--h-------hc--c--cC
Confidence            34566777777763222 4999999999999999999999832     1221111110 00  0       00  0  11


Q ss_pred             CCCccEEEEEeCCCCCCHHH-HHHHHHHHHHhc-------------CCceEEEEecCC---cccchhhhcceeEEEecCC
Q 021660          138 VKASVKLVLLDEADAMTKDA-QFALRRVIEKYT-------------KNTRFALICNQV---NKIIPALQSRCTRFRFAPL  200 (309)
Q Consensus       138 ~~~~~~lliiDe~~~l~~~~-~~~l~~~l~~~~-------------~~~~~i~~~~~~---~~l~~~l~~r~~~i~~~~~  200 (309)
                         +.++++|||++.-.... ...+..+++..+             ...++|+|||..   ....+.+.+|+..+.|+.+
T Consensus       103 ---~~kIiiLDEad~~~~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~~~~~L~SRi~~f~F~~~  179 (212)
T 1tue_A          103 ---DTKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFEFPNA  179 (212)
T ss_dssp             ---TCSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEECCSC
T ss_pred             ---CCCEEEEECCCchhHHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCcccccchhhhhhhEEEEEcCCC
Confidence               35699999998432222 234556666431             246889999863   3445789999988887633


Q ss_pred             -------------ChHHHHHHHHHHHHHc
Q 021660          201 -------------EPVHVTERLKHVIEAE  216 (309)
Q Consensus       201 -------------~~~~~~~~l~~~~~~~  216 (309)
                                   +....+.++++...+.
T Consensus       180 ~p~~~~g~p~~~~~~~~wk~ff~~~~~~l  208 (212)
T 1tue_A          180 FPFDKNGNPVYEINDKNWKCFFERTWSRL  208 (212)
T ss_dssp             CCBCTTSCBSCCCCHHHHHHHHHHHTGGG
T ss_pred             CCCCCCCCeeEEeCcchHHHHHHHHHHhc
Confidence                         3455566665554443

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=99.19  E-value=3.8e-11  Score=90.59  Aligned_cols=99  Identities=14%  Similarity=0.195  Sum_probs=67.9

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCC
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA  152 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~  152 (309)
                      ....++|+||+|+|||++++.++..+...+.  ..+.++.......        .+        ..  ++.+|+|||++.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~--~~~~~~~~~~~~~--------~~--------~~--~~~lLilDE~~~   94 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGK--NAAYIDAASMPLT--------DA--------AF--EAEYLAVDQVEK   94 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTC--CEEEEETTTSCCC--------GG--------GG--GCSEEEEESTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCC--cEEEEcHHHhhHH--------HH--------Hh--CCCEEEEeCccc
Confidence            3455999999999999999999999865332  3444454432211        11        11  467999999999


Q ss_pred             CCHHHHHHHHHHHHHhcC-Cce-EEEEecCCc----ccchhhhcce
Q 021660          153 MTKDAQFALRRVIEKYTK-NTR-FALICNQVN----KIIPALQSRC  192 (309)
Q Consensus       153 l~~~~~~~l~~~l~~~~~-~~~-~i~~~~~~~----~l~~~l~~r~  192 (309)
                      +....+..|+.+++.... ... +|++++...    .. +.+.+|+
T Consensus        95 ~~~~~~~~l~~li~~~~~~g~~~iiits~~~p~~l~~~-~~L~SRl  139 (149)
T 2kjq_A           95 LGNEEQALLFSIFNRFRNSGKGFLLLGSEYTPQQLVIR-EDLRTRM  139 (149)
T ss_dssp             CCSHHHHHHHHHHHHHHHHTCCEEEEEESSCTTTSSCC-HHHHHHG
T ss_pred             cChHHHHHHHHHHHHHHHcCCcEEEEECCCCHHHcccc-HHHHHHH
Confidence            887778888888886432 233 777776432    23 7888886

>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=5.7e-10  Score=91.26  Aligned_cols=138  Identities=16%  Similarity=0.200  Sum_probs=89.9

Q ss_pred             HHHHHHHHHHhcC-CCC-eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccC
Q 021660           60 DIVDTIDRLTSEN-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG  137 (309)
Q Consensus        60 ~~~~~l~~~~~~~-~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (309)
                      .....+..|+.+. ... .++|+||||||||+++.++++.+..      +..++....                 ...+.
T Consensus        88 ~~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~~l------~G~vn~~~~-----------------~f~l~  144 (267)
T 1u0j_A           88 YAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPF------YGCVNWTNE-----------------NFPFN  144 (267)
T ss_dssp             HHHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSSC------EEECCTTCS-----------------SCTTG
T ss_pred             HHHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhhcc------cceeecccc-----------------ccccc
Confidence            4455677888775 323 4999999999999999999997511      112222110                 00122


Q ss_pred             CCCccEEEEEeCCCCCCHHHHHHHHHHHH--------Hhc-----CCceEEEEecCC-----------cccchhhhccee
Q 021660          138 VKASVKLVLLDEADAMTKDAQFALRRVIE--------KYT-----KNTRFALICNQV-----------NKIIPALQSRCT  193 (309)
Q Consensus       138 ~~~~~~lliiDe~~~l~~~~~~~l~~~l~--------~~~-----~~~~~i~~~~~~-----------~~l~~~l~~r~~  193 (309)
                      ....+.+++.||..... +..+.+..+++        ...     ..+++|++||..           ....+.|.+|+.
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 DCVDKMVIWWEEGKMTA-KVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDRMF  223 (267)
T ss_dssp             GGSSCSEEEECSCCEET-TTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHTTEE
T ss_pred             cccccEEEEeccccchh-HHHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCCcccccccCccchhhhHHHhhhEE
Confidence            21246677777776544 44566667776        222     567889999862           244578999999


Q ss_pred             EEEec--------CCChHHHHHHHHHHHHHcCCCCCH
Q 021660          194 RFRFA--------PLEPVHVTERLKHVIEAEGLDVTE  222 (309)
Q Consensus       194 ~i~~~--------~~~~~~~~~~l~~~~~~~~~~~~~  222 (309)
                      .+.|.        +++.++++.++. .++.+..++++
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        899999999997 44666665543

>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=99.18  E-value=2.6e-10  Score=99.86  Aligned_cols=166  Identities=11%  Similarity=0.076  Sum_probs=104.2

Q ss_pred             cccChHHHHHHHHHHhcCC-----CCeEEEECCCCCcHHHHHHHH-HHHHccCcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           55 VAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKTSTILAV-ARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~~~~-----~~~~ll~G~~G~GKT~l~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      ++|++.++..+.-.+.++.     .-|+||.|+||+ ||++++.+ ++.+.    ...+.......  . ..+...+...
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-CSEILHHVLDHLAP----RGVYVDLRRTE--L-TDLTAVLKED  286 (506)
T ss_dssp             STTCHHHHHHHHHHHTTCCSSGGGCCCEEEESCHHH-HHHHHHHHHHHTCS----SEEEEEGGGCC--H-HHHSEEEEES
T ss_pred             cCCCHHHHHHHHHHHcCCccccCCceeEEEECCCCh-HHHHHHHHHHHhCC----CeEEecCCCCC--c-cCceEEEEcC
Confidence            8899999888888877763     126999999999 99999999 55531    11121111110  0 0000000000


Q ss_pred             hhccccccC----CCCccEEEEEeCCCCCCHHHHHHHHHHHHH---------hcCCceEEEEecCCc-----------cc
Q 021660          129 ASTQSFSFG----VKASVKLVLLDEADAMTKDAQFALRRVIEK---------YTKNTRFALICNQVN-----------KI  184 (309)
Q Consensus       129 ~~~~~~~~~----~~~~~~lliiDe~~~l~~~~~~~l~~~l~~---------~~~~~~~i~~~~~~~-----------~l  184 (309)
                        .. ..+.    ..++.+++++||++.+++..+..|++.|++         .+..+.+|.++|...           .+
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 0000    012478999999999999999999999996         356778888888754           77


Q ss_pred             chhhhcce-eEEEe-c-------------CCChHHHHHHHHHHHH--HcCCCCCHHHHHHHHHHh
Q 021660          185 IPALQSRC-TRFRF-A-------------PLEPVHVTERLKHVIE--AEGLDVTEGGLAALVRLC  232 (309)
Q Consensus       185 ~~~l~~r~-~~i~~-~-------------~~~~~~~~~~l~~~~~--~~~~~~~~~~l~~i~~~~  232 (309)
                      ++++.+|| ..+.+ .             .++.+++++++. +++  .....+++++.++|++.+
T Consensus       364 p~alLDRFDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~-~ar~~~~~p~ls~ea~~yI~~~y  427 (506)
T 3f8t_A          364 DQDFLSHFDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLL-YAIREHPAPELTEEARKRLEHWY  427 (506)
T ss_dssp             CHHHHTTCSEEEETTC--------------CCHHHHHHHHH-HHHHHCSCCEECHHHHHHHHHHH
T ss_pred             ChHHhhheeeEEEecCCCChhHhhcccCCCCCHHHHHHHHH-HHHhcCCCceeCHHHHHHHHHHH
Confidence            88999999 33322 2             233444555443 333  225678888888888764

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=99.15  E-value=1.4e-10  Score=92.20  Aligned_cols=131  Identities=18%  Similarity=0.218  Sum_probs=74.2

Q ss_pred             hhhhcCCCCccccccCh----HHHHHHHHHHhcCC----CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           43 WVEKYRPQSLADVAAHR----DIVDTIDRLTSENR----LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~----~~~~~l~~~~~~~~----~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      +..+|++.+|+++++..    .+++.+..++....    ..+++|+||+|+|||++++.+++.+...+...  ..+++..
T Consensus        15 ~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~--~~~~~~~   92 (202)
T 2w58_A           15 MPREILRASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSS--LIVYVPE   92 (202)
T ss_dssp             SCGGGGCCCTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCE--EEEEHHH
T ss_pred             CCHHHHcCCHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeE--EEEEhHH
Confidence            44567788899998754    35566677776542    15699999999999999999999986544333  3233221


Q ss_pred             CcchHHHHHHHHHhhhcccc--ccCCCCccEEEEEeCCCCCCHH--HHHHHH-HHHHHh-cCCceEEEEecCC
Q 021660          115 DRGIDVVRQQIQDFASTQSF--SFGVKASVKLVLLDEADAMTKD--AQFALR-RVIEKY-TKNTRFALICNQV  181 (309)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~lliiDe~~~l~~~--~~~~l~-~~l~~~-~~~~~~i~~~~~~  181 (309)
                            +...+.........  .+.......+|+|||++.....  .+..++ .+++.. .....+|++||..
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                  11111100000000  0000002459999999765432  234333 466643 4466788888754

>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=99.15  E-value=7.9e-11  Score=105.62  Aligned_cols=140  Identities=14%  Similarity=0.176  Sum_probs=80.1

Q ss_pred             CCCCCcChhhhcCCCCccccc-cChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           36 PDIKASPWVEKYRPQSLADVA-AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        36 ~~~~~~~~~~~~~p~~~~~~i-g~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      ...++.||.++|+|.+++++- +|.+++..+..++..+.. +++|.|+||||||+++..++..+...+. ..+..+ +..
T Consensus         7 ~~~~~~~~~~~~~p~~~~~Ln~~Q~~av~~~~~~i~~~~~-~~li~G~aGTGKT~ll~~~~~~l~~~~~-~~il~~-a~T   83 (459)
T 3upu_A            7 HHHHSSGLVPRGSHMTFDDLTEGQKNAFNIVMKAIKEKKH-HVTINGPAGTGATTLTKFIIEALISTGE-TGIILA-APT   83 (459)
T ss_dssp             --------------CCSSCCCHHHHHHHHHHHHHHHSSSC-EEEEECCTTSCHHHHHHHHHHHHHHTTC-CCEEEE-ESS
T ss_pred             CCCccCCCccccCCCccccCCHHHHHHHHHHHHHHhcCCC-EEEEEeCCCCCHHHHHHHHHHHHHhcCC-ceEEEe-cCc
Confidence            355778999999999999987 688888888888877653 7999999999999999999999865544 122222 222


Q ss_pred             CcchHHHHHHH-------HHhhhcccc-----------ccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEE
Q 021660          115 DRGIDVVRQQI-------QDFASTQSF-----------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL  176 (309)
Q Consensus       115 ~~~~~~~~~~~-------~~~~~~~~~-----------~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~  176 (309)
                      ......+.+.+       ..+......           .........+|+|||++.+.......|...+.   ....+++
T Consensus        84 ~~Aa~~l~~~~~~~~~T~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiDE~~~~~~~~~~~l~~~~~---~~~~~~~  160 (459)
T 3upu_A           84 HAAKKILSKLSGKEASTIHSILKINPVTYEENVLFEQKEVPDLAKCRVLICDEVSMYDRKLFKILLSTIP---PWCTIIG  160 (459)
T ss_dssp             HHHHHHHHHHHSSCEEEHHHHHTEEEEECSSCEEEEECSCCCCSSCSEEEESCGGGCCHHHHHHHHHHSC---TTCEEEE
T ss_pred             HHHHHHHHhhhccchhhHHHHhccCcccccccchhcccccccccCCCEEEEECchhCCHHHHHHHHHhcc---CCCEEEE
Confidence            22222222221       111111000           00111246799999999998777666666553   4667777


Q ss_pred             EecCC
Q 021660          177 ICNQV  181 (309)
Q Consensus       177 ~~~~~  181 (309)
                      +++..
T Consensus       161 vGD~~  165 (459)
T 3upu_A          161 IGDNK  165 (459)
T ss_dssp             EECTT
T ss_pred             ECCHH
Confidence            77543

>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=99.11  E-value=2.1e-09  Score=112.32  Aligned_cols=175  Identities=15%  Similarity=0.199  Sum_probs=114.2

Q ss_pred             CCCCCcChhhhcCCC-------Cccc-cccChHHHH---HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCccc
Q 021660           36 PDIKASPWVEKYRPQ-------SLAD-VAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (309)
Q Consensus        36 ~~~~~~~~~~~~~p~-------~~~~-~ig~~~~~~---~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (309)
                      ....+.+|.+...+.       .+.+ +|-..+..+   .+..++..+  .+++|+||||||||++|+.++...    ..
T Consensus      1220 ~~~~w~~W~~~v~~~~~~~~~~~~~~iiVpT~DT~R~~~ll~~~l~~~--~~vLL~GPpGtGKT~la~~~l~~~----~~ 1293 (2695)
T 4akg_A         1220 DKLSFSSFCSEIPSVSLEAHEVMRPDIVIPTIDTIKHEKIFYDLLNSK--RGIILCGPPGSGKTMIMNNALRNS----SL 1293 (2695)
T ss_dssp             SSCCCBCCCCCCCCCCCCSGGGSCSSCCCCCHHHHHHHHHHHHHHHHT--CEEEEECSTTSSHHHHHHHHHHSC----SS
T ss_pred             CCCceeechhcCCCcccCccccCccceeEeccchHHHHHHHHHHHHCC--CeEEEECCCCCCHHHHHHHHHhcC----CC
Confidence            345667787764322       1222 444444443   445556655  459999999999999997766553    24


Q ss_pred             ccEEEEecCCCcchHHHHHHHHHhhhccc----cccCC--CCccEEEEEeCCCCCCH------HHHHHHHHHHHHhc---
Q 021660          105 NMILELNASDDRGIDVVRQQIQDFASTQS----FSFGV--KASVKLVLLDEADAMTK------DAQFALRRVIEKYT---  169 (309)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~--~~~~~lliiDe~~~l~~------~~~~~l~~~l~~~~---  169 (309)
                      ..+..++.+.......+...+........    ..+++  ...+.|++|||++....      ...+.|..+++...   
T Consensus      1294 ~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd 1373 (2695)
T 4akg_A         1294 YDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWK 1373 (2695)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEEC
T ss_pred             CceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCCCCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEE
Confidence            55666777666666666666665432111    00111  22467999999876432      35677777777311   


Q ss_pred             ---------CCceEEEEecCCc-----ccchhhhcceeEEEecCCChHHHHHHHHHHHHHc
Q 021660          170 ---------KNTRFALICNQVN-----KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE  216 (309)
Q Consensus       170 ---------~~~~~i~~~~~~~-----~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~  216 (309)
                               .+..+|.++|.+.     .+.+++.+||.++.++.|+.+++..|+..++...
T Consensus      1374 ~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi~i~~P~~~~l~~I~~~il~~~ 1434 (2695)
T 4akg_A         1374 TPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQIYEIYYKAI 1434 (2695)
T ss_dssp             TTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEEECCCCTTTHHHHHHHHHHHHH
T ss_pred             cCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEEEeCCCCHHHHHHHHHHHHHHH
Confidence                     2356777788773     6899999999999999999999999998887643

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=99.09  E-value=1.5e-10  Score=98.13  Aligned_cols=130  Identities=17%  Similarity=0.217  Sum_probs=72.9

Q ss_pred             hhhcCCCCccccccCh----HHHHHHHHHHhcCC---CCeEEEECCCCCcHHHHHHHHHHHHc-cCcccccEEEEecCCC
Q 021660           44 VEKYRPQSLADVAAHR----DIVDTIDRLTSENR---LPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDD  115 (309)
Q Consensus        44 ~~~~~p~~~~~~ig~~----~~~~~l~~~~~~~~---~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~  115 (309)
                      ...+++.+|+++++..    .++..+..++....   ..+++|+||||+|||+++.++++.+. ..+..+.++  +..  
T Consensus       115 ~~~~~~~tfd~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~--~~~--  190 (308)
T 2qgz_A          115 PKSYRHIHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLL--HFP--  190 (308)
T ss_dssp             CGGGGSCCGGGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEE--EHH--
T ss_pred             CHHHHhCCHhhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEE--EHH--
Confidence            3456678899998633    35556667777532   35699999999999999999999986 554433333  221  


Q ss_pred             cchHHHHHHHHHhhhcc--ccccCCCCccEEEEEeCCCCCCH--HHHHHH-HHHHHHh-cCCceEEEEecCC
Q 021660          116 RGIDVVRQQIQDFASTQ--SFSFGVKASVKLVLLDEADAMTK--DAQFAL-RRVIEKY-TKNTRFALICNQV  181 (309)
Q Consensus       116 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~lliiDe~~~l~~--~~~~~l-~~~l~~~-~~~~~~i~~~~~~  181 (309)
                          .+...+.......  ...+.......+|+|||++....  ..+..+ ..+++.. .....+|++||..
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  00000001356999999965432  223333 3466643 3456788888744

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.08  E-value=1.4e-09  Score=100.77  Aligned_cols=185  Identities=13%  Similarity=0.111  Sum_probs=109.4

Q ss_pred             CCCccccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHc--cCcc--cccEEEEecCCCcchHHHH
Q 021660           49 PQSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLY--GAQY--HNMILELNASDDRGIDVVR  122 (309)
Q Consensus        49 p~~~~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~--~~~~--~~~~~~~~~~~~~~~~~~~  122 (309)
                      |.....++|++..++.+..++...  ....++|+|++|+|||++|..+++...  ...+  ...++.+.....   ..+.
T Consensus       120 P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~---~~~~  196 (591)
T 1z6t_A          120 PQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDK---SGLL  196 (591)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCH---HHHH
T ss_pred             CCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCch---HHHH
Confidence            556678999999999999998743  233499999999999999999975421  1122  234444443321   1111


Q ss_pred             HHHHHhhhccc-------cc--------------cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          123 QQIQDFASTQS-------FS--------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       123 ~~~~~~~~~~~-------~~--------------~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      ..+........       ..              +....++.+|||||++..  .       .++..++.+.+|+||+..
T Consensus       197 ~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~--~-------~l~~l~~~~~ilvTsR~~  267 (591)
T 1z6t_A          197 MKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS--W-------VLKAFDSQCQILLTTRDK  267 (591)
T ss_dssp             HHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH--H-------HHHTTCSSCEEEEEESCG
T ss_pred             HHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH--H-------HHHHhcCCCeEEEECCCc
Confidence            11211111000       00              001114679999999752  1       233346677888877654


Q ss_pred             cccchhhhcceeEEE-ecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          182 NKIIPALQSRCTRFR-FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (309)
Q Consensus       182 ~~l~~~l~~r~~~i~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~  247 (309)
                      ... .........+. ..+++.++..+++...+... ..-.++....|++.++|.|-.+.-....+.
T Consensus       268 ~~~-~~~~~~~~~v~~l~~L~~~ea~~L~~~~~~~~-~~~~~~~~~~i~~~~~G~PLal~~~a~~l~  332 (591)
T 1z6t_A          268 SVT-DSVMGPKYVVPVESSLGKEKGLEILSLFVNMK-KADLPEQAHSIIKECKGSPLVVSLIGALLR  332 (591)
T ss_dssp             GGG-TTCCSCEEEEECCSSCCHHHHHHHHHHHHTSC-GGGSCTHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHH-HhcCCCceEeecCCCCCHHHHHHHHHHHhCCC-cccccHHHHHHHHHhCCCcHHHHHHHHHHh
Confidence            322 11111222222 25899999999998876421 112256789999999999977766555443

>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=98.96  E-value=5.5e-08  Score=101.89  Aligned_cols=169  Identities=16%  Similarity=0.207  Sum_probs=117.4

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCC
Q 021660           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      +.....+..++..+.  ..++.||+|||||++++.+|+.+     +..++.++|........+...+..+..        
T Consensus       632 dr~~~tl~~Al~~~~--~~~l~GpaGtGKTe~vk~LA~~l-----g~~~v~~nc~e~ld~~~lg~~~~g~~~--------  696 (2695)
T 4akg_A          632 LIGFATLTDSLHQKY--GGCFFGPAGTGKTETVKAFGQNL-----GRVVVVFNCDDSFDYQVLSRLLVGITQ--------  696 (2695)
T ss_dssp             HHHHHHHHHHHHTTC--EEEEECCTTSCHHHHHHHHHHTT-----TCCCEEEETTSSCCHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHHHHhCC--CCcccCCCCCCcHHHHHHHHHHh-----CCcEEEEECCCCCChhHhhHHHHHHHh--------
Confidence            345556666666653  38899999999999999999998     778888999987777666555555443        


Q ss_pred             CCccEEEEEeCCCCCCHHHHHHHHHHHH-------Hh-------------cCCceEEEEecC----CcccchhhhcceeE
Q 021660          139 KASVKLVLLDEADAMTKDAQFALRRVIE-------KY-------------TKNTRFALICNQ----VNKIIPALQSRCTR  194 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~~~~l~~~l~-------~~-------------~~~~~~i~~~~~----~~~l~~~l~~r~~~  194 (309)
                        .+..+++||++++..+....+...+.       +.             .+.+.+++|.|.    ...+++++++||..
T Consensus       697 --~Gaw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~~Fr~  774 (2695)
T 4akg_A          697 --IGAWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFRE  774 (2695)
T ss_dssp             --HTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHTTEEE
T ss_pred             --cCCEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHhheEE
Confidence              35689999999999887766633332       21             234456666673    34788999999999


Q ss_pred             EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh-------------cCCHHHHHHHHHHHH
Q 021660          195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC-------------NGDMRKALNILQSTH  247 (309)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~-------------~g~~r~~~~~l~~~~  247 (309)
                      +.+..|+.+.+.+++..   ..|..........++...             +..+|.+...|..+.
T Consensus       775 v~m~~Pd~~~i~ei~l~---s~Gf~~a~~la~kiv~~~~l~~e~ls~q~hydfglRalksvL~~ag  837 (2695)
T 4akg_A          775 FSMKSPQSGTIAEMILQ---IMGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCS  837 (2695)
T ss_dssp             EECCCCCHHHHHHHHHH---HHHCSSHHHHHHHHHHHHHHHHHHSCCCTTCCCSHHHHHHHHHHHH
T ss_pred             EEeeCCCHHHHHHHHHH---hcCCCchHHHHHHHHHHHHHHHHHhCcCCcccccHHHHHHHHHHHH
Confidence            99999998888777533   235544444444444321             235777777665543

>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=98.94  E-value=1.4e-08  Score=93.13  Aligned_cols=177  Identities=17%  Similarity=0.135  Sum_probs=102.6

Q ss_pred             ccChHHHHHHHHHHhcC---CCCeEEEECCCCCcHHHHHHHHHH---HHccCcccccEEEEecCCCc--chHH-HHHHHH
Q 021660           56 AAHRDIVDTIDRLTSEN---RLPHLLLYGPPGTGKTSTILAVAR---KLYGAQYHNMILELNASDDR--GIDV-VRQQIQ  126 (309)
Q Consensus        56 ig~~~~~~~l~~~~~~~---~~~~~ll~G~~G~GKT~l~~~l~~---~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~  126 (309)
                      +|++..++.+.+++...   ....+.|+|+.|+|||+||..+++   ......+. ....++.....  .... ....+.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYD-SIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBS-EEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCC-cEEEEEECCCCCCCHHHHHHHHHH
Confidence            49999999999998654   234489999999999999999997   22222222 22223333321  2222 222233


Q ss_pred             Hhhhccc----cccC--------------CCCc-cEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchh
Q 021660          127 DFASTQS----FSFG--------------VKAS-VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPA  187 (309)
Q Consensus       127 ~~~~~~~----~~~~--------------~~~~-~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~  187 (309)
                      .+.....    ....              -..+ +.+|||||++...  .. .+    ... +.+.+|+||+.... ...
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~--~~-~~----~~~-~gs~ilvTTR~~~v-~~~  280 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEE--TI-RW----AQE-LRLRCLVTTRDVEI-SNA  280 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHH--HH-HH----HHH-TTCEEEEEESBGGG-GGG
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCch--hh-cc----ccc-CCCEEEEEcCCHHH-HHH
Confidence            2221100    0000              0123 7899999998732  11 11    111 46778777765432 111


Q ss_pred             hhcceeEEEecCCChHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHhcCCHHHHHHH
Q 021660          188 LQSRCTRFRFAPLEPVHVTERLKHVIEAEGL-DVTEGGLAALVRLCNGDMRKALNI  242 (309)
Q Consensus       188 l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~l~~i~~~~~g~~r~~~~~  242 (309)
                      .......+.+.+++.++..+++.+.+..... .-..+....|++.++|.|-.+..+
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            1112256899999999999988876421111 111346788999999998666544

>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=98.85  E-value=1.1e-07  Score=95.20  Aligned_cols=189  Identities=12%  Similarity=0.104  Sum_probs=111.4

Q ss_pred             CCCCccccccChHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHc--cCcccccEEEEecCCCcch---HH
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLY--GAQYHNMILELNASDDRGI---DV  120 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~--~~~~~~~~~~~~~~~~~~~---~~  120 (309)
                      -|.....++|++..++.|.+++...  ....+.|+|+.|+|||+||..+++...  ...+...+..++.......   ..
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            3555677999999999999998543  233489999999999999998877631  2222222323333221111   11


Q ss_pred             HHHHHHHhhhccc-----------------cccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          121 VRQQIQDFASTQS-----------------FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       121 ~~~~~~~~~~~~~-----------------~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      +......+.....                 ..+..+.++.+|||||++..  .       .++...+.+.+|+||+...-
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            1111111111000                 00111124779999999853  1       23333567788888875532


Q ss_pred             cchhhhcceeEEEecC-CChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 021660          184 IIPALQSRCTRFRFAP-LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (309)
Q Consensus       184 l~~~l~~r~~~i~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~  247 (309)
                      . .........+.+.+ ++.++..+++...+.... .-.++....|++.++|.|-.+..+-..+.
T Consensus       270 ~-~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~-~~~~~~~~~i~~~~~glPLal~~~~~~l~  332 (1249)
T 3sfz_A          270 T-DSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-EDLPAEAHSIIKECKGSPLVVSLIGALLR  332 (1249)
T ss_dssp             T-TTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCS-TTCCTHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             H-HhhcCCceEEEecCCCCHHHHHHHHHHhhCCCh-hhCcHHHHHHHHHhCCCHHHHHHHHHHhh
Confidence            2 11222335677775 999999999887763322 22345688999999998876655444443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.79  E-value=4.1e-07  Score=96.20  Aligned_cols=207  Identities=18%  Similarity=0.185  Sum_probs=128.0

Q ss_pred             CCCCCcChhhhcC-----CC--Cccc-cccChHHHH---HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCccc
Q 021660           36 PDIKASPWVEKYR-----PQ--SLAD-VAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (309)
Q Consensus        36 ~~~~~~~~~~~~~-----p~--~~~~-~ig~~~~~~---~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (309)
                      ....+.+|.+...     |.  .+.+ +|-..+..+   .+..++..+.  +++|+||+|||||.++..+...+    .+
T Consensus      1257 ~~~~w~~W~~~v~~~~~~~~~~~~~~ilVPT~DTvR~~~ll~~ll~~~~--pvLL~GptGtGKT~li~~~L~~l----~~ 1330 (3245)
T 3vkg_A         1257 DDANWSLWKNKVPSVEVETHKVASPDVVIPTVDTTRHVDVLHAWLSEHR--PLILCGPPGSGKTMTLTSTLRAF----PD 1330 (3245)
T ss_dssp             TTCSEEETTCCC---CCCSTTTTCTTCCCCCHHHHHHHHHHHHHHHTTC--CCEEESSTTSSHHHHHHHHGGGC----TT
T ss_pred             CCCeeeehhhcCCccccCCccCCcccceecchHHHHHHHHHHHHHHCCC--cEEEECCCCCCHHHHHHHHHHhC----CC
Confidence            3456677776532     22  2223 444444433   4455566553  49999999999999987766554    23


Q ss_pred             ccEEEEecCCCcchHHHHHHHHHhhhccc-----cccCCC--CccEEEEEeCCCCCCH------HHHHHHHHHHHHh---
Q 021660          105 NMILELNASDDRGIDVVRQQIQDFASTQS-----FSFGVK--ASVKLVLLDEADAMTK------DAQFALRRVIEKY---  168 (309)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~--~~~~lliiDe~~~l~~------~~~~~l~~~l~~~---  168 (309)
                      ..++.++.+.......+...+........     ..+++.  .+..|++|||++.-..      ...+.|..+++..   
T Consensus      1331 ~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~~~p~~~Gk~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~y 1410 (3245)
T 3vkg_A         1331 FEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFW 1410 (3245)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEEEEESSTTCEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEE
T ss_pred             CceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcccCCCcCCceEEEEecccCCCCccccccccHHHHHHHHHHcCCeE
Confidence            45667777776666666666654332111     112221  2456889999986543      3567788888741   


Q ss_pred             ---------cCCceEEEEecCC-----cccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCC------CCCHHHHHHH
Q 021660          169 ---------TKNTRFALICNQV-----NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGL------DVTEGGLAAL  228 (309)
Q Consensus       169 ---------~~~~~~i~~~~~~-----~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~------~~~~~~l~~i  228 (309)
                               ..+..+|.++|.+     ..+.+++.+||.++.++.|+.+++..|+..++...-.      .+.+...+..
T Consensus      1411 d~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r~F~vi~i~~ps~esL~~If~til~~~l~~~p~l~~~~~~lv~at 1490 (3245)
T 3vkg_A         1411 RTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLRHAPILLVDFPSTSSLTQIYGTFNRALMKLLPNLRSFADNLTDAM 1490 (3245)
T ss_dssp             ETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHTTCCEEECCCCCHHHHHHHHHHHHHHHTTSCGGGTTSHHHHHHHH
T ss_pred             ECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHhhceEEEeCCCCHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHH
Confidence                     1245567777765     3578999999999999999999999997766543211      1112333333


Q ss_pred             HH---------------HhcCCHHHHHHHHHHHHh
Q 021660          229 VR---------------LCNGDMRKALNILQSTHM  248 (309)
Q Consensus       229 ~~---------------~~~g~~r~~~~~l~~~~~  248 (309)
                      .+               ++-.|+|.+-+.++.+..
T Consensus      1491 i~ly~~v~~~~lp~~k~HY~FnLRDLsrv~qGll~ 1525 (3245)
T 3vkg_A         1491 VEFYSESQKRFTPDIQAHYIYSPRELSRWDRALLE 1525 (3245)
T ss_dssp             HHHHHHHHHHSCTTTSTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCcCCCccccHHHHHHHHHHHHH
Confidence            32               123488888888877664

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=98.70  E-value=6.8e-07  Score=85.79  Aligned_cols=172  Identities=16%  Similarity=0.110  Sum_probs=95.0

Q ss_pred             cccChHHHHHHHHHHhc-CCCCeEEEECCCCCcHHHHHHHHHHHH-ccCccc--ccEEEEecCCCcchHHHHHHHHHhhh
Q 021660           55 VAAHRDIVDTIDRLTSE-NRLPHLLLYGPPGTGKTSTILAVARKL-YGAQYH--NMILELNASDDRGIDVVRQQIQDFAS  130 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~~-~~~~~~ll~G~~G~GKT~l~~~l~~~~-~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~  130 (309)
                      .+|++..+..|.+++.. ...+.+.|+|+.|+||||||..+++.. ....+.  ..++.+....  ....+...+.....
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~--d~~~IL~~Ll~lL~  207 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN--SPETVLEMLQKLLY  207 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSS--SHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCC--CHHHHHHHHHHHHh
Confidence            39999999999999876 334459999999999999999998632 011122  3344443322  22222222221110


Q ss_pred             ccc-------------------------ccc-CCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021660          131 TQS-------------------------FSF-GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (309)
Q Consensus       131 ~~~-------------------------~~~-~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l  184 (309)
                      ...                         ..+ ....++.+|||||++.  .+....       .++.+.+|+||+.....
T Consensus       208 ~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd--~eqLe~-------f~pGSRILVTTRd~~Va  278 (1221)
T 1vt4_I          208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN--AKAWNA-------FNLSCKILLTTRFKQVT  278 (1221)
T ss_dssp             HHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCC--HHHHHH-------HHSSCCEEEECSCSHHH
T ss_pred             hcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcCh--HHHHHh-------hCCCeEEEEeccChHHH
Confidence            000                         000 0012577999999987  222222       23577888888765432


Q ss_pred             chhhh-cceeEEEec----CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHH
Q 021660          185 IPALQ-SRCTRFRFA----PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQS  245 (309)
Q Consensus       185 ~~~l~-~r~~~i~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~  245 (309)
                      . .+. .+...+.++    +++.++..+++.+.+   +.. ..+..   .+.++|.|-.+.-+-..
T Consensus       279 ~-~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~---g~~-~eeL~---~eICgGLPLALkLaGs~  336 (1221)
T 1vt4_I          279 D-FLSAATTTHISLDHHSMTLTPDEVKSLLLKYL---DCR-PQDLP---REVLTTNPRRLSIIAES  336 (1221)
T ss_dssp             H-HHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH---CCC-TTTHH---HHHCCCCHHHHHHHHHH
T ss_pred             H-hcCCCeEEEecCccccCCcCHHHHHHHHHHHc---CCC-HHHHH---HHHhCCCHHHHHHHHHH
Confidence            1 111 112334444    789999999988774   222 22222   23477777655444333

>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=98.70  E-value=2e-07  Score=72.19  Aligned_cols=68  Identities=13%  Similarity=0.273  Sum_probs=46.8

Q ss_pred             ccEEEEEeCC---CCCCHHHHHHHHHHHHHhcCCceEEEEec--CCcccchhhhcc--eeEEEecCCChHHHHHHHH
Q 021660          141 SVKLVLLDEA---DAMTKDAQFALRRVIEKYTKNTRFALICN--QVNKIIPALQSR--CTRFRFAPLEPVHVTERLK  210 (309)
Q Consensus       141 ~~~lliiDe~---~~l~~~~~~~l~~~l~~~~~~~~~i~~~~--~~~~l~~~l~~r--~~~i~~~~~~~~~~~~~l~  210 (309)
                      ++.++++||+   ..+.+.....+.++++.  ....+|++++  ........+.+|  +.++++.+.+.+++..-+.
T Consensus        99 ~p~llilDEigp~~~ld~~~~~~l~~~l~~--~~~~~i~~~H~~h~~~~~~~i~~r~~~~i~~~~~~~r~~~~~~l~  173 (178)
T 1ye8_A           99 RRKVIIIDEIGKMELFSKKFRDLVRQIMHD--PNVNVVATIPIRDVHPLVKEIRRLPGAVLIELTPENRDVILEDIL  173 (178)
T ss_dssp             TTCEEEECCCSTTGGGCHHHHHHHHHHHTC--TTSEEEEECCSSCCSHHHHHHHTCTTCEEEECCTTTTTTHHHHHH
T ss_pred             CCCEEEEeCCCCcccCCHHHHHHHHHHHhc--CCCeEEEEEccCCCchHHHHHHhcCCcEEEEecCcCHHHHHHHHH
Confidence            5789999995   34556677888888876  2444666663  344555677777  6888988888766655443

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.59  E-value=1e-07  Score=74.40  Aligned_cols=114  Identities=11%  Similarity=0.129  Sum_probs=61.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHH------------HHHhhhccccccCCCCccE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ------------IQDFASTQSFSFGVKASVK  143 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~  143 (309)
                      ..+++||+|+||||++..++......+....++........+...+.+.            ...+...    +.  .+..
T Consensus         5 i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~----~~--~~~d   78 (184)
T 2orw_A            5 LTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKY----IE--EDTR   78 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC-----CCCEECC----CEECEEESSGGGGGGG----CC--TTEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHH----hc--CCCC
Confidence            4899999999999999888777654444333332111110000000000            0011110    11  1467


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc------ccchhhhcce-eEEEec
Q 021660          144 LVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN------KIIPALQSRC-TRFRFA  198 (309)
Q Consensus       144 lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~------~l~~~l~~r~-~~i~~~  198 (309)
                      +|+|||++.+.++....|..+.+.   +..+|+++...+      ...+.+.+++ .+..+.
T Consensus        79 vviIDE~Q~~~~~~~~~l~~l~~~---~~~Vi~~Gl~~~f~~~~f~~~~~ll~~ad~v~~l~  137 (184)
T 2orw_A           79 GVFIDEVQFFNPSLFEVVKDLLDR---GIDVFCAGLDLTHKQNPFETTALLLSLADTVIKKK  137 (184)
T ss_dssp             EEEECCGGGSCTTHHHHHHHHHHT---TCEEEEEEESBCTTSCBCHHHHHHHHHCSEEEECC
T ss_pred             EEEEECcccCCHHHHHHHHHHHHC---CCCEEEEeeccccccCCccchHHHHHHhhheEEee
Confidence            999999999977766666666654   556666664332      3445566666 333443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.55  E-value=4.8e-06  Score=88.30  Aligned_cols=169  Identities=15%  Similarity=0.186  Sum_probs=117.5

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCC
Q 021660           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      ++....+..++....+  ..+.||+|||||.+++.+++.+     +..++.++|........+...+..+..        
T Consensus       591 drcy~tl~~Al~~~~g--g~~~GPaGtGKTet~k~La~~l-----gr~~~vfnC~~~~d~~~~g~i~~G~~~--------  655 (3245)
T 3vkg_A          591 DRCYLTLTQALESRMG--GNPFGPAGTGKTETVKALGSQL-----GRFVLVFCCDEGFDLQAMSRIFVGLCQ--------  655 (3245)
T ss_dssp             HHHHHHHHHHHHTTCE--EEEECSTTSSHHHHHHHHHHHT-----TCCEEEEECSSCCCHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHHHHhcCC--CCCCCCCCCCHHHHHHHHHHHh-----CCeEEEEeCCCCCCHHHHHHHHhhHhh--------
Confidence            5666677777776633  5789999999999999999998     777888899887766655555554443        


Q ss_pred             CCccEEEEEeCCCCCCHHHHHHHHHHHH-------Hh--------------cCCceEEEEecC----Ccccchhhhccee
Q 021660          139 KASVKLVLLDEADAMTKDAQFALRRVIE-------KY--------------TKNTRFALICNQ----VNKIIPALQSRCT  193 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~~~~l~~~l~-------~~--------------~~~~~~i~~~~~----~~~l~~~l~~r~~  193 (309)
                        .+...++||++++..+....+...+.       ..              .+.+.+++|.|.    ...+++.++.+|.
T Consensus       656 --~GaW~cfDEfNrl~~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~lFr  733 (3245)
T 3vkg_A          656 --CGAWGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFR  733 (3245)
T ss_dssp             --HTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHTTEE
T ss_pred             --cCcEEEehhhhcCCHHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHhhcE
Confidence              35678999999999887666555444       11              123455566664    3478899999999


Q ss_pred             EEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-------------hcCCHHHHHHHHHHHH
Q 021660          194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL-------------CNGDMRKALNILQSTH  247 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~-------------~~g~~r~~~~~l~~~~  247 (309)
                      .+.+..|+.+.+.+++   +...|..-.......++..             ++--+|.+...|..+.
T Consensus       734 ~v~m~~Pd~~~i~ei~---L~s~Gf~~a~~La~k~~~~~~l~~e~LS~Q~HYDfGLRalKsVL~~AG  797 (3245)
T 3vkg_A          734 SMAMIKPDREMIAQVM---LYSQGFKTAEVLAGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAG  797 (3245)
T ss_dssp             EEECCSCCHHHHHHHH---HHTTTCSCHHHHHHHHHHHHHHHHHSSCCCTTCCCSHHHHHHHHHHHH
T ss_pred             EEEEeCCCHHHHHHHH---HHHcccchHHHHHHHHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHH
Confidence            9999999988887765   3344654334444443332             2345788887776554

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.52  E-value=1.5e-07  Score=74.17  Aligned_cols=60  Identities=10%  Similarity=0.098  Sum_probs=40.2

Q ss_pred             ccEEEEEeCCCCCCHH---HH--HHHHHHHHHh-cCCceEEEEecCCcccchhhhcce-eEEEecCC
Q 021660          141 SVKLVLLDEADAMTKD---AQ--FALRRVIEKY-TKNTRFALICNQVNKIIPALQSRC-TRFRFAPL  200 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~---~~--~~l~~~l~~~-~~~~~~i~~~~~~~~l~~~l~~r~-~~i~~~~~  200 (309)
                      .+.+|||||++.+.+.   ..  ..++..++.. .....+|+++.....+...+++|+ ..+++.++
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            4779999999998321   11  1233333322 234467888888888999999998 66777764

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.34  E-value=6.1e-06  Score=65.62  Aligned_cols=132  Identities=17%  Similarity=0.218  Sum_probs=73.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhcc-----------c-cccC--CCCc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ-----------S-FSFG--VKAS  141 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~-~~~~--~~~~  141 (309)
                      ++++.|++|+||||++..++..+...|..+.+..++......   ....+.......           . ..+.  ....
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~~---~~al~~gl~~~~~~~~~~~~~~~~e~~l~~~L~~~   84 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRAE---TEALLNGLPQQPLLRTEYRGMTLEEMDLDALLKAA   84 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCHH---HHHHHTTSCBCCCEEEEETTEEEEECCHHHHHHHC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCChh---HHHHhcCccccCcceeecCCcccccccHHHHHhcC
Confidence            399999999999999999999987777666555555432211   111222111100           0 0000  0025


Q ss_pred             cEEEEEeCCCCCCHH-H-HH-HHHHHHHHhcCCceEEEEecCC------------------cccchhhhcceeEEEecCC
Q 021660          142 VKLVLLDEADAMTKD-A-QF-ALRRVIEKYTKNTRFALICNQV------------------NKIIPALQSRCTRFRFAPL  200 (309)
Q Consensus       142 ~~lliiDe~~~l~~~-~-~~-~l~~~l~~~~~~~~~i~~~~~~------------------~~l~~~l~~r~~~i~~~~~  200 (309)
                      +.+++|||+-..+.. . .. .+..+.+..+....++.++|-.                  ..++..+..++..+.+-.+
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            779999998765211 1 11 1112222334444677666521                  2445566667766777788


Q ss_pred             ChHHHHHHHH
Q 021660          201 EPVHVTERLK  210 (309)
Q Consensus       201 ~~~~~~~~l~  210 (309)
                      +++++.+.+.
T Consensus       165 ~p~~l~~rl~  174 (228)
T 2r8r_A          165 PPRELLERLR  174 (228)
T ss_dssp             CHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            8888655543

>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=98.32  E-value=3.2e-06  Score=70.89  Aligned_cols=66  Identities=12%  Similarity=0.215  Sum_probs=39.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC-----CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-----DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEAD  151 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~  151 (309)
                      ++|+||||+|||+++.+++..   .+....|+......     ....+.....+......         .+ +||||+++
T Consensus       126 iLI~GpPGsGKTtLAlqlA~~---~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~---------~~-LLVIDsI~  192 (331)
T 2vhj_A          126 VIVTGKGNSGKTPLVHALGEA---LGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ---------HR-VIVIDSLK  192 (331)
T ss_dssp             EEEECSCSSSHHHHHHHHHHH---HHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH---------CS-EEEEECCT
T ss_pred             EEEEcCCCCCHHHHHHHHHHh---CCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhh---------CC-EEEEeccc
Confidence            799999999999999999987   23445556551110     01222222222222211         23 99999999


Q ss_pred             CCCH
Q 021660          152 AMTK  155 (309)
Q Consensus       152 ~l~~  155 (309)
                      .+..
T Consensus       193 aL~~  196 (331)
T 2vhj_A          193 NVIG  196 (331)
T ss_dssp             TTC-
T ss_pred             cccc
Confidence            8853

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=98.26  E-value=5.4e-06  Score=66.33  Aligned_cols=93  Identities=14%  Similarity=0.124  Sum_probs=56.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC--------cc----------hHHHHHHHHHhhhccccccC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--------RG----------IDVVRQQIQDFASTQSFSFG  137 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--------~~----------~~~~~~~~~~~~~~~~~~~~  137 (309)
                      .++++|++|+||||++..++......+..+.++.......        .+          ...+.+.+....        
T Consensus        14 i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~--------   85 (223)
T 2b8t_A           14 IEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNS--------   85 (223)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTT--------
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHh--------
Confidence            4899999999999999999998866665554443222110        00          011111111110        


Q ss_pred             CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       138 ~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      ......+|+|||++.+..+....+..+.+ .  ...+|+++.
T Consensus        86 ~~~~~dvViIDEaQ~l~~~~ve~l~~L~~-~--gi~Vil~Gl  124 (223)
T 2b8t_A           86 FNDETKVIGIDEVQFFDDRICEVANILAE-N--GFVVIISGL  124 (223)
T ss_dssp             SCTTCCEEEECSGGGSCTHHHHHHHHHHH-T--TCEEEEECC
T ss_pred             hCCCCCEEEEecCccCcHHHHHHHHHHHh-C--CCeEEEEec
Confidence            01146799999999998776555544333 2  567777775

>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=98.16  E-value=7.5e-06  Score=63.65  Aligned_cols=104  Identities=12%  Similarity=0.140  Sum_probs=67.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC-CcchHHHHHHH-------------------------HHh
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGIDVVRQQI-------------------------QDF  128 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~-------------------------~~~  128 (309)
                      +.+++++++|.||||+|-.++-+..+.+..+.++.+.... ..+...+...+                         ...
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            5599999999999999999999998888888777665431 11111111111                         100


Q ss_pred             hhccccccCCCCccEEEEEeCC------CCCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          129 ASTQSFSFGVKASVKLVLLDEA------DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       129 ~~~~~~~~~~~~~~~lliiDe~------~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                      ...... .-......+|||||+      ..++   .+.++.++...+....+|+|++..+
T Consensus       109 l~~a~~-~l~~~~yDlvILDEi~~al~~g~l~---~~ev~~~l~~Rp~~~~vIlTGr~ap  164 (196)
T 1g5t_A          109 WQHGKR-MLADPLLDMVVLDELTYMVAYDYLP---LEEVISALNARPGHQTVIITGRGCH  164 (196)
T ss_dssp             HHHHHH-HTTCTTCSEEEEETHHHHHHTTSSC---HHHHHHHHHTSCTTCEEEEECSSCC
T ss_pred             HHHHHH-HHhcCCCCEEEEeCCCccccCCCCC---HHHHHHHHHhCcCCCEEEEECCCCc
Confidence            000000 011125789999998      3344   3568889998888999999998764

>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=98.09  E-value=4.9e-06  Score=76.27  Aligned_cols=114  Identities=21%  Similarity=0.250  Sum_probs=64.6

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH-------HHhhhc
Q 021660           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI-------QDFAST  131 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~  131 (309)
                      +.-...+...+.   .+.++|+|+||||||+++..++..+...+..+  . +.+........+.+.+       ..+...
T Consensus       192 ~~Q~~Av~~~~~---~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~V--l-~~ApT~~Aa~~L~e~~~~~a~Tih~ll~~  265 (574)
T 3e1s_A          192 EEQASVLDQLAG---HRLVVLTGGPGTGKSTTTKAVADLAESLGLEV--G-LCAPTGKAARRLGEVTGRTASTVHRLLGY  265 (574)
T ss_dssp             HHHHHHHHHHTT---CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCE--E-EEESSHHHHHHHHHHHTSCEEEHHHHTTE
T ss_pred             HHHHHHHHHHHh---CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeE--E-EecCcHHHHHHhHhhhcccHHHHHHHHcC
Confidence            444444544443   25699999999999999999999886554332  2 2222222222222211       111111


Q ss_pred             cccccC----CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          132 QSFSFG----VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       132 ~~~~~~----~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      ....+.    ......+|||||+..+.......|+.   ..+....+|++++..
T Consensus       266 ~~~~~~~~~~~~~~~dvlIIDEasml~~~~~~~Ll~---~~~~~~~lilvGD~~  316 (574)
T 3e1s_A          266 GPQGFRHNHLEPAPYDLLIVDEVSMMGDALMLSLLA---AVPPGARVLLVGDTD  316 (574)
T ss_dssp             ETTEESCSSSSCCSCSEEEECCGGGCCHHHHHHHHT---TSCTTCEEEEEECTT
T ss_pred             CcchhhhhhcccccCCEEEEcCccCCCHHHHHHHHH---hCcCCCEEEEEeccc
Confidence            100011    11246799999999998765555544   445577888887544

>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=98.03  E-value=1.3e-05  Score=63.14  Aligned_cols=101  Identities=12%  Similarity=0.157  Sum_probs=54.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhcccc----c-cC-CCCccEEEEEeCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF----S-FG-VKASVKLVLLDEA  150 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~-~~-~~~~~~lliiDe~  150 (309)
                      .+++|+.|+||||.+..++......+..+.++...-....+...+.+.+.........    . +. ......+|+|||+
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            7899999999999999998888766665555542222211222222222111110000    0 00 0013679999999


Q ss_pred             CCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          151 DAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       151 ~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      +.+.++..+.+..+.+   ....||+++.+
T Consensus       111 QF~~~~~V~~l~~l~~---~~~~Vi~~Gl~  137 (214)
T 2j9r_A          111 QFFDGDIVEVVQVLAN---RGYRVIVAGLD  137 (214)
T ss_dssp             GGSCTTHHHHHHHHHH---TTCEEEEEECS
T ss_pred             ccCCHHHHHHHHHHhh---CCCEEEEEecc
Confidence            9998776654444332   26677777753

>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=97.96  E-value=8.8e-06  Score=63.51  Aligned_cols=96  Identities=13%  Similarity=0.204  Sum_probs=53.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH------------HHhhhccccccCCCCccE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI------------QDFASTQSFSFGVKASVK  143 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~  143 (309)
                      ..+++||.|+||||.+..++......+..+.++........+...+.+.+            .++...    ..  ....
T Consensus        10 i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~~~~~i~s~~g~~~~a~~~~~~~~i~~~----~~--~~~d   83 (191)
T 1xx6_A           10 VEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKY----FE--EDTE   83 (191)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHHHHH----CC--TTCS
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccchHHHHHhhcCCceeeEeeCCHHHHHHH----Hh--ccCC
Confidence            38999999999999999999988666655544431111100000000000            000000    00  1357


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          144 LVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       144 lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      +|+|||++.+.++..+.+..+.+   ....+|+++.+
T Consensus        84 vViIDEaqfl~~~~v~~l~~l~~---~~~~Vi~~Gl~  117 (191)
T 1xx6_A           84 VIAIDEVQFFDDEIVEIVNKIAE---SGRRVICAGLD  117 (191)
T ss_dssp             EEEECSGGGSCTHHHHHHHHHHH---TTCEEEEEECS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---CCCEEEEEecc
Confidence            99999999998776555444433   25567777643

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.93  E-value=3.4e-05  Score=79.02  Aligned_cols=36  Identities=22%  Similarity=0.295  Sum_probs=28.2

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      ..+++|+||||||||+++.+++.+....+....|+.
T Consensus      1427 g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~ 1462 (2050)
T 3cmu_A         1427 GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID 1462 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            355999999999999999999998765555444443

>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=97.81  E-value=0.00017  Score=57.41  Aligned_cols=99  Identities=11%  Similarity=0.179  Sum_probs=56.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccc-----cCCCCccEEEEEeCCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS-----FGVKASVKLVLLDEAD  151 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~lliiDe~~  151 (309)
                      .+++|+.|+||||.+...+......+....++...-....+ ..+.+.+..........     +.......+|+|||++
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            89999999999988888888877766666665543333223 33333322111100000     0000145799999999


Q ss_pred             CCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021660          152 AMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (309)
Q Consensus       152 ~l~~~~~~~l~~~l~~~~~~~~~i~~~~~  180 (309)
                      .+..  ...+.+.+.+  .+..||+++.+
T Consensus       101 F~~~--v~el~~~l~~--~gi~VI~~GL~  125 (234)
T 2orv_A          101 FFPD--IVEFCEAMAN--AGKTVIVAALD  125 (234)
T ss_dssp             GCTT--HHHHHHHHHH--TTCEEEEECCS
T ss_pred             hhhh--HHHHHHHHHh--CCCEEEEEecc
Confidence            9874  5666677766  35677777744

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.80  E-value=0.00014  Score=58.32  Aligned_cols=25  Identities=40%  Similarity=0.398  Sum_probs=21.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ..++|.||+|+||||++..++..+.
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~~   48 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKGL   48 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3489999999999999999997763

>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=97.79  E-value=0.00044  Score=54.93  Aligned_cols=21  Identities=33%  Similarity=0.504  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      .++|+||+|+|||+++..++.
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999999998

>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=97.79  E-value=0.00012  Score=59.39  Aligned_cols=38  Identities=21%  Similarity=0.293  Sum_probs=27.8

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++.....+..++..   ..++++||+|+|||.++..++...
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            44444455555544   349999999999999998888775

>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=97.77  E-value=0.00017  Score=66.75  Aligned_cols=103  Identities=18%  Similarity=0.284  Sum_probs=57.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccC--cccccEEEEecCCCcchHHHHHHHHHhhhc------------------ccc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGA--QYHNMILELNASDDRGIDVVRQQIQDFAST------------------QSF  134 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~  134 (309)
                      +.++++|+||||||+++..+...+...  .....+. +.+........+.+.+......                  +..
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vl-l~APTg~AA~~L~e~~~~~~~~l~l~~~~~~~~~~~~~Tih~l  243 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIR-LAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEDASTLHRL  243 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEE-EEBSSHHHHHHHHHHHTHHHHHSSCCSCCCCSCSCCCBTTTSC
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEE-EEeCChhHHHHHHHHHHHHHhcCCCCHHHHhccchhhhhhHhh
Confidence            459999999999999999988877421  1122222 3333323333333333221100                  000


Q ss_pred             --------cc----CCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          135 --------SF----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       135 --------~~----~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                              .+    .......+|||||++.+......   .++...+....+|++++..
T Consensus       244 l~~~~~~~~~~~~~~~~l~~d~lIIDEAsml~~~~~~---~Ll~~l~~~~~liLvGD~~  299 (608)
T 1w36_D          244 LGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPMMS---RLIDALPDHARVIFLGDRD  299 (608)
T ss_dssp             C-----------CTTSCCSCSEEEECSGGGCBHHHHH---HHHHTCCTTCEEEEEECTT
T ss_pred             hccCCCchHHHhccCCCCCCCEEEEechhhCCHHHHH---HHHHhCCCCCEEEEEcchh
Confidence                    00    00013569999999977754444   4455556678888887543

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.77  E-value=0.00022  Score=55.56  Aligned_cols=70  Identities=13%  Similarity=0.152  Sum_probs=40.6

Q ss_pred             CccEEEEEeCCCCC---CHHHHHHHHHHHHHhcCCceEEEE-e--cCC-cccchhhhcc--eeEEEecCCChHHHHHHHH
Q 021660          140 ASVKLVLLDEADAM---TKDAQFALRRVIEKYTKNTRFALI-C--NQV-NKIIPALQSR--CTRFRFAPLEPVHVTERLK  210 (309)
Q Consensus       140 ~~~~lliiDe~~~l---~~~~~~~l~~~l~~~~~~~~~i~~-~--~~~-~~l~~~l~~r--~~~i~~~~~~~~~~~~~l~  210 (309)
                      .++.++++||+..+   .......+.++++..  .+.++.+ +  .+. ..+...+..+  +.++.+.+-+.+.+.+-+.
T Consensus       104 ~~~dvlilDE~g~~~~~~~~~~~~l~~~l~~~--~~~ilgti~vsh~~~~~~vd~i~~~~~~~i~~~~~~nr~~~~~~i~  181 (189)
T 2i3b_A          104 PGQRVCVIDEIGKMELFSQLFIQAVRQTLSTP--GTIILGTIPVPKGKPLALVEEIRNRKDVKVFNVTKENRNHLLPDIV  181 (189)
T ss_dssp             SCCCCEEECCCSTTTTTCSHHHHHHHHHHHCS--SCCEEEECCCCCSSCCTTHHHHHTTCCSEEEECCSSSGGGHHHHHH
T ss_pred             cCCCEEEEeCCCccccccHHHHHHHHHHHhCC--CcEEEEEeecCCCCchHHHHHHeecCCcEEEEeChHhHHHHHHHHH
Confidence            36889999997655   345667777777643  2334312 2  222 1344555443  4778887777666555443


Q ss_pred             H
Q 021660          211 H  211 (309)
Q Consensus       211 ~  211 (309)
                      .
T Consensus       182 ~  182 (189)
T 2i3b_A          182 T  182 (189)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.74  E-value=0.00032  Score=61.65  Aligned_cols=36  Identities=25%  Similarity=0.322  Sum_probs=29.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      +++.|++|+||||++..++..+...+..+.++..+.
T Consensus       100 I~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~  135 (433)
T 3kl4_A          100 IMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADV  135 (433)
T ss_dssp             EEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCc
Confidence            899999999999999999999876666655555443

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.71  E-value=8.5e-05  Score=62.58  Aligned_cols=32  Identities=28%  Similarity=0.549  Sum_probs=26.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      .++|+||+|+|||+++..+++.+     +..++..+.
T Consensus         7 ~i~i~GptGsGKTtla~~La~~l-----~~~iis~Ds   38 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMALADAL-----PCELISVDS   38 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS-----CEEEEEECT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc-----CCcEEeccc
Confidence            48999999999999999999997     455555543

>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=97.70  E-value=0.00075  Score=59.36  Aligned_cols=35  Identities=31%  Similarity=0.421  Sum_probs=28.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      .+++.|++|+||||++..++..+...+..+.++..
T Consensus       102 vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~  136 (443)
T 3dm5_A          102 ILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCS  136 (443)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEC
T ss_pred             EEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            38999999999999999999998776665544443

>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=97.68  E-value=0.00031  Score=57.66  Aligned_cols=26  Identities=31%  Similarity=0.488  Sum_probs=22.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +..++|+|+||+||||+++.+++.+.
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            34599999999999999999999863

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.65  E-value=0.00019  Score=55.11  Aligned_cols=22  Identities=32%  Similarity=0.456  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|+||+||||+++.+++.
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~~   25 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIAK   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHhh
Confidence            3899999999999999999983

>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=97.64  E-value=0.00023  Score=57.53  Aligned_cols=23  Identities=26%  Similarity=0.229  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|+||+|+|||+++..++...
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~~   48 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVTC   48 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHH
Confidence            49999999999999999999863

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.63  E-value=0.00025  Score=54.97  Aligned_cols=96  Identities=16%  Similarity=0.173  Sum_probs=48.7

Q ss_pred             eEEEECCCCCcHH-HHHHHHHHHHccCcccccEEEEecC-CCcchHHHHHHHHHhhhcccc----ccC-CCCccEEEEEe
Q 021660           76 HLLLYGPPGTGKT-STILAVARKLYGAQYHNMILELNAS-DDRGIDVVRQQIQDFASTQSF----SFG-VKASVKLVLLD  148 (309)
Q Consensus        76 ~~ll~G~~G~GKT-~l~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~----~~~-~~~~~~lliiD  148 (309)
                      ..+++||.|+||| .|++.+.+... .+..+.++  .+. +.+....+.+.+.........    .+. ......+|+||
T Consensus        22 l~fiyG~MgsGKTt~Ll~~i~n~~~-~~~kvl~~--kp~~D~R~~~~i~S~~g~~~~A~~~~~~~d~~~~~~~~DvIlID   98 (195)
T 1w4r_A           22 IQVILGPMFSGKSTELMRRVRRFQI-AQYKCLVI--KYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEALGVAVIGID   98 (195)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHH-TTCCEEEE--EETTCCCGGGSCCHHHHHHSEEEEESSGGGGHHHHHTCSEEEES
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHH-cCCeEEEE--ccccCccchhhhhhccCCcccceecCCHHHHHHhccCCCEEEEE
Confidence            3899999999999 67777666553 33333333  322 111112222222211111000    000 00134699999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021660          149 EADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       149 e~~~l~~~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      |++.+ ++..+.+ +.+.+  .+..||+++
T Consensus        99 EaQFf-k~~ve~~-~~L~~--~gk~VI~~G  124 (195)
T 1w4r_A           99 EGQFF-PDIVEFC-EAMAN--AGKTVIVAA  124 (195)
T ss_dssp             SGGGC-TTHHHHH-HHHHH--TTCEEEEEE
T ss_pred             chhhh-HHHHHHH-HHHHH--CCCeEEEEe
Confidence            99999 6544444 44443  244666665

>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=97.63  E-value=0.00018  Score=61.64  Aligned_cols=33  Identities=24%  Similarity=0.369  Sum_probs=25.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (309)
                      .++|+||||+|||+++..++......+....++
T Consensus        63 iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi   95 (349)
T 2zr9_A           63 VIEIYGPESSGKTTVALHAVANAQAAGGIAAFI   95 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            399999999999999999988775444333333

>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=97.62  E-value=9e-05  Score=61.92  Aligned_cols=154  Identities=14%  Similarity=0.290  Sum_probs=74.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC-----CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-----DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~  150 (309)
                      .++|.||+|+|||+++..+++.+     +..++..++-.     ..+......  .+.           .+-.--+||..
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~-----~~~iis~Ds~QvYr~~~igTakp~~--~E~-----------~gvphhlid~~   66 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRL-----NGEVISGDSMQVYRGMDIGTAKITA--EEM-----------DGVPHHLIDIK   66 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTT-----TEEEEECCGGGGBTTCCTTTTCCCH--HHH-----------TTCCEESSSCB
T ss_pred             EEEEECCCcCCHHHHHHHHHHhC-----ccceeecCcccceeeeeecCCCCCH--HHH-----------cCCCEEEeccC
Confidence            48999999999999999999987     33333222210     000000000  000           01122344432


Q ss_pred             --CC-CC-HHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCC-ChHHHHHHHHHHHHHcCC-------
Q 021660          151 --DA-MT-KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL-EPVHVTERLKHVIEAEGL-------  218 (309)
Q Consensus       151 --~~-l~-~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~-~~~~~~~~l~~~~~~~~~-------  218 (309)
                        +. .+ ..........+++......+.+++.-......++..-.   .+.|. ...+++.-+...+...|.       
T Consensus        67 ~~~e~~s~~~F~~~a~~~i~~i~~~gk~pIlVGGTglYi~aLl~g~---~~~~~~~~~~~R~~l~~~~~~~g~~~L~~~L  143 (322)
T 3exa_A           67 DPSESFSVADFQDLATPLITEIHERGRLPFLVGGTGLYVNAVIHQF---NLGDIRADEDYRHELEAFVNSYGVQALHDKL  143 (322)
T ss_dssp             CTTSCCCHHHHHHHHHHHHHHHHHTTCEEEEESCCHHHHHHHHHTC---CCCCCBCCHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             ChhhhccHHHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHcCC---cCCCCCCCHHHHHHHHHHHHhcCHHHHHHHH
Confidence              22 22 22234445555554333333333333323334443332   34443 345677777777666553       


Q ss_pred             -CCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCc
Q 021660          219 -DVTEGGLAALVRLCNGDMRKALNILQSTHMASQQI  253 (309)
Q Consensus       219 -~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i  253 (309)
                       .++++..   .+....|.+.++..|+-....+..+
T Consensus       144 ~~~DP~~A---~~i~pnd~~Ri~RALEV~~~TG~~~  176 (322)
T 3exa_A          144 SKIDPKAA---AAIHPNNYRRVIRALEIIKLTGKTV  176 (322)
T ss_dssp             HTTCHHHH---TTSCTTCHHHHHHHHHHHHHTC---
T ss_pred             HhhCHHHH---hhcCcccHHHHHHHHHHHHHHCCCH
Confidence             2233221   1223679999999998876655433

>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=97.61  E-value=0.00024  Score=60.97  Aligned_cols=33  Identities=24%  Similarity=0.348  Sum_probs=25.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (309)
                      .++|+|+||+|||+++..++..+...+....++
T Consensus        65 ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyi   97 (356)
T 1u94_A           65 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI   97 (356)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            399999999999999999998875444333333

>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=97.61  E-value=0.00059  Score=58.81  Aligned_cols=33  Identities=27%  Similarity=0.344  Sum_probs=25.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (309)
                      .++|+|+||+|||+++..++..+...+..+.|+
T Consensus        76 li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi  108 (366)
T 1xp8_A           76 ITEIYGPESGGKTTLALAIVAQAQKAGGTCAFI  108 (366)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEE
Confidence            389999999999999999988875444333333

>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=97.61  E-value=0.00049  Score=58.96  Aligned_cols=26  Identities=19%  Similarity=0.307  Sum_probs=22.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      ++|+||||+|||||+..++..+...+
T Consensus        64 ~~I~GppGsGKSTLal~la~~~~~~g   89 (356)
T 3hr8_A           64 VEIFGQESSGKTTLALHAIAEAQKMG   89 (356)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            89999999999999999998875443

>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=97.61  E-value=0.002  Score=51.04  Aligned_cols=23  Identities=35%  Similarity=0.566  Sum_probs=21.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|+|+||+||||+++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999999886

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.59  E-value=0.00026  Score=58.13  Aligned_cols=25  Identities=32%  Similarity=0.595  Sum_probs=22.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ..++|.||+|+||||+++.++..+.
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHHhCC
Confidence            3499999999999999999998874

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.58  E-value=0.0016  Score=53.14  Aligned_cols=23  Identities=35%  Similarity=0.660  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||+|+||||+++.+++.+
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            47999999999999999999987

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.57  E-value=0.0002  Score=54.79  Aligned_cols=18  Identities=28%  Similarity=0.516  Sum_probs=16.4

Q ss_pred             eEEEECCCCCcHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILA   93 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~   93 (309)
                      .+.|.||+|+||||+++.
T Consensus        11 i~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEEECCTTSCHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            389999999999999993

>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=97.56  E-value=0.00055  Score=55.24  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=17.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      ..+++.||+|+|||+++....-
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~~   98 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFIL   98 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHHHh
Confidence            4599999999999987665543

>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=97.56  E-value=0.0013  Score=54.99  Aligned_cols=25  Identities=24%  Similarity=0.274  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      .++|+||||+|||+|+..++.....
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~   54 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMR   54 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3899999999999999988877654

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=97.55  E-value=8.2e-05  Score=58.55  Aligned_cols=100  Identities=11%  Similarity=0.101  Sum_probs=50.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhcccc----cc-C-CCCccEEEEEeC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF----SF-G-VKASVKLVLLDE  149 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~-~-~~~~~~lliiDe  149 (309)
                      ..+++||-|+||||.+-..+......+....++...-....+...+.+.+.........    .+ . ......+|+|||
T Consensus        30 I~vitG~M~sGKTT~Llr~~~r~~~~g~kvli~kp~~D~R~~~~~I~Sr~G~~~~a~~v~~~~di~~~i~~~~dvV~IDE  109 (219)
T 3e2i_A           30 IECITGSMFSGKSEELIRRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEAINISKASEIMTHDLTNVDVIGIDE  109 (219)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEEC-----------CBTTBCCEEEEESSGGGGGGSCCTTCSEEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCceEEEEeccCCcchhhhHHHhcCCceeeEEeCCHHHHHHHHhcCCCEEEEec
Confidence            37999999999999655555665544544433322211111111111111100000000    00 0 012467999999


Q ss_pred             CCCCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021660          150 ADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       150 ~~~l~~~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      ++.+.++..+.+..+.+   .+.+||+.+
T Consensus       110 aQFf~~~~v~~l~~la~---~gi~Vi~~G  135 (219)
T 3e2i_A          110 VQFFDDEIVSIVEKLSA---DGHRVIVAG  135 (219)
T ss_dssp             GGGSCTHHHHHHHHHHH---TTCEEEEEE
T ss_pred             hhcCCHHHHHHHHHHHH---CCCEEEEee
Confidence            99999887777777663   245566555

>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=97.53  E-value=0.0011  Score=56.83  Aligned_cols=26  Identities=35%  Similarity=0.576  Sum_probs=23.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ..++|.||+|+||||+++.++..+..
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~~~  149 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYLNN  149 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcccC
Confidence            35999999999999999999988753

>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=97.52  E-value=0.00026  Score=54.04  Aligned_cols=22  Identities=27%  Similarity=0.520  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|+||+||||+++.+ +.+
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            4899999999999999999 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=97.51  E-value=0.00031  Score=61.83  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=21.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+|+||+||||+++.++..+
T Consensus       259 ~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          259 EVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhc
Confidence            348999999999999999998876

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.48  E-value=0.0021  Score=50.87  Aligned_cols=23  Identities=30%  Similarity=0.595  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|+|+||+||||+++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999999987

>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=97.48  E-value=0.00042  Score=59.92  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=21.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+||+|+||||+++.++...
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            349999999999999999999876

>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=97.41  E-value=0.0018  Score=55.38  Aligned_cols=22  Identities=23%  Similarity=0.167  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|+||||+|||+++..++...
T Consensus       125 ~~I~G~~GsGKTtla~~la~~~  146 (343)
T 1v5w_A          125 TEAFGEFRTGKTQLSHTLCVTA  146 (343)
T ss_dssp             EEEECCTTCTHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999999999874

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.41  E-value=0.00051  Score=70.66  Aligned_cols=99  Identities=19%  Similarity=0.307  Sum_probs=58.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch-------------------HHHHHHHHHhhhccccc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI-------------------DVVRQQIQDFASTQSFS  135 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~  135 (309)
                      .+++++||||+|||+++.+++.+....+....|+.+......-.                   +........+...    
T Consensus      1082 ~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~ee~~~~L~a~~~G~dl~~l~~~~pd~~e~~~~i~~~l~~~---- 1157 (2050)
T 3cmu_A         1082 RIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARS---- 1157 (2050)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHH----
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEccccHHHHHHHHcCCChhHheeecCcchHHHHHHHHHHHHh----
Confidence            45999999999999999999988766655555554433221100                   0111111111111    


Q ss_pred             cCCCCccEEEEEeCCCCCCHHH------------------HHHHHHHHHHhcCCceEEEEecCC
Q 021660          136 FGVKASVKLVLLDEADAMTKDA------------------QFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       136 ~~~~~~~~lliiDe~~~l~~~~------------------~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                          ..+.+|+||++..+.+..                  ...|++++........+++++|..
T Consensus      1158 ----~~~dlvVIDsl~~L~~~~e~~~~~g~~~~gl~aR~~~~~L~~L~~~l~e~~stiI~tN~~ 1217 (2050)
T 3cmu_A         1158 ----GAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQI 1217 (2050)
T ss_dssp             ----TCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEECC
T ss_pred             ----CCCCEEEECCcccccccccccccccccchhHHHHHHHHHHHHHHHHHHhCCeEEEEecCC
Confidence                147899999998884321                  244666676655555666666543

>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=97.41  E-value=0.00018  Score=55.27  Aligned_cols=24  Identities=21%  Similarity=0.398  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+|++|+||||+++.+++.+
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            348999999999999999999997

>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=97.40  E-value=0.0014  Score=51.62  Aligned_cols=23  Identities=35%  Similarity=0.686  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||||+||+|.+..+++.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999999987

>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=97.40  E-value=0.0004  Score=70.47  Aligned_cols=26  Identities=31%  Similarity=0.483  Sum_probs=22.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      +++|||||||||+++.+++.+....+
T Consensus      1085 ~l~~G~~g~GKT~la~~~~~~~~~~g 1110 (1706)
T 3cmw_A         1085 VEIYGPESSGKTTLTLQVIAAAQREG 1110 (1706)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCChHHHHHHHHHHhhhcC
Confidence            99999999999999999998875443

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.40  E-value=0.0042  Score=52.44  Aligned_cols=26  Identities=27%  Similarity=0.429  Sum_probs=22.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      ++|.|+||+|||+++..++......+
T Consensus        71 ~li~G~pG~GKTtl~l~ia~~~a~~g   96 (315)
T 3bh0_A           71 VLIAARPSMGKTAFALKQAKNMSDND   96 (315)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTT
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHcC
Confidence            99999999999999999987764443

>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=97.39  E-value=0.0026  Score=51.50  Aligned_cols=25  Identities=24%  Similarity=0.492  Sum_probs=22.5

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +..++|+||||+||||+++.+++.+
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3459999999999999999999887

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.39  E-value=0.0017  Score=52.46  Aligned_cols=24  Identities=38%  Similarity=0.362  Sum_probs=20.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .++|+||||+|||+++..++....
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~~~~   48 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLWNGL   48 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            489999999999999988877654

>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=97.37  E-value=0.00059  Score=58.03  Aligned_cols=37  Identities=19%  Similarity=0.319  Sum_probs=29.1

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        61 ~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +++.+.-.+..+  ..+.|.||+|+||||+++.++..+.
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            455555556555  3599999999999999999998864

>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=97.37  E-value=0.00074  Score=53.35  Aligned_cols=38  Identities=16%  Similarity=0.291  Sum_probs=26.1

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++.-...+..++.+   .++++.+|+|+|||.++..++...
T Consensus        35 ~~~Q~~~i~~~~~~---~~~li~~~tGsGKT~~~~~~~~~~   72 (216)
T 3b6e_A           35 RPYQMEVAQPALEG---KNIIICLPTGSGKTRVAVYIAKDH   72 (216)
T ss_dssp             CHHHHHHHHHHHTT---CCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhcC---CCEEEEcCCCCCHHHHHHHHHHHH
Confidence            33444444444433   459999999999999887777654

>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=97.37  E-value=0.0015  Score=52.13  Aligned_cols=22  Identities=27%  Similarity=0.378  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.|.||+|+||||+++.++...
T Consensus        28 ~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           28 TEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999865

>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=97.36  E-value=0.0006  Score=55.04  Aligned_cols=43  Identities=12%  Similarity=0.286  Sum_probs=32.3

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~  182 (309)
                      .++.++++||. ..+.+.....+.+++.+...  ...+|++|++..
T Consensus       162 ~~p~llllDEPts~LD~~~~~~i~~~l~~l~~~~g~tvi~vtHd~~  207 (235)
T 3tif_A          162 NNPPIILADQPTWALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDIN  207 (235)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEECSCHH
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEcCCHH
Confidence            37889999995 45677788888888887642  566777887664

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.36  E-value=0.00019  Score=55.48  Aligned_cols=25  Identities=36%  Similarity=0.424  Sum_probs=22.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++.++|+|++|+||||+++.+++.+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3469999999999999999999998

>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=97.36  E-value=0.00017  Score=55.01  Aligned_cols=24  Identities=21%  Similarity=0.355  Sum_probs=22.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.|++|+||||+++.+++.+
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999999999997

>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=97.35  E-value=0.0011  Score=52.55  Aligned_cols=105  Identities=14%  Similarity=0.240  Sum_probs=56.9

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHccCc---c---------cccEEEEecCCCcchHHHHHHHHHhhhccccccCCCC
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQ---Y---------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKA  140 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~---~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (309)
                      ....++|.|++|+|||+++..+........   .         ...+..++.......   ......+......    ..
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~---~~~~~~~~~~~~~----~~   83 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKL---RYKLSDYLKTRAK----FV   83 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTGGGSSCEEEECCCCGGG---THHHHHHHHHHGG----GE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEeeCceEEEEECCCcHHH---HHHHHHHHHhccc----cC
Confidence            345699999999999999999987653221   1         112223443332222   2222222211000    01


Q ss_pred             ccEEEEEeCC-C-CCCHHHHHHHHHHHHH----hcCCceEEEEecCCccc
Q 021660          141 SVKLVLLDEA-D-AMTKDAQFALRRVIEK----YTKNTRFALICNQVNKI  184 (309)
Q Consensus       141 ~~~lliiDe~-~-~l~~~~~~~l~~~l~~----~~~~~~~i~~~~~~~~l  184 (309)
                      ..-++++|-- + .-.......+..++..    .+...+++++.|..+..
T Consensus        84 ~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~  133 (218)
T 1nrj_B           84 KGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELF  133 (218)
T ss_dssp             EEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTST
T ss_pred             CEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhc
Confidence            3457788865 2 1224445556666654    23567788888877654

>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=97.34  E-value=0.00019  Score=59.80  Aligned_cols=23  Identities=30%  Similarity=0.638  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||+|+|||+++..+++.+
T Consensus        12 ~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           12 AIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCccCHHHHHHHHHHhC
Confidence            38999999999999999999997

>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=97.33  E-value=0.00022  Score=58.95  Aligned_cols=52  Identities=8%  Similarity=0.164  Sum_probs=35.6

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCceEEEEecCCcccchhhhcce
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~--~~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      .++.+|++||. ..+.+.....+.+++.+..  ....+|+++.+...+. .+..|.
T Consensus       160 ~~P~lLlLDEPts~LD~~~~~~i~~~l~~l~~~~g~tvi~vtHdl~~~~-~~~drv  214 (275)
T 3gfo_A          160 MEPKVLILDEPTAGLDPMGVSEIMKLLVEMQKELGITIIIATHDIDIVP-LYCDNV  214 (275)
T ss_dssp             TCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHHHCCEEEEEESCCSSGG-GGCSEE
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHHhhCCCEEEEEecCHHHHH-HhCCEE
Confidence            37889999995 4577778888888887654  2556777777665443 333443

>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=97.32  E-value=0.0044  Score=49.14  Aligned_cols=39  Identities=18%  Similarity=0.356  Sum_probs=25.7

Q ss_pred             ccEEEEEeCCCCCCH--HHHHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      .-.++|+||+|.+..  .....+..++...+....+++.|.
T Consensus       158 ~~~~lViDEah~~~~~~~~~~~~~~i~~~~~~~~~~i~~SA  198 (220)
T 1t6n_A          158 HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSA  198 (220)
T ss_dssp             TCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEES
T ss_pred             cCCEEEEcCHHHHhcccCcHHHHHHHHHhCCCcCeEEEEEe
Confidence            457899999998743  444556666666655566665553

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.31  E-value=0.00016  Score=56.32  Aligned_cols=28  Identities=25%  Similarity=0.350  Sum_probs=24.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      .++|.|+||+||||+++.+++.+...+.
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            4899999999999999999999854433

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.28  E-value=0.00029  Score=55.34  Aligned_cols=25  Identities=44%  Similarity=0.527  Sum_probs=23.0

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +..++|.|++|+||||+++.+++.+
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3469999999999999999999998

>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=97.27  E-value=0.012  Score=53.30  Aligned_cols=69  Identities=17%  Similarity=0.226  Sum_probs=46.3

Q ss_pred             cEEEEEeCCCCCCH----HHHHHHHHHHHHhc-CCceEEEEecCCc--ccchhhhcce-eEEEecCCChHHHHHHHH
Q 021660          142 VKLVLLDEADAMTK----DAQFALRRVIEKYT-KNTRFALICNQVN--KIIPALQSRC-TRFRFAPLEPVHVTERLK  210 (309)
Q Consensus       142 ~~lliiDe~~~l~~----~~~~~l~~~l~~~~-~~~~~i~~~~~~~--~l~~~l~~r~-~~i~~~~~~~~~~~~~l~  210 (309)
                      +.+|||||++.+..    +....|..+...-. ....+|++|..+.  .+...+++.+ ..+.|...+..+...++.
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            46899999987743    33444555555433 3445666665554  5677788887 778888888888877764

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=97.26  E-value=0.0037  Score=56.10  Aligned_cols=69  Identities=17%  Similarity=0.223  Sum_probs=43.3

Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHHH----Hhc-CCceEEEEecCCc--ccchhhhcce-eEEEecCCChHHHHHHHHH
Q 021660          143 KLVLLDEADAMTKDAQFALRRVIE----KYT-KNTRFALICNQVN--KIIPALQSRC-TRFRFAPLEPVHVTERLKH  211 (309)
Q Consensus       143 ~lliiDe~~~l~~~~~~~l~~~l~----~~~-~~~~~i~~~~~~~--~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~  211 (309)
                      .+|+|||+..+.......+..++.    .-. ....+|++|..+.  .+...+++.+ .++.|.-.+..+.+.++..
T Consensus       299 ivlvIDE~~~ll~~~~~~~~~~l~~Lar~gRa~GI~LIlaTQrp~~dvl~~~i~~n~~~RI~lrv~s~~dsr~ilg~  375 (512)
T 2ius_A          299 IVVLVDEFADLMMTVGKKVEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKANIPTRIAFTVSSKIDSRTILDQ  375 (512)
T ss_dssp             EEEEEETHHHHHHHHHHHHHHHHHHHHHHCGGGTEEEEEEESCCCTTTSCHHHHHHCCEEEEECCSSHHHHHHHHSS
T ss_pred             EEEEEeCHHHHHhhhhHHHHHHHHHHHHHhhhCCcEEEEEecCCccccccHHHHhhcCCeEEEEcCCHHHHHHhcCC
Confidence            489999997665432223333333    222 2556777776654  4666677776 7788888888888777653

>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=97.26  E-value=0.00033  Score=54.33  Aligned_cols=27  Identities=22%  Similarity=0.353  Sum_probs=23.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      ..++|.|++|+||||+++.+++.+...
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   30 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRKE   30 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            358999999999999999999988433

>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=97.26  E-value=0.0027  Score=53.04  Aligned_cols=25  Identities=16%  Similarity=0.194  Sum_probs=22.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      .++|.||+|+||||++..++..+..
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~~~~   61 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQWGT   61 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            4999999999999999999988753

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=97.25  E-value=0.00063  Score=63.48  Aligned_cols=63  Identities=19%  Similarity=0.312  Sum_probs=40.9

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHH
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (309)
                      ++.-.+++...+...  +..+|.||||||||+++..+..++...+..   +-+.+..+...+.+.+.+
T Consensus       191 N~~Q~~AV~~al~~~--~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~---ILv~a~TN~AvD~i~erL  253 (646)
T 4b3f_X          191 DTSQKEAVLFALSQK--ELAIIHGPPGTGKTTTVVEIILQAVKQGLK---VLCCAPSNIAVDNLVERL  253 (646)
T ss_dssp             CHHHHHHHHHHHHCS--SEEEEECCTTSCHHHHHHHHHHHHHHTTCC---EEEEESSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhcCC--CceEEECCCCCCHHHHHHHHHHHHHhCCCe---EEEEcCchHHHHHHHHHH
Confidence            566677777777654  458999999999999888877777554432   223333334444444444

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.25  E-value=0.00029  Score=53.98  Aligned_cols=24  Identities=29%  Similarity=0.519  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.|+||+||||+++.+++.+
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            359999999999999999999998

>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=97.24  E-value=0.0019  Score=51.38  Aligned_cols=39  Identities=23%  Similarity=0.389  Sum_probs=24.7

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      ...+||+||+|.+... ....+..++...+....+++.|.
T Consensus       155 ~~~~iViDEah~~~~~~~~~~l~~i~~~~~~~~~~i~lSA  194 (224)
T 1qde_A          155 KIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSA  194 (224)
T ss_dssp             TCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEEES
T ss_pred             hCcEEEEcChhHHhhhhhHHHHHHHHHhCCccCeEEEEEe
Confidence            3578999999986542 23445666666555665555543

>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=97.24  E-value=0.0047  Score=45.32  Aligned_cols=120  Identities=14%  Similarity=0.061  Sum_probs=70.8

Q ss_pred             HhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEe
Q 021660           69 TSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLD  148 (309)
Q Consensus        69 ~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiD  148 (309)
                      ++++-.+.++|+|+.-.-....+..+.+.+...++.    +.+.....+...+.+.+. ...+.+. |+   ++++|+|.
T Consensus        13 l~~~~~pvyll~G~E~~l~~~~~~~i~~~~~~~~~~----e~~~~~~~~~~~~~~l~~-~~~s~sl-F~---~rrlV~v~   83 (140)
T 1jql_B           13 LNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFE----EHHTFSIDPNTDWNAIFS-LCQAMSL-FA---SRQTLLLL   83 (140)
T ss_dssp             HHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCC----EEECCCCSTTCCHHHHHH-HHHCCCT-TC---CCEEEEEE
T ss_pred             HhccCCceEEEEcCcHHHHHHHHHHHHHHHHHCCCc----ceeEEEecCCCCHHHHHH-HHhcCCC-CC---CCEEEEEE
Confidence            333444669999999666666666666655433322    222211111123333333 2333332 22   68999999


Q ss_pred             CCCC-CCHHHHHHHHHHHHHhcCCceEEEEecCCc------ccchhhhcceeEEEe
Q 021660          149 EADA-MTKDAQFALRRVIEKYTKNTRFALICNQVN------KIIPALQSRCTRFRF  197 (309)
Q Consensus       149 e~~~-l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~------~l~~~l~~r~~~i~~  197 (309)
                      +.+. +..+..+.|..+++.+++++.+|++....+      ++.+++......+.+
T Consensus        84 ~~~~~~~~~~~~~L~~yl~~p~~~~~lvi~~~kld~~~~~~k~~k~l~k~g~~v~~  139 (140)
T 1jql_B           84 LPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTC  139 (140)
T ss_dssp             CCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSSCCTTGGGSHHHHHHGGGCEEEEC
T ss_pred             CCCCCCChHHHHHHHHHHhcCCCCEEEEEEeCCcChhHHhhHHHHHHHhCeEEEEe
Confidence            8754 556667889999999888999988875432      455566555555544

>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=97.24  E-value=0.00033  Score=53.91  Aligned_cols=24  Identities=46%  Similarity=0.689  Sum_probs=22.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+|++|+||||+++.+++.+
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            459999999999999999999987

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=97.23  E-value=0.00091  Score=61.69  Aligned_cols=43  Identities=21%  Similarity=0.307  Sum_probs=29.3

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      |...+..+...+..+. .++++++|+|+|||..+-.++..+...
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            4444444444444432 458999999999999988888776443

>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=97.22  E-value=0.0027  Score=49.73  Aligned_cols=38  Identities=29%  Similarity=0.434  Sum_probs=24.0

Q ss_pred             ccEEEEEeCCCCCCH-HHHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTK-DAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~-~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      ...+||+||+|.+.. .....+..++...+....+++.|
T Consensus       146 ~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~l~~S  184 (206)
T 1vec_A          146 HVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYS  184 (206)
T ss_dssp             TCCEEEEETHHHHTSTTTHHHHHHHHHHSCTTCEEEEEE
T ss_pred             cCCEEEEEChHHhHhhCcHHHHHHHHHhCCccceEEEEE
Confidence            457899999997654 33455556666555455555544

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.21  E-value=0.00034  Score=59.51  Aligned_cols=38  Identities=21%  Similarity=0.421  Sum_probs=29.5

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        62 ~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ++.+...+..+..++++|.|++|+||||+++.+++.+.
T Consensus        12 l~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A           12 LQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             HHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            33444444556566799999999999999999999873

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.20  E-value=0.00024  Score=55.11  Aligned_cols=29  Identities=34%  Similarity=0.448  Sum_probs=24.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      ..++|.|++|+||||+++.++..+...+.
T Consensus        14 ~~i~l~G~~GsGKsT~~~~L~~~l~~~~~   42 (186)
T 2yvu_A           14 IVVWLTGLPGSGKTTIATRLADLLQKEGY   42 (186)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTC
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHhcCC
Confidence            34899999999999999999999854443

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.20  E-value=0.00037  Score=52.98  Aligned_cols=26  Identities=35%  Similarity=0.517  Sum_probs=22.8

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.+++|.|++|+||||+++.+++.+
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHh
Confidence            35669999999999999999999998

>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=97.20  E-value=0.0012  Score=56.93  Aligned_cols=43  Identities=16%  Similarity=0.277  Sum_probs=31.2

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      ++.+|++||. -.|.......+...+.+...  ...+|++|.+...
T Consensus       151 ~P~lLLLDEPts~LD~~~~~~l~~~l~~l~~~~g~tii~vTHd~~e  196 (381)
T 3rlf_A          151 EPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLGRTMIYVTHDQVE  196 (381)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEECSCHHH
T ss_pred             CCCEEEEECCCcCCCHHHHHHHHHHHHHHHHhCCCEEEEEECCHHH
Confidence            6789999994 56677777888888876532  5667777776543

>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=97.20  E-value=0.0048  Score=52.82  Aligned_cols=22  Identities=27%  Similarity=0.378  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.|+||+|+||||++..++...
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            8999999999999999999886

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=97.19  E-value=0.0064  Score=54.10  Aligned_cols=24  Identities=25%  Similarity=0.451  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .++|.|+||+|||+++..++..+.
T Consensus       205 liiI~G~pG~GKTtl~l~ia~~~~  228 (454)
T 2r6a_A          205 LIIVAARPSVGKTAFALNIAQNVA  228 (454)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            399999999999999999998874

>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=97.19  E-value=0.00094  Score=56.01  Aligned_cols=43  Identities=21%  Similarity=0.367  Sum_probs=32.0

Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      ++.++++||.- .+.......+.+.+........+|+++.+...
T Consensus       208 ~p~iLlLDEPts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~~  251 (306)
T 3nh6_A          208 APGIILLDEATSALDTSNERAIQASLAKVCANRTTIVVAHRLST  251 (306)
T ss_dssp             CCSEEEEECCSSCCCHHHHHHHHHHHHHHHTTSEEEEECCSHHH
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEEcChHH
Confidence            67899999964 56677778888888876656677777776543

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=97.17  E-value=0.0025  Score=54.89  Aligned_cols=44  Identities=16%  Similarity=0.294  Sum_probs=31.6

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..|.......+...+.+...  ...+|++|++...
T Consensus       158 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~~  204 (372)
T 1v43_A          158 VEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQVE  204 (372)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHH
T ss_pred             cCCCEEEEcCCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHHH
Confidence            37889999994 56777778888888876532  4567777776543

>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=97.16  E-value=0.0092  Score=46.29  Aligned_cols=100  Identities=15%  Similarity=0.140  Sum_probs=52.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccC------------------cccccEEEEecCCCcchHHHHHHHHHhhhccccccC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGA------------------QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG  137 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (309)
                      .+++.|.+|+|||+|++.+.......                  +....+..++................+..       
T Consensus        22 ki~~vG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~-------   94 (196)
T 3llu_A           22 RILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFR-------   94 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHSCCCGGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHHHH-------
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCCCcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcccccc-------
Confidence            49999999999999998776643211                  01112222232221111111000011111       


Q ss_pred             CCCccEEEEEeCCCCCCHHHHHHHHHHHHHh---cCCceEEEEecCCccc
Q 021660          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKY---TKNTRFALICNQVNKI  184 (309)
Q Consensus       138 ~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~---~~~~~~i~~~~~~~~l  184 (309)
                       ....-++++|=-+. ..+....+..++...   ..+.++++++|..+..
T Consensus        95 -~~~~~i~v~d~~~~-~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl~  142 (196)
T 3llu_A           95 -GTGALIYVIDAQDD-YMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGL  142 (196)
T ss_dssp             -TCSEEEEEEETTSC-CHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGS
T ss_pred             -cCCEEEEEEECCCc-hHHHHHHHHHHHHHHHhcCCCCcEEEEEeccccC
Confidence             11456777775554 444555555666543   4577888888887743

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=97.15  E-value=0.0048  Score=53.77  Aligned_cols=23  Identities=26%  Similarity=0.222  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|+||+|+|||||+..++-..
T Consensus       180 i~~I~G~sGsGKTTLl~~la~~~  202 (400)
T 3lda_A          180 ITELFGEFRTGKSQLCHTLAVTC  202 (400)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCChHHHHHHHHHHh
Confidence            38999999999999999876543

>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=97.15  E-value=0.0003  Score=54.36  Aligned_cols=24  Identities=38%  Similarity=0.654  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.++|+|+||+||||+++.+++.+
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

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=97.15  E-value=0.0022  Score=55.11  Aligned_cols=44  Identities=14%  Similarity=0.273  Sum_probs=31.3

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..|.......+...+.+...  ...+|++|++...
T Consensus       150 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~~  196 (362)
T 2it1_A          150 KEPEVLLLDEPLSNLDALLRLEVRAELKRLQKELGITTVYVTHDQAE  196 (362)
T ss_dssp             TCCSEEEEESGGGGSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHH
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHHHhCCCEEEEECCCHHH
Confidence            37889999994 56677777888888776532  4567777776543

>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=97.15  E-value=0.018  Score=42.83  Aligned_cols=23  Identities=17%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            38999999999999999988654

>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=97.14  E-value=0.00047  Score=54.95  Aligned_cols=25  Identities=28%  Similarity=0.618  Sum_probs=22.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +..++|.|+||+||||+++.+++.+
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3569999999999999999999987

>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=97.14  E-value=0.0027  Score=53.23  Aligned_cols=34  Identities=21%  Similarity=0.312  Sum_probs=27.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      ++|.||+|+||||++..++..+...+..+.++..
T Consensus       107 i~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~  140 (306)
T 1vma_A          107 IMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA  140 (306)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEcc
Confidence            8999999999999999999988655544444433

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.14  E-value=0.00035  Score=54.87  Aligned_cols=27  Identities=30%  Similarity=0.479  Sum_probs=23.1

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           72 NRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .....++|.||+|+||||+++.++..+
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            344569999999999999999999987

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=97.13  E-value=0.0023  Score=54.88  Aligned_cols=44  Identities=14%  Similarity=0.294  Sum_probs=31.5

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..|.......+...+.+...  ...+|++|++...
T Consensus       150 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~~  196 (359)
T 2yyz_A          150 KQPKVLLFDEPLSNLDANLRMIMRAEIKHLQQELGITSVYVTHDQAE  196 (359)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEEESCHHH
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEcCCHHH
Confidence            37889999994 56777777888888776532  4567777776543

>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=97.13  E-value=0.0019  Score=52.73  Aligned_cols=43  Identities=12%  Similarity=0.261  Sum_probs=31.2

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCceEEEEecCCc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT-KNTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~  182 (309)
                      .++.++++||. ..+.+.....+.+++.+.. ....+|++|.+..
T Consensus       163 ~~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tiiivtHd~~  207 (256)
T 1vpl_A          163 VNPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNML  207 (256)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCHH
T ss_pred             cCCCEEEEeCCccccCHHHHHHHHHHHHHHHhCCCEEEEEcCCHH
Confidence            37889999995 4667778888888888764 3456777776543

>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=97.13  E-value=0.0023  Score=53.53  Aligned_cols=23  Identities=30%  Similarity=0.392  Sum_probs=20.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|+||+||||+++.+++.+
T Consensus         4 ~I~l~G~~GsGKST~a~~L~~~~   26 (301)
T 1ltq_A            4 IILTIGCPGSGKSTWAREFIAKN   26 (301)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            38999999999999999999863

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.13  E-value=0.00039  Score=53.09  Aligned_cols=24  Identities=33%  Similarity=0.605  Sum_probs=22.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+||+|+||||+++.++..+
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            349999999999999999999987

>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=97.13  E-value=0.001  Score=54.54  Aligned_cols=43  Identities=14%  Similarity=0.314  Sum_probs=31.2

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~  182 (309)
                      .++.++++||. ..+.+.....+.+++.+... ...+|++|.+..
T Consensus       176 ~~p~lllLDEPts~LD~~~~~~~~~~l~~l~~~g~tvi~vtHd~~  220 (263)
T 2olj_A          176 MEPKIMLFDEPTSALDPEMVGEVLSVMKQLANEGMTMVVVTHEMG  220 (263)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCEEEEECSCHH
T ss_pred             CCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEcCCHH
Confidence            37889999995 46777888888888887532 456677776543

>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=97.12  E-value=0.0012  Score=57.04  Aligned_cols=26  Identities=31%  Similarity=0.560  Sum_probs=22.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ..++|.||+|+||||+++.++..+..
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~~~~~  162 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMIDYINQ  162 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcCc
Confidence            34999999999999999999998743

>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=97.12  E-value=0.00031  Score=54.37  Aligned_cols=24  Identities=42%  Similarity=0.570  Sum_probs=22.0

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ...++|+|++|+||||+++.+++.
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            345999999999999999999998

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.11  E-value=0.00082  Score=55.97  Aligned_cols=22  Identities=45%  Similarity=0.611  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.||||+||||+++.+++.+
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            8999999999999999999886

>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=97.11  E-value=0.00074  Score=55.53  Aligned_cols=43  Identities=19%  Similarity=0.264  Sum_probs=31.5

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      ++.+|++||. ..+.+.....+.+++.+...  ...+|+++.+...
T Consensus       165 ~p~lLllDEPts~LD~~~~~~i~~~l~~l~~~~~~tvi~vtHdl~~  210 (266)
T 4g1u_C          165 TPRWLFLDEPTSALDLYHQQHTLRLLRQLTRQEPLAVCCVLHDLNL  210 (266)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHHHHSSEEEEEECSCHHH
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHHHcCCCEEEEEEcCHHH
Confidence            7999999995 45677888888888887642  3467777766543

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=97.09  E-value=0.0019  Score=55.30  Aligned_cols=44  Identities=14%  Similarity=0.294  Sum_probs=31.3

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..|.......+...+.+...  ...+|++|.+...
T Consensus       162 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~~  208 (355)
T 1z47_A          162 PRPQVLLFDEPFAAIDTQIRRELRTFVRQVHDEMGVTSVFVTHDQEE  208 (355)
T ss_dssp             TCCSEEEEESTTCCSSHHHHHHHHHHHHHHHHHHTCEEEEECSCHHH
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEECCCHHH
Confidence            37889999994 56777777888887776532  4567777766543

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=97.08  E-value=0.0022  Score=52.05  Aligned_cols=44  Identities=20%  Similarity=0.418  Sum_probs=32.5

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..+.......+.+++.+......+|+++.+...
T Consensus       162 ~~p~lllLDEPts~LD~~~~~~i~~~l~~~~~g~tviivtH~~~~  206 (247)
T 2ff7_A          162 NNPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIIIAHRLST  206 (247)
T ss_dssp             TCCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEECSSGGG
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHcCCCEEEEEeCCHHH
Confidence            36789999995 456677788888888876545667777776553

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.08  E-value=0.00045  Score=53.70  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|+||+||||+++.+++.+
T Consensus         7 ~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            7 LIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999987

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.08  E-value=0.00062  Score=53.47  Aligned_cols=24  Identities=29%  Similarity=0.422  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.|++|+||||+++.+++.+
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            459999999999999999999987

>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=97.07  E-value=0.0035  Score=53.66  Aligned_cols=38  Identities=29%  Similarity=0.433  Sum_probs=24.5

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      ...++|+||+|.+... ....+..++...+....+++.|
T Consensus       147 ~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~S  185 (367)
T 1hv8_A          147 NVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFS  185 (367)
T ss_dssp             SCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEEC
T ss_pred             cCCEEEEeCchHhhhhchHHHHHHHHHhCCCCceEEEEe
Confidence            4578999999986432 2345556666555566666655

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.07  E-value=0.00068  Score=53.56  Aligned_cols=40  Identities=20%  Similarity=0.259  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           60 DIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        60 ~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +.++.+...+...  +...+.|.||+|+||||+++.++..+.
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3444555554432  222389999999999999999999985

>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=97.07  E-value=0.00061  Score=51.93  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+|++|+||||+++.+++.+
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            358999999999999999999987

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=97.05  E-value=0.0058  Score=49.79  Aligned_cols=44  Identities=25%  Similarity=0.335  Sum_probs=32.1

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..+.+.....+.+++.+...  ...+|+++.+...
T Consensus       145 ~~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~~g~tvi~vtHd~~~  191 (253)
T 2nq2_C          145 SECKLILLDEPTSALDLANQDIVLSLLIDLAQSQNMTVVFTTHQPNQ  191 (253)
T ss_dssp             TTCSEEEESSSSTTSCHHHHHHHHHHHHHHHHTSCCEEEEEESCHHH
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEecCHHH
Confidence            37889999995 45778888888888887643  4567777765543

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.04  E-value=0.00078  Score=52.92  Aligned_cols=43  Identities=19%  Similarity=0.138  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHhcCC---CCeEEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           60 DIVDTIDRLTSENR---LPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        60 ~~~~~l~~~~~~~~---~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      ..++.+...+....   ...+.|.|++|+||||+++.++..+...+
T Consensus         5 ~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~~~   50 (201)
T 1rz3_A            5 DRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLREQG   50 (201)
T ss_dssp             HHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            44555555554322   22389999999999999999999874333

>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=97.04  E-value=0.0038  Score=46.94  Aligned_cols=23  Identities=26%  Similarity=0.445  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            38999999999999999998764

>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=97.03  E-value=0.00077  Score=52.86  Aligned_cols=23  Identities=48%  Similarity=0.898  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|+|+||+||||+++.+++.+
T Consensus        22 ~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           22 RVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            49999999999999999999987

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=97.03  E-value=0.00087  Score=57.27  Aligned_cols=44  Identities=23%  Similarity=0.303  Sum_probs=31.9

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..|.......+...+.+...  ...+|++|++...
T Consensus       144 ~~P~lLLLDEP~s~LD~~~~~~l~~~l~~l~~~~g~tii~vTHd~~~  190 (348)
T 3d31_A          144 TNPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLHITHDQTE  190 (348)
T ss_dssp             SCCSEEEEESSSTTSCHHHHHHHHHHHHHHHHHTTCEEEEEESCHHH
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            37889999994 56777778888888876532  5567777776543

>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=97.03  E-value=0.00062  Score=51.74  Aligned_cols=37  Identities=11%  Similarity=0.046  Sum_probs=29.3

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      ++.+.|.|++|+||||++..++..+...+..+.++..
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            4568999999999999999999998665555544443

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.02  E-value=0.00063  Score=52.96  Aligned_cols=24  Identities=25%  Similarity=0.513  Sum_probs=22.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.|++|+||||+++.+++.+
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            459999999999999999999987

>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=97.01  E-value=0.0053  Score=46.51  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
T Consensus         9 ~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            9 KVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            39999999999999999997653

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.01  E-value=0.00063  Score=53.39  Aligned_cols=27  Identities=26%  Similarity=0.408  Sum_probs=23.6

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +...+.|.||+|+||||+++.++..+.
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            334599999999999999999999985

>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=97.00  E-value=0.005  Score=53.26  Aligned_cols=38  Identities=32%  Similarity=0.377  Sum_probs=24.0

Q ss_pred             ccEEEEEeCCCCCCH--HHHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      +..+||+||+|.+..  .....+..+....+....+++.|
T Consensus       145 ~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~i~~S  184 (395)
T 3pey_A          145 KIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFS  184 (395)
T ss_dssp             TCCEEEEETHHHHHHSTTHHHHHHHHHHTSCTTCEEEEEE
T ss_pred             cCCEEEEEChhhhcCccccHHHHHHHHHhCCCCcEEEEEE
Confidence            457999999998754  22344455555555556666655

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=96.99  E-value=0.00062  Score=59.77  Aligned_cols=91  Identities=18%  Similarity=0.170  Sum_probs=50.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhh-c-ccc--------ccCCC----Ccc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS-T-QSF--------SFGVK----ASV  142 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~--------~~~~~----~~~  142 (309)
                      .++.|+||+|||+++..++..       .....+.++. .....+++.+..... . ...        .+...    ...
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            799999999999999877542       1122223332 344455544432100 0 000        00010    025


Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021660          143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       143 ~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      .+|||||+..+.......++.++   + ...+|+++.
T Consensus       236 d~liiDE~sm~~~~~l~~l~~~~---~-~~~vilvGD  268 (446)
T 3vkw_A          236 KRLFIDEGLMLHTGCVNFLVEMS---L-CDIAYVYGD  268 (446)
T ss_dssp             SEEEEETGGGSCHHHHHHHHHHT---T-CSEEEEEEC
T ss_pred             CEEEEeCcccCCHHHHHHHHHhC---C-CCEEEEecC
Confidence            79999999988766655554433   2 367777774

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=96.99  E-value=0.001  Score=58.78  Aligned_cols=37  Identities=24%  Similarity=0.402  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ..++.+..+.++   ..++|+|++|+|||+|+..++....
T Consensus       140 r~ID~L~pi~kG---q~~~i~G~sGvGKTtL~~~l~~~~~  176 (473)
T 1sky_E          140 KVVDLLAPYIKG---GKIGLFGGAGVGKTVLIQELIHNIA  176 (473)
T ss_dssp             HHHHHHSCEETT---CEEEEECCSSSCHHHHHHHHHHHHH
T ss_pred             hHHHHHhhhccC---CEEEEECCCCCCccHHHHHHHhhhh
Confidence            455555555443   4599999999999999999988763

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.99  E-value=0.014  Score=52.44  Aligned_cols=36  Identities=19%  Similarity=0.312  Sum_probs=28.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      .++|.|++|+||||++..++..+...+..+.++..+
T Consensus       103 vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D  138 (504)
T 2j37_W          103 VIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICAD  138 (504)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEecc
Confidence            389999999999999999998886555555555443

>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=96.99  E-value=0.007  Score=48.03  Aligned_cols=22  Identities=32%  Similarity=0.386  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||+|+..+...-
T Consensus        16 ivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           16 LVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCcCHHHHHHHHHhCC
Confidence            9999999999999999987653

>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=96.98  E-value=0.0034  Score=53.14  Aligned_cols=22  Identities=27%  Similarity=0.295  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|+|+||+|||+++..++...
T Consensus       101 ~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A          101 TEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999999999864

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.98  E-value=0.0031  Score=52.71  Aligned_cols=37  Identities=22%  Similarity=0.354  Sum_probs=28.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc-CcccccEEEEec
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG-AQYHNMILELNA  112 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~-~~~~~~~~~~~~  112 (309)
                      .+.|.||+|+||||++..++..+.. .|..+.++..+.
T Consensus       107 vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~  144 (296)
T 2px0_A          107 YIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDT  144 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCc
Confidence            4899999999999999999998863 555555554443

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.98  E-value=0.00049  Score=54.20  Aligned_cols=24  Identities=38%  Similarity=0.700  Sum_probs=21.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.||+|+||||+++.++..+
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            349999999999999999999986

>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=96.97  E-value=0.00089  Score=53.91  Aligned_cols=25  Identities=32%  Similarity=0.592  Sum_probs=22.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +..++|.|++|+||||+++.+++.+
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3459999999999999999999997

>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=96.97  E-value=0.0044  Score=51.89  Aligned_cols=38  Identities=29%  Similarity=0.385  Sum_probs=23.6

Q ss_pred             ccEEEEEeCCCCCCH--HHHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      .-++|||||+|.+..  .....+..++...+....+++.+
T Consensus       235 ~l~~lVlDEad~l~~~~~~~~~~~~i~~~~~~~~q~i~~S  274 (300)
T 3fmo_B          235 KIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFS  274 (300)
T ss_dssp             GCSEEEETTHHHHHHSTTHHHHHHHHHTTSCTTCEEEEEE
T ss_pred             hceEEEEeCHHHHhhccCcHHHHHHHHHhCCCCCEEEEEe
Confidence            456899999998764  23344555555555556566554

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.96  E-value=0.00066  Score=52.43  Aligned_cols=23  Identities=35%  Similarity=0.759  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+||||+++.+++.+
T Consensus         6 ~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            6 AVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>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=96.96  E-value=0.0028  Score=51.03  Aligned_cols=39  Identities=23%  Similarity=0.377  Sum_probs=24.5

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      .-.+||+||+|.+... ....+..++...+....+++.|.
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            3578999999976432 23455666666655666655553

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.96  E-value=0.00065  Score=54.05  Aligned_cols=25  Identities=28%  Similarity=0.551  Sum_probs=22.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +..++|.|+||+||||+++.+++.+
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3459999999999999999999998

>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=96.96  E-value=0.0028  Score=49.71  Aligned_cols=41  Identities=12%  Similarity=0.145  Sum_probs=21.4

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++...+.+.+.....+.-.+++.|++|+|||+++..+....
T Consensus        14 ~~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           14 LVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ----------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             cccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            44455555555444444459999999999999999888653

>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=96.94  E-value=0.008  Score=46.37  Aligned_cols=23  Identities=35%  Similarity=0.492  Sum_probs=20.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            39999999999999999998765

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.94  E-value=0.00069  Score=53.50  Aligned_cols=31  Identities=13%  Similarity=0.163  Sum_probs=25.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~  105 (309)
                      ..++|+|++|+||||+++.+++.+...+...
T Consensus        11 ~~I~l~G~~GsGKST~~~~L~~~l~~~~~~~   41 (212)
T 2wwf_A           11 KFIVFEGLDRSGKSTQSKLLVEYLKNNNVEV   41 (212)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHcCCcE
Confidence            3499999999999999999999885444433

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.94  E-value=0.00063  Score=55.58  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|+||+||||+++.++..+
T Consensus        34 ~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           34 AILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             EEEEESCGGGTTHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            38999999999999999999987

>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=96.94  E-value=0.0052  Score=45.79  Aligned_cols=23  Identities=22%  Similarity=0.486  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+....
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            38999999999999999998664

>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=96.93  E-value=0.00073  Score=53.45  Aligned_cols=30  Identities=20%  Similarity=0.247  Sum_probs=24.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCccc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (309)
                      ..++|+|++|+||||+++.+++.+...+..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L~~~l~~~~~~   39 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKLVEALCAAGHR   39 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHcCCc
Confidence            459999999999999999999988544433

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.93  E-value=0.00048  Score=53.06  Aligned_cols=24  Identities=38%  Similarity=0.646  Sum_probs=18.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.|++|+||||+++.+++.+
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            458999999999999999999987

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.92  E-value=0.0007  Score=54.25  Aligned_cols=24  Identities=21%  Similarity=0.499  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.|++|+||||+++.+++.+
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            459999999999999999999987

>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=96.92  E-value=0.0051  Score=48.15  Aligned_cols=39  Identities=21%  Similarity=0.261  Sum_probs=24.4

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      .-.+||+||+|.+... ....+..++...+....+++.|.
T Consensus       144 ~~~~iViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~SA  183 (207)
T 2gxq_A          144 RVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSA  183 (207)
T ss_dssp             TCSEEEEESHHHHHHTTCHHHHHHHHHTSCTTSEEEEECS
T ss_pred             hceEEEEEChhHhhccchHHHHHHHHHhCCccCeEEEEEE
Confidence            4578999999976532 23445556665555555555553

>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=96.92  E-value=0.0039  Score=53.42  Aligned_cols=44  Identities=16%  Similarity=0.288  Sum_probs=32.7

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~--~~~~~i~~~~~~~~  183 (309)
                      .++.+|++||. ..|.+.....+++++.+..  ....+|++|.+...
T Consensus       180 ~~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~~~g~Tii~vTHdl~~  226 (366)
T 3tui_C          180 SNPKVLLCDQATSALDPATTRSILELLKDINRRLGLTILLITHEMDV  226 (366)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHHH
T ss_pred             cCCCEEEEECCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEecCHHH
Confidence            37889999996 4567788888888888764  25667777776543

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.92  E-value=0.00057  Score=54.58  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=22.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +..++|.|+||+||||+++.+++.+
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3459999999999999999999998

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.92  E-value=0.027  Score=43.27  Aligned_cols=24  Identities=29%  Similarity=0.606  Sum_probs=21.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+++.|++|+|||+++..+...-
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            359999999999999999998753

>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=96.91  E-value=0.00058  Score=52.86  Aligned_cols=22  Identities=27%  Similarity=0.623  Sum_probs=20.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|+||+|+||||+++.+.+..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999998885

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.90  E-value=0.00086  Score=53.27  Aligned_cols=23  Identities=26%  Similarity=0.577  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||||+||+|.++.+++.+
T Consensus        31 iI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           31 VIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             EEEEECCTTCCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            38889999999999999999987

>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=96.90  E-value=0.0077  Score=44.98  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            38999999999999999998653

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.89  E-value=0.0009  Score=51.98  Aligned_cols=23  Identities=26%  Similarity=0.544  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|+||+||||+++.+++.+
T Consensus         5 ~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            5 VVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.89  E-value=0.00078  Score=51.90  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=21.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|.||+|+||||+++.++...
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999999875

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=96.88  E-value=0.0081  Score=47.59  Aligned_cols=43  Identities=16%  Similarity=0.281  Sum_probs=26.1

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEe-cCCcc
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC-NQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~-~~~~~  183 (309)
                      .-.++||||+|.+... ....+..++...+....+++.| +....
T Consensus       150 ~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~l~~SAT~~~~  194 (219)
T 1q0u_A          150 TAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFSATIPEK  194 (219)
T ss_dssp             GCCEEEECSHHHHHHTTCHHHHHHHHHTSCTTCEEEEEESCCCGG
T ss_pred             cceEEEEcCchHHhhhChHHHHHHHHHhCCcccEEEEEecCCCHH
Confidence            4568999999987532 2345566666665555555544 44333

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.88  E-value=0.00092  Score=52.15  Aligned_cols=24  Identities=25%  Similarity=0.504  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.|++|+||||+++.+++.+
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            459999999999999999999987

>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=96.87  E-value=0.0067  Score=45.98  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
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            39999999999999999998764

>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=96.87  E-value=0.0093  Score=49.33  Aligned_cols=38  Identities=18%  Similarity=0.128  Sum_probs=27.2

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++.-.+.+..++.+   ...++.+|+|+|||..+..++...
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            44455555555554   346889999999999987777664

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.87  E-value=0.0009  Score=52.51  Aligned_cols=24  Identities=21%  Similarity=0.498  Sum_probs=21.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+|++|+||||+++.+++.+
T Consensus        16 ~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           16 SVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            348999999999999999999886

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.86  E-value=0.001  Score=50.36  Aligned_cols=23  Identities=26%  Similarity=0.339  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|+|++|+||||+++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>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=96.85  E-value=0.00076  Score=51.55  Aligned_cols=23  Identities=35%  Similarity=0.553  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+||||+++.++..+
T Consensus        10 ~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A           10 IYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhh
Confidence            48999999999999999999886

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=96.85  E-value=0.0015  Score=57.60  Aligned_cols=35  Identities=29%  Similarity=0.402  Sum_probs=27.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      .++|+|++|+||||++..++..+...+..+.++..
T Consensus       101 vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~  135 (432)
T 2v3c_C          101 VILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAA  135 (432)
T ss_dssp             CEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Confidence            49999999999999999999988654444444433

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.84  E-value=0.00072  Score=53.35  Aligned_cols=25  Identities=20%  Similarity=0.187  Sum_probs=22.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      .++|.|+||+||||+++.+++.+..
T Consensus         6 ~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            6 LIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            4899999999999999999999844

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=96.84  E-value=0.01  Score=45.76  Aligned_cols=23  Identities=39%  Similarity=0.616  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        18 ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           18 KLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            39999999999999999998754

>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=96.83  E-value=0.0036  Score=63.77  Aligned_cols=29  Identities=28%  Similarity=0.374  Sum_probs=23.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      ..++|+||||+|||+++..++......+.
T Consensus        35 ~i~lI~G~pGsGKT~LAlqla~~~~~~G~   63 (1706)
T 3cmw_A           35 RIVEIYGPESSGKTTLTLQVIAAAQREGK   63 (1706)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhCCC
Confidence            34999999999999999999887644443

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=96.83  E-value=0.0069  Score=45.98  Aligned_cols=22  Identities=41%  Similarity=0.682  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .+++.|++|+|||+|+..+...
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            3999999999999999988654

>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=96.83  E-value=0.0028  Score=55.62  Aligned_cols=50  Identities=26%  Similarity=0.403  Sum_probs=34.2

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      .+.++--.......+...+. .+...++|.||+|+||||+++.++..+...
T Consensus       145 ~l~~Lg~~~~~~~~L~~l~~-~~ggii~I~GpnGSGKTTlL~allg~l~~~  194 (418)
T 1p9r_A          145 DLHSLGMTAHNHDNFRRLIK-RPHGIILVTGPTGSGKSTTLYAGLQELNSS  194 (418)
T ss_dssp             CGGGSCCCHHHHHHHHHHHT-SSSEEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             CHHHcCCCHHHHHHHHHHHH-hcCCeEEEECCCCCCHHHHHHHHHhhcCCC
Confidence            44444334444445555543 333448999999999999999999998544

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.81  E-value=0.0016  Score=49.81  Aligned_cols=38  Identities=21%  Similarity=0.281  Sum_probs=29.0

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      .+.+.|.|++|+||||++..++..+...+.....+...
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            35589999999999999999999876555544444443

>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=96.81  E-value=0.011  Score=56.27  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=18.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ..+++.||+|+|||+++-.++..
T Consensus       110 ~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A          110 QIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45999999999999977766544

>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=96.81  E-value=0.0097  Score=51.83  Aligned_cols=38  Identities=29%  Similarity=0.385  Sum_probs=23.6

Q ss_pred             ccEEEEEeCCCCCCH--HHHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      .-.+||+||+|.+..  .....+..++...+....+++.|
T Consensus       168 ~~~~iViDEah~~~~~~~~~~~~~~~~~~~~~~~~~i~~S  207 (412)
T 3fht_A          168 KIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFS  207 (412)
T ss_dssp             GCCEEEEETHHHHHSTTTTHHHHHHHHHTSCTTCEEEEEE
T ss_pred             hCcEEEEeCHHHHhhcCCcHHHHHHHHhhCCCCceEEEEE
Confidence            467899999997642  23344445555555566666655

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.81  E-value=0.01  Score=44.00  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=20.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +.+++.|++|+|||+++..+...
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

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.80  E-value=0.00081  Score=52.68  Aligned_cols=23  Identities=26%  Similarity=0.660  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+||||+++.+++.+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            47899999999999999999998

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.80  E-value=0.00096  Score=52.69  Aligned_cols=24  Identities=33%  Similarity=0.461  Sum_probs=21.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.||+|+||||+++.++..+
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHST
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            348999999999999999999886

>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=96.79  E-value=0.012  Score=45.86  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
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            39999999999999999987653

>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=96.79  E-value=0.0056  Score=49.71  Aligned_cols=38  Identities=16%  Similarity=0.356  Sum_probs=23.2

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      .-.+||+||+|.+... ....+..++...+....+++.|
T Consensus       186 ~~~~lViDEah~l~~~~~~~~l~~i~~~~~~~~~~l~~S  224 (249)
T 3ber_A          186 ALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFS  224 (249)
T ss_dssp             TCCEEEECSHHHHHHTTCHHHHHHHHHSSCSSSEEEEEE
T ss_pred             ccCEEEEcChhhhhccChHHHHHHHHHhCCCCCeEEEEe
Confidence            3568999999976532 2344556666555455555544

>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=96.79  E-value=0.0054  Score=47.20  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        13 ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           13 KFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            39999999999999999998653

>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=96.79  E-value=0.0082  Score=44.97  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            38999999999999999998654

>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=96.78  E-value=0.011  Score=45.07  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus        20 ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           20 KVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            39999999999999999998653

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.77  E-value=0.0044  Score=52.66  Aligned_cols=32  Identities=16%  Similarity=0.283  Sum_probs=25.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEE
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (309)
                      ++|.|+||+|||+++..++..+...+..+.++
T Consensus        49 iiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~f   80 (338)
T 4a1f_A           49 VIIGARPSMGKTSLMMNMVLSALNDDRGVAVF   80 (338)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            99999999999999999988875444333333

>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=96.77  E-value=0.0011  Score=51.41  Aligned_cols=23  Identities=26%  Similarity=0.613  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|+|++|+||||+++.+++.+
T Consensus         8 ~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            8 VVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>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=96.76  E-value=0.013  Score=44.98  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|++|+|||+|+..+...-
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            9999999999999999988654

>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=96.76  E-value=0.00065  Score=52.70  Aligned_cols=22  Identities=45%  Similarity=0.644  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.||+|+||||+++.++..
T Consensus        11 ~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           11 ILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            4899999999999999999876

>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=96.76  E-value=0.0087  Score=44.83  Aligned_cols=21  Identities=33%  Similarity=0.593  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||+++..+...
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            899999999999999999864

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.75  E-value=0.0011  Score=53.79  Aligned_cols=25  Identities=32%  Similarity=0.697  Sum_probs=22.6

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +..++|.||+|+||||+++.+++.+
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3459999999999999999999887

>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=96.75  E-value=0.01  Score=49.55  Aligned_cols=33  Identities=27%  Similarity=0.391  Sum_probs=25.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      +.++|++|+||||++..++..+...+..+.++.
T Consensus       101 i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~  133 (295)
T 1ls1_A          101 WFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVA  133 (295)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence            788899999999999999998865544444433

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=96.74  E-value=0.0021  Score=51.18  Aligned_cols=41  Identities=22%  Similarity=0.193  Sum_probs=27.8

Q ss_pred             HHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc-CcccccE
Q 021660           67 RLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG-AQYHNMI  107 (309)
Q Consensus        67 ~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~-~~~~~~~  107 (309)
                      .-....+...++|.|++|+||||+++.+++.+.. .+..+.+
T Consensus        14 ~~~~~~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~   55 (223)
T 3ld9_A           14 AQTQGPGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVV   55 (223)
T ss_dssp             -----CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEE
T ss_pred             ccccCCCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeE
Confidence            3334444445899999999999999999999865 4544433

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=96.74  E-value=0.0065  Score=47.12  Aligned_cols=23  Identities=26%  Similarity=0.518  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
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            39999999999999999998763

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=96.73  E-value=0.0078  Score=46.52  Aligned_cols=21  Identities=29%  Similarity=0.518  Sum_probs=18.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||+|+..+...
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            999999999999999998754

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.73  E-value=0.0014  Score=52.04  Aligned_cols=44  Identities=18%  Similarity=0.231  Sum_probs=34.6

Q ss_pred             ccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        56 ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      -.+.+....+.........+.++|.|++|+||||++..++..+.
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           12 AENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             HHHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             hhcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            34556666677666655666799999999999999999998873

>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=96.73  E-value=0.0037  Score=46.92  Aligned_cols=23  Identities=22%  Similarity=0.421  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+....
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            38999999999999999998754

>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=96.72  E-value=0.011  Score=44.08  Aligned_cols=23  Identities=22%  Similarity=0.518  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            38999999999999999998753

>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=96.72  E-value=0.0012  Score=52.25  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|+||+||||+++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.71  E-value=0.0015  Score=52.26  Aligned_cols=23  Identities=35%  Similarity=0.648  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|+||+||||+++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37999999999999999999987

>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=96.71  E-value=0.008  Score=45.70  Aligned_cols=22  Identities=36%  Similarity=0.631  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|++|+|||+++..+...-
T Consensus        15 i~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           15 LVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            9999999999999999998653

>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=96.70  E-value=0.012  Score=44.21  Aligned_cols=21  Identities=24%  Similarity=0.441  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      .+++.|++|+|||+|+..+..
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            389999999999999999863

>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=96.70  E-value=0.0093  Score=47.68  Aligned_cols=38  Identities=21%  Similarity=0.391  Sum_probs=23.5

Q ss_pred             ccEEEEEeCCCCCCHH--HHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKD--AQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~--~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      .-.+||+||+|.+...  ....+..++...+....+++.|
T Consensus       166 ~~~~lViDEah~~~~~~~~~~~~~~i~~~~~~~~~~l~lS  205 (230)
T 2oxc_A          166 SIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVS  205 (230)
T ss_dssp             GCCEEEESSHHHHHSTTSSHHHHHHHHHHSCSSCEEEEEE
T ss_pred             cCCEEEeCCchHhhcCcchHHHHHHHHHhCCCCCeEEEEE
Confidence            3458999999987432  3445555666665555555544

>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=96.69  E-value=0.0052  Score=47.44  Aligned_cols=22  Identities=32%  Similarity=0.594  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|++|+|||+|++.+....
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            9999999999999998776654

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.69  E-value=0.0013  Score=51.23  Aligned_cols=24  Identities=25%  Similarity=0.394  Sum_probs=21.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.||+|+||||+++.++...
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECcCCCCHHHHHHHHHhhC
Confidence            348999999999999999999875

>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=96.68  E-value=0.0027  Score=52.91  Aligned_cols=24  Identities=29%  Similarity=0.606  Sum_probs=22.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +.|.|++|+||||+++.++..+..
T Consensus        34 i~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           34 IFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhh
Confidence            899999999999999999998853

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.68  E-value=0.0031  Score=50.18  Aligned_cols=42  Identities=21%  Similarity=0.313  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +.....+.........+.++|.|.+|+|||+++..++.....
T Consensus        23 ~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~~   64 (226)
T 2hf9_A           23 KRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKD   64 (226)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            444556666665555566999999999999999999988743

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.66  E-value=0.0012  Score=51.32  Aligned_cols=25  Identities=24%  Similarity=0.264  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      .++|+|++|+||||+++.+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~   26 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQ   26 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3789999999999999999998743

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.66  E-value=0.0011  Score=52.06  Aligned_cols=24  Identities=17%  Similarity=0.379  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.|++|+||||+++.+++.+
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            459999999999999999999986

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.66  E-value=0.0014  Score=51.35  Aligned_cols=24  Identities=33%  Similarity=0.602  Sum_probs=21.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.|.||+|+||||+++.++...
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            348999999999999999999875

>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=96.65  E-value=0.011  Score=46.04  Aligned_cols=24  Identities=21%  Similarity=0.416  Sum_probs=20.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.|++|+|||+|+..+...-
T Consensus        29 ~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           29 YKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            349999999999999999997653

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.64  E-value=0.0021  Score=50.77  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=23.0

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ...++|.|++|+||||+++.++..+.
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            34589999999999999999999874

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=96.64  E-value=0.0093  Score=44.77  Aligned_cols=22  Identities=27%  Similarity=0.614  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .+++.|++|+|||+++..+...
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            3899999999999999998764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=96.63  E-value=0.071  Score=40.77  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ..+++.|++|+|||+++..+...
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            45999999999999999998765

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.63  E-value=0.0018  Score=51.72  Aligned_cols=24  Identities=38%  Similarity=0.625  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.|.||+|+||||+++.+++.+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999999999987

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.63  E-value=0.0028  Score=51.48  Aligned_cols=40  Identities=25%  Similarity=0.253  Sum_probs=28.7

Q ss_pred             hHHHHHHHHHHhc-CCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           59 RDIVDTIDRLTSE-NRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        59 ~~~~~~l~~~~~~-~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+++.+.-.+.. .....++|.|++|+||||+++.++..+
T Consensus        32 ~~~l~~~~~~i~~~l~g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           32 QQILKKKAEEVKPYLNGRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             CHHHHHHHHTTHHHHTTCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             chhhhhhhhhhhhhcCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            3455544443443 012459999999999999999999988

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.62  E-value=0.0011  Score=51.27  Aligned_cols=22  Identities=36%  Similarity=0.688  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.||+|+||||+++.++...
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            7899999999999999998753

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.62  E-value=0.0014  Score=51.29  Aligned_cols=23  Identities=26%  Similarity=0.559  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|.||+|+||||+++.++...
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

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.62  E-value=0.0035  Score=53.88  Aligned_cols=39  Identities=23%  Similarity=0.357  Sum_probs=30.5

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      ...+.|+|+||+||||++..++..+...+..+.++..+.
T Consensus        79 ~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~Dp  117 (355)
T 3p32_A           79 AHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVDP  117 (355)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecCC
Confidence            344999999999999999999999866666665555553

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.62  E-value=0.0015  Score=51.24  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.|.||+|+||||+++.++..+
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            348999999999999999998876

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.61  E-value=0.00097  Score=56.38  Aligned_cols=23  Identities=35%  Similarity=0.587  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||+|+|||+++..+++.+
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            59999999999999999999987

>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=96.60  E-value=0.011  Score=45.53  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus        25 ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           25 KVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            39999999999999999998654

>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=96.60  E-value=0.003  Score=48.49  Aligned_cols=22  Identities=23%  Similarity=0.416  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|++|+|||+|+..+...-
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            8999999999999999998753

>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=96.60  E-value=0.0035  Score=50.45  Aligned_cols=29  Identities=24%  Similarity=0.406  Sum_probs=25.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCccc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (309)
                      .++|.|++|+||||+++.++..+...+..
T Consensus        29 ~i~~eG~~GsGKsT~~~~l~~~l~~~~~~   57 (236)
T 3lv8_A           29 FIVIEGLEGAGKSTAIQVVVETLQQNGID   57 (236)
T ss_dssp             EEEEEESTTSCHHHHHHHHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCC
Confidence            48999999999999999999998665554

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.60  E-value=0.0092  Score=54.89  Aligned_cols=43  Identities=16%  Similarity=0.309  Sum_probs=33.1

Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      ++.++++||.- .+.+.....+.+.+.+...+..+|+++++...
T Consensus       497 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~l~~  540 (587)
T 3qf4_A          497 KPKVLILDDCTSSVDPITEKRILDGLKRYTKGCTTFIITQKIPT  540 (587)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHSTTCEEEEEESCHHH
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHhCCCCEEEEEecChHH
Confidence            67899999964 56677788888888877666777788876643

>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=96.59  E-value=0.012  Score=45.02  Aligned_cols=23  Identities=22%  Similarity=0.499  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            38999999999999999998654

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=96.58  E-value=0.0056  Score=56.21  Aligned_cols=44  Identities=16%  Similarity=0.404  Sum_probs=33.1

Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l  184 (309)
                      ++.++++||.- .+.+.....+.+.+.....+..+|+++++...+
T Consensus       495 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~~~  539 (578)
T 4a82_A          495 NPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLSTI  539 (578)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGGGT
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHH
Confidence            67899999964 556777788888888776666777788776543

>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=96.58  E-value=0.017  Score=43.77  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
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            49999999999999999987754

>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=96.57  E-value=0.0043  Score=49.03  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        29 ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           29 KLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            39999999999999999987753

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.57  E-value=0.0025  Score=51.10  Aligned_cols=24  Identities=42%  Similarity=0.576  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.|.||+|+||||+++.+++.+
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            359999999999999999999987

>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=96.56  E-value=0.0044  Score=49.07  Aligned_cols=30  Identities=27%  Similarity=0.356  Sum_probs=25.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~  105 (309)
                      .++|.|++|+||||.++.+++.+...+...
T Consensus         8 ~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v   37 (213)
T 4edh_A            8 FVTLEGPEGAGKSTNRDYLAERLRERGIEV   37 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHTTTCCE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCCc
Confidence            389999999999999999999996655543

>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=96.56  E-value=0.0069  Score=46.58  Aligned_cols=23  Identities=22%  Similarity=0.486  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+....
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            39999999999999999998654

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=96.56  E-value=0.005  Score=52.92  Aligned_cols=41  Identities=22%  Similarity=0.272  Sum_probs=29.5

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCccc
Q 021660           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (309)
Q Consensus        64 ~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (309)
                      .+.-.+.-++...+.|.||+|+|||+++..+++.+...+..
T Consensus       164 aID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~  204 (422)
T 3ice_A          164 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPD  204 (422)
T ss_dssp             HHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTT
T ss_pred             eeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCC
Confidence            33333444455669999999999999999999887543333

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=96.55  E-value=0.014  Score=44.16  Aligned_cols=23  Identities=22%  Similarity=0.452  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+....
T Consensus        11 ~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A           11 KLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            39999999999999999998763

>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=96.55  E-value=0.011  Score=46.04  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        31 ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           31 KLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhhCC
Confidence            39999999999999999987643

>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=96.55  E-value=0.017  Score=51.70  Aligned_cols=38  Identities=29%  Similarity=0.385  Sum_probs=23.6

Q ss_pred             ccEEEEEeCCCCCCH--HHHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      .-.+|||||+|.+..  .....+..++...+....+|+.+
T Consensus       235 ~~~~iViDEah~~~~~~~~~~~~~~i~~~~~~~~~~i~~S  274 (479)
T 3fmp_B          235 KIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFS  274 (479)
T ss_dssp             GCCEEEECCHHHHHTSTTHHHHHHHHHTTSCTTSEEEEEE
T ss_pred             cCCEEEEECHHHHhhcCCcHHHHHHHHhhCCccceEEEEe
Confidence            467899999997642  23344445555555556666655

>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=96.55  E-value=0.01  Score=45.50  Aligned_cols=33  Identities=18%  Similarity=0.269  Sum_probs=24.3

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q 021660           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        64 ~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .+.+ +...+...+++.|++|+|||+++..+...
T Consensus         7 ~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            7 RIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            3444 33344445999999999999999998853

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=96.54  E-value=0.028  Score=44.37  Aligned_cols=24  Identities=21%  Similarity=0.466  Sum_probs=20.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ...++|.|++|+|||+|+..+...
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            345999999999999999998765

>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=96.53  E-value=0.0066  Score=55.07  Aligned_cols=26  Identities=27%  Similarity=0.345  Sum_probs=22.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      .++|.||+|+|||||++.++......
T Consensus       283 i~~i~G~~GsGKSTLl~~l~g~~~~~  308 (525)
T 1tf7_A          283 IILATGATGTGKTLLVSRFVENACAN  308 (525)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            48999999999999999999887543

>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=96.52  E-value=0.01  Score=46.24  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=20.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A           10 KILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            39999999999999999987653

>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=96.50  E-value=0.0044  Score=46.44  Aligned_cols=21  Identities=33%  Similarity=0.610  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      .+++.|++|+|||+|++.+..
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            489999999999999998853

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=96.50  E-value=0.015  Score=53.45  Aligned_cols=43  Identities=21%  Similarity=0.454  Sum_probs=32.1

Q ss_pred             CccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          140 ASVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                      .++.++++||.- .+.+.....+.+.+.+...+..+|+++++..
T Consensus       497 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~~~  540 (582)
T 3b5x_A          497 RDAPVLILDEATSALDTESERAIQAALDELQKNKTVLVIAHRLS  540 (582)
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEEEecCHH
Confidence            378899999964 5667777888888887655666777777654

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=96.50  E-value=0.0054  Score=48.53  Aligned_cols=29  Identities=24%  Similarity=0.271  Sum_probs=25.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      ..++|.|++|+||||.++.+++.+...+.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~~   32 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQLGI   32 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            34899999999999999999999976654

>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=96.49  E-value=0.0061  Score=47.45  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|++|+|||||++.++...
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            8999999999999999998763

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.49  E-value=0.0063  Score=54.86  Aligned_cols=40  Identities=15%  Similarity=0.157  Sum_probs=31.3

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ....++.+.-.+..+  .+++|.||+|+||||+++.++..+.
T Consensus       246 ~~~~l~~l~~~v~~g--~~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          246 PSGVLAYLWLAIEHK--FSAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             CHHHHHHHHHHHHTT--CCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CHHHHHHHHHHHhCC--CEEEEECCCCCCHHHHHHHHHhhCC
Confidence            455666666666665  3499999999999999999988773

>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=96.49  E-value=0.0019  Score=49.52  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .++|+|++|+||||+++.++..+.
T Consensus         7 ~i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            7 TVWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            489999999999999999999874

>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=96.48  E-value=0.02  Score=45.52  Aligned_cols=38  Identities=18%  Similarity=0.357  Sum_probs=25.3

Q ss_pred             ccEEEEEeCCCCCCHHH-HHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~-~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      +-.+|||||+|.+.... ...+..++...+.+..+++.|
T Consensus       167 ~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~S  205 (228)
T 3iuy_A          167 SITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTS  205 (228)
T ss_dssp             TCCEEEECCHHHHHHTTCHHHHHHHHHHSCSSCEEEEEE
T ss_pred             cceEEEEECHHHHhccchHHHHHHHHHhCCcCCeEEEEE
Confidence            45789999999875432 455666666666566666655

>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=96.47  E-value=0.0039  Score=48.96  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus        30 ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           30 KIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            39999999999999999998764

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.47  E-value=0.025  Score=49.77  Aligned_cols=37  Identities=19%  Similarity=0.351  Sum_probs=29.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccC-cccccEEEEec
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNA  112 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~  112 (309)
                      .+++.|++|+||||++..++..+... +..+.++..+.
T Consensus       102 vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~  139 (433)
T 2xxa_A          102 VVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADV  139 (433)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCC
Confidence            38889999999999999999998766 66655555554

>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=96.47  E-value=0.013  Score=45.31  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus        25 ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           25 KIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            39999999999999999998764

>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=96.47  E-value=0.026  Score=48.69  Aligned_cols=38  Identities=18%  Similarity=0.368  Sum_probs=25.3

Q ss_pred             ccEEEEEeCCCCCCH--HHHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      ...+||+||+|.+..  .....+..++...+....+++.|
T Consensus       152 ~~~~vViDEaH~~~~~~~~~~~~~~~~~~~~~~~~~i~~S  191 (391)
T 1xti_A          152 HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFS  191 (391)
T ss_dssp             TCSEEEECSHHHHTSSHHHHHHHHHHHHTSCSSSEEEEEE
T ss_pred             ccCEEEEeCHHHHhhccchHHHHHHHHhhCCCCceEEEEE
Confidence            456899999998864  44455666666555555555554

>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=96.46  E-value=0.00068  Score=53.62  Aligned_cols=25  Identities=20%  Similarity=0.365  Sum_probs=22.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      ++|.|++|+||||+++.+++.+...
T Consensus         3 I~i~G~~GsGKsTl~~~L~~~l~~~   27 (214)
T 1gtv_A            3 IAIEGVDGAGKRTLVEKLSGAFRAA   27 (214)
T ss_dssp             EEEEEEEEEEHHHHHHHHHHHHHEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            7899999999999999999998543

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.46  E-value=0.0055  Score=56.54  Aligned_cols=43  Identities=19%  Similarity=0.347  Sum_probs=32.7

Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      ++.++++||.- .+.+.....+.+.+.+...+..+|+++++...
T Consensus       509 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~~  552 (598)
T 3qf4_B          509 NPKILILDEATSNVDTKTEKSIQAAMWKLMEGKTSIIIAHRLNT  552 (598)
T ss_dssp             CCSEEEECCCCTTCCHHHHHHHHHHHHHHHTTSEEEEESCCTTH
T ss_pred             CCCEEEEECCccCCCHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence            68899999964 55677777888888876666677888877654

>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=96.46  E-value=0.056  Score=40.06  Aligned_cols=23  Identities=22%  Similarity=0.359  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37999999999999999998654

>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=96.46  E-value=0.013  Score=44.94  Aligned_cols=23  Identities=17%  Similarity=0.300  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
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            49999999999999999987653

>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=96.46  E-value=0.013  Score=44.57  Aligned_cols=22  Identities=27%  Similarity=0.543  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|++|+|||+|+..+....
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            8999999999999999998654

>3ctd_A Putative ATPase, AAA family; structural genomics, unknown function, PSI-2, protein structure initiative; 2.50A {Prochlorococcus marinus subsp} SCOP: a.80.1.2

Probab=96.46  E-value=0.005  Score=47.58  Aligned_cols=44  Identities=11%  Similarity=-0.011  Sum_probs=39.7

Q ss_pred             CCChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          264 NPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       264 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ..-++.++.++++++++|++.++++|.+|+ ..|++|..|.+.|+
T Consensus        33 d~HYd~ISAf~KSiRGSDpDAALywLaRMl-~~GEDp~~IaRRLv   76 (213)
T 3ctd_A           33 QNHFDVISAFIKSIRGSDPDATLYWLANMV-EAGEDPNFIFRRLL   76 (213)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HTTCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            345778999999999999999999999999 99999999998775

>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=96.44  E-value=0.033  Score=48.31  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=17.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++++.+|+|+|||..+...+-.
T Consensus        59 ~~~li~a~TGsGKT~~~~~~~~~   81 (400)
T 1s2m_A           59 RDILARAKNGTGKTAAFVIPTLE   81 (400)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEECCCCcHHHHHHHHHHHH
Confidence            34999999999999876554443

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.44  E-value=0.056  Score=45.01  Aligned_cols=36  Identities=25%  Similarity=0.281  Sum_probs=27.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      .+.+.|++|+||||++..++..+...+..+.++..+
T Consensus       100 vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D  135 (297)
T 1j8m_F          100 VIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGAD  135 (297)
T ss_dssp             EEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecC
Confidence            388899999999999999999886555554444443

>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=96.44  E-value=0.04  Score=42.32  Aligned_cols=24  Identities=33%  Similarity=0.546  Sum_probs=20.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ...+++.|++|+|||+++..+...
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            355999999999999999998754

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=96.44  E-value=0.016  Score=46.39  Aligned_cols=38  Identities=26%  Similarity=0.376  Sum_probs=24.3

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      .-.+||+||+|.+... ....+..++...+....+++.|
T Consensus       171 ~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~S  209 (236)
T 2pl3_A          171 DLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFS  209 (236)
T ss_dssp             TCCEEEETTHHHHHHTTTHHHHHHHHHTSCTTSEEEEEE
T ss_pred             cccEEEEeChHHHhcCCcHHHHHHHHHhCCCCCeEEEEE
Confidence            4568999999977532 2455666666666555555544

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.44  E-value=0.0021  Score=54.48  Aligned_cols=23  Identities=35%  Similarity=0.676  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||+|+|||+++..+++.+
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            48999999999999999999997

>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=96.43  E-value=0.011  Score=48.38  Aligned_cols=38  Identities=18%  Similarity=0.322  Sum_probs=24.3

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      +-.+|||||+|.+... ....+..++...+....+++.|
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            4578999999986543 2445556666666556555544

>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=96.43  E-value=0.027  Score=45.30  Aligned_cols=24  Identities=33%  Similarity=0.574  Sum_probs=17.3

Q ss_pred             CeEEEECCCCCcHHHHH-HHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTI-LAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~-~~l~~~~   98 (309)
                      .++++.+|+|+|||... ..+...+
T Consensus        67 ~~~l~~a~TGsGKT~~~~l~~l~~l   91 (245)
T 3dkp_A           67 RELLASAPTGSGKTLAFSIPILMQL   91 (245)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCcHHHHHHHHHHHHH
Confidence            35999999999999764 3333444

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.43  E-value=0.017  Score=53.13  Aligned_cols=51  Identities=8%  Similarity=0.163  Sum_probs=34.6

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCcccchhhhcce
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      ++.++++||. ..|.......+.+++..... ...+|+++++...+ ..+..|.
T Consensus       239 ~p~llllDEPts~LD~~~~~~l~~~l~~l~~~g~tvi~vtHdl~~~-~~~~drv  291 (608)
T 3j16_B          239 EADVYMFDEPSSYLDVKQRLNAAQIIRSLLAPTKYVICVEHDLSVL-DYLSDFV  291 (608)
T ss_dssp             CCSEEEEECTTTTCCHHHHHHHHHHHHGGGTTTCEEEEECSCHHHH-HHHCSEE
T ss_pred             CCCEEEEECcccCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHH-HHhCCEE
Confidence            6789999995 46677788889999987654 34566676655433 2334444

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.40  E-value=0.0013  Score=51.99  Aligned_cols=42  Identities=36%  Similarity=0.568  Sum_probs=29.5

Q ss_pred             hcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q 021660           46 KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        46 ~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ..+|+++    |+..+++.+    ..+  ..+.|.||.|+|||||++.++..
T Consensus         4 ~i~pk~~----g~~~~l~~i----~~G--e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A            4 VIRPKTL----GQKHYVDAI----DTN--TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CCCCCSH----HHHHHHHHH----HHC--SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             ccccCCH----hHHHHHHhc----cCC--CEEEEECCCCCCHHHHHHHHhcC
Confidence            4566665    333444443    333  34899999999999999999887

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.39  E-value=0.0034  Score=52.62  Aligned_cols=29  Identities=31%  Similarity=0.387  Sum_probs=24.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCccc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (309)
                      .+.|.||+|+||||++..++..+...+..
T Consensus       104 vi~lvG~nGsGKTTll~~Lagll~~~~g~  132 (304)
T 1rj9_A          104 VVLVVGVNGVGKTTTIAKLGRYYQNLGKK  132 (304)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHTTTCC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCE
Confidence            48999999999999999999988654433

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=96.39  E-value=0.057  Score=44.23  Aligned_cols=23  Identities=30%  Similarity=0.531  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
T Consensus        41 ~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           41 TILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            49999999999999999988653

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=96.38  E-value=0.014  Score=44.83  Aligned_cols=22  Identities=14%  Similarity=0.172  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|++|+|||+|+..+....
T Consensus        23 i~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           23 VGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEECCTTSCHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            9999999999999998887754

>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=96.38  E-value=0.013  Score=51.01  Aligned_cols=38  Identities=29%  Similarity=0.448  Sum_probs=25.4

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      .-.+||+||+|.+... ....+..++...+....+|+.|
T Consensus       183 ~~~~vViDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~S  221 (414)
T 3eiq_A          183 YIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLS  221 (414)
T ss_dssp             TCCEEEECSHHHHHHTTTHHHHHHHHTTSCTTCEEEEEC
T ss_pred             cCcEEEEECHHHhhccCcHHHHHHHHHhCCCCCeEEEEE
Confidence            3579999999986533 2355666666666666666665

>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=96.38  E-value=0.004  Score=47.65  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|++|+|||+|+..+....
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            8999999999999999987653

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.38  E-value=0.0021  Score=50.42  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|+|++|+||||+++.++. +
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            489999999999999999998 6

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.37  E-value=0.022  Score=43.99  Aligned_cols=23  Identities=26%  Similarity=0.566  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus        30 ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           30 KLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            49999999999999999998753

>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=96.37  E-value=0.0065  Score=51.47  Aligned_cols=34  Identities=29%  Similarity=0.410  Sum_probs=27.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      +.|.||+|+||||++..++..+...+..+.+...
T Consensus       132 i~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~  165 (328)
T 3e70_C          132 IMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAAS  165 (328)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEee
Confidence            8999999999999999999988655554444433

>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=96.37  E-value=0.0088  Score=46.75  Aligned_cols=23  Identities=30%  Similarity=0.546  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+....
T Consensus        28 ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           28 KIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            39999999999999999988754

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.36  E-value=0.0028  Score=50.43  Aligned_cols=24  Identities=29%  Similarity=0.448  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .+.|.||+|+|||||++.++....
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            389999999999999999998864

>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=96.36  E-value=0.022  Score=43.83  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|++|+|||+|+..+...-
T Consensus        24 i~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           24 YIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            9999999999999999987653

>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=96.35  E-value=0.012  Score=54.06  Aligned_cols=43  Identities=21%  Similarity=0.434  Sum_probs=32.3

Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      ++.++++||.. .+.+.....+.+.+.+......+|+++++...
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            67899999964 56677778888888876556667777876653

>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=96.35  E-value=0.007  Score=45.72  Aligned_cols=22  Identities=45%  Similarity=0.638  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .+++.|++|+|||+|+..+...
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            4999999999999999988754

>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=96.35  E-value=0.03  Score=49.58  Aligned_cols=37  Identities=19%  Similarity=0.137  Sum_probs=26.3

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++.-...+..++.+    ++++.+|+|+|||..+..++...
T Consensus        11 ~~~Q~~~i~~~~~~----~~ll~~~tG~GKT~~~~~~~~~~   47 (494)
T 1wp9_A           11 RIYQEVIYAKCKET----NCLIVLPTGLGKTLIAMMIAEYR   47 (494)
T ss_dssp             CHHHHHHHHHGGGS----CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHhhC----CEEEEcCCCCCHHHHHHHHHHHH
Confidence            34444445444444    69999999999999887776664

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.35  E-value=0.0084  Score=50.55  Aligned_cols=23  Identities=22%  Similarity=0.247  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +.|.||+|+||||+++.+...+.
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            89999999999999999988874

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.34  E-value=0.0032  Score=50.47  Aligned_cols=25  Identities=36%  Similarity=0.582  Sum_probs=22.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      .++|.|++|+||||+++.+++.+..
T Consensus        28 ~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           28 FITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            3899999999999999999999854

>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=96.34  E-value=0.0069  Score=47.79  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .+++.|++|+|||+|+..+...
T Consensus        36 ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           36 KVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEECTTSSHHHHHHHHHC-
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            3999999999999999998754

>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=96.33  E-value=0.01  Score=45.39  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus        12 ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           12 KFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            39999999999999999998654

>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=96.33  E-value=0.021  Score=44.78  Aligned_cols=24  Identities=21%  Similarity=0.232  Sum_probs=21.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+++.|++|+|||+|+..+....
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            459999999999999999998754

>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=96.33  E-value=0.0036  Score=49.10  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|.|++|+||||+++.+++.+
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            58999999999999999999987

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=96.32  E-value=0.012  Score=45.29  Aligned_cols=23  Identities=30%  Similarity=0.522  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           27 KVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            39999999999999999988754

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.32  E-value=0.0096  Score=54.04  Aligned_cols=42  Identities=10%  Similarity=0.252  Sum_probs=32.8

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                      ++.++++||. ..|.......+.+++.+......+|+++.+..
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            6889999995 46777888889999988765566777776654

>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=96.32  E-value=0.016  Score=43.73  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||+|+..+...
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            999999999999999999864

>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=96.31  E-value=0.017  Score=55.70  Aligned_cols=21  Identities=24%  Similarity=0.341  Sum_probs=18.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      .++|+||.|+||||+++.++-
T Consensus       664 i~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          664 FHIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999998843

>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=96.31  E-value=0.023  Score=45.61  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+++..+...-
T Consensus        31 ~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           31 RIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            49999999999999999988654

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=96.31  E-value=0.0051  Score=49.17  Aligned_cols=27  Identities=22%  Similarity=0.317  Sum_probs=20.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      ..++|.|++|+||||.++.+++.+...
T Consensus        26 ~~I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           26 KFITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             CEEEEECCC---CHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            349999999999999999999998544

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=96.30  E-value=0.065  Score=52.47  Aligned_cols=62  Identities=16%  Similarity=0.177  Sum_probs=34.2

Q ss_pred             CCCCCCCCcChhhhcCCCCccc--cccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q 021660           33 GTPPDIKASPWVEKYRPQSLAD--VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        33 ~~~~~~~~~~~~~~~~p~~~~~--~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ..++.....+|.+...|.....  +--.+.-.+.+..+.. +  .++++.+|+|+|||..+...+..
T Consensus        61 ~~p~~~~~~~~~~~~~p~~~~~~~f~L~~~Q~eai~~l~~-g--~~vLV~apTGSGKTlva~lai~~  124 (1010)
T 2xgj_A           61 ALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDR-G--ESVLVSAHTSAGKTVVAEYAIAQ  124 (1010)
T ss_dssp             ECCTTCCCCCGGGCCCSSCSCCCSSCCCHHHHHHHHHHHH-T--CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCCCcccCCCCcccChhhHHhCCCCCCHHHHHHHHHHHc-C--CCEEEECCCCCChHHHHHHHHHH
Confidence            3444445556666554533111  1123333334444333 3  46999999999999987544443

>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=96.30  E-value=0.012  Score=44.60  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|++|+|||+|+..+...-
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            9999999999999999987654

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.29  E-value=0.0044  Score=50.47  Aligned_cols=24  Identities=38%  Similarity=0.621  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.|.||+|+||||+++.+++.+
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            459999999999999999999887

>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=96.29  E-value=0.0053  Score=48.64  Aligned_cols=21  Identities=38%  Similarity=0.471  Sum_probs=18.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||+|+..+...
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            999999999999999984433

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=96.28  E-value=0.008  Score=45.08  Aligned_cols=22  Identities=27%  Similarity=0.588  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .+++.|++|+|||+++..+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            3899999999999999999754

>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=96.27  E-value=0.022  Score=49.62  Aligned_cols=38  Identities=29%  Similarity=0.403  Sum_probs=24.6

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      ...+||+||+|.+... ....+..++...+....+++.|
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            4578999999976533 2455566666555555565555

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.26  E-value=0.0025  Score=50.25  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|.||+|+||||+++.++..+
T Consensus         8 ~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            8 VIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999987

>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=96.26  E-value=0.0098  Score=55.15  Aligned_cols=40  Identities=33%  Similarity=0.500  Sum_probs=29.6

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ++.....+...+..   +..++.||||||||+++..++..+..
T Consensus       182 n~~Q~~av~~~l~~---~~~li~GppGTGKT~~~~~~i~~l~~  221 (624)
T 2gk6_A          182 NHSQVYAVKTVLQR---PLSLIQGPPGTGKTVTSATIVYHLAR  221 (624)
T ss_dssp             CHHHHHHHHHHHTC---SEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhcC---CCeEEECCCCCCHHHHHHHHHHHHHH
Confidence            44555556555532   45899999999999999888887743

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=96.26  E-value=0.051  Score=42.13  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        26 ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           26 KVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            39999999999999999998764

>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=96.26  E-value=0.014  Score=45.08  Aligned_cols=23  Identities=26%  Similarity=0.612  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus        10 ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A           10 RVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCcHHHHHHHHHcCC
Confidence            49999999999999999998743

>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=96.26  E-value=0.003  Score=49.18  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.|+|++|+||||+++.+++.+
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            8999999999999999999986

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.25  E-value=0.0031  Score=50.15  Aligned_cols=23  Identities=30%  Similarity=0.619  Sum_probs=21.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|.||+|+||||+++.++...
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999999876

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=96.24  E-value=0.0059  Score=46.50  Aligned_cols=23  Identities=17%  Similarity=0.271  Sum_probs=20.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      -.+++.|++|+|||+++..+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45999999999999999988764

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=96.24  E-value=0.011  Score=45.47  Aligned_cols=23  Identities=30%  Similarity=0.589  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        17 ~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           17 KILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            39999999999999999998754

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.23  E-value=0.003  Score=47.50  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|.||.|+|||||++.++..+
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            48999999999999999999987

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.23  E-value=0.019  Score=50.93  Aligned_cols=24  Identities=25%  Similarity=0.314  Sum_probs=21.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ++|.|+||+|||+++..++.....
T Consensus       203 ~ii~G~pg~GKT~lal~ia~~~a~  226 (444)
T 2q6t_A          203 NIIAARPAMGKTAFALTIAQNAAL  226 (444)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHH
Confidence            899999999999999999988743

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=96.23  E-value=0.025  Score=49.92  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=17.6

Q ss_pred             CeEEEECCCCCcHHHHH-HHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTI-LAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~-~~l~~~   97 (309)
                      .++++.||+|+|||..+ ..+.+.
T Consensus         3 ~~~lv~a~TGsGKT~~~l~~~l~~   26 (431)
T 2v6i_A            3 ELTVLDLHPGAGKTRRVLPQLVRE   26 (431)
T ss_dssp             CEEEEECCTTSCTTTTHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            46999999999999875 444433

>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=96.23  E-value=0.032  Score=42.80  Aligned_cols=23  Identities=30%  Similarity=0.320  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus        24 ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           24 ELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            39999999999999999998654

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=96.22  E-value=0.094  Score=39.62  Aligned_cols=22  Identities=18%  Similarity=0.330  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||+|+..+...
T Consensus         8 ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            8 KIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4999999999999999999854

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=96.22  E-value=0.024  Score=42.94  Aligned_cols=22  Identities=27%  Similarity=0.264  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|++|+|||+++..+...-
T Consensus        10 i~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A           10 LGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEECCGGGCHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999998753

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.21  E-value=0.0027  Score=50.02  Aligned_cols=24  Identities=21%  Similarity=0.545  Sum_probs=21.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.|.||+|+||||+++.++..+
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            348999999999999999999886

>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=96.21  E-value=0.028  Score=44.18  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||+|+..+...
T Consensus        27 ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           27 KLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            3999999999999999988754

>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=96.21  E-value=0.036  Score=43.06  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
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            39999999999999999998764

>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=96.20  E-value=0.019  Score=49.56  Aligned_cols=39  Identities=23%  Similarity=0.389  Sum_probs=25.3

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      ...+||+||+|.+... ....+..++...++...+++.|.
T Consensus       162 ~~~~vIiDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SA  201 (394)
T 1fuu_A          162 KIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSA  201 (394)
T ss_dssp             TCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEECS
T ss_pred             hCcEEEEEChHHhhCCCcHHHHHHHHHhCCCCceEEEEEE
Confidence            4679999999987432 23455566666555666666553

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.19  E-value=0.0027  Score=49.86  Aligned_cols=21  Identities=29%  Similarity=0.262  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      .+.|.|++|+||||+++.++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999999977

>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=96.18  E-value=0.002  Score=50.04  Aligned_cols=23  Identities=30%  Similarity=0.538  Sum_probs=21.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||+|+|||+++..+++..
T Consensus        36 ~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           36 GVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            38999999999999999999875

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=96.17  E-value=0.036  Score=49.87  Aligned_cols=38  Identities=18%  Similarity=0.128  Sum_probs=27.2

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++.-...+..++.+   ...+++||+|+|||..+..++...
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            44445555555544   459999999999999987776664

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=96.17  E-value=0.008  Score=51.46  Aligned_cols=35  Identities=29%  Similarity=0.359  Sum_probs=26.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      +.+.|.|+||+|||||+..+...+...+..+.++.
T Consensus        75 ~~v~lvG~pgaGKSTLln~L~~~~~~~~~~v~V~~  109 (349)
T 2www_A           75 FRVGLSGPPGAGKSTFIEYFGKMLTERGHKLSVLA  109 (349)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHhhhcCCeEEEEe
Confidence            34999999999999999999987644433333333

>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=96.17  E-value=0.037  Score=43.16  Aligned_cols=23  Identities=17%  Similarity=0.349  Sum_probs=19.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ..+.|.|++|+|||||++.++..
T Consensus        27 ~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           27 IEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            34999999999999999988654

>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=96.16  E-value=0.066  Score=53.23  Aligned_cols=39  Identities=18%  Similarity=0.183  Sum_probs=27.5

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHH
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      |..++..+...+.++++..++++||+|+|||..+...+-
T Consensus       608 Q~~ai~~il~~~~~g~p~d~ll~~~TGsGKT~val~aa~  646 (1151)
T 2eyq_A          608 QAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAF  646 (1151)
T ss_dssp             HHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCcCcEEEECCCCCCHHHHHHHHHH
Confidence            455555555555556656799999999999987654443

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.14  E-value=0.0033  Score=51.21  Aligned_cols=23  Identities=22%  Similarity=0.304  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|+|++|+||||+++.+++.+
T Consensus        24 iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           24 LIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=96.13  E-value=0.023  Score=42.95  Aligned_cols=21  Identities=29%  Similarity=0.472  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||+|+..+...
T Consensus         9 i~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            9 IVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEECcCCCCHHHHHHHHHhC
Confidence            999999999999999998754

>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=96.13  E-value=0.0059  Score=47.22  Aligned_cols=23  Identities=22%  Similarity=0.365  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+....
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            39999999999999999998764

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.12  E-value=0.0031  Score=49.23  Aligned_cols=23  Identities=17%  Similarity=0.188  Sum_probs=20.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ..+.|+|++|+||||+++.+++.
T Consensus         9 ~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            9 IIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHC
Confidence            34899999999999999999885

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=96.12  E-value=0.013  Score=49.54  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .++|+||||+|||+++..++....
T Consensus       109 i~~i~G~~GsGKT~la~~la~~~~  132 (324)
T 2z43_A          109 MTEFFGEFGSGKTQLCHQLSVNVQ  132 (324)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHhHHHHHHHHHHh
Confidence            399999999999999999998753

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.11  E-value=0.014  Score=51.61  Aligned_cols=27  Identities=26%  Similarity=0.379  Sum_probs=23.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      ++|.|+||+|||+++..++......+.
T Consensus       200 iiIaG~pG~GKTtlal~ia~~~a~~g~  226 (444)
T 3bgw_A          200 VLIAARPSMGKTAFALKQAKNMSDNDD  226 (444)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEEeCCCCChHHHHHHHHHHHHHcCC
Confidence            999999999999999999888754433

>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=96.09  E-value=0.0069  Score=54.36  Aligned_cols=46  Identities=7%  Similarity=0.042  Sum_probs=35.0

Q ss_pred             cccChHHHHHHHHHH--hcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           55 VAAHRDIVDTIDRLT--SENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~--~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      -...+++.+.+.+..  ...+...++|.|.+|+||||+++.+++.+..
T Consensus       374 ~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          374 WFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            344677777777765  3333345999999999999999999999953

>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=96.08  E-value=0.025  Score=54.44  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|+||.|+||||+++.++..
T Consensus       675 i~~ItGPNGaGKSTlLr~i~~i  696 (918)
T 3thx_B          675 VMIITGPNMGGKSSYIKQVALI  696 (918)
T ss_dssp             EEEEESCCCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCchHHHHHHHHHH
Confidence            3899999999999999988643

>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=96.08  E-value=0.035  Score=49.43  Aligned_cols=38  Identities=21%  Similarity=0.293  Sum_probs=28.0

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++.-.+.+..++..   ..+++.||+|+|||..+..++...
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   349999999999999988777776

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.08  E-value=0.02  Score=51.95  Aligned_cols=51  Identities=10%  Similarity=0.219  Sum_probs=34.5

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCceEEEEecCCcccchhhhcce
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYT-KNTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      ++.+|++||. ..|.......+.+++.... ....+|+++.+...+ ..+..|.
T Consensus       176 ~P~lLlLDEPTs~LD~~~~~~l~~~L~~l~~~g~tvi~vsHd~~~~-~~~~dri  228 (538)
T 1yqt_A          176 NATFYFFDEPSSYLDIRQRLNAARAIRRLSEEGKSVLVVEHDLAVL-DYLSDII  228 (538)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCHHHH-HHHCSEE
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH-HHhCCEE
Confidence            7889999995 5677777888888887653 245677777665432 3343443

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.06  E-value=0.0026  Score=48.53  Aligned_cols=39  Identities=21%  Similarity=0.216  Sum_probs=27.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (309)
                      ..+.|.|++|+||||+++.++..+...+...-.+.++..
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            348899999999999999999998655433444444443

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=96.06  E-value=0.0072  Score=46.98  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .+++.|++|+|||+++..+...
T Consensus        22 ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           22 KCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3999999999999999998754

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=96.06  E-value=0.0087  Score=46.65  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=4.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||+|+..+...
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            3999999999999999988766

>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=96.06  E-value=0.015  Score=45.51  Aligned_cols=23  Identities=26%  Similarity=0.533  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        22 ~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           22 KILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            49999999999999999988653

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=96.05  E-value=0.012  Score=55.55  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|+||.|+||||+++.++...
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            48999999999999999998764

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.01  E-value=0.0099  Score=49.93  Aligned_cols=24  Identities=21%  Similarity=0.254  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .+.|.||+|+||||+++.++..+.
T Consensus        82 iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           82 IISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            389999999999999999999874

>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=96.01  E-value=0.0045  Score=53.62  Aligned_cols=23  Identities=26%  Similarity=0.559  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||+|+|||+++..+++.+
T Consensus         4 ~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            4 VIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHH
T ss_pred             EEEEECcchhhHHHHHHHHHHHC
Confidence            48999999999999999999998

>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=96.01  E-value=0.0087  Score=46.65  Aligned_cols=23  Identities=22%  Similarity=0.465  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+++..+...-
T Consensus        27 ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           27 KLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            39999999999999999988753

>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA helicase, acetyltransferase, GCN5 acetyltransferase; HET: ACO ADP; 2.35A {Escherichia coli K12}

Probab=96.01  E-value=0.03  Score=51.73  Aligned_cols=81  Identities=16%  Similarity=0.152  Sum_probs=49.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccc-c-CCCCccEEEEEeCCCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS-F-GVKASVKLVLLDEADA  152 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~lliiDe~~~  152 (309)
                      ...+|+|+.|.|||+++-.++..+..     . +.+..........+.+......+...+. + ....+..+|||||+-.
T Consensus       193 ~~~vlta~RGRGKSa~lG~~~a~~~~-----~-~~vtAP~~~a~~~l~~~~~~~i~~~~Pd~~~~~~~~~dlliVDEAAa  266 (671)
T 2zpa_A          193 GVAAVTAARGRGKSALAGQLISRIAG-----R-AIVTAPAKASTDVLAQFAGEKFRFIAPDALLASDEQADWLVVDEAAA  266 (671)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHSSS-----C-EEEECSSCCSCHHHHHHHGGGCCBCCHHHHHHSCCCCSEEEEETGGG
T ss_pred             CeEEEecCCCCCHHHHHHHHHHHHHh-----C-cEEECCCHHHHHHHHHHhhCCeEEeCchhhhhCcccCCEEEEEchhc
Confidence            34899999999999999999998732     1 2455555555555544333221111110 0 1112467999999988


Q ss_pred             CCHHHHHHH
Q 021660          153 MTKDAQFAL  161 (309)
Q Consensus       153 l~~~~~~~l  161 (309)
                      ++......|
T Consensus       267 Ip~pll~~l  275 (671)
T 2zpa_A          267 IPAPLLHQL  275 (671)
T ss_dssp             SCHHHHHHH
T ss_pred             CCHHHHHHH
Confidence            885443333

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=96.01  E-value=0.01  Score=45.65  Aligned_cols=23  Identities=39%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        24 ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           24 KLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            39999999999999999998654

>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=96.01  E-value=0.025  Score=45.45  Aligned_cols=38  Identities=18%  Similarity=0.339  Sum_probs=24.6

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      +-.+|||||+|.+... ....+..++...++...+++.+
T Consensus       176 ~~~~lViDEah~l~~~~~~~~~~~i~~~~~~~~q~~~~S  214 (242)
T 3fe2_A          176 RTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWS  214 (242)
T ss_dssp             TCCEEEETTHHHHHHTTCHHHHHHHHTTSCSSCEEEEEE
T ss_pred             cccEEEEeCHHHHhhhCcHHHHHHHHHhCCccceEEEEE
Confidence            4568999999987643 2445556666655556565554

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.98  E-value=0.0087  Score=48.11  Aligned_cols=24  Identities=21%  Similarity=0.506  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.|.|++|+||||+++.++..+
T Consensus        17 ~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           17 IQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            348999999999999999999987

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.97  E-value=0.017  Score=52.35  Aligned_cols=52  Identities=13%  Similarity=0.274  Sum_probs=34.7

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCceEEEEecCCcccchhhhcce
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~--~~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      .++.++++||. ..+.......+.+++.+..  ....+|+++.+...+ ..+..|.
T Consensus       402 ~~p~lLlLDEPT~gLD~~~~~~i~~~l~~l~~~~g~tvi~vsHdl~~~-~~~aDri  456 (538)
T 3ozx_A          402 KEADLYVLDQPSSYLDVEERYIVAKAIKRVTRERKAVTFIIDHDLSIH-DYIADRI  456 (538)
T ss_dssp             SCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHHTTCEEEEECSCHHHH-HHHCSEE
T ss_pred             cCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHH-HHhCCEE
Confidence            36889999995 4567777888888888753  345667777665433 2344444

>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=95.95  E-value=0.027  Score=42.79  Aligned_cols=23  Identities=35%  Similarity=0.613  Sum_probs=9.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus        10 ki~v~G~~~~GKssl~~~l~~~~   32 (183)
T 2fu5_C           10 KLLLIGDSGVGKTCVLFRFSEDA   32 (183)
T ss_dssp             EEEEECCCCC-------------
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            39999999999999999987553

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.94  E-value=0.0055  Score=51.33  Aligned_cols=26  Identities=27%  Similarity=0.498  Sum_probs=23.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      +.|.||.|+||||++..++..+...+
T Consensus       103 i~lvG~nGsGKTTll~~Lag~l~~~~  128 (302)
T 3b9q_A          103 IMIVGVNGGGKTTSLGKLAHRLKNEG  128 (302)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence            89999999999999999999885443

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=95.94  E-value=0.0072  Score=47.46  Aligned_cols=23  Identities=17%  Similarity=0.280  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|++|+|||+|+..+...-
T Consensus        11 ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A           11 KCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            39999999999999999988653

>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=95.93  E-value=0.0099  Score=59.91  Aligned_cols=44  Identities=18%  Similarity=0.447  Sum_probs=33.6

Q ss_pred             ccEEEEEeCCCC-CCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021660          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (309)
Q Consensus       141 ~~~lliiDe~~~-l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l  184 (309)
                      +++|+++||+-. +..+....+.+.+++...+..+|+++++...+
T Consensus      1235 ~~~ILiLDEaTSaLD~~tE~~Iq~~l~~~~~~~TvI~IAHRLsTi 1279 (1321)
T 4f4c_A         1235 NPKILLLDEATSALDTESEKVVQEALDRAREGRTCIVIAHRLNTV 1279 (1321)
T ss_dssp             CCSEEEEESCCCSTTSHHHHHHHHHHTTTSSSSEEEEECSSSSTT
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHcCCCEEEEeccCHHHH
Confidence            678999999854 45666778888888877777888888766543

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.93  E-value=0.031  Score=43.60  Aligned_cols=22  Identities=23%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .+++.|++|+|||+|+..+...
T Consensus        27 ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           27 KLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4999999999999999999864

>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=95.93  E-value=0.095  Score=51.83  Aligned_cols=38  Identities=18%  Similarity=0.327  Sum_probs=25.0

Q ss_pred             ccEEEEEeCCCCCCHHH-HHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~-~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      +-.+|||||+|++.... ...+..++...+....+|+.|
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            45799999999997543 333445555556666666654

>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=95.93  E-value=0.017  Score=55.09  Aligned_cols=40  Identities=33%  Similarity=0.500  Sum_probs=29.4

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ++.....+...+..   +..+|.||||||||+++..++..+..
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            44445555555542   45899999999999999988887753

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.91  E-value=0.0033  Score=49.43  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=20.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.|.|++|+||||+++.++..+
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            8899999999999999998864

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=95.90  E-value=0.022  Score=44.16  Aligned_cols=19  Identities=26%  Similarity=0.494  Sum_probs=18.0

Q ss_pred             EEEECCCCCcHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVA   95 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~   95 (309)
                      ++|.|++|+|||+|+..+.
T Consensus        26 i~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           26 VMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             EEEECSTTSSHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            9999999999999999885

>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=95.89  E-value=0.022  Score=57.41  Aligned_cols=43  Identities=21%  Similarity=0.411  Sum_probs=29.4

Q ss_pred             CccEEEEEeCCCC-CCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          140 ASVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~~~-l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                      .++.++++||+-. +.......+.+.++....+..+|+++++..
T Consensus       571 ~~~~IliLDE~tSaLD~~te~~i~~~l~~~~~~~T~iiiaHrls  614 (1321)
T 4f4c_A          571 RNPKILLLDEATSALDAESEGIVQQALDKAAKGRTTIIIAHRLS  614 (1321)
T ss_dssp             TCCSEEEEESTTTTSCTTTHHHHHHHHHHHHTTSEEEEECSCTT
T ss_pred             cCCCEEEEecccccCCHHHHHHHHHHHHHHhCCCEEEEEcccHH
Confidence            3678999999743 344455667777777665666777776554

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=95.89  E-value=0.011  Score=46.72  Aligned_cols=20  Identities=40%  Similarity=0.496  Sum_probs=18.5

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (309)
                      ++|.|++|+|||+|+..+..
T Consensus        14 i~vvG~~~~GKSsli~~l~~   33 (218)
T 4djt_A           14 ICLIGDGGVGKTTYINRVLD   33 (218)
T ss_dssp             EEEECCTTSSHHHHHCBCTT
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            99999999999999998874

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.89  E-value=0.0035  Score=50.27  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=14.9

Q ss_pred             eEEEECCCCCcHHHHHHHHH-HHH
Q 021660           76 HLLLYGPPGTGKTSTILAVA-RKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~-~~~   98 (309)
                      .+.|.||+|+||||+++.++ ...
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC---
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCC
Confidence            48999999999999999999 765

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=95.88  E-value=0.096  Score=45.87  Aligned_cols=34  Identities=26%  Similarity=0.368  Sum_probs=27.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      +.+.|++|+||||++..++..+...+..+.++..
T Consensus       101 i~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~  134 (425)
T 2ffh_A          101 WFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA  134 (425)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeec
Confidence            7888999999999999999998665554444433

>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=95.88  E-value=0.033  Score=46.89  Aligned_cols=23  Identities=17%  Similarity=0.291  Sum_probs=18.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++++.+|+|+|||..+...+-.
T Consensus        32 ~~~lv~~~TGsGKT~~~~~~~~~   54 (337)
T 2z0m_A           32 KNVVVRAKTGSGKTAAYAIPILE   54 (337)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCcHHHHHHHHHHh
Confidence            45999999999999876655544

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.87  E-value=0.0026  Score=52.96  Aligned_cols=25  Identities=16%  Similarity=0.352  Sum_probs=19.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ..+.|+||+|+||||+++.+++.+.
T Consensus         6 ~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            6 PIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             CEEEEESCC---CCTHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3489999999999999999999873

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=95.85  E-value=0.034  Score=43.25  Aligned_cols=23  Identities=35%  Similarity=0.595  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y           10 KLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            39999999999999999987654

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=95.85  E-value=0.0099  Score=54.06  Aligned_cols=46  Identities=15%  Similarity=0.195  Sum_probs=33.5

Q ss_pred             cChHHHHHHHHHH--hcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           57 AHRDIVDTIDRLT--SENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        57 g~~~~~~~l~~~~--~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      .++++.+.+....  .......++|+|++|+||||+++.+++.+...+
T Consensus       353 ~r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~~G  400 (546)
T 2gks_A          353 TRPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQARG  400 (546)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             cchhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhhcC
Confidence            3456666666665  223333489999999999999999999885433

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.85  E-value=0.0087  Score=47.36  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|+|++|+||||+++.+++.+
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            48999999999999999999987

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.84  E-value=0.0097  Score=49.75  Aligned_cols=24  Identities=33%  Similarity=0.480  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.|+||+|+|||||++.++..+
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhhhc
Confidence            349999999999999999999987

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=95.84  E-value=0.032  Score=49.82  Aligned_cols=24  Identities=29%  Similarity=0.414  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .+++.|.||+||||+++.+++.+.
T Consensus        41 ~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           41 LIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            499999999999999999999874

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.83  E-value=0.0054  Score=48.61  Aligned_cols=21  Identities=33%  Similarity=0.392  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      .+.|.|++|+||||+++.++.
T Consensus         6 ~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            6 IVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999987

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.82  E-value=0.0078  Score=46.99  Aligned_cols=29  Identities=24%  Similarity=0.286  Sum_probs=25.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~  105 (309)
                      +.|.|+.|+||||.++.+++.+...+..+
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~v   31 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKKV   31 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcE
Confidence            67899999999999999999997666543

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.80  E-value=0.0061  Score=49.35  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|.||.|+||||+++.++..+
T Consensus        27 iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           27 LIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999876

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.80  E-value=0.0097  Score=48.48  Aligned_cols=35  Identities=26%  Similarity=0.442  Sum_probs=28.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      +++.|.+|+||||++..++..+. .+....++..+.
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            89999999999999999999987 666665555444

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=95.78  E-value=0.049  Score=49.46  Aligned_cols=22  Identities=27%  Similarity=0.277  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||+|+..+...-
T Consensus        44 V~lvG~~~vGKSSLl~~l~~~~   65 (535)
T 3dpu_A           44 VHLIGDGMAGKTSLLKQLIGET   65 (535)
T ss_dssp             EEEESSSCSSHHHHHHHHHC--
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            9999999999999999987653

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=95.76  E-value=0.0064  Score=51.17  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=22.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +.|.||+|+||||+++.++..+..
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            899999999999999999998753

>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=95.76  E-value=0.02  Score=44.54  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||+|+..+...
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            3999999999999999998754

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.74  E-value=0.0067  Score=50.14  Aligned_cols=25  Identities=28%  Similarity=0.352  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ..++|+||+|+||||++..++..+.
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            3499999999999999999998664

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.73  E-value=0.0082  Score=49.73  Aligned_cols=22  Identities=36%  Similarity=0.439  Sum_probs=20.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|+|++|+||||+++.++ .+
T Consensus        77 iI~I~G~~GSGKSTva~~La-~l   98 (281)
T 2f6r_A           77 VLGLTGISGSGKSSVAQRLK-NL   98 (281)
T ss_dssp             EEEEEECTTSCHHHHHHHHH-HH
T ss_pred             EEEEECCCCCCHHHHHHHHH-HC
Confidence            49999999999999999998 44

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=95.73  E-value=0.16  Score=40.26  Aligned_cols=22  Identities=36%  Similarity=0.623  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||+|+..+...
T Consensus        31 kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           31 TIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4999999999999999998765

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.71  E-value=0.005  Score=53.03  Aligned_cols=35  Identities=20%  Similarity=0.354  Sum_probs=27.0

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           63 DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        63 ~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +.+.-.+..+  ..++|.||+|+||||+++.++....
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            4444444554  3599999999999999999998764

>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=95.69  E-value=0.067  Score=48.00  Aligned_cols=105  Identities=18%  Similarity=0.225  Sum_probs=60.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccc-cC----------------
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS-FG----------------  137 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~----------------  137 (309)
                      .+.++.-+.|+|||..+-.++..+...+....+..+.+..  -...+...+..+....... +.                
T Consensus        57 ~~~ilad~~GlGKT~~ai~~i~~~~~~~~~~~~LIv~P~~--l~~qw~~e~~~~~~~~~v~~~~g~~~~~~~~~~~ivi~  134 (500)
T 1z63_A           57 FGICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLS--VLKNWEEELSKFAPHLRFAVFHEDRSKIKLEDYDIILT  134 (500)
T ss_dssp             CCEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECST--THHHHHHHHHHHCTTSCEEECSSSTTSCCGGGSSEEEE
T ss_pred             CCEEEEeCCCCcHHHHHHHHHHHHHhcCCCCCEEEEccHH--HHHHHHHHHHHHCCCceEEEEecCchhccccCCcEEEe
Confidence            3588999999999998888877764433333344444432  3355555565543211100 00                


Q ss_pred             -----------CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          138 -----------VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       138 -----------~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                                 ......+||+||+|.+.... ....+.+.......+++++++...
T Consensus       135 t~~~l~~~~~l~~~~~~~vIvDEaH~~kn~~-~~~~~~l~~l~~~~~l~LTaTP~~  189 (500)
T 1z63_A          135 TYAVLLRDTRLKEVEWKYIVIDEAQNIKNPQ-TKIFKAVKELKSKYRIALTGTPIE  189 (500)
T ss_dssp             EHHHHTTCHHHHTCCEEEEEEETGGGGSCTT-SHHHHHHHTSCEEEEEEECSSCST
T ss_pred             eHHHHhccchhcCCCcCEEEEeCccccCCHh-HHHHHHHHhhccCcEEEEecCCCC
Confidence                       01245789999999985332 234455555554556666666544

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=95.68  E-value=0.046  Score=51.12  Aligned_cols=41  Identities=20%  Similarity=0.300  Sum_probs=29.7

Q ss_pred             cEEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCceEEEEecCCc
Q 021660          142 VKLVLLDEA-DAMTKDAQFALRRVIEKYT-KNTRFALICNQVN  182 (309)
Q Consensus       142 ~~lliiDe~-~~l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~  182 (309)
                      +.+|++||. ..|.+.....+.+++.+.. ....+|+++.+..
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            579999995 4567777788888887654 2456777777654

>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=95.67  E-value=0.066  Score=44.70  Aligned_cols=134  Identities=11%  Similarity=0.140  Sum_probs=66.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccC-----cc------------cccEEEEecCCCcc-hHHHHHHHHHhhhccccccC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGA-----QY------------HNMILELNASDDRG-IDVVRQQIQDFASTQSFSFG  137 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~-----~~------------~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  137 (309)
                      .+.|.|.||+|||||+..+...-...     +.            ...+..++.+.... ...+...+......    .-
T Consensus         9 ~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~----~l   84 (301)
T 1wf3_A            9 FVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYE----AL   84 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHH----HT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCCcEEEEecCccccchhhHHHHHHHHHHHH----HH
Confidence            48999999999999999998653210     00            11222333332211 11122222211111    01


Q ss_pred             CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccch-h-----hhc--c-eeEEEecCCChHHHHHH
Q 021660          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIP-A-----LQS--R-CTRFRFAPLEPVHVTER  208 (309)
Q Consensus       138 ~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~-~-----l~~--r-~~~i~~~~~~~~~~~~~  208 (309)
                      ......++++|=-+.+... ...+.+.+.......++|++.|..+...+ .     +..  . ...+.+...+...+..+
T Consensus        85 ~~ad~il~VvD~~~~~~~~-~~~i~~~l~~~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~~iSA~~g~gv~~l  163 (301)
T 1wf3_A           85 ADVNAVVWVVDLRHPPTPE-DELVARALKPLVGKVPILLVGNKLDAAKYPEEAMKAYHELLPEAEPRMLSALDERQVAEL  163 (301)
T ss_dssp             SSCSEEEEEEETTSCCCHH-HHHHHHHHGGGTTTSCEEEEEECGGGCSSHHHHHHHHHHTSTTSEEEECCTTCHHHHHHH
T ss_pred             hcCCEEEEEEECCCCCChH-HHHHHHHHHhhcCCCCEEEEEECcccCCchHHHHHHHHHhcCcCcEEEEeCCCCCCHHHH
Confidence            1124567777765555543 34455555544335667777777664421 1     111  1 23455555555666666


Q ss_pred             HHHHHH
Q 021660          209 LKHVIE  214 (309)
Q Consensus       209 l~~~~~  214 (309)
                      +.....
T Consensus       164 ~~~l~~  169 (301)
T 1wf3_A          164 KADLLA  169 (301)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
Confidence            655543

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=95.66  E-value=0.22  Score=40.45  Aligned_cols=23  Identities=30%  Similarity=0.509  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.|.+|+|||+++..+...-
T Consensus        38 ~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           38 TVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            39999999999999999998653

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=95.65  E-value=0.16  Score=42.46  Aligned_cols=21  Identities=19%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +.|.|.||+|||||+..+...
T Consensus        13 v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A           13 VAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            999999999999999998765

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.65  E-value=0.0083  Score=51.41  Aligned_cols=26  Identities=27%  Similarity=0.498  Sum_probs=23.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      +.|.||.|+||||++..++..+...+
T Consensus       160 i~lvG~nGsGKTTll~~Lag~l~~~~  185 (359)
T 2og2_A          160 IMIVGVNGGGKTTSLGKLAHRLKNEG  185 (359)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCChHHHHHHHHHhhccccC
Confidence            89999999999999999999885443

>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=95.64  E-value=0.042  Score=49.00  Aligned_cols=135  Identities=14%  Similarity=0.206  Sum_probs=60.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc--cC---cc------------cccEEEEecCCCcchHHHHHHHHHhhhccccccCC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY--GA---QY------------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~--~~---~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      .++|.|+||+|||+|+..+...-.  ..   +.            +..+..++..   +.......+..+..........
T Consensus       235 kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g~~l~liDT~---G~~~~~~~ve~~gi~~~~~~~~  311 (476)
T 3gee_A          235 STVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDKTMFRLTDTA---GLREAGEEIEHEGIRRSRMKMA  311 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHCC------------------CEEEEETTEEEEEEC-----------------------CCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeEEEEEECC---CCCcchhHHHHHHHHHHHhhcc
Confidence            399999999999999999876521  00   00            0111112221   1111111111110000011122


Q ss_pred             CCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchh------hhcc--eeEEEecCCC---hHHHHH
Q 021660          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPA------LQSR--CTRFRFAPLE---PVHVTE  207 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~------l~~r--~~~i~~~~~~---~~~~~~  207 (309)
                      ....-++++|--+............+++... ..++|++.|..+.....      +...  +..+.+...+   .+++.+
T Consensus       312 ~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~-~~piIvV~NK~Dl~~~~~~~~~~l~~~~~~~~i~vSAktg~GI~eL~~  390 (476)
T 3gee_A          312 EADLILYLLDLGTERLDDELTEIRELKAAHP-AAKFLTVANKLDRAANADALIRAIADGTGTEVIGISALNGDGIDTLKQ  390 (476)
T ss_dssp             SCSEEEEEEETTTCSSGGGHHHHHHHHHHCT-TSEEEEEEECTTSCTTTHHHHHHHHHHHTSCEEECBTTTTBSHHHHHH
T ss_pred             cCCEEEEEEECCCCcchhhhHHHHHHHHhcC-CCCEEEEEECcCCCCccchhHHHHHhcCCCceEEEEECCCCCHHHHHH
Confidence            2355677788655554433334455555554 56777788876643221      2221  2345554444   355555


Q ss_pred             HHHHHHH
Q 021660          208 RLKHVIE  214 (309)
Q Consensus       208 ~l~~~~~  214 (309)
                      .+.+.+.
T Consensus       391 ~i~~~~~  397 (476)
T 3gee_A          391 HMGDLVK  397 (476)
T ss_dssp             HHTHHHH
T ss_pred             HHHHHHh
Confidence            5555554

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.64  E-value=0.0089  Score=50.45  Aligned_cols=32  Identities=31%  Similarity=0.480  Sum_probs=26.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEE
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (309)
                      +.|+|++|+||||++..++..+...+..+.++
T Consensus       108 I~ivG~~G~GKTT~~~~LA~~l~~~g~kVlli  139 (320)
T 1zu4_A          108 FMLVGVNGTGKTTSLAKMANYYAELGYKVLIA  139 (320)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            89999999999999999999886555444443

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.63  E-value=0.012  Score=50.06  Aligned_cols=36  Identities=31%  Similarity=0.385  Sum_probs=27.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      ..+.|.|++|+||||+++.++..+...+..+.+...
T Consensus        56 ~~v~i~G~~GaGKSTLl~~l~g~~~~~~g~v~i~~~   91 (337)
T 2qm8_A           56 IRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAV   91 (337)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhhhCCCEEEEEEE
Confidence            349999999999999999999887544444444433

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=95.61  E-value=0.0065  Score=47.02  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=20.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.|.|++|+|||||++.++...
T Consensus        32 v~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           32 VVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998765

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=95.59  E-value=0.054  Score=46.42  Aligned_cols=24  Identities=25%  Similarity=0.547  Sum_probs=20.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+++.|++|+||||++..++...
T Consensus       168 ~~v~lvG~~gvGKSTLin~L~~~~  191 (357)
T 2e87_A          168 PTVVIAGHPNVGKSTLLKALTTAK  191 (357)
T ss_dssp             CEEEEECSTTSSHHHHHHHHCSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            349999999999999999987653

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.59  E-value=0.007  Score=48.85  Aligned_cols=44  Identities=16%  Similarity=0.221  Sum_probs=31.5

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..+.+.....+.+++.+...  ...+|++|++...
T Consensus       143 ~~p~lllLDEPts~LD~~~~~~~~~~l~~l~~~~g~tvi~vtHd~~~  189 (240)
T 2onk_A          143 IQPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPILHVTHDLIE  189 (240)
T ss_dssp             TCCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCEEEEESCHHH
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            37889999995 45677788888888877532  4567777766543

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.59  E-value=0.0069  Score=45.83  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=20.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+||||++..+.+.
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            3999999999999999999885

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=95.58  E-value=0.0088  Score=53.26  Aligned_cols=26  Identities=38%  Similarity=0.539  Sum_probs=22.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      +.|.|++|+||||+++.++..+...+
T Consensus       296 I~LVGpNGSGKTTLl~~LAgll~~~~  321 (503)
T 2yhs_A          296 ILMVGVNGVGKTTTIGKLARQFEQQG  321 (503)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEECCCcccHHHHHHHHHHHhhhcC
Confidence            89999999999999999999875443

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.57  E-value=0.0099  Score=47.94  Aligned_cols=22  Identities=41%  Similarity=0.484  Sum_probs=19.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|+|+||+|||+++..++..
T Consensus        32 l~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           32 TVLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3999999999999999887754

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.56  E-value=0.038  Score=50.85  Aligned_cols=116  Identities=17%  Similarity=0.232  Sum_probs=0.0

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccc----------------------------------------------
Q 021660           72 NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHN----------------------------------------------  105 (309)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~----------------------------------------------  105 (309)
                      .....+.|.||.|+|||||++.++..+.......                                              
T Consensus       115 ~~Ge~~~LiG~NGsGKSTLlkiL~Gll~p~~G~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~~~~  194 (607)
T 3bk7_A          115 KDGMVVGIVGPNGTGKTTAVKILAGQLIPNLCEDNDSWDNVIRAFRGNELQNYFERLKNGEIRPVVKPQYVDLLPKAVKG  194 (607)
T ss_dssp             CTTSEEEEECCTTSSHHHHHHHHTTSSCCCTTTTCCCHHHHHHHTTTSTHHHHHHHHHHTSCCCEEECSCGGGGGGTCCS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhCCCCCCCCccccccchhhheeCCEehhhhhhhhhhhhcceEEeechhhhchhhccc


Q ss_pred             -------------------------cEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeC-CCCCCHHHHH
Q 021660          106 -------------------------MILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDE-ADAMTKDAQF  159 (309)
Q Consensus       106 -------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe-~~~l~~~~~~  159 (309)
                                               ....-.....++...-+-.+....-.         ++.++++|| ...|......
T Consensus       195 tv~e~l~~~~~~~~~~~~L~~lgL~~~~~~~~~~LSGGekQRvaIAraL~~---------~P~lLlLDEPTs~LD~~~~~  265 (607)
T 3bk7_A          195 KVRELLKKVDEVGKFEEVVKELELENVLDRELHQLSGGELQRVAIAAALLR---------KAHFYFFDEPSSYLDIRQRL  265 (607)
T ss_dssp             BHHHHHHHTCCSSCHHHHHHHTTCTTGGGSBGGGCCHHHHHHHHHHHHHHS---------CCSEEEEECTTTTCCHHHHH
T ss_pred             cHHHHhhhhHHHHHHHHHHHHcCCCchhCCChhhCCHHHHHHHHHHHHHhc---------CCCEEEEECCcccCCHHHHH


Q ss_pred             HHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEE
Q 021660          160 ALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFR  196 (309)
Q Consensus       160 ~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~  196 (309)
                      .+.+++.+......-|++.++.......+..|..++.
T Consensus       266 ~l~~~L~~l~~~g~tvIivsHdl~~~~~~adri~vl~  302 (607)
T 3bk7_A          266 KVARVIRRLANEGKAVLVVEHDLAVLDYLSDVIHVVY  302 (607)
T ss_dssp             HHHHHHHHHHHTTCEEEEECSCHHHHHHHCSEEEEEE
T ss_pred             HHHHHHHHHHhcCCEEEEEecChHHHHhhCCEEEEEC

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=95.56  E-value=0.051  Score=42.94  Aligned_cols=23  Identities=22%  Similarity=0.491  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+|||+|+..+...-
T Consensus        15 ki~v~G~~~vGKSsli~~l~~~~   37 (223)
T 3cpj_B           15 KIVLIGDSGVGKSNLLSRFTKNE   37 (223)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            39999999999999999987653

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.55  E-value=0.0067  Score=48.95  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|++|+||||+++.+++.+
T Consensus         4 ~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            4 RLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999987

>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=95.52  E-value=0.008  Score=48.41  Aligned_cols=43  Identities=14%  Similarity=0.182  Sum_probs=30.3

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHH---HhcCCceEEEEecCCcc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIE---KYTKNTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~---~~~~~~~~i~~~~~~~~  183 (309)
                      ++.++++||. ..+.+.....+.+.+.   .......+|+++.+...
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            6789999995 4567777788888873   33335567777776654

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.51  E-value=0.0089  Score=54.33  Aligned_cols=42  Identities=24%  Similarity=0.386  Sum_probs=30.2

Q ss_pred             ChHHHHHHHHHH--hcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           58 HRDIVDTIDRLT--SENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        58 ~~~~~~~l~~~~--~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ..++.+.+....  ...+...+.|.|++|+||||+++.++..+.
T Consensus       351 ~peV~~vLR~~~~~~~~~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          351 FPEVLAELHRQTPPRERQGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             CHHHHHHHHHHSCCGGGSCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhcccccccceEEEEECCCCChHHHHHHHHHHhhc
Confidence            345555555543  222234589999999999999999999984

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.50  E-value=0.0069  Score=48.34  Aligned_cols=43  Identities=12%  Similarity=0.183  Sum_probs=30.5

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCceEEEEecCCc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT-KNTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~  182 (309)
                      .++.++++||. ..+.+.....+.+++.+.. ....+|++|++..
T Consensus       157 ~~p~lllLDEPt~~LD~~~~~~~~~~l~~l~~~g~tvi~vtHd~~  201 (224)
T 2pcj_A          157 NEPILLFADEPTGNLDSANTKRVMDIFLKINEGGTSIVMVTHERE  201 (224)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCHH
T ss_pred             cCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEcCCHH
Confidence            37789999995 4567777888888887653 2456667776543

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=95.48  E-value=0.038  Score=52.51  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|+||.|+||||+++.++...
T Consensus       609 i~~ItGpNGsGKSTlLr~iagl~  631 (800)
T 1wb9_A          609 MLIITGPNMGGKSTYMRQTALIA  631 (800)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCChHHHHHHHHHHH
Confidence            48999999999999999998764

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=94.45  E-value=0.0024  Score=49.94  Aligned_cols=26  Identities=15%  Similarity=0.289  Sum_probs=21.1

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHH
Q 021660           72 NRLPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .+.-.+++.|++|+|||+|+..+...
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~   53 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
Confidence            33345999999999999999888754

>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=95.46  E-value=0.012  Score=53.85  Aligned_cols=24  Identities=25%  Similarity=0.301  Sum_probs=22.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .++|+|++|+||||+++.+++.+.
T Consensus       398 ~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          398 TIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEeecCCCCCHHHHHHHHHHHhc
Confidence            489999999999999999999984

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=95.45  E-value=0.15  Score=43.71  Aligned_cols=23  Identities=22%  Similarity=0.229  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|.|++|+|||||++.+....
T Consensus       181 ~V~lvG~~naGKSTLln~L~~~~  203 (364)
T 2qtf_A          181 SIGIVGYTNSGKTSLFNSLTGLT  203 (364)
T ss_dssp             EEEEECBTTSSHHHHHHHHHCC-
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            38899999999999999998653

>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=95.44  E-value=0.066  Score=49.46  Aligned_cols=24  Identities=25%  Similarity=0.414  Sum_probs=17.7

Q ss_pred             CeEEEECCCCCcHHHH-HHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTST-ILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l-~~~l~~~~   98 (309)
                      ..+++.+|+|+|||.. +..+...+
T Consensus       187 ~dvlv~a~TGSGKT~~~~lpil~~l  211 (618)
T 2whx_A          187 RLTIMDLHPGAGKTKRILPSIVREA  211 (618)
T ss_dssp             CEEEECCCTTSSTTTTHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4599999999999986 34444443

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=95.44  E-value=0.0073  Score=46.35  Aligned_cols=21  Identities=29%  Similarity=0.640  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      .++|.|++|+|||+|++.++.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            389999999999999999876

>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=95.43  E-value=0.0072  Score=47.86  Aligned_cols=44  Identities=11%  Similarity=0.194  Sum_probs=28.8

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT-KNTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..+.+.....+.+++.+.. ....+|+++.+...
T Consensus       150 ~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~g~tiiivtHd~~~  195 (214)
T 1sgw_A          150 VNAEIYVLDDPVVAIDEDSKHKVLKSILEILKEKGIVIISSREELS  195 (214)
T ss_dssp             SCCSEEEEESTTTTSCTTTHHHHHHHHHHHHHHHSEEEEEESSCCT
T ss_pred             hCCCEEEEECCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHH
Confidence            36789999995 3455666677777776543 23456667765543

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.43  E-value=0.0089  Score=49.19  Aligned_cols=24  Identities=17%  Similarity=0.437  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ++.|.||+|+|||||++.++....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999999998863

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=95.42  E-value=0.009  Score=44.89  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||++++.+...
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3899999999999999999763

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=95.41  E-value=0.012  Score=46.67  Aligned_cols=25  Identities=32%  Similarity=0.351  Sum_probs=22.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ..++|.|++|+||||.++.+++.+.
T Consensus         6 ~~i~~eG~~g~GKst~~~~l~~~l~   30 (216)
T 3tmk_A            6 KLILIEGLDRTGKTTQCNILYKKLQ   30 (216)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4499999999999999999999984

>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=95.41  E-value=0.039  Score=43.24  Aligned_cols=23  Identities=39%  Similarity=0.650  Sum_probs=21.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +.|.|+.|+||||.++.+++.+.
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            78999999999999999999984

---

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	309
d1iqpa2	231	c.37.1.20 (A:2-232) Replication factor C {Archaeon	5e-56
d1sxjb2	224	c.37.1.20 (B:7-230) Replication factor C4 {Baker's	3e-49
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	1e-48
d1sxjc2	227	c.37.1.20 (C:12-238) Replication factor C3 {Baker'	9e-45
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	1e-43
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	2e-32
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	3e-32
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	2e-31
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	7e-23
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	4e-22
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	1e-18
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	4e-15
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	4e-10
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	2e-09
d1sxjc1	95	a.80.1.1 (C:239-333) Replication factor C3 {Baker'	7e-09
d1iqpa1	95	a.80.1.1 (A:233-327) Replication factor C {Archaeo	2e-05
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	7e-05
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	2e-04
d1sxjb1	92	a.80.1.1 (B:231-322) Replication factor C4 {Baker'	0.002
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	0.002
d2i3ba1	189	c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57	0.003

>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 =  179 bits (454), Expect = 5e-56
 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 =  161 bits (407), Expect = 3e-49
 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 =  160 bits (405), Expect = 1e-48
 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 = 9e-45
 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 (371), Expect = 1e-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 = 2e-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 = 3e-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 =  114 bits (285), Expect = 2e-31
 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

>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 = 92.7 bits (229), Expect = 7e-23
 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 = 89.8 bits (221), Expect = 4e-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

>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 = 80.8 bits (198), Expect = 1e-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

>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 = 72.8 bits (178), Expect = 4e-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

>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 = 4e-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 = 2e-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

>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 = 50.2 bits (120), Expect = 7e-09
 Identities = 10/43 (23%), Positives = 26/43 (60%)

Query: 265 PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV 307
           P P D++ +   +L + +  +   +++++  KGLAL+D++  +
Sbjct: 1   PRPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGI 43

>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 = 40.5 bits (95), Expect = 2e-05
 Identities = 9/42 (21%), Positives = 26/42 (61%)

Query: 267 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT 308
           P+DI ++    L  +F  + +++ E+ +++GL+  D++ ++ 
Sbjct: 4   PEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMH 45

>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 = 41.5 bits (96), Expect = 7e-05
 Identities = 29/270 (10%), Positives = 72/270 (26%), Gaps = 24/270 (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 LNESFADSFKRISEMKMRKGLALVDIVREV 307
             +    + +RI +  +          + +
Sbjct: 234 SGKEIQPTLERIEQKMVLNKHQETPEFKAI 263

>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 = 40.2 bits (93), Expect = 2e-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

>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 = 34.8 bits (80), Expect = 0.002
 Identities = 11/43 (25%), Positives = 21/43 (48%), Gaps = 3/43 (6%)

Query: 265 PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREV 307
           P P  ++++   LL  +  DS + +     +KG + +DIV   
Sbjct: 1   PHPLIVKKM---LLASNLEDSIQILRTDLWKKGYSSIDIVTTS 40

>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 = 0.002
 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 = 0.003
 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	309
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	99.97
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.97
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.96
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.96
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.94
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.88
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.88
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.85
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.84
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.83
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.8
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.79
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.77
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.77
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.71
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.68
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.65
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.64
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.62
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.6
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.57
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.57
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.54
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.41
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.24
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.21
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.2
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	99.06
d1tuea_	205	Replication protein E1 helicase domain {Human papi	98.77
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.67
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	98.38
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.36
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	98.19
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	98.17
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	98.15
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	98.14
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.08
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.06
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.03
d1okkd2	207	GTPase domain of the signal recognition particle r	98.03
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.98
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.96
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.93
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.9
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.85
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.82
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.81
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.81
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.81
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.8
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.77
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.76
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.73
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.71
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.71
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	97.7
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.69
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.69
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.68
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.66
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.64
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.64
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	97.63
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.59
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.57
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.54
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.52
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.52
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.51
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.49
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.47
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.47
d1jqlb_	140	delta subunit of DNA polymerase III, N-domain {Esc	97.47
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.46
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.46
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.44
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.43
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.43
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.43
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	97.42
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.42
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.42
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.39
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.38
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.37
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.36
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	97.35
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.35
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.34
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	97.33
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.32
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.31
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	97.31
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.3
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.3
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.29
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.29
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	97.27
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	97.26
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	97.25
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	97.24
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.22
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.21
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	97.2
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.2
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.19
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.18
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	97.17
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	97.17
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	97.14
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.13
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.13
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	97.1
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.1
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.09
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	97.08
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.08
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	97.07
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.06
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	97.04
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	97.04
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	97.02
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.02
d1nrjb_	209	Signal recognition particle receptor beta-subunit	97.02
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	97.01
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	97.0
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	96.99
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.97
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	96.97
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.96
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.93
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.93
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.91
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	96.9
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	96.9
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.9
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.89
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.89
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	96.88
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.87
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	96.85
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	96.85
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.84
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	96.84
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.82
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.82
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.81
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	96.81
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	96.8
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.79
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	96.78
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.77
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	96.75
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.73
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.71
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.69
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	96.69
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	96.67
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.65
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.64
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.64
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	96.63
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.63
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	96.61
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	96.59
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	96.57
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.57
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.56
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	96.55
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.55
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	96.52
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.52
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	96.5
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	96.46
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	96.46
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	96.42
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	96.39
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.34
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	96.33
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.33
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	96.29
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.26
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.24
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.19
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.15
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.15
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	96.11
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.1
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.1
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.09
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	96.06
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.06
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	96.02
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	96.01
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.98
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.96
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.89
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	95.87
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.85
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.82
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.78
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.76
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	95.75
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.72
d2qw6a1	88	Uncharacterized protein EfaeDRAFT_0938 {Enterococc	95.71
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	95.56
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.48
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.38
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.38
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.38
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.37
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.34
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	95.34
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.34
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.27
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.25
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.18
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	95.06
d1sxjc1	95	Replication factor C3 {Baker's yeast (Saccharomyce	94.97
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.97
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.96
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.96
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	94.87
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	94.79
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.67
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	94.54
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	94.47
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.33
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.3
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.27
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.27
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.25
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.19
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.19
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.13
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	94.1
d1iqpa1	95	Replication factor C {Archaeon Pyrococcus furiosus	94.05
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.02
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.98
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	93.91
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.8
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.79
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.72
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	93.67
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.62
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.6
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.59
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.59
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	93.58
d1z63a1	230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	93.58
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	93.58
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	93.55
d1ys7a2	121	Transcriptional regulatory protein PrrA, N-termina	93.44
d1jr3a1	126	gamma subunit {Escherichia coli [TaxId: 562]}	93.33
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.23
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	93.22
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.16
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	93.12
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	93.1
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.93
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	92.9
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	92.86
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	92.79
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.57
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	92.56
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	92.49
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	92.48
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	92.37
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.28
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	92.05
d1sxjd1	91	Replication factor C2 {Baker's yeast (Saccharomyce	91.68
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	91.42
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	91.32
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	91.25
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	90.95
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	90.92
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	90.91
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	90.31
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	90.3
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	90.14
d1z3ix2	298	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	89.55
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	89.52
d1c4oa1	408	Nucleotide excision repair enzyme UvrB {Thermus th	89.39
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	89.11
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	88.72
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	88.54
d1kgsa2	122	PhoB receiver domain {Thermotoga maritima [TaxId:	87.98
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	87.68
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.48
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	86.6
d1zh2a1	119	Transcriptional regulatory protein KdpE, N-termina	85.86
d2a9pa1	117	DNA-binding response regulator MicA, N-terminal do	85.65
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	85.62
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	85.38
d1krwa_	123	NTRC receiver domain {Salmonella typhimurium [TaxI	85.17
d1f9va_	342	Kinesin motor Ncd (non-claret disjunctional) {Bake	84.36
d1x88a1	345	Kinesin {Human (Homo sapiens), mitotic kinesin eg5	84.18
d2zfia1	349	Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090	83.84
d1dbwa_	123	Transcriptional regulatory protein FixJ, receiver	83.65
d1ny5a1	137	Transcriptional activator sigm54 (NtrC1), N-termin	83.47
d1xhfa1	121	Aerobic respiration control protein ArcA, N-termin	83.21
d1qkka_	140	Transcriptional regulatory protein DctD, receiver	83.08
d1u0sy_	118	CheY protein {Thermotoga maritima [TaxId: 2336]}	82.7
d1tafb_	70	TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta	82.62
d2pl1a1	119	PhoP receiver domain {Escherichia coli [TaxId: 562	82.4
d1p2fa2	120	Response regulator DrrB {Thermotoga maritima [TaxI	82.04
d1v8ka_	362	Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090	81.83
d2ncda_	368	Kinesin motor Ncd (non-claret disjunctional) {Frui	81.37
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	81.11
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	80.97
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	80.86
d1mvoa_	121	PhoP receiver domain {Bacillus subtilis [TaxId: 14	80.56
d1sdma_	364	Kinesin heavy chain-like protein {Potato (Solanum	80.02

>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=2.3e-38  Score=256.81  Aligned_cols=222  Identities=44%  Similarity=0.728  Sum_probs=203.0

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchH
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  119 (309)
                      ..||++||+|.+++|++|+++.++.|..|+..+..++++|+||||+|||++|+.+++++.++.....+.+++..+..+..
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            36899999999999999999999999999999999999999999999999999999999887777889999999888887


Q ss_pred             HHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecC
Q 021660          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP  199 (309)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~  199 (309)
                      .+...+..+..........  ..+++++||+|.+....++.|+..++..+..+.++++++....+.+++++||..++|.+
T Consensus        82 ~i~~~~~~~~~~~~~~~~~--~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~  159 (224)
T d1sxjb2          82 VVRNQIKHFAQKKLHLPPG--KHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSK  159 (224)
T ss_dssp             HHHTHHHHHHHBCCCCCTT--CCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             ehhhHHHHHHHhhccCCCc--ceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcc
Confidence            7777777766554432222  57899999999999999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhhC
Q 021660          200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTG  263 (309)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~  263 (309)
                      |+.+++..++.++++++++.+++++++.|++.++||+|.+++.|+.+....+.++.+.|.+++.
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            9999999999999999999999999999999999999999999999888778999999887764

>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=3.3e-37  Score=250.60  Aligned_cols=220  Identities=55%  Similarity=0.950  Sum_probs=195.8

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHH
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (309)
                      .||+++|+|+++++++|++++++.|..|+..+..++++|+||||+|||++++.+++++.+......+.+.+.....+...
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            58999999999999999999999999999999999999999999999999999999998777777788888887777666


Q ss_pred             HHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCC
Q 021660          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL  200 (309)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~  200 (309)
                      .............. ..  .+.++++|||++.+....++.|+..++..+..+.++++++....+.+.+++||..+.|.++
T Consensus        82 ~~~~~~~~~~~~~~-~~--~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~  158 (227)
T d1sxjc2          82 VRNQIKDFASTRQI-FS--KGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPL  158 (227)
T ss_dssp             HHTHHHHHHHBCCS-SS--CSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             eecchhhccccccc-cC--CCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhccccc
Confidence            55555544433322 11  2567999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-----CCcCHHHHHhhhC
Q 021660          201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       201 ~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                      +.+++..++.+.+..+++.+++++++.|++.+.||+|.+++.|+.+....     +.|+.++|+++++
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     4689999998876

>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=1.8e-36  Score=246.80  Aligned_cols=220  Identities=48%  Similarity=0.855  Sum_probs=196.5

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchH
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  119 (309)
                      ..||+++|+|.+++|++|++++++.+..|+..++.++++|+||||+|||++|+.+++++.++.....++++++....+..
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            47899999999999999999999999999999999999999999999999999999999888788889999988766665


Q ss_pred             HHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecC
Q 021660          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP  199 (309)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~  199 (309)
                      .+.............   ......++++||++.+....++.|+.+++.....+.+|++++....+++++.+||..+.|.+
T Consensus        91 ~~~~~~~~~~~~~~~---~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~  167 (231)
T d1iqpa2          91 VIREKVKEFARTKPI---GGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRP  167 (231)
T ss_dssp             TTHHHHHHHHHSCCG---GGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCC
T ss_pred             HHHHHHHHHHhhhhc---cCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccc
Confidence            555555544333222   12257899999999999999999999999998889999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCCcCHHHHHhhh
Q 021660          200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCT  262 (309)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~  262 (309)
                      ++..++..++++.+.++++.+++++++.|++.++||+|.+++.|+.+....+.++.++|....
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            999999999999999999999999999999999999999999999998888889999887653

>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=7.5e-35  Score=237.91  Aligned_cols=216  Identities=24%  Similarity=0.415  Sum_probs=188.4

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-------------------
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------  102 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------  102 (309)
                      +++||||.+|++++|++++++.+..++..++.++ ++|+||||+|||++|+.+++.+.+..                   
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            6799999999999999999999999999998877 89999999999999999999986532                   


Q ss_pred             ccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021660          103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (309)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  182 (309)
                      ....+.+++.....+.+.++..+..+....     ...+.+++||||+|.+..+.++.|++.|++++..+.||++|+...
T Consensus        82 ~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~-----~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~  156 (239)
T d1njfa_          82 RFVDLIEIDAASRTKVEDTRDLLDNVQYAP-----ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  156 (239)
T ss_dssp             CCTTEEEEETTCSSSHHHHHHHHHSCCCSC-----SSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             CCCeEEEecchhcCCHHHHHHHHHHHHhcc-----ccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCcc
Confidence            123567888777677777766555443221     122568999999999999999999999999999999999999999


Q ss_pred             ccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-CCcCHHHHHhh
Q 021660          183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYLC  261 (309)
Q Consensus       183 ~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~~~  261 (309)
                      ++.+++++||..+.|++++.+++.+++.+.+..++..+++++++.|++.++||+|.+++.|+.+...+ +.|+.++|.++
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            99999999999999999999999999999999999999999999999999999999999998755443 77999999888


Q ss_pred             hC
Q 021660          262 TG  263 (309)
Q Consensus       262 ~~  263 (309)
                      ++
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=3.4e-34  Score=234.17  Aligned_cols=222  Identities=44%  Similarity=0.776  Sum_probs=187.4

Q ss_pred             ChhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-ccccEEEEecCCCcchHH
Q 021660           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDV  120 (309)
Q Consensus        42 ~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~  120 (309)
                      ||+++|+|.++++++|+++.++.+..++.+++.++++|+||||+|||++++.+++++.+.. ........+.....+...
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            7999999999999999999999999999999989999999999999999999999974432 245566677766666555


Q ss_pred             HHHHHHHhhhcccccc-------CCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhccee
Q 021660          121 VRQQIQDFASTQSFSF-------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (309)
Q Consensus       121 ~~~~~~~~~~~~~~~~-------~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~  193 (309)
                      ....+...........       .......+++|||++.+.....+.+...++..+..+.+|++++....+.+++.+||.
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            5544544432221100       112246799999999999999999999999998888999999999999999999999


Q ss_pred             EEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc------CCcCHHHHHhhhC
Q 021660          194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS------QQITEEAVYLCTG  263 (309)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~------~~i~~~~v~~~~~  263 (309)
                      .+.|.+++.+++..+|+.++.++++.+++++++.|++.++||+|.+++.|+.++...      +.||.++|+++++
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            999999999999999999999999999999999999999999999999998775432      4699999988765

>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=99.97  E-value=3.2e-30  Score=212.29  Aligned_cols=208  Identities=32%  Similarity=0.609  Sum_probs=161.1

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHhcCC-CCeEEEECCCCCcHHHHHHHHHHHHccCcccc----------------
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHN----------------  105 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~----------------  105 (309)
                      |+|||+|.++++++|++++.+.+..++.... .++++|+||||+|||++|+++++.+.......                
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            9999999999999999999999999987664 55699999999999999999999974432111                


Q ss_pred             --------cEEEEecCCC--cchHHHHHHHHHhhhccccc-----cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcC
Q 021660          106 --------MILELNASDD--RGIDVVRQQIQDFASTQSFS-----FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK  170 (309)
Q Consensus       106 --------~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~  170 (309)
                              ....+.....  .........+..........     ........+++|||+|.+....++.|.+.++.++.
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  01111222222222111110     00112467999999999999999999999999998


Q ss_pred             CceEEEEecCCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhcCCHHHHHHHHHHHHhh
Q 021660          171 NTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRKALNILQSTHMA  249 (309)
Q Consensus       171 ~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~l~~i~~~~~g~~r~~~~~l~~~~~~  249 (309)
                      ++.||++|+....+++++++||..++|++|+.+++.+++..++..+++.++ +++++.|+..+.||+|.+++.||.++..
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 6888999999999999999999988765


Q ss_pred             c
Q 021660          250 S  250 (309)
Q Consensus       250 ~  250 (309)
                      +
T Consensus       241 ~  241 (252)
T d1sxje2         241 N  241 (252)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=5.1e-30  Score=211.25  Aligned_cols=217  Identities=23%  Similarity=0.401  Sum_probs=169.5

Q ss_pred             cChhhhcCCCCccccccChHHHHHHHHHHhc-----------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        41 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~-----------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      ..|.++|+|.++++++|+++.++.|..++..                 +..++++|+||||||||++|+++|+++     
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            4699999999999999999999999998853                 233569999999999999999999998     


Q ss_pred             cccEEEEecCCCcchHHHHHHHHHhhhccccc---------cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-cCCce
Q 021660          104 HNMILELNASDDRGIDVVRQQIQDFASTQSFS---------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-TKNTR  173 (309)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-~~~~~  173 (309)
                      +..+..++.........+...+..........         ........++++||++.+....+..+..+++.. .....
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~  156 (253)
T d1sxja2          77 GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTP  156 (253)
T ss_dssp             TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSC
T ss_pred             HhhhhccccccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhcccccc
Confidence            66778888877666655555444333322110         112235779999999999877666655555532 22345


Q ss_pred             EEEEec-CCcccchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcCC
Q 021660          174 FALICN-QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQ  252 (309)
Q Consensus       174 ~i~~~~-~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~~~  252 (309)
                      ++++++ ......+.+.+|+..++|.+|+.+++..+++.++.++++.+++++++.|++.++||+|.+++.|+.++...+.
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            555554 3444566788999999999999999999999999999999999999999999999999999999998887777


Q ss_pred             cCHHHHHhhh
Q 021660          253 ITEEAVYLCT  262 (309)
Q Consensus       253 i~~~~v~~~~  262 (309)
                      ++.+.+.+..
T Consensus       237 i~~~~~~~~~  246 (253)
T d1sxja2         237 INHENINEIS  246 (253)
T ss_dssp             CCTTHHHHHH
T ss_pred             CCHHHHHHHh
Confidence            8877665443

>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=2.1e-27  Score=193.61  Aligned_cols=200  Identities=17%  Similarity=0.253  Sum_probs=165.0

Q ss_pred             cCCCCccccccChHHHHHHHHHHh-----cCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH
Q 021660           47 YRPQSLADVAAHRDIVDTIDRLTS-----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (309)
Q Consensus        47 ~~p~~~~~~ig~~~~~~~l~~~~~-----~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (309)
                      .||++|++++|++++++.+..|+.     +...+++||+||||||||++|+.+++++     +..+..++.........+
T Consensus         3 ~RP~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~-----~~~~~~~~~~~~~~~~~~   77 (238)
T d1in4a2           3 LRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL-----QTNIHVTSGPVLVKQGDM   77 (238)
T ss_dssp             TSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH-----TCCEEEEETTTCCSHHHH
T ss_pred             CCCCcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc-----CCCcccccCcccccHHHH
Confidence            689999999999999999998875     3345779999999999999999999998     566777777766555554


Q ss_pred             HHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh------------------cCCceEEEEecCCcc
Q 021660          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY------------------TKNTRFALICNQVNK  183 (309)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~------------------~~~~~~i~~~~~~~~  183 (309)
                      ...+...           ..+.++++||++.+.+..++.+...++..                  ...+++|++|+....
T Consensus        78 ~~~~~~~-----------~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~  146 (238)
T d1in4a2          78 AAILTSL-----------ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGL  146 (238)
T ss_dssp             HHHHHHC-----------CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGG
T ss_pred             HHHHHhh-----------ccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCcc
Confidence            4433321           14678999999999988888888887752                  235678888999999


Q ss_pred             cchhhhcce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhh-----cCCcCHHH
Q 021660          184 IIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-----SQQITEEA  257 (309)
Q Consensus       184 l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~-----~~~i~~~~  257 (309)
                      ..+.+++|| ..+.|++++.+++..+++..+..++..++++++..+++.+.||+|.+++.|+.+...     .+.||.+.
T Consensus       147 ~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~s~gd~R~ai~~l~~~~~~~~~~~~~~it~~~  226 (238)
T d1in4a2         147 LSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTDI  226 (238)
T ss_dssp             SCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSSBCHHH
T ss_pred             ccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccchhhHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcCCccCHHH
Confidence            999999998 668999999999999999999999999999999999999999999999999876432     25678777


Q ss_pred             HHhhh
Q 021660          258 VYLCT  262 (309)
Q Consensus       258 v~~~~  262 (309)
                      +.+++
T Consensus       227 ~~~al  231 (238)
T d1in4a2         227 VLKTM  231 (238)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76665

>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=99.96  E-value=6e-27  Score=190.99  Aligned_cols=201  Identities=18%  Similarity=0.244  Sum_probs=161.4

Q ss_pred             cCCCCccccccChHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH
Q 021660           47 YRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (309)
Q Consensus        47 ~~p~~~~~~ig~~~~~~~l~~~~~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (309)
                      .||++|++++|++++++.+..++..     ...+++||+||||||||++|+.+++++     ...+...+..........
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            4899999999999999999988753     245679999999999999999999998     666777777765544443


Q ss_pred             HHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh------------------cCCceEEEEecCCcc
Q 021660          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY------------------TKNTRFALICNQVNK  183 (309)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~------------------~~~~~~i~~~~~~~~  183 (309)
                      ...+....          ....++++||++.+.+..++.++..++..                  ++..++|++++....
T Consensus        78 ~~~~~~~~----------~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  147 (239)
T d1ixsb2          78 AAILANSL----------EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGL  147 (239)
T ss_dssp             HHHHHTTC----------CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSS
T ss_pred             HHHHHhhc----------cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCccc
Confidence            33333221          14579999999999999999999999852                  234556666666554


Q ss_pred             -cchhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc-----CCcCHHH
Q 021660          184 -IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQITEEA  257 (309)
Q Consensus       184 -l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~-----~~i~~~~  257 (309)
                       ..+.+.+++..+.|.+++.+++..++...+..+++.++++.+..+++.+.||+|.+++.|+.+...+     +.||.+.
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             4456666779999999999999999999999999999999999999999999999999998875432     4588887


Q ss_pred             HHhhh
Q 021660          258 VYLCT  262 (309)
Q Consensus       258 v~~~~  262 (309)
                      +.+++
T Consensus       228 ~~~~l  232 (239)
T d1ixsb2         228 ALEAL  232 (239)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77665

>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=99.94  E-value=3.8e-26  Score=181.28  Aligned_cols=177  Identities=25%  Similarity=0.349  Sum_probs=146.6

Q ss_pred             ChHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCc-------------------ccccEEEEecCC---
Q 021660           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNASD---  114 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------~~~~~~~~~~~~---  114 (309)
                      +....+.+.+.+..++.++ ++|+||+|+|||++++.+++.+.+..                   ....+..+....   
T Consensus         7 ~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~   86 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKN   86 (207)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCS
T ss_pred             cHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhccc
Confidence            5688999999999999888 99999999999999999999986432                   233444554332   


Q ss_pred             CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeE
Q 021660          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (309)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~  194 (309)
                      ....+.++..+..+....     ...+.+++||||+|.+..+.++.|++.||+++.++.||++|+...++.+++++||..
T Consensus        87 ~i~~~~ir~l~~~~~~~~-----~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~  161 (207)
T d1a5ta2          87 TLGVDAVREVTEKLNEHA-----RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRL  161 (207)
T ss_dssp             SBCHHHHHHHHHHTTSCC-----TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             ccccchhhHHhhhhhhcc-----ccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEE
Confidence            234556665555443221     122688999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 021660          195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (309)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~  244 (309)
                      +.|.+++.+++..+++.     ...++++++..+++.++|++|.+++.||
T Consensus       162 i~~~~~~~~~~~~~L~~-----~~~~~~~~~~~i~~~s~Gs~r~al~~le  206 (207)
T d1a5ta2         162 HYLAPPPEQYAVTWLSR-----EVTMSQDALLAALRLSAGSPGAALALFQ  206 (207)
T ss_dssp             EECCCCCHHHHHHHHHH-----HCCCCHHHHHHHHHHTTTCHHHHHHTTS
T ss_pred             EecCCCCHHHHHHHHHH-----cCCCCHHHHHHHHHHcCCCHHHHHHHhC
Confidence            99999999999998864     4578999999999999999999998764

>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=99.88  E-value=3.5e-22  Score=161.94  Aligned_cols=201  Identities=21%  Similarity=0.264  Sum_probs=137.3

Q ss_pred             CccccccChHHHHHHHHHHh-----------cCC-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc-
Q 021660           51 SLADVAAHRDIVDTIDRLTS-----------ENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-  117 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~-----------~~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-  117 (309)
                      +|++++|.+.+++.|.+.+.           +.. +.++||+||||||||++|+++++++     +..++.+++..... 
T Consensus         7 ~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~-----~~~~~~i~~~~l~~~   81 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITASGSDFVEM   81 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEHHHHHHS
T ss_pred             cHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc-----CCCEEEEEhHHhhhc
Confidence            78999999999888776542           112 2349999999999999999999997     67777777654211 


Q ss_pred             -hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHHHHhcC--CceEEEEecC
Q 021660          118 -IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYTK--NTRFALICNQ  180 (309)
Q Consensus       118 -~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l~~~~~--~~~~i~~~~~  180 (309)
                       .....+.+.......     ....+.||+|||+|.+...              ..+.|+..|+....  .+.+|++||.
T Consensus        82 ~~g~~~~~l~~~f~~a-----~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~  156 (247)
T d1ixza_          82 FVGVGAARVRDLFETA-----KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNR  156 (247)
T ss_dssp             CTTHHHHHHHHHHHHH-----TTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESC
T ss_pred             cccHHHHHHHHHHHHH-----HHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCC
Confidence             111122233222211     1115789999999876321              23456666765433  4456668899


Q ss_pred             Ccccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHHhh-----cC
Q 021660          181 VNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHMA-----SQ  251 (309)
Q Consensus       181 ~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~~~-----~~  251 (309)
                      ++.+++++++  || ..++|++|+.++..++++.++...... .+..++.+++.+.| ..+.+.++++.+...     .+
T Consensus       157 ~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~-~~~~~~~la~~t~g~s~~di~~lv~~A~l~a~~~~~~  235 (247)
T d1ixza_         157 PDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLA-EDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRR  235 (247)
T ss_dssp             GGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTCS
T ss_pred             ccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCc-cccCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcCCC
Confidence            9999999985  78 789999999999999999988765543 33457889998876 333444444443322     25


Q ss_pred             CcCHHHHHhhh
Q 021660          252 QITEEAVYLCT  262 (309)
Q Consensus       252 ~i~~~~v~~~~  262 (309)
                      .|+.+++.+++
T Consensus       236 ~i~~~d~~~A~  246 (247)
T d1ixza_         236 KITMKDLEEAA  246 (247)
T ss_dssp             SBCHHHHHHHT
T ss_pred             CcCHHHHHHhh
Confidence            78888888775

>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=99.88  E-value=2e-21  Score=158.08  Aligned_cols=200  Identities=19%  Similarity=0.226  Sum_probs=140.0

Q ss_pred             CCCCccccccChHHHHHHHHHHh-----------cC-CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           48 RPQSLADVAAHRDIVDTIDRLTS-----------EN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        48 ~p~~~~~~ig~~~~~~~l~~~~~-----------~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ...+|+|++|.+..++.+.+.+.           +. .+.++||+||||||||++|+.+|+++     +..++.+++...
T Consensus         7 ~~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~-----~~~~~~i~~~~l   81 (256)
T d1lv7a_           7 IKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFTISGSDF   81 (256)
T ss_dssp             SCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH-----TCCEEEECSCSS
T ss_pred             CCCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc-----CCCEEEEEhHHh
Confidence            34578999999999998876542           11 23349999999999999999999998     777888887653


Q ss_pred             c------chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH-----------H---HHHHHHHHHHHhc--CCce
Q 021660          116 R------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------D---AQFALRRVIEKYT--KNTR  173 (309)
Q Consensus       116 ~------~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~-----------~---~~~~l~~~l~~~~--~~~~  173 (309)
                      .      ....+...+.....         ..+.+|+|||+|.+..           .   ..+.|+..++...  ....
T Consensus        82 ~~~~~g~~~~~l~~~f~~A~~---------~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~  152 (256)
T d1lv7a_          82 VEMFVGVGASRVRDMFEQAKK---------AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGII  152 (256)
T ss_dssp             TTSCCCCCHHHHHHHHHHHHT---------TCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEE
T ss_pred             hhcchhHHHHHHHHHHHHHHH---------cCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEE
Confidence            2      22334444433321         1578999999987632           1   2355667776443  3456


Q ss_pred             EEEEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHHhh
Q 021660          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHMA  249 (309)
Q Consensus       174 ~i~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~~~  249 (309)
                      +|++||.++.+++++++  || ..+.|++|+.++..++++.++.+.... .+..+..+++.+.| ..+.+.++++.+...
T Consensus       153 vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G~s~adi~~l~~~A~~~  231 (256)
T d1lv7a_         153 VIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADLANLVNEAALF  231 (256)
T ss_dssp             EEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHH
T ss_pred             EEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcC-cccCHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence            77788999999999986  78 889999999999999999888766544 34567888888876 344444445443322


Q ss_pred             c-----CCcCHHHHHhhh
Q 021660          250 S-----QQITEEAVYLCT  262 (309)
Q Consensus       250 ~-----~~i~~~~v~~~~  262 (309)
                      +     ..++.+++..++
T Consensus       232 a~~~~~~~i~~~d~~~Al  249 (256)
T d1lv7a_         232 AARGNKRVVSMVEFEKAK  249 (256)
T ss_dssp             HHHTTCSSBCHHHHHHHH
T ss_pred             HHHcCCCccCHHHHHHHH
Confidence            1     357777776654

>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=99.85  E-value=1.6e-20  Score=146.91  Aligned_cols=136  Identities=17%  Similarity=0.225  Sum_probs=112.8

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC-cccccEEEEecCC-CcchHHHHHHHHHhhhccccccCC
Q 021660           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNASD-DRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        61 ~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      .++.+++++..+.+++++|+||+|+|||+++..+++.+... ....++..+.+.. ..+.+.++.....+...+.     
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~-----   76 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPE-----   76 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCS-----
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCcc-----
Confidence            36778899999888889999999999999999999987443 2345677777643 3577888876555443321     


Q ss_pred             CCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCC
Q 021660          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLE  201 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~~~i~~~~~~  201 (309)
                      ..+++|++|||+|.+..+++++|++.||+++.++.||++|+....+.+++++||+.+.|++|.
T Consensus        77 ~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p~  139 (198)
T d2gnoa2          77 LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPK  139 (198)
T ss_dssp             SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCH
T ss_pred             cCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCch
Confidence            126789999999999999999999999999999999999999999999999999999997664

>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=99.84  E-value=1.4e-19  Score=148.01  Aligned_cols=182  Identities=20%  Similarity=0.270  Sum_probs=127.4

Q ss_pred             CccccccChHHHHHHHHHHh------------cCCC-CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC--
Q 021660           51 SLADVAAHRDIVDTIDRLTS------------ENRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~------------~~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (309)
                      .|++++|.+..++.+.+.+.            +... ..+||+||||||||++++++++++     ...+..+++...  
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            58899999999999888753            1122 349999999999999999999997     677777775431  


Q ss_pred             ----cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHH-----------HHHHHHHHHHh--cCCceEEEEe
Q 021660          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA-----------QFALRRVIEKY--TKNTRFALIC  178 (309)
Q Consensus       116 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~-----------~~~l~~~l~~~--~~~~~~i~~~  178 (309)
                          .....+...+......         .+.+|+|||+|.+....           ...++..+...  .....+|++|
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                1122333333322211         57899999999986431           23344444432  2345677789


Q ss_pred             cCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q 021660          179 NQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTH  247 (309)
Q Consensus       179 ~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~  247 (309)
                      |.++.+++++++  || ..++|++|+.++...+++..++..... ++..++.|++.+.| ..+.+.++++.++
T Consensus       148 n~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G~s~adl~~lv~~A~  219 (258)
T d1e32a2         148 NRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAALCSEAA  219 (258)
T ss_dssp             SCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBC-TTCCHHHHHHHCTTCCHHHHHHHHHHHH
T ss_pred             CCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccc-cccchhhhhhcccCCCHHHHHHHHHHHH
Confidence            999999999987  78 889999999999999999887654332 23357899999977 3444444544443

>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=99.83  E-value=1.2e-18  Score=143.82  Aligned_cols=220  Identities=19%  Similarity=0.245  Sum_probs=148.9

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~~~------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (309)
                      ..++...|.|.   .++|++..++.+..++..      ..+++++|+||||||||++++.+++.+.... ...++.+++.
T Consensus         6 ~~~l~~~y~p~---~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~-~~~~~~~~~~   81 (276)
T d1fnna2           6 DSVFSPSYVPK---RLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGF   81 (276)
T ss_dssp             GGGGSTTCCCS---CCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETT
T ss_pred             cccCCCCCCCC---CCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhccc-CCcEEEecch
Confidence            34577888885   468999888888777753      2345699999999999999999999985432 4455555554


Q ss_pred             CCcchHHHHHHHHHhhhccccc---------------cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHH---h-cCCceE
Q 021660          114 DDRGIDVVRQQIQDFASTQSFS---------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEK---Y-TKNTRF  174 (309)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~---~-~~~~~~  174 (309)
                      ......................               ........++++|+++.+.......+..++..   . .....+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (276)
T d1fnna2          82 IYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIAL  161 (276)
T ss_dssp             TCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEE
T ss_pred             hhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEE
Confidence            4332222211111111000000               00112466888999999887766655554442   2 234456


Q ss_pred             EEEecCC---cccchhhhcce--eEEEecCCChHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHh---------cCCHHH
Q 021660          175 ALICNQV---NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLC---------NGDMRK  238 (309)
Q Consensus       175 i~~~~~~---~~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~l~~i~~~~---------~g~~r~  238 (309)
                      |++++..   ..+.+.+.+|+  ..+.|++++.+++.++++++++..  ...+++++++.+++.+         .||+|.
T Consensus       162 i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~~~G~~R~  241 (276)
T d1fnna2         162 VIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARL  241 (276)
T ss_dssp             EEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHH
T ss_pred             eecCCchhhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhhcCCCHHH
Confidence            6666653   34566777776  668999999999999999998874  3458999999999875         699999


Q ss_pred             HHHHHHHHHhhc-----CCcCHHHHHhhhC
Q 021660          239 ALNILQSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       239 ~~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                      ++++|+.+...+     ..|+.++|+++..
T Consensus       242 a~~ll~~a~~~A~~~~~~~I~~edv~~A~~  271 (276)
T d1fnna2         242 AIDILYRSAYAAQQNGRKHIAPEDVRKSSK  271 (276)
T ss_dssp             HHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            999998876543     4789999887754

>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=99.80  E-value=1.2e-18  Score=137.99  Aligned_cols=186  Identities=15%  Similarity=0.232  Sum_probs=130.0

Q ss_pred             Cccccc-c--ChHHHHHHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHH---
Q 021660           51 SLADVA-A--HRDIVDTIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR---  122 (309)
Q Consensus        51 ~~~~~i-g--~~~~~~~l~~~~~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---  122 (309)
                      +|++++ |  +..+...+.+++......  .++|+||+|+|||+|++++++++...+....++............+.   
T Consensus         8 tFdnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (213)
T d1l8qa2           8 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGT   87 (213)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTC
T ss_pred             ChhhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHHccc
Confidence            566765 4  566677778877654332  39999999999999999999998665554333321111100000000   


Q ss_pred             -HHHHHhhhccccccCCCCccEEEEEeCCCCCC--HHHHHHHHHHHHHhc-CCceEEEEecCCc----ccchhhhcce--
Q 021660          123 -QQIQDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSRC--  192 (309)
Q Consensus       123 -~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~--~~~~~~l~~~l~~~~-~~~~~i~~~~~~~----~l~~~l~~r~--  192 (309)
                       ..+.....          ...+|+|||+|.+.  +..+..|+.+++... ....+|++++..+    ...+.+.+|+  
T Consensus        88 ~~~~~~~~~----------~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~  157 (213)
T d1l8qa2          88 INEFRNMYK----------SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEG  157 (213)
T ss_dssp             HHHHHHHHH----------TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHT
T ss_pred             hhhHHHHHh----------hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhC
Confidence             01111111          35799999999986  456778899988643 5667777775443    3567888885  


Q ss_pred             -eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 021660          193 -TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM  248 (309)
Q Consensus       193 -~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~  248 (309)
                       .++.++ |+.++..+++++++...|+.++++++++|++++ .++|.+...|..+.+
T Consensus       158 g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~-~~~R~L~~~l~~l~l  212 (213)
T d1l8qa2         158 GILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIKL  212 (213)
T ss_dssp             SEEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHHH
T ss_pred             ceEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc-CcHHHHHHHHHHhhc
Confidence             677785 677889999999999999999999999999998 589988888877653

>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=99.79  E-value=6.8e-18  Score=140.10  Aligned_cols=221  Identities=18%  Similarity=0.214  Sum_probs=140.1

Q ss_pred             CcChhhhcCCCCccccccChHHHHHHHHHH----hcCCCC-----eEEEECCCCCcHHHHHHHHHHHHccCc----cccc
Q 021660           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLT----SENRLP-----HLLLYGPPGTGKTSTILAVARKLYGAQ----YHNM  106 (309)
Q Consensus        40 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~~----~~~~~~-----~~ll~G~~G~GKT~l~~~l~~~~~~~~----~~~~  106 (309)
                      ..+|.++|.|.   .++|++..++.+..++    ..+..+     .++|+||||||||++++.+++++....    ....
T Consensus         6 ~~~l~~~~~P~---~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~   82 (287)
T d1w5sa2           6 RRVFDENYIPP---ELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVK   82 (287)
T ss_dssp             GGGGSTTCCCS---SCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEE
T ss_pred             hhhcCCccCCC---CCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCce
Confidence            34577889885   4567777777666554    333222     267789999999999999999985322    2234


Q ss_pred             EEEEecCCCcchHHHHHHHHHhhhccccc---------------cCCCCccEEEEEeCCCCCC------HHHHHHHHHHH
Q 021660          107 ILELNASDDRGIDVVRQQIQDFASTQSFS---------------FGVKASVKLVLLDEADAMT------KDAQFALRRVI  165 (309)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~lliiDe~~~l~------~~~~~~l~~~l  165 (309)
                      +..+++.......................               ........++++|+++.+.      .+....+..++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~  162 (287)
T d1w5sa2          83 QAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVH  162 (287)
T ss_dssp             EEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHH
T ss_pred             eeeeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHH
Confidence            44444433222211111111000000000               0011246688999988663      33445555555


Q ss_pred             HHhc-----CCceEEEEecCCc------ccchhhhcce-eEEEecCCChHHHHHHHHHHHHHc--CCCCCHHHHHHHHHH
Q 021660          166 EKYT-----KNTRFALICNQVN------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRL  231 (309)
Q Consensus       166 ~~~~-----~~~~~i~~~~~~~------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~l~~i~~~  231 (309)
                      +...     ....+|++++...      ...+.+.+|+ ..++|++++.+++.++++.+++..  ...+++++++.+++.
T Consensus       163 ~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~  242 (287)
T d1w5sa2         163 EEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDV  242 (287)
T ss_dssp             HHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHH
T ss_pred             HhcchhhcccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHH
Confidence            5432     2345566665443      2235566665 889999999999999999998764  345899999999998


Q ss_pred             h------cCCHHHHHHHHHHHHhhc-----CCcCHHHHHhhhC
Q 021660          232 C------NGDMRKALNILQSTHMAS-----QQITEEAVYLCTG  263 (309)
Q Consensus       232 ~------~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (309)
                      +      .|++|.++++|+.+...+     +.|+.++|++++.
T Consensus       243 ~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~~  285 (287)
T d1w5sa2         243 YGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVS  285 (287)
T ss_dssp             HCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             HhccccCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            7      699999999998776433     6799999988764

>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=99.77  E-value=3.9e-19  Score=145.70  Aligned_cols=183  Identities=19%  Similarity=0.248  Sum_probs=120.6

Q ss_pred             CccccccChHHHHHHHHHHhc-----------C-C-CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC--
Q 021660           51 SLADVAAHRDIVDTIDRLTSE-----------N-R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~-----------~-~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (309)
                      +|++++|.+++++.+.+.+..           + . ..++||+||||||||++++++|+++     +..++.+++...  
T Consensus         5 ~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~-----~~~~~~~~~~~l~~   79 (265)
T d1r7ra3           5 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC-----QANFISIKGPELLT   79 (265)
T ss_dssp             SCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT-----TCEEEEECHHHHHT
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh-----CCcEEEEEHHHhhh
Confidence            789999988887777766421           2 1 2349999999999999999999998     677777765431  


Q ss_pred             ----cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------------HHHHHHHHHHHh--cCCceEE
Q 021660          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKY--TKNTRFA  175 (309)
Q Consensus       116 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------------~~~~l~~~l~~~--~~~~~~i  175 (309)
                          .....+...+......         .+.+|+|||+|.+...              ..+.|+..++..  .....+|
T Consensus        80 ~~~~~~~~~l~~~f~~A~~~---------~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi  150 (265)
T d1r7ra3          80 MWFGESEANVREIFDKARQA---------APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFII  150 (265)
T ss_dssp             SCTTTHHHHHHHHHHHHHHT---------CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEE
T ss_pred             ccccchHHHHHHHHHHHHhc---------CCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEE
Confidence                1122233333322211         5789999999988632              123444444332  2345677


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 021660          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM  248 (309)
Q Consensus       176 ~~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~~g-~~r~~~~~l~~~~~  248 (309)
                      ++||.++.+++++.+  || ..++|++|+.++..++++..++..... .+..+..+++.+.| +.+.+.++++.+..
T Consensus       151 ~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~g~s~~di~~lv~~A~~  226 (265)
T d1r7ra3         151 GATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQRACK  226 (265)
T ss_dssp             ECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC-----CCCCHHHHHHHCSSCCHHHHHHHHHHHH
T ss_pred             EeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCch-hhhhHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence            788999999999976  77 789999999999999998776543221 22356788888765 33444444444433

>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=99.77  E-value=2.5e-17  Score=133.45  Aligned_cols=201  Identities=13%  Similarity=0.137  Sum_probs=144.3

Q ss_pred             hhhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCCC--
Q 021660           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD--  115 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~--  115 (309)
                      +++..+...++.++|+++.++.+...+......+++|.||||+|||++++.+++.+....     ....+..++....  
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            555666777888999999999999999988888899999999999999999999985432     2334555554321  


Q ss_pred             --cchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH-----HHHHHHHHHHHh--cCCceEEEEecC-----C
Q 021660          116 --RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----AQFALRRVIEKY--TKNTRFALICNQ-----V  181 (309)
Q Consensus       116 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~-----~~~~l~~~l~~~--~~~~~~i~~~~~-----~  181 (309)
                        .....+.+.+.........     .+..|++|||++.+...     ....+.+++...  .....+|.+|+.     .
T Consensus        88 g~~~~g~~e~r~~~i~~~~~~-----~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~i~vIgatT~eey~~~  162 (268)
T d1r6bx2          88 GTKYRGDFEKRFKALLKQLEQ-----DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNI  162 (268)
T ss_dssp             CCCCSSCHHHHHHHHHHHHSS-----SSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHCC
T ss_pred             cCccchhHHHHHHHHHHHhhc-----cCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCCCeEEEeCCHHHHHHH
Confidence              1223444444444332211     15678999999998421     112334444322  235567776643     2


Q ss_pred             cccchhhhcceeEEEecCCChHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHhc------CCHHHHHHHHHHHHh
Q 021660          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE----AEGLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (309)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~l~~i~~~~~------g~~r~~~~~l~~~~~  248 (309)
                      ....++|.+||+.+.+.+|+.++...++.....    .+++.++++++..+++.+.      ..|.+++++|+.++.
T Consensus       163 ~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~~~~e~~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAIdllDea~a  239 (268)
T d1r6bx2         163 FEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGA  239 (268)
T ss_dssp             CCCTTSSGGGEEEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHHHHH
T ss_pred             HhhcHHHHhhhcccccCCCCHHHHHHHHHHhhHHHhccCCEEeChHHHHHHHHHHHhhccCCCCCcHHHHHHHHHHH
Confidence            345788999999999999999999999876443    4689999999999998873      679999999987764

>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=99.71  E-value=7.9e-17  Score=137.70  Aligned_cols=200  Identities=15%  Similarity=0.192  Sum_probs=136.6

Q ss_pred             hhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCCCcch
Q 021660           44 VEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDDRGI  118 (309)
Q Consensus        44 ~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~~~~  118 (309)
                      ++..+-..++.++|++..++.+...+.+....+.+|.||||+|||+++..+|+.+....     .+..+..++.......
T Consensus        13 ~~~a~~g~ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag   92 (387)
T d1qvra2          13 TRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAG   92 (387)
T ss_dssp             HHHHHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------
T ss_pred             HHHHHcCCCCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcc
Confidence            34445667888999999999999999988888899999999999999999999875432     2345666665543221


Q ss_pred             ----HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH--------HHHHHHHHHHHHhcCCceEEEEecCCc----
Q 021660          119 ----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------DAQFALRRVIEKYTKNTRFALICNQVN----  182 (309)
Q Consensus       119 ----~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~--------~~~~~l~~~l~~~~~~~~~i~~~~~~~----  182 (309)
                          ..+...+........    ...++.||+|||++.+..        +..+.|..+|..  ....+|.+|+...    
T Consensus        93 ~~~~g~~e~r~~~i~~~~~----~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~r--g~~~~I~~tT~~ey~~~  166 (387)
T d1qvra2          93 AKYRGEFEERLKAVIQEVV----QSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEYREI  166 (387)
T ss_dssp             -----CHHHHHHHHHHHHH----TTCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHHHHH
T ss_pred             cCcchhHHHHHHHHHHHhc----cCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhC--CCcceeeecCHHHHHHh
Confidence                233334433322211    111356899999999853        224566777764  3566777764221    


Q ss_pred             ccchhhhcceeEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHh------cCCHHHHHHHHHHHHhh
Q 021660          183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLC------NGDMRKALNILQSTHMA  249 (309)
Q Consensus       183 ~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~i~~~~------~g~~r~~~~~l~~~~~~  249 (309)
                      .-+++|.+||+.|.+.+|+.++...+|+....+    +++.++++++..+++.+      ..-|..++++|+.++..
T Consensus       167 e~d~al~rrF~~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~a~a~  243 (387)
T d1qvra2         167 EKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAAR  243 (387)
T ss_dssp             TTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHHH
T ss_pred             cccHHHHHhcccccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccChhhHHHHHHHHHHH
Confidence            336789999999999999999999998876554    58999999999999987      36899999999887753

>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=99.68  E-value=6.8e-16  Score=124.64  Aligned_cols=155  Identities=15%  Similarity=0.208  Sum_probs=95.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc---chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA  152 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~  152 (309)
                      ++||+||||||||++|+++|+++     +..++.+++....   ........+.+......     +..+.+|+|||+|.
T Consensus        42 ~vLL~GppGtGKT~la~alA~~~-----~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~-----~~~p~il~iDEid~  111 (246)
T d1d2na_          42 SVLLEGPPHSGKTALAAKIAEES-----NFPFIKICSPDKMIGFSETAKCQAMKKIFDDAY-----KSQLSCVVVDDIER  111 (246)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-----TCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHH-----TSSEEEEEECCHHH
T ss_pred             EEEEECcCCCCHHHHHHHHhhcc-----cccccccccccccccccccchhhhhhhhhhhhh-----hcccceeehhhhhh
Confidence            39999999999999999999998     6777887765321   11111122222221111     11578999999987


Q ss_pred             CC----------HHHHHHHHHHHHHhcC---CceEEEEecCCcccchh-hhcce-eEEEecCCC-hHHHHHHHHHHHHHc
Q 021660          153 MT----------KDAQFALRRVIEKYTK---NTRFALICNQVNKIIPA-LQSRC-TRFRFAPLE-PVHVTERLKHVIEAE  216 (309)
Q Consensus       153 l~----------~~~~~~l~~~l~~~~~---~~~~i~~~~~~~~l~~~-l~~r~-~~i~~~~~~-~~~~~~~l~~~~~~~  216 (309)
                      +.          ....+.|+..++....   .+.+|++||.++.+++. +.+|| ..++++.++ .+++.+++..    .
T Consensus       112 l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~~rF~~~i~~P~~~~r~~il~~l~~----~  187 (246)
T d1d2na_         112 LLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALEL----L  187 (246)
T ss_dssp             HTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHH----H
T ss_pred             HhhhcccccchhHHHHHHHHHHhcCCCccccceeeeeccCChhhccchhhcCccceEEecCCchhHHHHHHHHHh----c
Confidence            63          2234556666665432   23566678887777654 66788 667775443 3344444432    2


Q ss_pred             CCCCCHHHHHHHHHHhcC-----CHHHHHHHHHH
Q 021660          217 GLDVTEGGLAALVRLCNG-----DMRKALNILQS  245 (309)
Q Consensus       217 ~~~~~~~~l~~i~~~~~g-----~~r~~~~~l~~  245 (309)
                       ..++......+++.+.|     .++.++..++.
T Consensus       188 -~~~~~~~~~~i~~~~~g~~~~~~ik~ll~~ie~  220 (246)
T d1d2na_         188 -GNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEM  220 (246)
T ss_dssp             -TCSCHHHHHHHHHHHTTSEEEECHHHHHHHHHH
T ss_pred             -cCCChHHHHHHHHHcCCCccchhHHHHHHHHHH
Confidence             25677777888888766     35555555443

>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=99.65  E-value=5.1e-15  Score=119.42  Aligned_cols=205  Identities=18%  Similarity=0.161  Sum_probs=137.0

Q ss_pred             ccccChHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhc
Q 021660           54 DVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (309)
                      ++||+...++.+.+.+....  ..+++|+|++||||+.+|+.+....  ......++.+++....... ..+.+......
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s--~~~~~~~~~~~~~~~~~~~-~~~~lfg~~~~   77 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS--DRSKEPFVALNVASIPRDI-FEAELFGYEKG   77 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS--TTTTSCEEEEETTTSCHHH-HHHHHHCBCTT
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc--CCcccccccchhhhhhhcc-cHHHhcCcccC
Confidence            57899888887777765431  2339999999999999999998753  3334566777776643322 22222211110


Q ss_pred             cccc-------cCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------ccch
Q 021660          132 QSFS-------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KIIP  186 (309)
Q Consensus       132 ~~~~-------~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~~i~~~~~~~-------~l~~  186 (309)
                      ....       .-.+++++.|+|||++.++...+..|+.+++...           .++++|++++...       .+.+
T Consensus        78 ~~~~~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~~l~~l~~~~~f~~  157 (247)
T d1ny5a2          78 AFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGKFRE  157 (247)
T ss_dssp             SSTTCCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTSSCH
T ss_pred             CcCCcccccCCHHHccCCCEEEEeChHhCCHHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCCCHHHHHHcCCCcH
Confidence            0000       0011245689999999999999999999998532           2456888776432       3455


Q ss_pred             hhhcce--eEEEecCCC--hHHHHHHHHHHHH----HcCC---CCCHHHHHHHHHHh-cCCHHHHHHHHHHHHhhc--CC
Q 021660          187 ALQSRC--TRFRFAPLE--PVHVTERLKHVIE----AEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQ  252 (309)
Q Consensus       187 ~l~~r~--~~i~~~~~~--~~~~~~~l~~~~~----~~~~---~~~~~~l~~i~~~~-~g~~r~~~~~l~~~~~~~--~~  252 (309)
                      .+..|+  ..+.++|+.  .+++..++...+.    +.+.   .+++++++.+..+. +||++.+.+.++.+...+  +.
T Consensus       158 ~L~~~l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~~~~WPGNl~EL~~~l~~a~~~~~~~~  237 (247)
T d1ny5a2         158 DLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSEGKF  237 (247)
T ss_dssp             HHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCCSSE
T ss_pred             HHHhhcCeeeecCCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCCe
Confidence            666665  557777775  3567655555444    4443   37899999998875 899999999999888765  46


Q ss_pred             cCHHHHHhh
Q 021660          253 ITEEAVYLC  261 (309)
Q Consensus       253 i~~~~v~~~  261 (309)
                      |+.+++-.+
T Consensus       238 I~~~dl~~l  246 (247)
T d1ny5a2         238 IDRGELSCL  246 (247)
T ss_dssp             ECHHHHHHH
T ss_pred             ECHHHcccc
Confidence            888887654

>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=99.64  E-value=6.8e-16  Score=129.09  Aligned_cols=152  Identities=20%  Similarity=0.275  Sum_probs=97.4

Q ss_pred             ccccChHHHHHHHHHHhc--------------CCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCc---
Q 021660           54 DVAAHRDIVDTIDRLTSE--------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---  116 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~~--------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~---  116 (309)
                      .++||+++++.+...+.+              .++.++||+||||||||.+|+++|+.+     ...++.++.+...   
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~-----~~~~~~i~~s~~~~~~   89 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA-----NAPFIKVEATKFTEVG   89 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH-----TCCEEEEEGGGGSSCC
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc-----ccchhcccccccccce
Confidence            479999999988776621              134559999999999999999999998     5566666654321   


Q ss_pred             -chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH------------HHHHHHHHHHHhc----------CCce
Q 021660          117 -GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD------------AQFALRRVIEKYT----------KNTR  173 (309)
Q Consensus       117 -~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~------------~~~~l~~~l~~~~----------~~~~  173 (309)
                       ......+.+................++||+|||+|++.+.            ..+.|+..++...          .+..
T Consensus        90 ~~~~~~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~il  169 (309)
T d1ofha_          90 YVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHIL  169 (309)
T ss_dssp             SGGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCE
T ss_pred             eEeeeccccccccchhhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEcccee
Confidence             1111112222222111110000113689999999998632            3455777777421          1223


Q ss_pred             EEEEe----cCCcccchhhhcce-eEEEecCCChHHHHHHHH
Q 021660          174 FALIC----NQVNKIIPALQSRC-TRFRFAPLEPVHVTERLK  210 (309)
Q Consensus       174 ~i~~~----~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~  210 (309)
                      +|++.    +.+..+.+.+..|+ ..+.|.+|+..++.+++.
T Consensus       170 fi~~ga~~~~~~~~~~p~l~~R~~~~i~~~~~~~~~~~~Il~  211 (309)
T d1ofha_         170 FIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILT  211 (309)
T ss_dssp             EEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHH
T ss_pred             EEeccchhhcCcccchhhhhhhhheeeeccCCCHHHHHHHHH
Confidence            33332    45567788999999 779999999999988864

>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=99.62  E-value=4.2e-16  Score=119.28  Aligned_cols=160  Identities=14%  Similarity=0.174  Sum_probs=114.1

Q ss_pred             hhhcCCCCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCc-----ccccEEEEecCC----
Q 021660           44 VEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD----  114 (309)
Q Consensus        44 ~~~~~p~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~----  114 (309)
                      +++.+...++.++|++..++.+...+......+++|.||||+|||++++.+|+.+....     .+..++.++...    
T Consensus        13 t~~a~~g~ld~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg   92 (195)
T d1jbka_          13 TERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAG   92 (195)
T ss_dssp             HHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTT
T ss_pred             HHHHHcCCCCCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhcc
Confidence            44556667888999999999999999988888899999999999999999999885432     244566666442    


Q ss_pred             CcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHH--------HHHHHHHHHHHhcCCceEEEEecCC-----
Q 021660          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICNQV-----  181 (309)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~--------~~~~l~~~l~~~~~~~~~i~~~~~~-----  181 (309)
                      ......+.+.+.........    ..+..||+|||++.+...        ..+.|..+|..  ....+|.+|+..     
T Consensus        93 ~~~rG~~E~rl~~il~e~~~----~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r--g~l~~IgatT~eey~~~  166 (195)
T d1jbka_          93 AKYRGEFEERLKGVLNDLAK----QEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEYRQY  166 (195)
T ss_dssp             TCSHHHHHHHHHHHHHHHHH----STTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHHhc----CCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhC--CCceEEecCCHHHHHHH
Confidence            12223455555444432111    113579999999988532        23677777774  356677776432     


Q ss_pred             cccchhhhcceeEEEecCCChHHHHHHH
Q 021660          182 NKIIPALQSRCTRFRFAPLEPVHVTERL  209 (309)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (309)
                      ..-.++|.+||+.+.+.+|+.++...+|
T Consensus       167 ~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         167 IEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             TTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            2457899999999999999998877654

>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=99.60  E-value=2.9e-14  Score=119.22  Aligned_cols=168  Identities=18%  Similarity=0.237  Sum_probs=117.7

Q ss_pred             ccccccChHHHHHHHHHHhc--------CCCC-eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc-----
Q 021660           52 LADVAAHRDIVDTIDRLTSE--------NRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-----  117 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~--------~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-----  117 (309)
                      -..++||+++++.+...+..        .++. .++|+||+|+|||.+|+.+++.+     ...++.++++....     
T Consensus        21 ~~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l-----~~~~i~~d~s~~~~~~~~~   95 (315)
T d1r6bx3          21 KMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTVS   95 (315)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH-----TCEEEEEEGGGCSSSSCCS
T ss_pred             CCeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc-----cCCeeEeccccccchhhhh
Confidence            35689999999988776631        1222 49999999999999999999998     45566666543210     


Q ss_pred             ---------h-HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEE
Q 021660          118 ---------I-DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFAL  176 (309)
Q Consensus       118 ---------~-~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~  176 (309)
                               . ......+......        ....++++||++++.++.++.|++++++-           -.++.+|+
T Consensus        96 ~l~g~~~gy~g~~~~~~l~~~~~~--------~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~  167 (315)
T d1r6bx3          96 RLIGAPPGYVGFDQGGLLTDAVIK--------HPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVM  167 (315)
T ss_dssp             SSCCCCSCSHHHHHTTHHHHHHHH--------CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEE
T ss_pred             hhcccCCCccccccCChhhHHHHh--------CccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEe
Confidence                     0 0000111111111        14689999999999999999999999862           23556777


Q ss_pred             EecCC-------------------------cccchhhhcce-eEEEecCCChHHHHHHHHHHHHH-------cC--CCCC
Q 021660          177 ICNQV-------------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------EG--LDVT  221 (309)
Q Consensus       177 ~~~~~-------------------------~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~~~~  221 (309)
                      ++|-.                         ..+.+.+..|+ .++.|.|++.+++..++...+.+       .+  +.++
T Consensus       168 Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~ii~f~~l~~~~~~~I~~~~l~~~~~~l~~~~i~l~~~  247 (315)
T d1r6bx3         168 TTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVS  247 (315)
T ss_dssp             EECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEEC
T ss_pred             ccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhcCcchhhH
Confidence            77522                         12456788898 78999999999998886665543       23  3578


Q ss_pred             HHHHHHHHHHh
Q 021660          222 EGGLAALVRLC  232 (309)
Q Consensus       222 ~~~l~~i~~~~  232 (309)
                      +++++.|++..
T Consensus       248 ~~a~~~l~~~~  258 (315)
T d1r6bx3         248 QEARNWLAEKG  258 (315)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999999874

>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=99.57  E-value=3.9e-14  Score=118.14  Aligned_cols=170  Identities=18%  Similarity=0.286  Sum_probs=117.2

Q ss_pred             cccccChHHHHHHHHHHhc-------C-CCC-eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHH--
Q 021660           53 ADVAAHRDIVDTIDRLTSE-------N-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV--  121 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~~-------~-~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--  121 (309)
                      ..++||+++++.+.+.+..       . ++. .++|+||+|+|||.+|+.+++.+.+.  ...++.++.........+  
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            4689999999987766542       1 222 38999999999999999999998533  345566655432211110  


Q ss_pred             -------------HHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCceEEEE
Q 021660          122 -------------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALI  177 (309)
Q Consensus       122 -------------~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~  177 (309)
                                   ...+......        ...+||++||+|++.++.++.|+.++++-           ..++.+|++
T Consensus       101 L~g~~~gyvG~~~~~~l~~~~~~--------~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~t  172 (315)
T d1qvra3         101 LIGAPPGYVGYEEGGQLTEAVRR--------RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILT  172 (315)
T ss_dssp             C--------------CHHHHHHH--------CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEE
T ss_pred             hcCCCCCCcCcccCChHHHHHHh--------CCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEEEe
Confidence                         0111111111        14689999999999999999999999862           134566777


Q ss_pred             ecCC--------------------------cccchhhhcce-eEEEecCCChHHHHHHHHHHHHH-------cC--CCCC
Q 021660          178 CNQV--------------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------EG--LDVT  221 (309)
Q Consensus       178 ~~~~--------------------------~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~~~~  221 (309)
                      +|-.                          ..+.+.+.+|+ .++.|.+++.+++.+++...+.+       .+  +.++
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            7631                          23567888898 67789999999999887654443       23  3578


Q ss_pred             HHHHHHHHHHh
Q 021660          222 EGGLAALVRLC  232 (309)
Q Consensus       222 ~~~l~~i~~~~  232 (309)
                      +++++.|++.+
T Consensus       253 ~~~~~~L~~~~  263 (315)
T d1qvra3         253 EAAKDFLAERG  263 (315)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999999984

>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=99.57  E-value=5.6e-14  Score=118.87  Aligned_cols=210  Identities=15%  Similarity=0.171  Sum_probs=123.3

Q ss_pred             CccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC------------------cc---------
Q 021660           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA------------------QY---------  103 (309)
Q Consensus        51 ~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~------------------~~---------  103 (309)
                      .|.+++||+.++..+.-.+......|+||.||||||||++++.++.-+..-                  ..         
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIR   84 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCCCEEE
T ss_pred             ChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccccccchhhccccCccc
Confidence            589999999999877655543333579999999999999999999876100                  00         


Q ss_pred             -cccEEEEecCCCcchHHH------HHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh--------
Q 021660          104 -HNMILELNASDDRGIDVV------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY--------  168 (309)
Q Consensus       104 -~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~--------  168 (309)
                       ...+.....  ......+      ...+..-........-..++++++++||++.+.++.++.|++.|++.        
T Consensus        85 ~~~~~~~~~~--~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~~~~~~aLl~~me~~~v~i~r~g  162 (333)
T d1g8pa_          85 KPTPVVDLPL--GVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDG  162 (333)
T ss_dssp             ECCCEEEECT--TCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTT
T ss_pred             ccCceeeccC--CCCcccccCcchhhhccccCcceeeccccccccccEeecccHHHHHHHHHHHHhhhhcCCeEEecccC
Confidence             001111111  1111111      11111111110000001125789999999999999999999999963        


Q ss_pred             -----cCCceEEEEecCC-cccchhhhcce-eEEEecCCCh-HHHHHHHHHH----------------------------
Q 021660          169 -----TKNTRFALICNQV-NKIIPALQSRC-TRFRFAPLEP-VHVTERLKHV----------------------------  212 (309)
Q Consensus       169 -----~~~~~~i~~~~~~-~~l~~~l~~r~-~~i~~~~~~~-~~~~~~l~~~----------------------------  212 (309)
                           +....++.++|.. ..+.+++.+|| ..+.+..+.. .+..+++...                            
T Consensus       163 ~~~~~p~~f~liaa~Np~~~~l~~~llDRf~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (333)
T d1g8pa_         163 LSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEA  242 (333)
T ss_dssp             CCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ceecCCCCEEEEEecCccccccccchhhhhcceeeccCcchhhHHHHHHHhhhhcccChHHHHHHHHHHHHHHHHHHHHH
Confidence                 2344555566654 46888999999 5577765543 2222221111                            


Q ss_pred             -HHHcCCCCCHHHHHHHHHHh---cC-CHHHHHHHHHHHHhh-----cCCcCHHHHHhhh
Q 021660          213 -IEAEGLDVTEGGLAALVRLC---NG-DMRKALNILQSTHMA-----SQQITEEAVYLCT  262 (309)
Q Consensus       213 -~~~~~~~~~~~~l~~i~~~~---~g-~~r~~~~~l~~~~~~-----~~~i~~~~v~~~~  262 (309)
                       ..-..+.++++....++...   +. .+|....+++.+...     .+.++.++|.+++
T Consensus       243 ~~~l~~v~~~~~~~~~~~~~~~~~~~~S~R~~~~llrvArtiA~L~gr~~V~~~di~~a~  302 (333)
T d1g8pa_         243 RERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEGATAVGRDHLKRVA  302 (333)
T ss_dssp             HHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHH
T ss_pred             hhcccceecCHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence             01113456666666665544   22 678777777544332     2679999988754

>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=99.54  E-value=1.2e-13  Score=117.15  Aligned_cols=174  Identities=19%  Similarity=0.228  Sum_probs=111.2

Q ss_pred             cccccChHHHHHHHHHHh------------------------------cCCCCeEEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           53 ADVAAHRDIVDTIDRLTS------------------------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        53 ~~~ig~~~~~~~l~~~~~------------------------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      ..+|||+++++.+..++.                              .....++||.||+|||||.+|+.+|+.+    
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~----   92 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL----   92 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT----
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc----
Confidence            358999999998876552                              2244569999999999999999999986    


Q ss_pred             ccccEEEEecCCCcch----HHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC--------------HHHHHHHHHH
Q 021660          103 YHNMILELNASDDRGI----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--------------KDAQFALRRV  164 (309)
Q Consensus       103 ~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~--------------~~~~~~l~~~  164 (309)
                       ...++.++++.....    ......+..+....+. .-....++++++||+++..              +..++.|+++
T Consensus        93 -~~~~ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~-~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqi  170 (364)
T d1um8a_          93 -DIPIAISDATSLTEAGYVGEDVENILTRLLQASDW-NVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKI  170 (364)
T ss_dssp             -TCCEEEEEGGGCC--------CTHHHHHHHHHTTT-CHHHHTTSEEEEETGGGC--------------CHHHHHHHHHH
T ss_pred             -ccceeehhhhhcccchhhHhhhccchhhhhhhchh-HHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhh
Confidence             556666666543221    1111222222222111 1111257899999999843              4568899999


Q ss_pred             HHHhc-------------CCceEEEEecC-------------------------------------------------Cc
Q 021660          165 IEKYT-------------KNTRFALICNQ-------------------------------------------------VN  182 (309)
Q Consensus       165 l~~~~-------------~~~~~i~~~~~-------------------------------------------------~~  182 (309)
                      ++...             .+..++.+++-                                                 ..
T Consensus       171 ld~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (364)
T d1um8a_         171 VEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTY  250 (364)
T ss_dssp             HHCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHT
T ss_pred             hcCceeccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhh
Confidence            99411             11112212110                                                 01


Q ss_pred             ccchhhhcce-eEEEecCCChHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHh
Q 021660          183 KIIPALQSRC-TRFRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLC  232 (309)
Q Consensus       183 ~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~l~~i~~~~  232 (309)
                      .+.|.+..|+ .++.|.+++.+++.+++..           .++.+|+  .+++++++.|++.+
T Consensus       251 ~f~PEf~gRi~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~~~gi~L~~td~a~~~la~~g  314 (364)
T d1um8a_         251 GLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLA  314 (364)
T ss_dssp             TCCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHH
T ss_pred             hhHHHHHHHhcchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhc
Confidence            2456788888 7899999999999998852           2334465  46899999999975

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.41  E-value=2.3e-12  Score=105.76  Aligned_cols=187  Identities=16%  Similarity=0.146  Sum_probs=110.9

Q ss_pred             CCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC---CcchHHHHHHHH
Q 021660           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD---DRGIDVVRQQIQ  126 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~  126 (309)
                      .+.++|+|+++.++.+.+.    ..+.++|+||+|+|||++++.+++.+...   ..++.+....   ......+...+.
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            3578999999999988764    33569999999999999999999987221   1122211111   111111111111


Q ss_pred             Hhhh----cc-------cc-----------c------------------cCCCCccEEEEEeCCCCCCHHH----HHHHH
Q 021660          127 DFAS----TQ-------SF-----------S------------------FGVKASVKLVLLDEADAMTKDA----QFALR  162 (309)
Q Consensus       127 ~~~~----~~-------~~-----------~------------------~~~~~~~~lliiDe~~~l~~~~----~~~l~  162 (309)
                      ....    ..       ..           .                  ......+.++++||++.+....    ...+.
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                  0011256789999998775433    23333


Q ss_pred             HHHHHhcCCceEEEEecCCccc---------c-hhhhcceeEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 021660          163 RVIEKYTKNTRFALICNQVNKI---------I-PALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC  232 (309)
Q Consensus       163 ~~l~~~~~~~~~i~~~~~~~~l---------~-~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~~  232 (309)
                      .+.... .....++++.....+         . +...+++..+.+.+++.++..+++.+.+...++..  +.++.+.+.+
T Consensus       162 ~~~~~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~--~~~~~i~~~~  238 (283)
T d2fnaa2         162 YAYDNL-KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF--KDYEVVYEKI  238 (283)
T ss_dssp             HHHHHC-TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC--CCHHHHHHHH
T ss_pred             HHHHhh-hhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCH--HHHHHHHHHh
Confidence            333332 345555555432211         1 11223357799999999999999999988877654  4478999999


Q ss_pred             cCCHHHHHHHHHHH
Q 021660          233 NGDMRKALNILQST  246 (309)
Q Consensus       233 ~g~~r~~~~~l~~~  246 (309)
                      +|.|..+......+
T Consensus       239 ~G~P~~L~~~~~~~  252 (283)
T d2fnaa2         239 GGIPGWLTYFGFIY  252 (283)
T ss_dssp             CSCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            99998655444433

>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=99.24  E-value=1.7e-11  Score=101.08  Aligned_cols=124  Identities=13%  Similarity=0.113  Sum_probs=74.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc--hHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~  154 (309)
                      +||+||||||||.+|+++|.++.   ....++.++.+...+  .....+.++.......       .+.||+|||+|.+.
T Consensus       126 ~l~~G~pG~GKT~la~ala~~~~---~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~-------~~~ilf~DEid~~~  195 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEALG---GKDKYATVRFGEPLSGYNTDFNVFVDDIARAML-------QHRVIVIDSLKNVI  195 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHHHH---TTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHH-------HCSEEEEECCTTTC
T ss_pred             EEEECCCCccHHHHHHHHHHHhc---CCCCeEEEEhhHhhhcccchHHHHHHHHHHHHh-------hccEEEeehhhhhc
Confidence            67799999999999999999983   234556666654321  1122223333322211       25699999999986


Q ss_pred             HH------------HHHHHHHHHHHh--cCCceEEEEecCCcccchhh----h--cce-eEEEecCCChHHHHHHHHH
Q 021660          155 KD------------AQFALRRVIEKY--TKNTRFALICNQVNKIIPAL----Q--SRC-TRFRFAPLEPVHVTERLKH  211 (309)
Q Consensus       155 ~~------------~~~~l~~~l~~~--~~~~~~i~~~~~~~~l~~~l----~--~r~-~~i~~~~~~~~~~~~~l~~  211 (309)
                      ..            ..+.|+.-|+..  ...+.+|.+||. ..+++++    .  .|| ..+.+.+|+.++..+++..
T Consensus       196 ~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN~-~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r~~il~~  272 (321)
T d1w44a_         196 GAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLNP-TSNDDKIVELVKEASRSNSTSLVISTDVDGEWQVLTR  272 (321)
T ss_dssp             -----------CCHHHHHHHHHHHHHHHHHTCEEEEECCC-CCCCHHHHHHHHHHHHHSCSEEEEECSSTTEEEEEEE
T ss_pred             cccccCCCCCcchhhhhhhhhhccccccCCCeEEEEeCCC-cccccchhhhhhccCcccceeecCCCChHHHHHHHHH
Confidence            32            234555555532  335677777774 3333333    2  355 6788888888777666653

>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=99.21  E-value=2.7e-13  Score=114.85  Aligned_cols=148  Identities=18%  Similarity=0.143  Sum_probs=84.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK  155 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~  155 (309)
                      .++|+||||||||+++..+++.+     +..++.++.++..+...+    ....           ...+.++|+++....
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~~~-----~~~~i~in~s~~rs~~~l----~~~~-----------~~~~~l~d~~~~~~~  215 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLELC-----GGKALNVNLPLDRLNFEL----GVAI-----------DQFLVVFEDVKGTGG  215 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-----CCEEECCSSCTTTHHHHH----GGGT-----------TCSCEEETTCCCSTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc-----CCCEEEEECcchhhHHHH----HhHH-----------HHHHHHHHHHHHhhh
Confidence            49999999999999999999998     667777777765433221    1111           122344555433210


Q ss_pred             -----------HHHHHHHHHHHHhc--------------CCceEEEEecCCcccchhhhcce-eEEEecCCC-hHHHHHH
Q 021660          156 -----------DAQFALRRVIEKYT--------------KNTRFALICNQVNKIIPALQSRC-TRFRFAPLE-PVHVTER  208 (309)
Q Consensus       156 -----------~~~~~l~~~l~~~~--------------~~~~~i~~~~~~~~l~~~l~~r~-~~i~~~~~~-~~~~~~~  208 (309)
                                 +..+.|...++...              ..+++|++||..... .....|+ ..+.+.+++ ......+
T Consensus       216 ~~~~~~~~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~~~~~-~~r~~Rf~~~i~~~~~~~~~~~~~~  294 (362)
T d1svma_         216 ESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYSVP-KTLQARFVKQIDFRPKDYLKHCLER  294 (362)
T ss_dssp             TTTTCCCCSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECSCCCC-HHHHTTEEEEEECCCCHHHHHHHHT
T ss_pred             hccCCCCeEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeeccccccc-ccccccCceEEeecCCCcHHHHHHH
Confidence                       11122233333210              123578888865322 1223466 344444443 3344466


Q ss_pred             HHHHHHHcCCCCCHHHHHHHH-HHhcCCHHHHHHHHH
Q 021660          209 LKHVIEAEGLDVTEGGLAALV-RLCNGDMRKALNILQ  244 (309)
Q Consensus       209 l~~~~~~~~~~~~~~~l~~i~-~~~~g~~r~~~~~l~  244 (309)
                      +...++.+....+.+.+..+. ..+++|++.+++.+.
T Consensus       295 l~~i~~~~~l~~~~~~L~~li~~~s~~D~~~~i~~~~  331 (362)
T d1svma_         295 SEFLLEKRIIQSGIALLLMLIWYRPVAEFAQSIQSRI  331 (362)
T ss_dssp             CTHHHHTTCTTCHHHHHHHHHHHSCGGGSCGGGHHHH
T ss_pred             HHHHhcccCCCCCHHHHHHHccCCCHHHHHHHHHHHH
Confidence            777778888887777665544 455667777766553

>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=99.20  E-value=6.1e-10  Score=90.98  Aligned_cols=180  Identities=16%  Similarity=0.125  Sum_probs=105.0

Q ss_pred             ccccChHHHHHHHHHHhcC---CCCeEEEECCCCCcHHHHHHHHHHHHcc--CcccccEEEEecCCCcchHHHHHHHHHh
Q 021660           54 DVAAHRDIVDTIDRLTSEN---RLPHLLLYGPPGTGKTSTILAVARKLYG--AQYHNMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        54 ~~ig~~~~~~~l~~~~~~~---~~~~~ll~G~~G~GKT~l~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      .++|++..++.+..++...   ....+.|+|..|+||||+|+.+++....  ..+...++.++.........+...+...
T Consensus        21 ~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~  100 (277)
T d2a5yb3          21 TCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDIL  100 (277)
T ss_dssp             CSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHH
T ss_pred             ceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHH
Confidence            4779999999998887542   2223889999999999999999887421  1111122223322222222232222222


Q ss_pred             hhccc----ccc----C--------------CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccch
Q 021660          129 ASTQS----FSF----G--------------VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIP  186 (309)
Q Consensus       129 ~~~~~----~~~----~--------------~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~  186 (309)
                      .....    ...    .              ....+.++|+|++..  .....    .+.  ...+++|+||+.. .+..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~--~~~~~----~~~--~~~srilvTTR~~-~v~~  171 (277)
T d2a5yb3         101 LMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQ--EETIR----WAQ--ELRLRCLVTTRDV-EISN  171 (277)
T ss_dssp             HHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECC--HHHHH----HHH--HTTCEEEEEESBG-GGGG
T ss_pred             HHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhH--Hhhhh----hhc--ccCceEEEEeehH-HHHH
Confidence            11100    000    0              012567999999874  22222    222  2356777777654 3334


Q ss_pred             hhhcceeEEEecCCChHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHhcCCHHHHHHH
Q 021660          187 ALQSRCTRFRFAPLEPVHVTERLKHVIEAEGL-DVTEGGLAALVRLCNGDMRKALNI  242 (309)
Q Consensus       187 ~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~l~~i~~~~~g~~r~~~~~  242 (309)
                      .+......+++.+++.++..+++...+..... .-.++....|++.|+|.|-.+.-+
T Consensus       172 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~i  228 (277)
T d2a5yb3         172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMF  228 (277)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHH
Confidence            45556678999999999999988765322111 113556688999999998555443

>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=99.06  E-value=1.4e-08  Score=87.79  Aligned_cols=83  Identities=18%  Similarity=0.290  Sum_probs=58.6

Q ss_pred             cccchhhhcce-eEEEecCCChHHHHHHHH-----------HHHHHcCCC--CCHHHHHHHHHHhc-------C-CHHHH
Q 021660          182 NKIIPALQSRC-TRFRFAPLEPVHVTERLK-----------HVIEAEGLD--VTEGGLAALVRLCN-------G-DMRKA  239 (309)
Q Consensus       182 ~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~-----------~~~~~~~~~--~~~~~l~~i~~~~~-------g-~~r~~  239 (309)
                      ..+.|.|..|+ .++.+.+++.+++..+|.           ..+...|+.  ++++++..||+.+-       + -.|.+
T Consensus       316 ~gliPEliGRlPi~v~L~~L~~~dL~rILtEPknsLikQy~~lf~~~gv~L~ft~~al~~iA~~A~~~n~~~~~~GAR~L  395 (443)
T d1g41a_         316 SDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRL  395 (443)
T ss_dssp             GGSCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHH
T ss_pred             ccchhhhccceEEEEEccCccHHHHHHHHHhhhhhHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhhhhcccCCchHH
Confidence            45778899998 889999999999988873           233345664  58999999998773       1 25666


Q ss_pred             HHHHHHHHhhc-----------CCcCHHHHHhhhCC
Q 021660          240 LNILQSTHMAS-----------QQITEEAVYLCTGN  264 (309)
Q Consensus       240 ~~~l~~~~~~~-----------~~i~~~~v~~~~~~  264 (309)
                      ..+++.+....           -.||.+.|++.+..
T Consensus       396 r~i~E~~l~~~~f~~p~~~~~~v~Id~~~v~~~l~~  431 (443)
T d1g41a_         396 HTVMERLMDKISFSASDMNGQTVNIDAAYVADALGE  431 (443)
T ss_dssp             HHHHHHHHHHHHHHGGGCTTCEEEECHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhccCCCCCCCEEEECHHHHHhhhhc
Confidence            66666554321           14778888777754

>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=98.77  E-value=2.9e-08  Score=75.03  Aligned_cols=117  Identities=20%  Similarity=0.267  Sum_probs=73.5

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCC
Q 021660           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      ..+..++.++++....+ ++|+|||++|||+++..+++.+.+     .++.+..... ..          .      +..
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-----AVISFVNSTS-HF----------W------LEP   95 (205)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTC-----EECCCCCSSS-CG----------G------GGG
T ss_pred             HHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhCC-----EEEeccCCCC-Cc----------c------ccc
Confidence            55667778886654444 999999999999999999999832     2222111111 11          0      111


Q ss_pred             CCccEEEEEeCCCCCCHHHHHH-HHHHHHHhc-------------CCceEEEEecCCc---ccchhhhcceeEEEec
Q 021660          139 KASVKLVLLDEADAMTKDAQFA-LRRVIEKYT-------------KNTRFALICNQVN---KIIPALQSRCTRFRFA  198 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~~~~-l~~~l~~~~-------------~~~~~i~~~~~~~---~l~~~l~~r~~~i~~~  198 (309)
                      -.+.+++++||+........+. +..+++..+             ..+++|+++|...   .-.+.|.+|..++.|+
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            1256899999986654443343 455666311             2346788887543   3346789999998886

>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=98.67  E-value=9.5e-08  Score=72.12  Aligned_cols=25  Identities=28%  Similarity=0.610  Sum_probs=22.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +++|+||+|+|||||++.++..+..
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            4899999999999999999999854

>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=98.38  E-value=6.7e-07  Score=67.53  Aligned_cols=28  Identities=39%  Similarity=0.666  Sum_probs=24.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      .+++|+||||+||||+++.++..+...+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~~   29 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSSG   29 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHTT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHCC
Confidence            4599999999999999999999986543

>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=98.36  E-value=2e-07  Score=75.33  Aligned_cols=56  Identities=25%  Similarity=0.431  Sum_probs=37.7

Q ss_pred             ccccccChHHHHHHHHHHhcC---CCC-eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           52 LADVAAHRDIVDTIDRLTSEN---RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~---~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      +.+.-++......+.....+.   ..| .++|+||||||||++|+.++.++     ...++.++.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~-----~~~~~~i~~   65 (273)
T d1gvnb_           6 FTDKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEET-----QGNVIVIDN   65 (273)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHT-----TTCCEEECT
T ss_pred             cChHHHHHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHh-----hcceEEEec
Confidence            333444555555555554433   223 39999999999999999999998     455666654

>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=98.19  E-value=9.7e-06  Score=67.74  Aligned_cols=116  Identities=16%  Similarity=0.236  Sum_probs=63.5

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccC--cccccEEEEecCCCcchHHHHHHHHHhhhccccc-
Q 021660           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA--QYHNMILELNASDDRGIDVVRQQIQDFASTQSFS-  135 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  135 (309)
                      +.-+.++...+.+   +..+|+||||||||+++..+...+...  .....+ .+..........+.+.+.......... 
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            3344455555533   459999999999999987766655321  122222 333333333334433332211110000 


Q ss_pred             -------------------------c----CCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021660          136 -------------------------F----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       136 -------------------------~----~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                                               +    .......++||||+..+....   +..++...+....+|++++..
T Consensus       227 ~~~~~~~~~~~t~~~ll~~~~~~~~~~~~~~~~l~~d~lIIDEaSmv~~~l---~~~ll~~~~~~~~lILvGD~~  298 (359)
T d1w36d1         227 EQKKRIPEDASTLHRLLGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPM---MSRLIDALPDHARVIFLGDRD  298 (359)
T ss_dssp             CCCCSCSCCCBTTTSCC-----------CTTSCCSCSEEEECSGGGCBHHH---HHHHHHTCCTTCEEEEEECTT
T ss_pred             hhhhhhhhhhhHHHHHHhhhhcchHHHHhhhcccccceeeehhhhccCHHH---HHHHHHHhcCCCEEEEECChh
Confidence                                     0    001135699999998887543   445555566778898888644

>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=98.17  E-value=1.6e-05  Score=57.72  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|+|+||+||||+++.++...
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7899999999999999987764

>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=98.15  E-value=2.8e-06  Score=63.50  Aligned_cols=77  Identities=14%  Similarity=0.111  Sum_probs=45.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~  154 (309)
                      ..++++|+||+||||+++.++...     +.  ..++.............+.....          .+..+|+|.... .
T Consensus        15 ~liil~G~pGsGKST~a~~l~~~~-----~~--~~i~~D~~~~~~~~~~~~~~~l~----------~g~~vIiD~t~~-~   76 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLVSA-----GY--VHVNRDTLGSWQRCVSSCQAALR----------QGKRVVIDNTNP-D   76 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTGGG-----TC--EEEEHHHHCSHHHHHHHHHHHHH----------TTCCEEEESCCC-S
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhc-----CC--EEEchHHHHHHHHHHHHHHHHHH----------CCCCceeeCcCC-C
Confidence            349999999999999999887654     32  23333222222222333333322          244588887654 4


Q ss_pred             HHHHHHHHHHHHHhc
Q 021660          155 KDAQFALRRVIEKYT  169 (309)
Q Consensus       155 ~~~~~~l~~~l~~~~  169 (309)
                      ......+..+.+...
T Consensus        77 ~~~R~~~~~~a~~~~   91 (172)
T d1yj5a2          77 VPSRARYIQCAKDAG   91 (172)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcC
Confidence            556666776666554

>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=98.14  E-value=1e-05  Score=64.57  Aligned_cols=125  Identities=14%  Similarity=0.214  Sum_probs=74.3

Q ss_pred             HHHHHHHHHhcC-CCCe-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCC
Q 021660           61 IVDTIDRLTSEN-RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (309)
Q Consensus        61 ~~~~l~~~~~~~-~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (309)
                      ....+..++.+. ...+ ++|+||+++|||+++..+++.+.      .+..++.....                 +.++.
T Consensus        89 f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg------~~~~~~~~~~~-----------------f~l~~  145 (267)
T d1u0ja_          89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP------FYGCVNWTNEN-----------------FPFND  145 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS------CEEECCTTCSS-----------------CTTGG
T ss_pred             HHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHhc------chhhccccCCC-----------------ccccc
Confidence            344556666544 2233 89999999999999999998871      11122222111                 11222


Q ss_pred             CCccEEEEEeCCCCCCHHHHHHHHHHHHHh--------------cCCceEEEEecCCccc----------chhhhcceeE
Q 021660          139 KASVKLVLLDEADAMTKDAQFALRRVIEKY--------------TKNTRFALICNQVNKI----------IPALQSRCTR  194 (309)
Q Consensus       139 ~~~~~lliiDe~~~l~~~~~~~l~~~l~~~--------------~~~~~~i~~~~~~~~l----------~~~l~~r~~~  194 (309)
                      -.+.+++++||...-. ...+.+..++..-              .+.+.+|+++|+....          ...+.+|+..
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            2368899999986543 3345565555531              1344566666665432          3679999988


Q ss_pred             EEecC--------CChHHHHHHH
Q 021660          195 FRFAP--------LEPVHVTERL  209 (309)
Q Consensus       195 i~~~~--------~~~~~~~~~l  209 (309)
                      +.|..        ++.++++.++
T Consensus       225 ~~F~~~~p~~~~~i~~~e~k~f~  247 (267)
T d1u0ja_         225 FELTRRLDHDFGKVTKQEVKDFF  247 (267)
T ss_dssp             EECCSCCCTTSCCCCHHHHHHHH
T ss_pred             EECCCcCCCccCCCCHHHHHHHH
Confidence            88743        3345555555

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.08  E-value=1.1e-05  Score=61.70  Aligned_cols=36  Identities=33%  Similarity=0.432  Sum_probs=27.8

Q ss_pred             Ce-EEEECCCCCcHHHHHHHHHHHHccCcccccEEEE
Q 021660           75 PH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (309)
Q Consensus        75 ~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (309)
                      |+ ++|.||+|+||||++-.+|..+..++..+.++..
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~   45 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAG   45 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEec
Confidence            44 7899999999999999999988766554444433

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=98.06  E-value=1.3e-05  Score=61.54  Aligned_cols=38  Identities=18%  Similarity=0.277  Sum_probs=31.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      ++|.||+|+||||++-.+|..+..++..+.++..+.-.
T Consensus        14 i~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R   51 (213)
T d1vmaa2          14 IMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFR   51 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccc
Confidence            89999999999999999999887777666666665544

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.03  E-value=3.6e-05  Score=58.92  Aligned_cols=139  Identities=11%  Similarity=0.135  Sum_probs=68.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccC-------------------
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG-------------------  137 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------  137 (309)
                      ++|.||+|+||||++-.+|..+...+..+.++..+.......+.    ++.+.......+.                   
T Consensus        15 i~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQ----L~~~a~~l~v~~~~~~~~~~~~~~~~~a~~~~   90 (211)
T d1j8yf2          15 IMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQ----LQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKF   90 (211)
T ss_dssp             EEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHH----HHHHHHHHTCCEECCTTCCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHH----HHHhccccCcceeecccchhhhHHHHHHHHHh
Confidence            88899999999999999998887666655555544443222222    2222211111110                   


Q ss_pred             CCCccEEEEEeCCCCCCHH----HHHHHHHHHHHhcCC-ceEEEEecCCcccchhhhcc-----eeEEEecCCChHHHHH
Q 021660          138 VKASVKLVLLDEADAMTKD----AQFALRRVIEKYTKN-TRFALICNQVNKIIPALQSR-----CTRFRFAPLEPVHVTE  207 (309)
Q Consensus       138 ~~~~~~lliiDe~~~l~~~----~~~~l~~~l~~~~~~-~~~i~~~~~~~~l~~~l~~r-----~~~i~~~~~~~~~~~~  207 (309)
                      ...+..+|+||=..+...+    ....+.++.+...+. ..+++.++...........+     ...+.|..++......
T Consensus        91 ~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lI~TKlDet~~~G  170 (211)
T d1j8yf2          91 LSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAKGG  170 (211)
T ss_dssp             HHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHHCTTEEEEEECTTSCSCHH
T ss_pred             hccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhcccCcceEEEecccCCCccc
Confidence            0124579999987664321    234555566555443 33444443333222232222     1445677777655444


Q ss_pred             HHHHHHHHcCCC
Q 021660          208 RLKHVIEAEGLD  219 (309)
Q Consensus       208 ~l~~~~~~~~~~  219 (309)
                      -+-..+...+++
T Consensus       171 ~~l~~~~~~~lP  182 (211)
T d1j8yf2         171 GALSAVAATGAT  182 (211)
T ss_dssp             HHHHHHHTTTCC
T ss_pred             HHHHHHHHHCcC
Confidence            444444444443

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=98.03  E-value=2.3e-05  Score=59.80  Aligned_cols=41  Identities=24%  Similarity=0.207  Sum_probs=30.6

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      +..++|.||+|+||||++-.+|..+...+..+.++..+.-.
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R   46 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFR   46 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEecccc
Confidence            34489999999999999999999887666555544444433

>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=97.98  E-value=2.9e-06  Score=63.13  Aligned_cols=25  Identities=48%  Similarity=0.715  Sum_probs=23.2

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++++|+||||+||||+++.+++.+
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            3669999999999999999999998

>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=97.96  E-value=6e-05  Score=57.53  Aligned_cols=36  Identities=25%  Similarity=0.373  Sum_probs=28.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      ++|.||+|+||||++..+|..+...+..+.++..+.
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt   48 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADT   48 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeccc
Confidence            788999999999999999999876666554444433

>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=97.93  E-value=3e-05  Score=55.17  Aligned_cols=87  Identities=15%  Similarity=0.158  Sum_probs=47.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhcccccc-------------------
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF-------------------  136 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------  136 (309)
                      ..+|.+|+|+|||.++-.++...     +..+..+... ..-...+.+.+...........                   
T Consensus        10 ~~ll~apTGsGKT~~~~~~~~~~-----~~~vli~~P~-~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAYAAQ-----GYKVLVLNPS-VAATLGFGAYMSKAHGVDPNIRTGVRTITTGSPITYSTYGK   83 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHHHTT-----TCCEEEEESC-HHHHHHHHHHHHHHHSCCCEEECSSCEECCCCSEEEEEHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHc-----CCcEEEEcCh-HHHHHHHHHHHHHHhhccccccccccccccccceEEEeeee
Confidence            48999999999998876555432     2222222222 2222333333333221111000                   


Q ss_pred             ------CCCCccEEEEEeCCCCCCHHHHHHHHHHHHHh
Q 021660          137 ------GVKASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (309)
Q Consensus       137 ------~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~  168 (309)
                            ....+..+||+||+|.+.......+..+++..
T Consensus        84 ~~~~~~~~~~~~~~vIiDE~H~~~~~~~~~~~~~l~~~  121 (136)
T d1a1va1          84 FLADGGCSGGAYDIIICDECHSTDATSILGIGTVLDQA  121 (136)
T ss_dssp             HHHTTGGGGCCCSEEEEETTTCCSHHHHHHHHHHHHHT
T ss_pred             eccccchhhhcCCEEEEecccccCHHHHHHHHHHHHHH
Confidence                  00124579999999999877666666666643

>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=97.90  E-value=4.4e-06  Score=61.49  Aligned_cols=23  Identities=35%  Similarity=0.644  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++|.||||+||||+++.+++.+
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999998

>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=97.85  E-value=3.3e-05  Score=60.54  Aligned_cols=45  Identities=20%  Similarity=0.428  Sum_probs=34.7

Q ss_pred             CccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021660          140 ASVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (309)
Q Consensus       140 ~~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l  184 (309)
                      .++.++++||.- .+.......+++.+........+|++|++...+
T Consensus       156 ~~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~~~  201 (241)
T d2pmka1         156 NNPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIIIAHRLSTV  201 (241)
T ss_dssp             TCCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEECSSGGGG
T ss_pred             cccchhhhhCCccccCHHHHHHHHHHHHHHhCCCEEEEEECCHHHH
Confidence            378899999975 466777888888888876677788888776543

>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=97.82  E-value=9e-06  Score=60.19  Aligned_cols=39  Identities=21%  Similarity=0.242  Sum_probs=31.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (309)
                      |.+.|+|++|+|||||++.+++.+...+....+...+..
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~~d~~   41 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHH   41 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEeccccc
Confidence            568999999999999999999998777766555544443

>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=97.81  E-value=5.5e-05  Score=53.69  Aligned_cols=24  Identities=29%  Similarity=0.351  Sum_probs=17.5

Q ss_pred             CeEEEECCCCCcHHHHHH-HHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTIL-AVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~-~l~~~~   98 (309)
                      .+++|++|+|+|||..+- .+....
T Consensus         8 ~~~il~~~tGsGKT~~~~~~~~~~~   32 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRFLPQILAEC   32 (140)
T ss_dssp             CEEEECCCTTSSTTTTHHHHHHHHH
T ss_pred             CcEEEEcCCCCChhHHHHHHHHHHh
Confidence            459999999999996653 334443

>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=97.81  E-value=5.6e-06  Score=62.32  Aligned_cols=24  Identities=17%  Similarity=0.300  Sum_probs=22.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.||||+||||+++.+++.+
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            349999999999999999999997

>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=97.81  E-value=4.1e-05  Score=56.73  Aligned_cols=29  Identities=24%  Similarity=0.383  Sum_probs=24.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      .++|.|+||+||||+++.+|+.+     +..++.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L-----g~~~id   32 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL-----GYEFVD   32 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH-----TCEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh-----CCCEEe
Confidence            38889999999999999999998     555553

>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=97.80  E-value=6.1e-06  Score=61.12  Aligned_cols=30  Identities=33%  Similarity=0.551  Sum_probs=25.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      |+++|.|+||+||||+++.+++.+     +..|+.
T Consensus         2 p~IvliG~~G~GKSTig~~La~~l-----~~~fiD   31 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKAL-----GVGLLD   31 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH-----TCCEEE
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHh-----CCCeEe
Confidence            568888999999999999999998     555553

>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=97.77  E-value=2.3e-05  Score=60.16  Aligned_cols=28  Identities=25%  Similarity=0.268  Sum_probs=23.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCccc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYH  104 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (309)
                      ++++|.||+||||+++.+++.+...+..
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l~~~~~~   32 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYLNFIGVP   32 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCC
Confidence            8999999999999999999988544433

>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=97.76  E-value=7.7e-06  Score=60.87  Aligned_cols=26  Identities=42%  Similarity=0.612  Sum_probs=23.1

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +..+++|+||||+||||+++.+++.+
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            34459999999999999999999986

>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=97.73  E-value=0.00026  Score=59.86  Aligned_cols=111  Identities=16%  Similarity=0.218  Sum_probs=68.7

Q ss_pred             CCccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC-------------c
Q 021660           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-------------R  116 (309)
Q Consensus        50 ~~~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~-------------~  116 (309)
                      ..++++--.+.....+.+++.... +.++|+||+|+||||++..+.+.+.....  .++.+..+..             .
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            356677667777888887776653 34999999999999999999999865433  2333322210             1


Q ss_pred             chHHHHHHHHHhhhccccccCCCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021660          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      ....+...+..+...         .+.+|+|.|+-.  .+.....++.-.    ...++++|
T Consensus       212 ~~~~~~~~l~~~lR~---------dPDvi~igEiRd--~~ta~~a~~aa~----tGhlV~tT  258 (401)
T d1p9ra_         212 VDMTFARGLRAILRQ---------DPDVVMVGEIRD--LETAQIAVQASL----TGHLVMST  258 (401)
T ss_dssp             GTBCHHHHHHHHGGG---------CCSEEEESCCCS--HHHHHHHHHHHH----TTCEEEEE
T ss_pred             cCCCHHHHHHHHHhh---------cCCEEEecCcCC--hHHHHHHHHHHh----cCCeEEEE
Confidence            111234444444432         688999999864  333333333333    45566665

>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=97.71  E-value=1e-05  Score=60.39  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=23.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      ++|+|+||+||||+++.+++.+...+
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            88999999999999999999985433

>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=97.71  E-value=1.2e-05  Score=61.04  Aligned_cols=27  Identities=30%  Similarity=0.382  Sum_probs=23.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      ++|+|+||+||||+++.+++.+.....
T Consensus        22 I~L~G~pGSGKTTiAk~La~~l~~~~~   48 (195)
T d1x6va3          22 VWLTGLSGAGKTTVSMALEEYLVCHGI   48 (195)
T ss_dssp             EEEESSCHHHHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCC
Confidence            789999999999999999999854443

>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=97.70  E-value=0.00018  Score=54.91  Aligned_cols=41  Identities=20%  Similarity=0.296  Sum_probs=30.2

Q ss_pred             cccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           55 VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +--++.-.+.+..++.+   .+.++.+|+|+|||.++..++..+
T Consensus        69 ~~Lr~yQ~eav~~~~~~---~~~ll~~~tG~GKT~~a~~~~~~~  109 (206)
T d2fz4a1          69 ISLRDYQEKALERWLVD---KRGCIVLPTGSGKTHVAMAAINEL  109 (206)
T ss_dssp             CCCCHHHHHHHHHHTTT---SEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CCcCHHHHHHHHHHHhC---CCcEEEeCCCCCceehHHhHHHHh
Confidence            33455666666666654   346788999999999988888876

>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=97.69  E-value=9.2e-05  Score=58.39  Aligned_cols=44  Identities=23%  Similarity=0.455  Sum_probs=33.4

Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l  184 (309)
                      ++.++++||.- .+.......+++.+.....+..+|++|++...+
T Consensus       170 ~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~~~  214 (253)
T d3b60a1         170 DSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLSTI  214 (253)
T ss_dssp             CCSEEEEETTTSSCCHHHHHHHHHHHHHHHTTSEEEEECSCGGGT
T ss_pred             CCCEEEeccccccCCHHHHHHHHHHHHHhccCCEEEEEECCHHHH
Confidence            67899999975 456777788888888776667788888766533

>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=97.69  E-value=1.3e-05  Score=59.37  Aligned_cols=22  Identities=36%  Similarity=0.611  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|+||||+||||+++.+++.+
T Consensus         9 ivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           9 YVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8899999999999999999998

>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=97.68  E-value=9.6e-06  Score=60.17  Aligned_cols=22  Identities=36%  Similarity=0.688  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|+||||+||||+++.+++.+
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            8999999999999999999987

>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=97.66  E-value=1.4e-05  Score=58.81  Aligned_cols=29  Identities=28%  Similarity=0.513  Sum_probs=25.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      +++|.|+||+||||+++.+++.+     +..++.
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l-----~~~~~d   30 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDL-----DLVFLD   30 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH-----TCEEEE
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh-----CCCEEe
Confidence            48899999999999999999998     555553

>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=97.64  E-value=9.2e-05  Score=57.31  Aligned_cols=43  Identities=12%  Similarity=0.321  Sum_probs=32.3

Q ss_pred             CccEEEEEeCCC-CCCHHHHHHHHHHHHHhc--CCceEEEEecCCc
Q 021660          140 ASVKLVLLDEAD-AMTKDAQFALRRVIEKYT--KNTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~~-~l~~~~~~~l~~~l~~~~--~~~~~i~~~~~~~  182 (309)
                      .+|.+|++||.- .+.+.....+++++.+..  ....+|++|.+..
T Consensus       162 ~~P~lLllDEPTs~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~  207 (230)
T d1l2ta_         162 NNPPIILADQPTGALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDIN  207 (230)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEEECSCHH
T ss_pred             cCCCEEEecCCccccCHHHHHHHHHHHHHHHHhhCCEEEEECCCHH
Confidence            378899999964 566778888888888763  2567788887654

>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=97.64  E-value=2.7e-05  Score=57.78  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|+|+||+||||+++.+++++
T Consensus         5 iI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           5 MIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999998

>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=97.63  E-value=6.5e-05  Score=59.28  Aligned_cols=44  Identities=16%  Similarity=0.404  Sum_probs=33.9

Q ss_pred             ccEEEEEeCCC-CCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021660          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (309)
Q Consensus       141 ~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l  184 (309)
                      ++.++++||.. .+.+.....+++.+........+|++|++...+
T Consensus       172 ~p~ililDEpts~LD~~t~~~i~~~l~~l~~~~TvI~itH~~~~~  216 (255)
T d2hyda1         172 NPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLSTI  216 (255)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGGGT
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            67899999975 456777888899998877666778888766543

>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=97.59  E-value=1.3e-05  Score=59.56  Aligned_cols=32  Identities=31%  Similarity=0.403  Sum_probs=25.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      .++|.||||+||||+++.+++.+     +..++.++.
T Consensus         6 iI~l~G~~GsGKSTia~~La~~l-----g~~~~~~~~   37 (176)
T d1zp6a1           6 ILLLSGHPGSGKSTIAEALANLP-----GVPKVHFHS   37 (176)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTCS-----SSCEEEECT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-----CCCEEEecH
Confidence            38999999999999999998876     555555543

>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=97.57  E-value=2.3e-05  Score=59.46  Aligned_cols=26  Identities=23%  Similarity=0.537  Sum_probs=22.8

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++..++|.||||+||||+++.+++.+
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            33448999999999999999999987

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.54  E-value=0.00016  Score=55.95  Aligned_cols=43  Identities=14%  Similarity=0.237  Sum_probs=30.7

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHh--cCCceEEEEecCCcc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKY--TKNTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~--~~~~~~i~~~~~~~~  183 (309)
                      ++.+|++||. -.+.+.....+..++.+.  .....+|++|.+...
T Consensus       148 ~P~illlDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~~  193 (232)
T d2awna2         148 EPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLGRTMIYVTHDQVE  193 (232)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHHH
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            7889999995 456677777777777764  235667777876543

>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=97.52  E-value=0.00098  Score=49.04  Aligned_cols=34  Identities=21%  Similarity=0.335  Sum_probs=24.7

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q 021660           63 DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        63 ~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ..+..++.... -.++|.|.+|+|||+|+..+...
T Consensus         5 ~~~~~~~~~k~-~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQE-HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSC-EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCe-EEEEEECCCCCCHHHHHHHHhcC
Confidence            34444444433 34999999999999999988654

>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=97.52  E-value=2.9e-05  Score=58.65  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=22.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +..++|.||||+||||+++.+++.+
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3459999999999999999999997

>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=97.51  E-value=4.4e-05  Score=57.18  Aligned_cols=32  Identities=19%  Similarity=0.292  Sum_probs=26.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMI  107 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~  107 (309)
                      .++|.|+||+||||+++.+++.+...+.....
T Consensus         3 iI~i~G~~GsGKsT~~~~L~~~l~~~~~~~~~   34 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKM   34 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTTCCCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCCeEE
Confidence            48999999999999999999998666554433

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.49  E-value=0.00021  Score=56.18  Aligned_cols=43  Identities=16%  Similarity=0.353  Sum_probs=31.2

Q ss_pred             CccEEEEEeCCC-CCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021660          140 ASVKLVLLDEAD-AMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (309)
Q Consensus       140 ~~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~  182 (309)
                      .++.++++||.- .+.......+.+.+.+...  ...+|++|++..
T Consensus       168 ~~p~ililDEpTs~LD~~~~~~i~~~l~~l~~~~~~Tvi~itH~l~  213 (251)
T d1jj7a_         168 RKPCVLILDDATSALDANSQLQVEQLLYESPERYSRSVLLITQHLS  213 (251)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHTCGGGGGCEEEEECSCHH
T ss_pred             cCCcEEEecCcCcccChhhHHHHHHHHHHHhhhcCCEEEEEeCCHH
Confidence            378899999964 5667777888888886543  456777777654

>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=97.47  E-value=0.00036  Score=57.02  Aligned_cols=39  Identities=18%  Similarity=0.313  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ++....+..++..+  .+++++|++|+||||++++++..+.
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            45666777777776  4599999999999999999998874

>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=97.47  E-value=5.2e-05  Score=57.25  Aligned_cols=27  Identities=26%  Similarity=0.546  Sum_probs=23.6

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           72 NRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++..++|.||||+||||+++.+++.+
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHHHH
Confidence            345568999999999999999999986

>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=97.47  E-value=0.00049  Score=48.90  Aligned_cols=124  Identities=13%  Similarity=0.038  Sum_probs=79.1

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCCCccEE
Q 021660           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL  144 (309)
Q Consensus        65 l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  144 (309)
                      +...+..+-.+.++|+|+.-.-+......+.+.+..+++........ .....   +...+.. ..+.+. |+   .+++
T Consensus         9 L~~~l~k~l~~vyll~G~E~~L~~~~~~~i~~~~~~~~~~~~~~~~~-~~~~~---~~~l~~~-~~t~sl-F~---~krl   79 (140)
T d1jqlb_           9 LRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSI-DPNTD---WNAIFSL-CQAMSL-FA---SRQT   79 (140)
T ss_dssp             HHHHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEECCCC-STTCC---HHHHHHH-HHCCCT-TC---CCEE
T ss_pred             HHHHHhcCCCcEEEEEcChHHHHHHHHHHHHHHHHhCCcceeeeecc-cccCC---HHHHHHH-HcCCCc-cc---CcEE
Confidence            44455555456699999998888888888888875555443222221 12222   2222222 333222 22   6899


Q ss_pred             EEEeCCCCCC-HHHHHHHHHHHHHhcCCceEEEEecCCc------ccchhhhcceeEEEe
Q 021660          145 VLLDEADAMT-KDAQFALRRVIEKYTKNTRFALICNQVN------KIIPALQSRCTRFRF  197 (309)
Q Consensus       145 liiDe~~~l~-~~~~~~l~~~l~~~~~~~~~i~~~~~~~------~l~~~l~~r~~~i~~  197 (309)
                      |+|++.+... ....+.|.++++.+++.+.+|+++...+      ++.+.+..+..+|.+
T Consensus        80 i~i~~~~~~~~k~~~~~L~~~~~~~~~~~~lii~~~~~~k~~~~~k~~K~l~k~g~vI~C  139 (140)
T d1jqlb_          80 LLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTC  139 (140)
T ss_dssp             EEEECCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSSCCTTGGGSHHHHHHGGGCEEEEC
T ss_pred             EEEEcCCCCCcHHHHHHHHHHHhCCCCCEEEEEEcCCCCchhhhhHHHHHHHhCCeEEeC
Confidence            9999887654 5556789999999999999998876433      345666666666654

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.46  E-value=0.00031  Score=54.54  Aligned_cols=44  Identities=16%  Similarity=0.267  Sum_probs=32.1

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~--~~~~~i~~~~~~~~  183 (309)
                      .+|.+|++||. -.+.+.....+.+++.+..  ....+|++|.+...
T Consensus       153 ~~P~iLllDEPts~LD~~~~~~i~~ll~~l~~~~g~tii~vTHd~~~  199 (239)
T d1v43a3         153 VEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQVE  199 (239)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHH
T ss_pred             cCCCceeecCCcccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCHHH
Confidence            37889999995 4567777888888887753  25667778876654

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.46  E-value=6.7e-05  Score=56.59  Aligned_cols=24  Identities=33%  Similarity=0.678  Sum_probs=21.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|.||||+||||.++.+++.+
T Consensus         4 ~riil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           4 VRAVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            348889999999999999999987

>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=97.44  E-value=5.7e-05  Score=56.45  Aligned_cols=23  Identities=30%  Similarity=0.556  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++|.||||+||||.++.+++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999999999997

>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=97.43  E-value=0.00049  Score=51.15  Aligned_cols=23  Identities=30%  Similarity=0.739  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||||+||||+++.++..+
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37888999999999999999997

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.43  E-value=5.2e-05  Score=57.56  Aligned_cols=24  Identities=21%  Similarity=0.498  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.++|.||||+||||+++.+++.+
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            448999999999999999999986

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=97.43  E-value=0.00023  Score=55.42  Aligned_cols=44  Identities=11%  Similarity=0.266  Sum_probs=31.6

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~  183 (309)
                      .++.++++||. ..+.+.....+.+++.+... ...+|++|.+.+.
T Consensus       150 ~~p~illLDEPt~gLD~~~~~~i~~~i~~~~~~g~tii~~tH~l~~  195 (238)
T d1vpla_         150 VNPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNMLE  195 (238)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCHHH
T ss_pred             cCCCEEEecCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            47889999995 56677778888888876543 4566777766544

>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=97.42  E-value=0.00022  Score=52.20  Aligned_cols=21  Identities=24%  Similarity=0.407  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||+|+..+...
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988764

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.42  E-value=8.6e-05  Score=58.16  Aligned_cols=43  Identities=19%  Similarity=0.423  Sum_probs=29.2

Q ss_pred             ccEEEEEeCCCC-CCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~~~-l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      ++.++++||.-. +.......+.+.+........+|++|++...
T Consensus       157 ~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~~  200 (242)
T d1mv5a_         157 NPKILMLDEATASLDSESESMVQKALDSLMKGRTTLVIAHRLST  200 (242)
T ss_dssp             CCSEEEEECCSCSSCSSSCCHHHHHHHHHHTTSEEEEECCSHHH
T ss_pred             CCCEEEecCCccccCHHHHHHHHHHHHHHcCCCEEEEEECCHHH
Confidence            678999999643 3444456666677666556677788876643

>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=97.42  E-value=5e-05  Score=57.08  Aligned_cols=30  Identities=27%  Similarity=0.382  Sum_probs=25.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~  105 (309)
                      .++|.|+||+||||+++.+++.+...+...
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~~~~~~   32 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDNQGINN   32 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTCCE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCCE
Confidence            478999999999999999999996555544

>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=97.39  E-value=7.4e-05  Score=55.86  Aligned_cols=23  Identities=48%  Similarity=0.898  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++|.||||+||||.++.+++.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48899999999999999999997

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.38  E-value=0.00014  Score=54.82  Aligned_cols=27  Identities=22%  Similarity=0.215  Sum_probs=23.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      +-|.||+|+||||+++.++..+...+.
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~~~~~   51 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLREQGI   51 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhccccc
Confidence            569999999999999999998855443

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.37  E-value=7.1e-05  Score=56.62  Aligned_cols=24  Identities=25%  Similarity=0.490  Sum_probs=22.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.++|.||||+||||.++.+++.+
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            348999999999999999999987

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.36  E-value=8e-05  Score=54.78  Aligned_cols=37  Identities=11%  Similarity=0.044  Sum_probs=30.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      .+-|+|++|+|||||+..+++.+...+..+.++..+.
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik~d~   39 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHG   39 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEEecc
Confidence            3679999999999999999999987777666665443

>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=97.35  E-value=0.0011  Score=48.67  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|.+|+|||+|+..+...-
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999988654

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.35  E-value=0.00026  Score=54.92  Aligned_cols=52  Identities=15%  Similarity=0.210  Sum_probs=34.7

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcccchhhhcce
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      .+|.+|++||. -.+.+.....+.+.+.+...  ...+|++|.+.... ..+..|+
T Consensus       143 ~~P~illlDEPts~LD~~~~~~i~~~i~~l~~~~g~tvi~vtHd~~~~-~~~adri  197 (240)
T d2onka1         143 IQPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPILHVTHDLIEA-AMLADEV  197 (240)
T ss_dssp             TCCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCEEEEESCHHHH-HHHCSEE
T ss_pred             ccCCceEecCccccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCHHHH-HHhCCEE
Confidence            37889999995 45677778888888876532  55677777765443 2333443

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=97.34  E-value=0.00038  Score=53.61  Aligned_cols=44  Identities=20%  Similarity=0.285  Sum_probs=32.3

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~--~~~~~i~~~~~~~~  183 (309)
                      .+|.+|++||. -.+.+.....+.+++.+..  ....+|++|++...
T Consensus       144 ~~P~iLllDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vtHd~~~  190 (229)
T d3d31a2         144 TNPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLHITHDQTE  190 (229)
T ss_dssp             SCCSEEEEESSSTTSCHHHHHHHHHHHHHHHHHTTCEEEEEESCHHH
T ss_pred             ccCCceeecCCCcCCCHHHHHHHHHHHHHHHhcCCcEEEEEcCCHHH
Confidence            37889999995 4567777888888887753  25567778876653

>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=97.33  E-value=0.0032  Score=45.79  Aligned_cols=22  Identities=18%  Similarity=0.412  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||+|+..+...-
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999988753

>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=97.32  E-value=0.0064  Score=43.39  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|+||+|||+|++.+...-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999987664

>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=97.31  E-value=9.5e-05  Score=55.32  Aligned_cols=23  Identities=30%  Similarity=0.585  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||||+||||.++.+++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999999998

>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=97.31  E-value=0.0025  Score=49.11  Aligned_cols=49  Identities=14%  Similarity=0.131  Sum_probs=39.5

Q ss_pred             ccccccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        52 ~~~~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +..-..|..+.+.+.+.+....+...||+|..|+|||.++-..+.....
T Consensus        54 ~~lt~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~  102 (233)
T d2eyqa3          54 FETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVD  102 (233)
T ss_dssp             SCCCHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHT
T ss_pred             cccchhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHH
Confidence            3334457888888999999988888999999999999998877766543

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.30  E-value=9.5e-05  Score=55.94  Aligned_cols=24  Identities=25%  Similarity=0.517  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.++|.||||+||||.+..+++.+
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            458999999999999999999986

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.30  E-value=0.00011  Score=56.68  Aligned_cols=25  Identities=36%  Similarity=0.585  Sum_probs=22.7

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .|.+.|.||||+||+|.++.+++.+
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3568889999999999999999998

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=97.29  E-value=0.00042  Score=54.05  Aligned_cols=52  Identities=17%  Similarity=0.182  Sum_probs=36.4

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCcccchhhhcce
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      .++.+|++||. -.+.+.....+.+++.+... ...+|+++.+..... .+.+|+
T Consensus       156 ~~P~lLllDEPt~gLD~~~~~~i~~~i~~l~~~g~til~~tH~l~~~~-~~~drv  209 (240)
T d1ji0a_         156 SRPKLLMMDEPSLGLAPILVSEVFEVIQKINQEGTTILLVEQNALGAL-KVAHYG  209 (240)
T ss_dssp             TCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHTTCCEEEEESCHHHHH-HHCSEE
T ss_pred             hCCCEeeecCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH-HhCCEE
Confidence            37889999995 46778888888888887643 456777777665433 444554

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=97.29  E-value=0.00032  Score=54.48  Aligned_cols=44  Identities=11%  Similarity=0.221  Sum_probs=32.1

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~--~~~~~i~~~~~~~~  183 (309)
                      .+|.+|++||. -.+.+.....+.+++.+..  ....+|++|++.+.
T Consensus       156 ~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHd~~~  202 (240)
T d1g2912         156 RKPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQVE  202 (240)
T ss_dssp             TCCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHH
T ss_pred             cCCCEEEecCCCcccCHHHHHHHHHHHHHHHhccCCEEEEEcCCHHH
Confidence            37889999995 4567777888888887653  25677888876654

>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=97.27  E-value=0.00064  Score=49.31  Aligned_cols=43  Identities=12%  Similarity=0.159  Sum_probs=28.3

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      ...++++|..+.........+...+.......++|++.|..+.
T Consensus        82 d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~Dl  124 (161)
T d2gj8a1          82 DRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADI  124 (161)
T ss_dssp             SEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHH
T ss_pred             cccceeeccccccchhhhhhhhhhhhhcccccceeeccchhhh
Confidence            4557777776655544455566677766667778888887653

>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=97.26  E-value=0.0016  Score=47.33  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|.+|+|||+|++.+...
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=97.25  E-value=0.00059  Score=51.52  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=17.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +.++++|+|+|||.++..++..
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~~   46 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAEY   46 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHHHHHHH
Confidence            4889999999999876655543

>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=97.24  E-value=0.0021  Score=46.78  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|.+|+|||+|++.+...-
T Consensus         7 ivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999987653

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=97.22  E-value=0.00019  Score=55.81  Aligned_cols=44  Identities=18%  Similarity=0.338  Sum_probs=31.4

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~~i~~~~~~~~  183 (309)
                      .+|.+|++||. -.+.+.....+.+++.+...  ...+|++|.+...
T Consensus       157 ~~P~lLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHdl~~  203 (240)
T d3dhwc1         157 SNPKVLLCDEATSALDPATTRSILELLKDINRRLGLTILLITHEMDV  203 (240)
T ss_dssp             TCCSEEEEESGGGSSCHHHHHHHHHHHHHHHHHHCCEEEEEBSCHHH
T ss_pred             cCCCeEEeccccccCCHHHhhHHHHHHHHHHhccCCEEEEEcCCHHH
Confidence            37889999995 45677777888888876532  4567777776543

>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=97.21  E-value=0.00012  Score=54.48  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||||+||||.++.+++.+
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999987

>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=97.20  E-value=0.0031  Score=45.98  Aligned_cols=21  Identities=24%  Similarity=0.488  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|.+|+|||+++..+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>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=97.20  E-value=0.00032  Score=57.42  Aligned_cols=45  Identities=20%  Similarity=0.270  Sum_probs=35.4

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcc
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (309)
                      +...+-|+||||+|||||+..++..+...+..+.++.++++....
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~   97 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVT   97 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC----
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeee
Confidence            334499999999999999999999998888888888888765443

>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=97.19  E-value=0.00019  Score=54.93  Aligned_cols=34  Identities=18%  Similarity=0.244  Sum_probs=27.0

Q ss_pred             HHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           66 DRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        66 ~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +....+.++..+.|+|.||+||||+++.+++.+.
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            4445555555599999999999999999998873

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.18  E-value=0.00058  Score=54.55  Aligned_cols=25  Identities=32%  Similarity=0.509  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ..+.|.||.|+|||||++.++..+.
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             CEEEEECCCCChHHHHHHHHhCCCc
Confidence            3489999999999999999988764

>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=97.17  E-value=0.00042  Score=52.62  Aligned_cols=38  Identities=16%  Similarity=0.223  Sum_probs=26.0

Q ss_pred             ccEEEEEeCCCCCCHH----HHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKD----AQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~----~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      ...+||+||+|.+...    ....++..+...++...+|+.|
T Consensus       138 ~~~~ii~DE~h~~~~~~r~~~~~~~l~~i~~~~~~~~~l~lS  179 (202)
T d2p6ra3         138 AVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLS  179 (202)
T ss_dssp             GCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEE
T ss_pred             hhhhccccHHHHhcccccchHHHHHHHHHHhcCCCCcEEEEc
Confidence            4569999999987533    2445666676666677776655

>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=97.17  E-value=0.002  Score=47.14  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||+|++.+...-
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999988643

>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=97.14  E-value=0.0025  Score=46.36  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|++|+|||+|+..+...-
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999987653

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=97.13  E-value=0.00044  Score=53.68  Aligned_cols=44  Identities=14%  Similarity=0.259  Sum_probs=30.5

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCceEEEEecCCcc
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVNK  183 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~--~~~~~i~~~~~~~~  183 (309)
                      .+|.+|++||. -.+.+.....+.+++.+..  ....+|++|.+...
T Consensus       157 ~~P~llllDEPt~~LD~~~~~~i~~~i~~l~~~~g~tvi~vTHd~~~  203 (242)
T d1oxxk2         157 KDPSLLLLDEPFSNLDARMRDSARALVKEVQSRLGVTLLVVSHDPAD  203 (242)
T ss_dssp             TCCSEEEEESTTTTSCGGGHHHHHHHHHHHHHHHCCEEEEEESCHHH
T ss_pred             hcccceeecCCccCCCHHHHHHHHHHHHHHHhccCCEEEEEECCHHH
Confidence            37889999995 4566666777777777653  25567777776543

>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=97.13  E-value=0.001  Score=52.57  Aligned_cols=28  Identities=29%  Similarity=0.398  Sum_probs=24.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      ...|+||||+|||+++..++.....++.
T Consensus        56 itei~G~~gsGKTtl~l~~~~~~q~~g~   83 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIAAAQREGK   83 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEEecCCCcHHHHHHHHHHHHHHcCCC
Confidence            3899999999999999999998865543

>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=97.10  E-value=0.0019  Score=49.24  Aligned_cols=39  Identities=23%  Similarity=0.389  Sum_probs=28.2

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      .-+.+++||+|.+... ..+.+..+++..+....+++.+.
T Consensus       151 ~l~~lVlDEad~lld~~f~~~v~~I~~~~~~~~Q~vl~SA  190 (212)
T d1qdea_         151 KIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSA  190 (212)
T ss_dssp             TCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEEES
T ss_pred             cceEEeehhhhhhcccchHHHHHHHHHhCCCCCeEEEEEe
Confidence            4678999999988653 35667777777776776666654

>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=97.10  E-value=0.0002  Score=56.07  Aligned_cols=45  Identities=18%  Similarity=0.317  Sum_probs=31.4

Q ss_pred             HHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           65 IDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        65 l~~~~~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      |.+.+.++-+  ..++|+|+||+|||+++..++......+....++.
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            3444554422  33999999999999999999999765554444443

>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=97.09  E-value=0.00037  Score=56.95  Aligned_cols=41  Identities=29%  Similarity=0.380  Sum_probs=34.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCC
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (309)
                      ..+-|+||||+|||||+..+++.+...+..+.++.++++..
T Consensus        52 ~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~   92 (323)
T d2qm8a1          52 IRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSST   92 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGG
T ss_pred             eEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccH
Confidence            34999999999999999999999877787888887776543

>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=97.08  E-value=0.00048  Score=54.24  Aligned_cols=52  Identities=12%  Similarity=0.270  Sum_probs=35.8

Q ss_pred             CccEEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCceEEEEecCCcccchhhhcce
Q 021660          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYT-KNTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       140 ~~~~lliiDe~-~~l~~~~~~~l~~~l~~~~-~~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      .++.+|++||. -.+.+.....+++++.+.. ....+|+++++.+.+. .+.+|.
T Consensus       167 ~~P~llilDEPt~gLD~~~~~~i~~~i~~l~~~g~til~vsHdl~~~~-~~~Drv  220 (254)
T d1g6ha_         167 TNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIVL-NYIDHL  220 (254)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCCSTTG-GGCSEE
T ss_pred             hCcCchhhcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCcHHHHH-HhCCEE
Confidence            37889999995 4567777788888887653 3456777777766543 344554

>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=97.08  E-value=0.00054  Score=51.89  Aligned_cols=24  Identities=29%  Similarity=0.466  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .+.|.||.|+|||||++.++..+.
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCChHHHHHHHHhcccc
Confidence            488999999999999999988763

>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=97.07  E-value=0.0018  Score=47.36  Aligned_cols=22  Identities=27%  Similarity=0.582  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|++|+|||+|+..+...-
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999988754

>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=97.06  E-value=0.00023  Score=54.89  Aligned_cols=22  Identities=23%  Similarity=0.573  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.|.||||+||||.++.+++.+
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            5677999999999999999998

>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=97.04  E-value=0.0011  Score=48.67  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||+|+..+...-
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            9999999999999999887643

>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=97.04  E-value=0.0042  Score=45.12  Aligned_cols=22  Identities=23%  Similarity=0.533  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|.+|+|||+|+..+...-
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999987664

>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=97.02  E-value=0.0015  Score=48.01  Aligned_cols=21  Identities=29%  Similarity=0.600  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||+|+..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            889999999999999988755

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.02  E-value=0.0024  Score=49.41  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=21.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+||...|||++++.++-..
T Consensus        42 ~~~iiTGpN~~GKSt~lk~i~l~~   65 (234)
T d1wb9a2          42 RMLIITGPNMGGKSTYMRQTALIA   65 (234)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEeccCchhhHHHHHHHHHHH
Confidence            348999999999999999987765

>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=97.02  E-value=0.0045  Score=46.60  Aligned_cols=24  Identities=29%  Similarity=0.606  Sum_probs=21.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      |.++|.|+||+|||||+..+...-
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            569999999999999999998763

>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=97.01  E-value=0.0024  Score=48.40  Aligned_cols=38  Identities=26%  Similarity=0.401  Sum_probs=27.0

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      .-+.+|+||+|.+... ....+..+++..+.+..+++.+
T Consensus       146 ~l~~lVlDEaD~ll~~~f~~~i~~I~~~~~~~~Q~~l~S  184 (206)
T d1veca_         146 HVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYS  184 (206)
T ss_dssp             TCCEEEEETHHHHTSTTTHHHHHHHHHHSCTTCEEEEEE
T ss_pred             ccceEEEeccccccccchHHHHHHHHHhCCCCCEEEEEE
Confidence            4568999999987643 4566777777777666666655

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=97.00  E-value=0.00067  Score=52.58  Aligned_cols=43  Identities=21%  Similarity=0.389  Sum_probs=29.5

Q ss_pred             ccEEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CceEEEEecCCcc
Q 021660          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNK  183 (309)
Q Consensus       141 ~~~lliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~  183 (309)
                      ++.++++||. ..+.......+.+++.+... ...+|+++++...
T Consensus       150 ~p~llllDEPt~gLD~~~~~~i~~~i~~l~~~g~tii~vtHdl~~  194 (231)
T d1l7vc_         150 AGQLLLLDEPMNSLDVAQQSALDKILSALCQQGLAIVMSSHDLNH  194 (231)
T ss_dssp             TCCEEEESSCSTTCCHHHHHHHHHHHHHHHHTTCEEEECCCCHHH
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHH
Confidence            4589999995 45677777888888887543 4456666655443

>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=96.99  E-value=0.0023  Score=48.98  Aligned_cols=41  Identities=27%  Similarity=0.426  Sum_probs=29.7

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEecCC
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQV  181 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~~~~  181 (309)
                      .-+.+|+||+|.+... ..+.+..+++..+.+..+++++...
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            4568999999988654 3567777778777777777766433

>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=96.97  E-value=0.00068  Score=51.70  Aligned_cols=35  Identities=23%  Similarity=0.339  Sum_probs=27.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcccccEEE
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      ..++|.|+.|+||||+++.+++.+...+....+..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~~   37 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFT   37 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEe
Confidence            34889999999999999999999876665444433

>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=96.97  E-value=0.022  Score=41.15  Aligned_cols=21  Identities=29%  Similarity=0.605  Sum_probs=18.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +.|.|++|+|||||++.+...
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            789999999999999999743

>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=96.96  E-value=0.00023  Score=53.40  Aligned_cols=22  Identities=27%  Similarity=0.623  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|+||+|+||||+++.++++.
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999999986

>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=96.93  E-value=0.00026  Score=53.25  Aligned_cols=22  Identities=27%  Similarity=0.600  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.||+|+||||+++.+++..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999999987

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.93  E-value=0.00076  Score=53.07  Aligned_cols=52  Identities=12%  Similarity=0.264  Sum_probs=34.2

Q ss_pred             CccEEEEEeCCC-CCCHHHHHHHHHHHHHhcC-CceEEEEecCCcccchhhhcce
Q 021660          140 ASVKLVLLDEAD-AMTKDAQFALRRVIEKYTK-NTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       140 ~~~~lliiDe~~-~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      .++.+|++||.- .+.+.....+++++.+... ...+|++|.+.... ..+..|.
T Consensus       166 ~~P~llilDEPT~gLD~~~~~~i~~ll~~l~~~g~til~vtHdl~~~-~~~adri  219 (258)
T d1b0ua_         166 MEPDVLLFDEPTSALDPELVGEVLRIMQQLAEEGKTMVVVTHEMGFA-RHVSSHV  219 (258)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEECSCHHHH-HHHCSEE
T ss_pred             cCCCEEEeccccccCCHHHHHHHHHhhhhhcccCCceEEEeCCHHHH-HHhCCEE
Confidence            378899999964 5667777777777776543 34577777665443 3445554

>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=96.91  E-value=0.00091  Score=52.33  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ++|+||||+|||+++..++....
T Consensus        39 ~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          39 TEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhh
Confidence            99999999999999999988764

>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=96.90  E-value=0.0024  Score=46.89  Aligned_cols=21  Identities=29%  Similarity=0.588  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||+|+..+...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988664

>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=96.90  E-value=0.0051  Score=44.62  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||+|++.+...-
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999987653

>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=96.90  E-value=0.0027  Score=48.05  Aligned_cols=23  Identities=22%  Similarity=0.255  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++|.|++|+|||+|+..+...-
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            58999999999999999998753

>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=96.89  E-value=0.0034  Score=45.77  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|.+|+|||+|++.+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            789999999999999988654

>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=96.89  E-value=0.0095  Score=43.62  Aligned_cols=103  Identities=11%  Similarity=0.179  Sum_probs=53.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc--C---------------cccccEEEEecCCC-cchHHHHHHHHHhhhccccccC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG--A---------------QYHNMILELNASDD-RGIDVVRQQIQDFASTQSFSFG  137 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~--~---------------~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  137 (309)
                      .+.|.|.+|+|||+|++.+...-..  .               .....+..++.... .........+.......   + 
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~---~-   82 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEA---L-   82 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHH---T-
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeeeeeeeecccccccccccccchhcccccccc---c-
Confidence            4899999999999999998764210  0               01112233333221 11111111111111100   0 


Q ss_pred             CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021660          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (309)
Q Consensus       138 ~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~  183 (309)
                      ....--++++|--+.... ....+.+.+.....+.++|++.|..+.
T Consensus        83 ~~ad~il~v~D~~~~~~~-~~~~i~~~l~~~~~~~piilv~NK~Dl  127 (178)
T d1wf3a1          83 ADVNAVVWVVDLRHPPTP-EDELVARALKPLVGKVPILLVGNKLDA  127 (178)
T ss_dssp             SSCSEEEEEEETTSCCCH-HHHHHHHHHGGGTTTSCEEEEEECGGG
T ss_pred             ccccceeeeechhhhhcc-cccchhhheeccccchhhhhhhccccc
Confidence            111345677776555443 345667777766556678888886654

>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=96.88  E-value=0.0032  Score=47.70  Aligned_cols=39  Identities=18%  Similarity=0.290  Sum_probs=27.5

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      .-+.+++||+|.+... ....+..+++..+....+++.+.
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            4567999999988754 45667777777776666666553

>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=96.87  E-value=0.0024  Score=46.31  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||+|++.+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3899999999999999987654

>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=96.85  E-value=0.004  Score=45.35  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|.+|+|||+|+..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            899999999999999988765

>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=96.85  E-value=0.0045  Score=45.14  Aligned_cols=22  Identities=36%  Similarity=0.407  Sum_probs=17.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|++|+|||+|+..+...-
T Consensus         6 i~vvG~~~vGKTsli~~~~~~~   27 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTGE   27 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC---
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8899999999999998876653

>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=96.84  E-value=0.0069  Score=47.91  Aligned_cols=34  Identities=12%  Similarity=0.089  Sum_probs=25.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH-ccCcccccEEE
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL-YGAQYHNMILE  109 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~-~~~~~~~~~~~  109 (309)
                      .++|.|+||+|||+++..++..+ ...+..+.++.
T Consensus        37 l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s   71 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEee
Confidence            38999999999999999998764 33444444443

>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=96.84  E-value=0.0014  Score=48.26  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|.+|+|||+|+..+...-
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8899999999999999887764

>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=96.82  E-value=0.0016  Score=49.98  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|+||...|||++++.++-..
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~   59 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIA   59 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHHHH
Confidence            48999999999999999887664

>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=96.82  E-value=0.0029  Score=46.25  Aligned_cols=21  Identities=24%  Similarity=0.485  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ++|.|.+|+|||+|++.+...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999988764

>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=96.81  E-value=0.00045  Score=51.49  Aligned_cols=23  Identities=22%  Similarity=0.582  Sum_probs=21.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||+|+||||+++.+.+..
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999998886

>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=96.81  E-value=0.01  Score=44.77  Aligned_cols=39  Identities=18%  Similarity=0.356  Sum_probs=27.3

Q ss_pred             ccEEEEEeCCCCCCH--HHHHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~--~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      +-+.+++||+|.+..  ...+.+..+++..+....+++.+.
T Consensus       145 ~l~~lVlDEaD~ll~~~~~~~~i~~I~~~~~~~~Q~il~SA  185 (207)
T d1t6na_         145 HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSA  185 (207)
T ss_dssp             TCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEES
T ss_pred             ccceeehhhhhhhhhcCCcHHHHHHHHHhCCCCCEEEEEee
Confidence            456899999997763  345566677777776776766553

>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=96.80  E-value=0.0058  Score=46.77  Aligned_cols=39  Identities=28%  Similarity=0.390  Sum_probs=28.1

Q ss_pred             ccEEEEEeCCCCCCHH-HHHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      .-+.+|+||+|.+... ....+..+++..+....+++.+.
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            4568999999987643 45667777777777776766553

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.79  E-value=0.00084  Score=51.19  Aligned_cols=31  Identities=19%  Similarity=0.212  Sum_probs=26.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCccccc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNM  106 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~  106 (309)
                      .+.|.|+.|+||||+++.+++.+...+....
T Consensus         5 lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~   35 (209)
T d1nn5a_           5 LIVLEGVDRAGKSTQSRKLVEALCAAGHRAE   35 (209)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEE
Confidence            4788899999999999999999876665543

>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=96.78  E-value=0.0039  Score=47.25  Aligned_cols=39  Identities=28%  Similarity=0.427  Sum_probs=27.4

Q ss_pred             ccEEEEEeCCCCCC-HHHHHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMT-KDAQFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~-~~~~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      +-+.++|||+|.+. ......+..+++..+++..+++.+.
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            45689999999764 3345667777777777777777653

>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=96.77  E-value=0.0027  Score=46.37  Aligned_cols=21  Identities=29%  Similarity=0.634  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|.+|+|||+|+..+...
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

>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=96.75  E-value=0.0061  Score=44.21  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||+|+..+...-
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999887643

>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=96.73  E-value=0.00056  Score=52.28  Aligned_cols=26  Identities=23%  Similarity=0.129  Sum_probs=22.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      .++|+||||+|||+++..++......
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            39999999999999999998876443

>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=96.71  E-value=0.0047  Score=44.69  Aligned_cols=22  Identities=32%  Similarity=0.329  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|++|+|||+|+..+...-
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            8899999999999999887654

>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=96.69  E-value=0.0011  Score=47.74  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ++|.|+=|+|||++++.+++.+.
T Consensus        36 i~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          36 VYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEecCCCccHHHHHHHHHhhcc
Confidence            88999999999999999999983

>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=96.69  E-value=0.0042  Score=45.47  Aligned_cols=21  Identities=33%  Similarity=0.570  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|.+|+|||+++..+...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988754

>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=96.67  E-value=0.0059  Score=46.16  Aligned_cols=39  Identities=15%  Similarity=0.324  Sum_probs=27.8

Q ss_pred             ccEEEEEeCCCCCCHHH-HHHHHHHHHHhcCCceEEEEec
Q 021660          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICN  179 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~-~~~l~~~l~~~~~~~~~i~~~~  179 (309)
                      +-+.++|||+|.+.... .+.+..++...+++..+++.+.
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            45689999999887543 5566777777777777777653

>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=96.65  E-value=0.0012  Score=50.14  Aligned_cols=31  Identities=16%  Similarity=0.225  Sum_probs=26.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccE
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMI  107 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~  107 (309)
                      +.|.|+.|+||||+++.+++.+...+..+.+
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~~   33 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVAT   33 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEE
Confidence            7889999999999999999998766665443

>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=96.64  E-value=0.0065  Score=44.33  Aligned_cols=27  Identities=22%  Similarity=0.361  Sum_probs=20.9

Q ss_pred             cCCCCeEEEECCCCCcHHHHHHHHHHH
Q 021660           71 ENRLPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +.+.-.+++.|++|+|||++++.+...
T Consensus         9 ~~k~~kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_           9 GNKEMRILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHTTCC
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHhcC
Confidence            333334999999999999999987543

>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=96.64  E-value=0.0097  Score=43.39  Aligned_cols=21  Identities=33%  Similarity=0.534  Sum_probs=18.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||+|+..+...
T Consensus        19 I~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          19 ILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            999999999999999877543

>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=96.63  E-value=0.0021  Score=48.21  Aligned_cols=21  Identities=38%  Similarity=0.662  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ++|.|++|+|||+|+..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            899999999999999988764

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.63  E-value=0.00073  Score=51.36  Aligned_cols=24  Identities=29%  Similarity=0.493  Sum_probs=21.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..++|+||+|+||||+.+.+....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            348999999999999999999885

>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=96.61  E-value=0.0049  Score=44.88  Aligned_cols=22  Identities=27%  Similarity=0.543  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|.+|+|||+++..++..-
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999988743

>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=96.59  E-value=0.01  Score=42.92  Aligned_cols=21  Identities=19%  Similarity=0.336  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ++|.|++|+|||+|+..+...
T Consensus         7 v~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>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=96.57  E-value=0.013  Score=42.43  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|.+|+|||+|+..+...-
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999887653

>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=96.57  E-value=0.00051  Score=53.53  Aligned_cols=22  Identities=27%  Similarity=0.265  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|+||||+|||+++..++...
T Consensus        37 ~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          37 TELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EEEEESTTSSHHHHHHHHTTTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            9999999999999999887654

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.56  E-value=0.00071  Score=50.19  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.||+|+||||+++.++++.
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            38999999999999999998875

>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=96.55  E-value=0.0048  Score=44.95  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||++++.+...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988764

>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=96.55  E-value=0.0012  Score=51.57  Aligned_cols=23  Identities=22%  Similarity=0.135  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ++|+||||+|||+++..++....
T Consensus        40 ~~i~G~~GsGKT~lalq~~~~~~   62 (258)
T d1v5wa_          40 TEAFGEFRTGKTQLSHTLCVTAQ   62 (258)
T ss_dssp             EEEECCTTCTHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999998754

>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=96.52  E-value=0.0035  Score=46.22  Aligned_cols=22  Identities=23%  Similarity=0.416  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||+|+..+...-
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999887754

>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=96.52  E-value=0.014  Score=45.91  Aligned_cols=26  Identities=35%  Similarity=0.502  Sum_probs=23.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      ..|+||+|+|||+++..++......+
T Consensus        60 tei~G~~~sGKT~l~l~~~~~aqk~g   85 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAIVAQAQKAG   85 (268)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEecCCccchHHHHHHHHHHHHhCC
Confidence            89999999999999999999886554

>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=96.50  E-value=0.0033  Score=46.66  Aligned_cols=22  Identities=23%  Similarity=0.372  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||+|+..+...-
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            8999999999999999887654

>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=96.46  E-value=0.005  Score=45.03  Aligned_cols=21  Identities=29%  Similarity=0.480  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ++|.|++|+|||+++..+...
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999888764

>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=96.46  E-value=0.005  Score=45.49  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|.+|+|||+|+..+...-
T Consensus         8 ivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999987754

>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=96.42  E-value=0.0044  Score=45.33  Aligned_cols=21  Identities=29%  Similarity=0.529  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|++|+|||+|+..+...
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            899999999999999988764

>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=96.39  E-value=0.0035  Score=50.73  Aligned_cols=53  Identities=21%  Similarity=0.336  Sum_probs=28.7

Q ss_pred             CeEEEECCCCCcHHHHHHH-HHHHHccCccc-ccEEEEecCCCcchHHHHHHHHHh
Q 021660           75 PHLLLYGPPGTGKTSTILA-VARKLYGAQYH-NMILELNASDDRGIDVVRQQIQDF  128 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~-l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  128 (309)
                      .++++.|+||||||+++-. ++..+...... ..+..+..+. .....+...+...
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            3499999999999976644 44444332222 2333333333 3444455444443

>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=96.34  E-value=0.0092  Score=46.92  Aligned_cols=36  Identities=25%  Similarity=0.385  Sum_probs=26.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (309)
                      ..|+||+|+|||+++..++......+.  .++.++...
T Consensus        63 ~e~~G~~~~GKT~l~l~~~~~~q~~g~--~~vyIDtE~   98 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALHAVANAQAAGG--VAAFIDAEH   98 (269)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHHTTC--EEEEEESSC
T ss_pred             EEEecCCCcHHHHHHHHHHHHHhcCCC--EEEEEECCc
Confidence            899999999999999888887654443  344444443

>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=96.33  E-value=0.0023  Score=51.42  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=17.0

Q ss_pred             CeEEEECCCCCcHHHHHH-HHHHH
Q 021660           75 PHLLLYGPPGTGKTSTIL-AVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~-~l~~~   97 (309)
                      .+++|.|+||||||+++- .++..
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            458999999999997654 34433

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.33  E-value=0.0047  Score=49.66  Aligned_cols=25  Identities=20%  Similarity=0.212  Sum_probs=22.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccC
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~  101 (309)
                      +-|.|++|+||||+++.+...+...
T Consensus        83 IGIaG~sgSGKSTla~~L~~lL~~~  107 (308)
T d1sq5a_          83 ISIAGSVAVGKSTTARVLQALLSRW  107 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHTTS
T ss_pred             EEEeCCCCCCCcHHHHHHHHHHhhh
Confidence            7899999999999999999998543

>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=96.29  E-value=0.01  Score=43.38  Aligned_cols=21  Identities=33%  Similarity=0.656  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|.+|+|||+|+..+...
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988764

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.26  E-value=0.0012  Score=50.31  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=21.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +-|+|++|+||||+++.++..+..
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            569999999999999999998843

>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=96.24  E-value=0.038  Score=40.82  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=20.3

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      .+.+.|.|+||+|||||+..+..
T Consensus        23 ~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          23 LPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHhcC
Confidence            35699999999999999999974

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.19  E-value=0.0031  Score=50.03  Aligned_cols=50  Identities=20%  Similarity=0.272  Sum_probs=37.0

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           63 DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        63 ~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      ..+...+..+....++++|.-|+||||++-.++..+...+..+.++..+.
T Consensus         9 ~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp   58 (279)
T d1ihua2           9 SALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDP   58 (279)
T ss_dssp             HHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCC
T ss_pred             HHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCC
Confidence            34455555555455899999999999999999999877776655555553

>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=96.15  E-value=0.0015  Score=50.84  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ++|.|+||+|||+++..++..+..
T Consensus        37 ~~i~G~~G~GKT~~~l~~a~~~~~   60 (258)
T d2i1qa2          37 TEFAGVFGSGKTQIMHQSCVNLQN   60 (258)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTC
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHh
Confidence            999999999999999999987743

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.15  E-value=0.0019  Score=47.63  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||||+..+...
T Consensus        15 kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          15 KLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEEETTSSHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3999999999999999888554

>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=96.11  E-value=0.007  Score=44.98  Aligned_cols=22  Identities=18%  Similarity=0.329  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|.+|+|||+|+..+...-
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999887654

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=96.10  E-value=0.0017  Score=50.32  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ++|.|++|+|||||+..+.+.+.
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            68999999999999999988763

>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=96.10  E-value=0.0026  Score=48.58  Aligned_cols=33  Identities=18%  Similarity=0.287  Sum_probs=25.2

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q 021660           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        62 ~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ++.|..++.+   ...+|.|++|+|||||+.++...
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            5556665543   34899999999999999988654

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.09  E-value=0.00089  Score=53.33  Aligned_cols=40  Identities=15%  Similarity=0.258  Sum_probs=27.2

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      +.|.+-++|++|+||||+++.+.+.+...+....+++.+.
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Ds   42 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDA   42 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGG
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCC
Confidence            3456999999999999999999998865554444554443

>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=96.06  E-value=0.002  Score=46.32  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|+||+|||+|+..+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3899999999999999998775

>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=96.06  E-value=0.0062  Score=48.04  Aligned_cols=24  Identities=29%  Similarity=0.365  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ..+|+|++|+|||+++..++..+.
T Consensus        31 ~~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          31 VGALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHH
Confidence            389999999999999999988764

>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=96.02  E-value=0.027  Score=43.93  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++|.|.+|+|||+++..+..+
T Consensus        34 ~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          34 TILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3999999999999999999765

>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=96.01  E-value=0.0092  Score=42.65  Aligned_cols=112  Identities=10%  Similarity=0.084  Sum_probs=63.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcch--------------------------HHHHHHHHHhhh
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI--------------------------DVVRQQIQDFAS  130 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~--------------------------~~~~~~~~~~~~  130 (309)
                      +.+|=-+|=||||.|-.++=+..+.+..+.++++--......                          ............
T Consensus         5 i~vytG~GKGKTTAAlG~alRA~G~G~rV~ivQFlKg~~~~ge~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~   84 (157)
T d1g5ta_           5 IIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMAVWQ   84 (157)
T ss_dssp             EEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHhcCCCEEEEEEEecCCcccchhhhhcccCcEEEEecCCCcccCCChHHHHHHHHHHHH
Confidence            555555799999999998888877766665555543221110                          001111111110


Q ss_pred             ccccccCCCCccEEEEEeCCCCCCHH---HHHHHHHHHHHhcCCceEEEEecCCcccchhhhcce
Q 021660          131 TQSFSFGVKASVKLVLLDEADAMTKD---AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       131 ~~~~~~~~~~~~~lliiDe~~~l~~~---~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                      .... .-......+||+||+.....-   ..+.+..+++..|...-+|+|++..+   +.+..+.
T Consensus        85 ~a~~-~~~~~~~dllILDEi~~Ai~~gli~~~~v~~ll~~rp~~~evVlTGr~~p---~~L~e~A  145 (157)
T d1g5ta_          85 HGKR-MLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCH---RDILDLA  145 (157)
T ss_dssp             HHHH-HTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCC---HHHHHHC
T ss_pred             HHHH-HhhcCccCEEeHHHHHHHHHcCCCCHHHHHHHHHhCCCCCEEEEECCCCC---HHHHHhc
Confidence            0000 001125789999997432110   14678888998888999999987654   3444444

>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=95.98  E-value=0.0019  Score=49.76  Aligned_cols=22  Identities=32%  Similarity=0.385  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|+|+||+|||+++..++..
T Consensus        28 ~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3999999999999999876654

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.96  E-value=0.0021  Score=46.52  Aligned_cols=22  Identities=27%  Similarity=0.478  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||+|++.+...-
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8999999999999999987653

>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=95.89  E-value=0.0065  Score=43.96  Aligned_cols=21  Identities=29%  Similarity=0.607  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|.+|+|||+|+..+...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988765

>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=95.87  E-value=0.021  Score=45.54  Aligned_cols=15  Identities=33%  Similarity=0.454  Sum_probs=13.3

Q ss_pred             CeEEEECCCCCcHHH
Q 021660           75 PHLLLYGPPGTGKTS   89 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~   89 (309)
                      .+.++.+|+|+|||+
T Consensus        10 ~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2          10 RLTIMDLHPGAGKTK   24 (305)
T ss_dssp             CEEEECCCTTSSTTT
T ss_pred             CcEEEEECCCCCHHH
Confidence            458999999999995

>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=95.85  E-value=0.0031  Score=48.07  Aligned_cols=28  Identities=32%  Similarity=0.298  Sum_probs=24.0

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           73 RLPHLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ++..+.|.|+.|+||||+++.+++.+..
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~   29 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQP   29 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            3445899999999999999999999843

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.82  E-value=0.0072  Score=47.94  Aligned_cols=24  Identities=29%  Similarity=0.606  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      +-|.|++|+||||++..+...+..
T Consensus        30 IGi~G~qGSGKSTl~~~l~~~L~~   53 (286)
T d1odfa_          30 IFFSGPQGSGKSFTSIQIYNHLME   53 (286)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHHHH
Confidence            568999999999999988877643

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=95.78  E-value=0.0054  Score=48.97  Aligned_cols=39  Identities=28%  Similarity=0.350  Sum_probs=31.7

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      +..++++|.-|+||||++..+|..+...+....++..+.
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~Dp   46 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDP   46 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCT
T ss_pred             CeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCCC
Confidence            344899999999999999999999987777666666553

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=95.76  E-value=0.0013  Score=49.36  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++|.|+.|+||||+++.+++.+
T Consensus        11 ~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1          11 TVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGGT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999887

>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=95.75  E-value=0.0043  Score=45.40  Aligned_cols=21  Identities=38%  Similarity=0.681  Sum_probs=8.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ++|.|.+|+|||+|++.+...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.72  E-value=0.0028  Score=46.47  Aligned_cols=22  Identities=32%  Similarity=0.629  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||+++..+...
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            3999999999999999888765

>d2qw6a1 a.80.1.2 (A:241-328) Uncharacterized protein EfaeDRAFT_0938 {Enterococcus faecium [TaxId: 1352]}

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 EfaeDRAFT 0938
species: Enterococcus faecium [TaxId: 1352]

Probab=95.71  E-value=0.011  Score=37.12  Aligned_cols=39  Identities=13%  Similarity=0.233  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          268 KDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       268 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +.++.++++++++|++.++.++.+++ ..| +|..|.+.|.
T Consensus         2 d~iSA~~KSiRgSD~dAAlywlarml-~~G-D~~~i~RRLi   40 (88)
T d2qw6a1           2 DVISAFQKSIRGSDVDAALHYLARLV-EAG-DLASICRRLM   40 (88)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHH-HTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHcCCccHHHHHHHHHH-HcC-ChhHHHHHHH
Confidence            45789999999999999999999999 888 8988887764

>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=95.56  E-value=0.056  Score=37.34  Aligned_cols=27  Identities=30%  Similarity=0.531  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      -+++||-.+|||+-+-..++.....+.
T Consensus         5 ~li~GpMfsGKTt~Li~~~~~~~~~g~   31 (133)
T d1xbta1           5 QVILGPMFSGKSTELMRRVRRFQIAQY   31 (133)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTC
T ss_pred             EEEEecccCHHHHHHHHHHHHHHHcCC
Confidence            588999999999988777776644443

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.48  E-value=0.004  Score=46.15  Aligned_cols=21  Identities=33%  Similarity=0.532  Sum_probs=18.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ++|.|++|+|||+|++.+...
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            899999999999999887653

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.38  E-value=0.0049  Score=44.58  Aligned_cols=21  Identities=19%  Similarity=0.354  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|.+|+|||+|+..+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998765

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.38  E-value=0.0029  Score=46.39  Aligned_cols=22  Identities=36%  Similarity=0.561  Sum_probs=19.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||+++..+...
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            3999999999999999888764

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.38  E-value=0.0042  Score=48.06  Aligned_cols=25  Identities=16%  Similarity=0.240  Sum_probs=22.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHcc
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      .++|.|+.|+||||+++.+++.+..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhh
Confidence            3899999999999999999999843

>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=95.37  E-value=0.0049  Score=45.56  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +++.|.+|+|||+|+..+...
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988764

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=95.34  E-value=0.005  Score=45.38  Aligned_cols=20  Identities=30%  Similarity=0.634  Sum_probs=18.0

Q ss_pred             eEEEECCCCCcHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVA   95 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~   95 (309)
                      .+++.|++|+|||+|++.+.
T Consensus        19 KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          19 RILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             EEEEEEETTSSHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            39999999999999998764

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase 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: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=95.34  E-value=0.031  Score=41.79  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=17.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      .++++.-|+|+|||........
T Consensus        41 ~~vlv~apTGsGKT~~~~~~~~   62 (206)
T d1oywa2          41 RDCLVVMPTGGGKSLCYQIPAL   62 (206)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCCcchhhhhhh
Confidence            3599999999999987654433

>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=95.34  E-value=0.0039  Score=45.39  Aligned_cols=22  Identities=32%  Similarity=0.625  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .++|.|++|+|||+++..+.+.
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            3999999999999999888776

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.27  E-value=0.27  Score=38.22  Aligned_cols=87  Identities=13%  Similarity=0.166  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccCCC
Q 021660           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVK  139 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (309)
                      .+++.+..+.   +...+.|.|++|+|||+++..+++..........++-.-...   ..++.+.+..+.+.........
T Consensus        57 raID~l~pig---kGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~iGer---~~ev~~~~~~~~~~~~~~~~~~  130 (276)
T d2jdid3          57 KVVDLLAPYA---KGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGER---TREGNDLYHEMIESGVINLKDA  130 (276)
T ss_dssp             HHHHHHSCEE---TTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEEESCC---HHHHHHHHHHHHHHTSSCSSSS
T ss_pred             eeeeeecccc---CCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEEEeccC---hHHHHHHHHHHHhcCccccccc
Confidence            4444444333   335599999999999999999988753333223222222222   2333344444443222211111


Q ss_pred             CccEEEEEeCCCC
Q 021660          140 ASVKLVLLDEADA  152 (309)
Q Consensus       140 ~~~~lliiDe~~~  152 (309)
                      ..+.+++.--.+.
T Consensus       131 ~~~tvvv~~~s~~  143 (276)
T d2jdid3         131 TSKVALVYGQMNE  143 (276)
T ss_dssp             CCCEEEEEECTTS
T ss_pred             cceEEEEEECCCC
Confidence            2466777744443

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.25  E-value=0.01  Score=46.45  Aligned_cols=43  Identities=23%  Similarity=0.221  Sum_probs=36.2

Q ss_pred             cChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        57 g~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      .|..++..+..-+.+..+.+-||.|..|+|||..+...+....
T Consensus        87 ~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~  129 (264)
T d1gm5a3          87 AQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNY  129 (264)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHHH
Confidence            4788888888888888877899999999999998877776653

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.18  E-value=0.0019  Score=50.05  Aligned_cols=25  Identities=12%  Similarity=0.155  Sum_probs=22.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      ..+.|.|+.|+||||+++.+++.+.
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4589999999999999999999874

>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=95.06  E-value=0.035  Score=38.85  Aligned_cols=26  Identities=23%  Similarity=0.349  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      -+++||-.+|||+-+-..++.....+
T Consensus        10 ~lI~GpMfSGKTteLi~~~~~~~~~g   35 (141)
T d1xx6a1          10 EVIVGPMYSGKSEELIRRIRRAKIAK   35 (141)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEEeccccHHHHHHHHHHHHhhhcC
Confidence            58899999999998877776664433

>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=94.97  E-value=0.029  Score=36.29  Aligned_cols=42  Identities=21%  Similarity=0.551  Sum_probs=37.9

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          267 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       267 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ...+.++++.+..+++.+++..+.+++..+|.++.+|+.+|.
T Consensus         3 P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~   44 (95)
T d1sxjc1           3 PSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIV   44 (95)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            456789999999999999999999998678999999999885

>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=94.97  E-value=0.0064  Score=45.16  Aligned_cols=19  Identities=21%  Similarity=0.375  Sum_probs=16.9

Q ss_pred             EEEECCCCCcHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVA   95 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~   95 (309)
                      +-|+|++|+||||++..+.
T Consensus         6 IgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5689999999999999884

>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=94.96  E-value=0.0055  Score=45.10  Aligned_cols=21  Identities=24%  Similarity=0.499  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ++|.|+||+|||||+..+..+
T Consensus         3 I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           3 IIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            799999999999999998754

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.96  E-value=0.0072  Score=44.09  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=18.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      ++|.|.+|+|||+|+..+...
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988643

>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=94.87  E-value=0.12  Score=35.79  Aligned_cols=35  Identities=9%  Similarity=0.137  Sum_probs=22.7

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~  178 (309)
                      ...+|+|||++.+.+ ....+...+...  +..|++.+
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            467999999999874 445555555543  33455554

>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=94.79  E-value=0.052  Score=42.86  Aligned_cols=41  Identities=17%  Similarity=0.156  Sum_probs=31.9

Q ss_pred             cccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           55 VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.-++...+.+..++..+   +.++.-|+|+|||.++..++..+
T Consensus       112 ~~~rdyQ~~av~~~l~~~---~~il~~pTGsGKT~i~~~i~~~~  152 (282)
T d1rifa_         112 IEPHWYQKDAVFEGLVNR---RRILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             CCCCHHHHHHHHHHHHHS---EEEECCCTTSCHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHhcC---CceeEEEcccCccHHHHHHHHHh
Confidence            445777778888888764   36788899999998888777655

>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=94.67  E-value=0.015  Score=45.72  Aligned_cols=38  Identities=21%  Similarity=0.366  Sum_probs=32.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (309)
                      .+.|+|.-|+||||++-.++..+...|..+.++..+..
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~q   40 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPK   40 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECTT
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecCCC
Confidence            36689999999999999999999888877777777654

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=94.54  E-value=0.001  Score=51.16  Aligned_cols=23  Identities=30%  Similarity=0.527  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+|.|++|+|||||+.++....
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            37899999999999999887654

>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=94.47  E-value=0.25  Score=35.68  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      ++-+.|.|++|||||+.++.+
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            388999999999999999974

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.33  E-value=0.0078  Score=46.03  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.3

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .|.++|+|.-|+||||+++.+.+.
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhc
Confidence            355899999999999999999885

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=94.30  E-value=0.07  Score=41.99  Aligned_cols=35  Identities=26%  Similarity=0.374  Sum_probs=26.7

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        65 l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +.-.+--++....+|.|++|+|||+++..+++...
T Consensus        34 ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~   68 (289)
T d1xpua3          34 LDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIA   68 (289)
T ss_dssp             HHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             eeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHh
Confidence            33333344556699999999999999999998764

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=94.27  E-value=0.015  Score=49.16  Aligned_cols=29  Identities=31%  Similarity=0.329  Sum_probs=23.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHccCcc
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (309)
                      .|+++.|++|+|||+++..++.++...+.
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            46999999999999999888877755443

>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=94.27  E-value=0.014  Score=44.01  Aligned_cols=34  Identities=21%  Similarity=0.236  Sum_probs=29.4

Q ss_pred             eEEEECCC-CCcHHHHHHHHHHHHccCcccccEEE
Q 021660           76 HLLLYGPP-GTGKTSTILAVARKLYGAQYHNMILE  109 (309)
Q Consensus        76 ~~ll~G~~-G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (309)
                      .++++|-. |+||||++-.++..+...|+.+.++.
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            48999994 99999999999999988887766654

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.25  E-value=0.03  Score=42.49  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|.+|+|||++++.+...-
T Consensus         9 illlG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            9999999999999999986554

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.19  E-value=0.012  Score=43.69  Aligned_cols=18  Identities=28%  Similarity=0.547  Sum_probs=17.5

Q ss_pred             EEEECCCCCcHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAV   94 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l   94 (309)
                      ++|.|.+|+|||+++..+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            899999999999999998

>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=94.13  E-value=0.012  Score=42.89  Aligned_cols=22  Identities=18%  Similarity=0.439  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      .+.|.|.+|+|||||+.++.++
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3889999999999999999754

>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=94.10  E-value=0.02  Score=45.45  Aligned_cols=38  Identities=24%  Similarity=0.345  Sum_probs=31.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecC
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (309)
                      .+.++|.-|+||||++..++..+...|..+-++..+..
T Consensus         4 ~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~DpQ   41 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPK   41 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCCC
Confidence            46779999999999999999999877777777777654

>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=94.05  E-value=0.061  Score=34.68  Aligned_cols=43  Identities=21%  Similarity=0.460  Sum_probs=38.4

Q ss_pred             ChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          266 LPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ...++..+++.+..+++.++...+.+++...|+++.+|+.+|.
T Consensus         3 ~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~   45 (95)
T d1iqpa1           3 RPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMH   45 (95)
T ss_dssp             CHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            3456889999999999999999999998678999999999875

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.02  E-value=0.016  Score=43.59  Aligned_cols=19  Identities=37%  Similarity=0.476  Sum_probs=17.0

Q ss_pred             EEEECCCCCcHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVA   95 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~   95 (309)
                      +.|+|++|+||||+++.+.
T Consensus         6 IgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCcCCHHHHHHHHH
Confidence            6689999999999998775

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.98  E-value=0.018  Score=42.10  Aligned_cols=22  Identities=27%  Similarity=0.264  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|.+|+|||+|+..+...-
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999887753

>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=93.91  E-value=0.19  Score=37.93  Aligned_cols=25  Identities=20%  Similarity=0.258  Sum_probs=21.5

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .|.+-+.|.+++|||||+.++....
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            3558999999999999999998764

>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=93.80  E-value=0.018  Score=42.29  Aligned_cols=21  Identities=29%  Similarity=0.529  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +.|.|.+|+|||||+.++...
T Consensus        11 V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          11 VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
Confidence            899999999999999998754

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.79  E-value=0.38  Score=37.62  Aligned_cols=36  Identities=25%  Similarity=0.287  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+++.+..+.++   ..+.|.|++|+|||+++..++...
T Consensus        57 raID~l~pig~G---Qr~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          57 KAVDSLVPIGRG---QRELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             HHHHHHSCCBTT---CBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEecccCccCC---CEEEeecCCCCChHHHHHHHHHhH
Confidence            444444444333   458999999999999998887654

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.72  E-value=0.017  Score=42.76  Aligned_cols=22  Identities=32%  Similarity=0.375  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +++.|..|+|||+++..+...-
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8999999999999999996664

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=93.67  E-value=0.016  Score=42.60  Aligned_cols=21  Identities=29%  Similarity=0.447  Sum_probs=18.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      .+-|.|+|++|||||+..+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999988743

>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=93.62  E-value=0.0095  Score=43.68  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      +.+.|.|.|++|||+|++++..
T Consensus        17 ~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          17 IEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4599999999999999988743

>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=93.60  E-value=0.015  Score=42.59  Aligned_cols=23  Identities=35%  Similarity=0.520  Sum_probs=19.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +.+.|.|.||+|||||+..+...
T Consensus         2 ~~VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           2 ADVGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            34889999999999999988643

>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=93.59  E-value=0.014  Score=47.27  Aligned_cols=26  Identities=23%  Similarity=0.263  Sum_probs=23.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (309)
                      +.|.|+-|+||||+++.+++.+...+
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~~g   33 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAITP   33 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTTSG
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            88999999999999999999885443

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=93.59  E-value=0.018  Score=43.31  Aligned_cols=19  Identities=32%  Similarity=0.333  Sum_probs=16.6

Q ss_pred             EEEECCCCCcHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVA   95 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~   95 (309)
                      +-|+|+.|+||||+++.+.
T Consensus         5 IgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5689999999999988774

>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=93.58  E-value=0.055  Score=48.38  Aligned_cols=56  Identities=16%  Similarity=0.265  Sum_probs=39.0

Q ss_pred             hhhhcCCCCccccccChHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           43 WVEKYRPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~--~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +...|+.....++..+--.+  .+...+...++...+++.|.+|+|||..++.+.+.+
T Consensus        53 ~~~~y~~~~~~~~~PHif~iA~~Ay~~l~~~~~~QsIiisGeSGsGKTe~~k~il~yL  110 (684)
T d1lkxa_          53 DIKAYNGRYKYEMPPHMYALANDAYRSMRQSQENQCVIISGESGAGKTEASKKIMQFL  110 (684)
T ss_dssp             HHHHHSSCCGGGSCCCHHHHHHHHHHHHHHHCCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCCChHHHHHHHHHHHHHHcCCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45566655554544433333  244555666666679999999999999999998887

>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=93.58  E-value=0.31  Score=36.75  Aligned_cols=114  Identities=18%  Similarity=0.190  Sum_probs=61.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhhhccccccC------------------
Q 021660           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG------------------  137 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------  137 (309)
                      ..+|.=+.|.|||..+-.++..+...+....+..+.+..  -...+...+............                  
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            378888999999998888877764443333333333332  223344443333221110000                  


Q ss_pred             ----------CCCccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcce
Q 021660          138 ----------VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (309)
Q Consensus       138 ----------~~~~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l~~r~  192 (309)
                                ...+..+||+||++.+.... ......+.......+++++++....-+..+.+.+
T Consensus       111 ~~~~~~~~~l~~~~~~~vI~DEah~~k~~~-s~~~~~~~~l~a~~r~~LTgTPi~n~~~dl~~ll  174 (230)
T d1z63a1         111 YAVLLRDTRLKEVEWKYIVIDEAQNIKNPQ-TKIFKAVKELKSKYRIALTGTPIENKVDDLWSIM  174 (230)
T ss_dssp             HHHHTTCHHHHTCCEEEEEEETGGGGSCTT-SHHHHHHHTSCEEEEEEECSSCSTTCHHHHHHHH
T ss_pred             HHHHHhHHHHhcccceEEEEEhhhcccccc-hhhhhhhhhhccceEEEEecchHHhHHHHHHHHH
Confidence                      01256689999999885322 1222334444445567777776665555555544

>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=93.58  E-value=0.11  Score=34.81  Aligned_cols=24  Identities=8%  Similarity=0.124  Sum_probs=22.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ++|+|-+|+||++++.++...+..
T Consensus         9 i~~tg~~~~gk~~ia~al~~~l~q   32 (122)
T d1g8fa3           9 IVLGNSLTVSREQLSIALLSTFLQ   32 (122)
T ss_dssp             EEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHH
Confidence            899999999999999999988865

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.55  E-value=0.0063  Score=43.65  Aligned_cols=22  Identities=18%  Similarity=0.442  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.|.|.||+|||+|+.++..+-
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999998763

>d1ys7a2 c.23.1.1 (A:7-127) Transcriptional regulatory protein PrrA, N-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein PrrA, N-terminal domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.44  E-value=0.57  Score=31.25  Aligned_cols=75  Identities=11%  Similarity=0.256  Sum_probs=47.2

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC--cccchhhhcceeEEEecCCChHHHHHHHHHHHHHcC
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV--NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEG  217 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~--~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~  217 (309)
                      .+.++++|-  .++.-..-.+...+....+..++|++|...  .....++..-+.-+-.+|.+.+++...+++.+++.|
T Consensus        45 ~~dlvl~D~--~mP~~~G~el~~~ir~~~~~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~rrG  121 (121)
T d1ys7a2          45 RPDAIVLDI--NMPVLDGVSVVTALRAMDNDVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRRG  121 (121)
T ss_dssp             CCSEEEEES--SCSSSCHHHHHHHHHHTTCCCCEEEEECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEe--eccCcccHHHHHHHHhcCCCCEEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHcCC
Confidence            467899984  222222334445555555566666666432  233445555556678889999999999988887654

>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=93.33  E-value=0.092  Score=35.70  Aligned_cols=42  Identities=10%  Similarity=0.083  Sum_probs=38.5

Q ss_pred             ChHHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          266 LPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      ..+.++++++++..+|..+++..+++++ +.|.++..++..|.
T Consensus         3 D~~~~~~L~~~I~~~d~~~~L~~l~~i~-~~G~d~~~~l~~L~   44 (126)
T d1jr3a1           3 DDDQALSLVEAMVEANGERVMALINEAA-ARGIEWEALLVEML   44 (126)
T ss_dssp             CHHHHHHHHHHHHHTCHHHHHHHHHHHH-HTTCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHH
Confidence            4567899999999999999999999999 99999999988764

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.23  E-value=0.028  Score=43.18  Aligned_cols=23  Identities=22%  Similarity=0.283  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .+.|+|+.|+||||++..++...
T Consensus         3 iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            37899999999999999998864

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=93.22  E-value=0.25  Score=38.56  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=19.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..+.|.|++|+|||+++..++...
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            458899999999999998765543

>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=93.16  E-value=0.022  Score=46.16  Aligned_cols=24  Identities=33%  Similarity=0.380  Sum_probs=22.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      ++|-|+-|+||||+++.+++.+..
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            899999999999999999998743

>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=93.12  E-value=0.07  Score=47.84  Aligned_cols=56  Identities=23%  Similarity=0.357  Sum_probs=37.4

Q ss_pred             hhhhcCCCCccccccChHHHH--HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           43 WVEKYRPQSLADVAAHRDIVD--TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~~--~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +.+.|+.....++..+--.+.  +....+..++...+++.|++|+|||...+.+.+.+
T Consensus        92 ~~~~y~~~~~~~~~PHifaiA~~Ay~~m~~~~~nQsIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2          92 MVDIFKGRRRNEVAPHIFAISDVAYRSMLDDRQNQSLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             HHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHcCCCcCCCCCcHHHHHHHHHHHHHHhCCCceEEEeCCCCCCHHHHHHHHHHHH
Confidence            345565555444443333322  34455556666679999999999999999998876

>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=93.10  E-value=0.62  Score=35.99  Aligned_cols=23  Identities=35%  Similarity=0.426  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++.+.|..|+|||||+.++....
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHc
Confidence            58899999999999999997654

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.93  E-value=0.031  Score=41.03  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++|.|..|+|||++++.+...-
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            8999999999999999886553

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=92.90  E-value=0.0092  Score=44.44  Aligned_cols=24  Identities=33%  Similarity=0.433  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHcc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYG  100 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (309)
                      .+|+||.|+|||+++.++.-.+.+
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~g   50 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALIP   50 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Confidence            688999999999999999988744

>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=92.79  E-value=1.2  Score=32.74  Aligned_cols=23  Identities=22%  Similarity=0.160  Sum_probs=20.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++.+.|.++.|||||+.++....
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~~~   27 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTYVA   27 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHh
Confidence            38899999999999999997554

>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=92.56  E-value=0.097  Score=46.96  Aligned_cols=55  Identities=18%  Similarity=0.321  Sum_probs=36.9

Q ss_pred             hhhcCCCCccccccChHHHH--HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           44 VEKYRPQSLADVAAHRDIVD--TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        44 ~~~~~p~~~~~~ig~~~~~~--~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ...|+.....++..+--.+.  +...+...++...+++.|.+|+|||...+.+.+.+
T Consensus        59 ~~~y~~~~~~~~~PHif~vA~~Ay~~m~~~~~~Q~IiisGeSGaGKTe~~k~il~yL  115 (710)
T d1br2a2          59 IDMYKGKKRHEMPPHIYAIADTAYRSMLQDREDQSILCTGESGAGKTENTKKVIQYL  115 (710)
T ss_dssp             HHHTTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCCChHHHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            44555544444433332222  44455556666679999999999999999998887

>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=92.49  E-value=0.094  Score=47.24  Aligned_cols=56  Identities=21%  Similarity=0.396  Sum_probs=37.5

Q ss_pred             hhhhcCCCCccccccChHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           43 WVEKYRPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        43 ~~~~~~p~~~~~~ig~~~~~--~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      +...|+.....++..+--.+  .+...+...++...+++.|++|+|||...+.+.+.+
T Consensus        61 ~~~~y~~~~~~~~~PHif~vA~~Ay~~l~~~~~~Q~IiisGeSGsGKTe~~k~il~~l  118 (730)
T d1w7ja2          61 IINAYSGQNMGDMDPHIFAVAEEAYKQMARDERNQSIIVSGESGAGKTVSAKYAMRYF  118 (730)
T ss_dssp             HHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHcCCCcCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            44556555444443333222  244455566666679999999999999999998877

>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=92.37  E-value=0.092  Score=47.71  Aligned_cols=54  Identities=19%  Similarity=0.294  Sum_probs=35.8

Q ss_pred             hhcCCCCccccccChHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021660           45 EKYRPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        45 ~~~~p~~~~~~ig~~~~~--~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ..|+.....++..+--.+  .+...++..++...++++|++|+|||...+.+.+.+
T Consensus        92 ~~y~~~~~~~~pPHifaiA~~Ay~~m~~~~~~QsIiisGeSGaGKTe~~K~il~yL  147 (794)
T d2mysa2          92 LAYRGKKRQEAPPHIFSISDNAYQFMLTDRENQSILITGESGAGKTVNTKRVIQYF  147 (794)
T ss_dssp             HHTTTCCTTSSCSCHHHHHHHHHHHHHHHTCCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCCCcHHHHHHHHHHHHHHcCCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            345444444443333322  244555566666679999999999999999888887

>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=92.28  E-value=0.058  Score=40.87  Aligned_cols=36  Identities=22%  Similarity=0.230  Sum_probs=28.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHccCcccccEEEEec
Q 021660           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (309)
                      .+..|..|+||||++..+|..+...+....++..+.
T Consensus         5 av~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D~   40 (232)
T d1hyqa_           5 TVASGKGGTGKTTITANLGVALAQLGHDVTIVDADI   40 (232)
T ss_dssp             EEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCC
T ss_pred             EEECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCCC
Confidence            455689999999999999999977666665555544

>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=92.05  E-value=0.093  Score=47.62  Aligned_cols=55  Identities=24%  Similarity=0.343  Sum_probs=36.4

Q ss_pred             hhcCCCCccccccChHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHc
Q 021660           45 EKYRPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        45 ~~~~p~~~~~~ig~~~~~--~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      +.|+.....++..+--.+  .+...+...++...+++.|++|+|||..++.+.+.+.
T Consensus        90 ~~y~~~~~~~~~PHiyavA~~Ay~~m~~~~~nQ~IiisGESGaGKTe~~K~il~yL~  146 (789)
T d1kk8a2          90 AKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLA  146 (789)
T ss_dssp             HHHTTCCGGGSCCCHHHHHHHHHHHHHHHTSEEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCCCcHHHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            445544444443333222  2445555566656699999999999999999888873

>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=91.68  E-value=0.092  Score=33.44  Aligned_cols=40  Identities=13%  Similarity=0.207  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhcCCCHHHHHHHhh
Q 021660          268 KDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (309)
Q Consensus       268 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~l~  308 (309)
                      +.+..+++.+.++++..+...+.+++ ..|.+..+|+.+|.
T Consensus         4 ~~i~~il~~~~~~~f~~a~~~i~~l~-~~Gys~~dIl~~l~   43 (91)
T d1sxjd1           4 DILIEIVEKVKSGDFDEIKKYVNTFM-KSGWSAASVVNQLH   43 (91)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHH-HTSCCCTTHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            45789999999999999999999998 78999999999885

>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=91.42  E-value=0.035  Score=44.81  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHc
Q 021660           77 LLLYGPPGTGKTSTILAVARKLY   99 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (309)
                      |.|-|+-|+||||+++.+++.+.
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            78999999999999999988763

>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=91.32  E-value=2.2  Score=34.03  Aligned_cols=41  Identities=17%  Similarity=0.360  Sum_probs=28.0

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l  184 (309)
                      ...+|++|=.+.+.......+..+.+.   ..++|++-|..++.
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            567999999999888776666666553   34455555665543

>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=91.25  E-value=0.11  Score=39.54  Aligned_cols=24  Identities=38%  Similarity=0.379  Sum_probs=18.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++++.+|+|+|||..+...+...
T Consensus        59 ~~~~i~apTGsGKT~~~~~~~~~~   82 (237)
T d1gkub1          59 ESFAATAPTGVGKTSFGLAMSLFL   82 (237)
T ss_dssp             CCEECCCCBTSCSHHHHHHHHHHH
T ss_pred             CCEEEEecCCChHHHHHHHHHHHH
Confidence            459999999999998766555544

>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=90.95  E-value=0.041  Score=43.79  Aligned_cols=23  Identities=30%  Similarity=0.494  Sum_probs=19.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .-+|+||.|+|||+++.++.-.+
T Consensus        26 lnvlvG~NgsGKS~iL~Ai~~~l   48 (308)
T d1e69a_          26 VTAIVGPNGSGKSNIIDAIKWVF   48 (308)
T ss_dssp             EEEEECCTTTCSTHHHHHHHHTS
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Confidence            36999999999999999886543

>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=90.92  E-value=2.7  Score=32.41  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=21.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      .++-|.|..|+|||||+.++....
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            469999999999999999998765

>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=90.91  E-value=1.2  Score=32.55  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      ++.+.|-.+.|||||+.++...+
T Consensus         5 ni~iiGHvd~GKSTL~~~l~~~~   27 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAITKIL   27 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHH
Confidence            38999999999999999997653

>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=90.31  E-value=0.068  Score=44.44  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVARKL   98 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (309)
                      -+|+||.|+|||+++.++.-.+
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            6899999999999999997544

>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=90.30  E-value=0.07  Score=44.40  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=19.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      -++.|.|.||+|||+++.++..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            3599999999999999999974

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=90.14  E-value=0.11  Score=39.24  Aligned_cols=35  Identities=20%  Similarity=0.264  Sum_probs=26.9

Q ss_pred             EEEE-CCCCCcHHHHHHHHHHHHccCcccccEEEEe
Q 021660           77 LLLY-GPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (309)
Q Consensus        77 ~ll~-G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (309)
                      +.++ +..|+||||++..++..+...+..+.++..+
T Consensus         5 Iav~~~kGGvGKTtia~nLA~~la~~g~~VlliD~D   40 (237)
T d1g3qa_           5 ISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGD   40 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            4444 7889999999999999997766665555544

>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}

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: Rad54-like, Rad54L
species: Zebra fish (Danio rerio) [TaxId: 7955]

Probab=89.55  E-value=1.8  Score=33.70  Aligned_cols=47  Identities=13%  Similarity=0.169  Sum_probs=28.2

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhh
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPAL  188 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~l~~~l  188 (309)
                      ...+||+||+|.+.... ......+.......+++++++....-+..+
T Consensus       192 ~~~~vI~DEaH~ikn~~-s~~~~a~~~l~~~~rllLTGTPi~N~~~dl  238 (298)
T d1z3ix2         192 KVGLVICDEGHRLKNSD-NQTYLALNSMNAQRRVLISGTPIQNDLLEY  238 (298)
T ss_dssp             CCCEEEETTGGGCCTTC-HHHHHHHHHHCCSEEEEECSSCSGGGGGGC
T ss_pred             ceeeeeccccccccccc-chhhhhhhccccceeeeecchHHhhhhHHH
Confidence            45689999999986422 222333444455667777776655444433

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=89.52  E-value=0.55  Score=38.83  Aligned_cols=65  Identities=20%  Similarity=0.249  Sum_probs=46.4

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhh
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (309)
                      |+.+++.+.+-+..+. ...+|.|-+|+|||.++..+++..     +..++.+.... .....+.+.+..+.
T Consensus        16 QP~aI~~l~~~l~~g~-~~q~l~GltGS~ka~~iA~l~~~~-----~rp~LVVt~n~-~~A~qL~~dL~~~l   80 (413)
T d1t5la1          16 QPQAIAKLVDGLRRGV-KHQTLLGATGTGKTFTISNVIAQV-----NKPTLVIAHNK-TLAGQLYSELKEFF   80 (413)
T ss_dssp             HHHHHHHHHHHHHHTC-SEEEEEECTTSCHHHHHHHHHHHH-----TCCEEEECSSH-HHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHhcCC-CcEEEeCCCCcHHHHHHHHHHHHh-----CCCEEEEeCCH-HHHHHHHHHHHHHc
Confidence            6777888888887664 448899999999999999999987     33444444443 44555666666554

>d1c4oa1 c.37.1.19 (A:2-409) Nucleotide excision repair enzyme UvrB {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: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Thermus thermophilus [TaxId: 274]

Probab=89.39  E-value=2.9  Score=34.26  Aligned_cols=65  Identities=18%  Similarity=0.233  Sum_probs=45.8

Q ss_pred             ChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHccCcccccEEEEecCCCcchHHHHHHHHHhh
Q 021660           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (309)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (309)
                      ++++++.+.+.+..+. ....|.|.+|++|+.++..+++..     +..++.+... ......+...+..+.
T Consensus        13 qp~aI~~l~~~L~~g~-~~~~L~GlsgS~ka~~~A~l~~~~-----~rp~LvVt~~-~~~A~~l~~dL~~~l   77 (408)
T d1c4oa1          13 QPKAIAGLVEALRDGE-RFVTLLGATGTGKTVTMAKVIEAL-----GRPALVLAPN-KILAAQLAAEFRELF   77 (408)
T ss_dssp             HHHHHHHHHHHHHTTC-SEEEEEECTTSCHHHHHHHHHHHH-----TCCEEEEESS-HHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHhcCC-CcEEEecCCCCHHHHHHHHHHHHh-----CCCEEEEeCC-HHHHHHHHHHHHHhc
Confidence            5667888888888654 337999999999999999999987     3344444433 345556666666654

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=89.11  E-value=0.066  Score=42.60  Aligned_cols=18  Identities=33%  Similarity=0.530  Sum_probs=15.5

Q ss_pred             eEEEECCCCCcHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILA   93 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~   93 (309)
                      ..+|+|.+|||||||...
T Consensus        16 valffGLSGTGKTTLs~~   33 (318)
T d1j3ba1          16 VAVFFGLSGTGKTTLSTD   33 (318)
T ss_dssp             EEEEEECTTSCHHHHTCB
T ss_pred             EEEEEccCCCCccccccC
Confidence            489999999999998653

>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=88.72  E-value=0.1  Score=42.06  Aligned_cols=26  Identities=35%  Similarity=0.522  Sum_probs=19.1

Q ss_pred             HHHhcCCCCeEEEECCCCCcHHHHHH
Q 021660           67 RLTSENRLPHLLLYGPPGTGKTSTIL   92 (309)
Q Consensus        67 ~~~~~~~~~~~ll~G~~G~GKT~l~~   92 (309)
                      ..+..+....++-||..|+|||+++.
T Consensus        78 ~~~~~G~n~~i~aYGqTGSGKTyTm~  103 (330)
T d1ry6a_          78 DLYENGCVCSCFAYGQTGSGKTYTML  103 (330)
T ss_dssp             HHHHHCCEEEEEEECCTTSSHHHHHH
T ss_pred             HHHhcCCCeEEEeeeccccccceeee
Confidence            44444544449999999999999864

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=88.54  E-value=0.087  Score=41.72  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=18.2

Q ss_pred             EecCCChHHHHHHHHHHHHHcCC
Q 021660          196 RFAPLEPVHVTERLKHVIEAEGL  218 (309)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~  218 (309)
                      .|-+..+....++|..++++.+.
T Consensus       185 PFl~~~p~~ya~lL~~ki~~~~~  207 (313)
T d2olra1         185 AFLSLHPTQYAEVLVKRMQAAGA  207 (313)
T ss_dssp             GGCSSCHHHHHHHHHHHHHHHTC
T ss_pred             ccccccHHHHHHHHHHHHHhcCC
Confidence            46778888899999988887653

>d1kgsa2 c.23.1.1 (A:2-123) PhoB receiver domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoB receiver domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.98  E-value=2  Score=28.31  Aligned_cols=74  Identities=12%  Similarity=0.243  Sum_probs=45.4

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc--cchhhhcceeEEEecCCChHHHHHHHHHHHHHc
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK--IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE  216 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~--l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~  216 (309)
                      .+.++++|=  .++....-.+...+...+...++|++|.....  ....+..-+.-+-.+|.+.+++...++..+++.
T Consensus        45 ~~dlillD~--~mp~~~g~~~~~~lr~~~~~~piI~lt~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~r~  120 (122)
T d1kgsa2          45 PFDVVILDI--MLPVHDGWEILKSMRESGVNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRRK  120 (122)
T ss_dssp             CCSEEEEES--CCSSSCHHHHHHHHHHTTCCCCEEEEESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             Ccccccccc--ccccchhHHHHHHHHhcCCCCcEEEEcCCCCHHHHHHHHHcCCceeecCCCCHHHHHHHHHHHHHHh
Confidence            467899993  23322233444555555556677777654432  223333334667788999999998888777653

>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=87.68  E-value=0.22  Score=39.95  Aligned_cols=22  Identities=32%  Similarity=0.477  Sum_probs=17.4

Q ss_pred             cCCCCeEEEECCCCCcHHHHHH
Q 021660           71 ENRLPHLLLYGPPGTGKTSTIL   92 (309)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~~   92 (309)
                      .+....++-||+.|+|||+++.
T Consensus        73 ~G~n~~i~aYGqtgSGKTyT~~   94 (323)
T d1bg2a_          73 EGYNGTIFAYGQTSSGKTHTME   94 (323)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHT
T ss_pred             cCCCcceeeecccCCCCceecc
Confidence            4444459999999999999874

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=87.48  E-value=0.11  Score=41.25  Aligned_cols=17  Identities=35%  Similarity=0.567  Sum_probs=15.1

Q ss_pred             eEEEECCCCCcHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTIL   92 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~   92 (309)
                      ..+|.|.+|||||||..
T Consensus        16 ~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          16 VTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             EEEEECCTTSSHHHHHC
T ss_pred             EEEEEccCCCCccccee
Confidence            37899999999999974

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=86.60  E-value=4.1  Score=29.14  Aligned_cols=20  Identities=25%  Similarity=0.288  Sum_probs=18.3

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (309)
                      +-+.|-.+.|||||+.++..
T Consensus         8 IaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           8 IGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEeccCCcHHHHHHHHHh
Confidence            78999999999999999964

>d1zh2a1 c.23.1.1 (A:2-120) Transcriptional regulatory protein KdpE, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein KdpE, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=85.86  E-value=3.2  Score=27.12  Aligned_cols=73  Identities=14%  Similarity=0.276  Sum_probs=44.2

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc--ccchhhhcceeEEEecCCChHHHHHHHHHHHHHc
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE  216 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~--~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~  216 (309)
                      .+.++++|=  .++.-..-.+.+.+...+..+ +|+.|....  ....++..-+.-+-.+|.+.+++...++..+++.
T Consensus        44 ~~dliilD~--~mP~~~G~e~~~~ir~~~~~p-iI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lrr~  118 (119)
T d1zh2a1          44 KPDLIILDL--GLPDGDGIEFIRDLRQWSAVP-VIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRRH  118 (119)
T ss_dssp             CCSEEEEES--EETTEEHHHHHHHHHTTCCCC-EEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             CCCEEEecc--ccCCCCCchHHHHHHhccCCc-EEEEeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhhh
Confidence            467899984  233222344555566555444 445443332  2334455555677888999999998888877653

>d2a9pa1 c.23.1.1 (A:2-118) DNA-binding response regulator MicA, N-terminal domain {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: DNA-binding response regulator MicA, N-terminal domain
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=85.65  E-value=3.3  Score=26.99  Aligned_cols=71  Identities=11%  Similarity=0.261  Sum_probs=42.1

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc--ccchhhhcceeEEEecCCChHHHHHHHHHHHH
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQSRCTRFRFAPLEPVHVTERLKHVIE  214 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~--~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~  214 (309)
                      .+.++++|=  .++....-.+...+...+ ..++|++|....  ....++..-+.-+-.+|.+.+++...++..++
T Consensus        44 ~~dlillD~--~mp~~~G~~~~~~i~~~~-~~pvI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~lr  116 (117)
T d2a9pa1          44 QPDIIILDL--MLPEIDGLEVAKTIRKTS-SVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLR  116 (117)
T ss_dssp             CCSEEEECS--SCSSSCHHHHHHHHHTTC-CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCCEEEecc--ccCCCCccHHHHHHHhCC-CCCEEEEecCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhC
Confidence            467899983  233222234445555544 455666554333  22334444456677889999999888887664

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {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: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=85.62  E-value=4.9  Score=29.02  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021660           76 HLLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (309)
                      ++.+.|....|||||+.++..
T Consensus        10 ni~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3          10 NIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             EEEEECSTTSSHHHHHHHHHS
T ss_pred             EEEEEEccCCcHHHHHHHHHh
Confidence            389999999999999999864

>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=85.38  E-value=0.33  Score=39.42  Aligned_cols=21  Identities=29%  Similarity=0.526  Sum_probs=16.3

Q ss_pred             cCCCCeEEEECCCCCcHHHHH
Q 021660           71 ENRLPHLLLYGPPGTGKTSTI   91 (309)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~   91 (309)
                      .+....++-||++|+|||+++
T Consensus        77 ~G~n~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          77 NGYNGTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             TTCCEEEEEECSTTSSHHHHH
T ss_pred             ccCceeEEecccCCCCcceee
Confidence            333334999999999999875

>d1krwa_ c.23.1.1 (A:) NTRC receiver domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: NTRC receiver domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=85.17  E-value=1.3  Score=29.43  Aligned_cols=73  Identities=14%  Similarity=0.170  Sum_probs=44.5

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc--ccchhhhcceeEEEecCCChHHHHHHHHHHHHH
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA  215 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~--~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~  215 (309)
                      .+.++++| + .++.-..-.++..+.+..+..++|++|....  ....++..-+.-+-.+|.+.+++...+++.+.+
T Consensus        47 ~~dlii~D-~-~mp~~~G~el~~~l~~~~~~~piI~~t~~~~~~~~~~a~~~Ga~dyl~KP~~~~eL~~~i~~~l~~  121 (123)
T d1krwa_          47 TPDVLLSD-I-RMPGMDGLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISH  121 (123)
T ss_dssp             CCSEEEEC-C-SSSSSTTHHHHHHHHHHSSSCCEEESCCCSCHHHHHHHHHHTEEEECSSCCHHHHHHHHHHHHHHH
T ss_pred             CCCEEEeh-h-hcCCchHHHHHHHHHHhCCCCeEEEEecCCCHHHHHHHHHcCCCeEEeCcCCHHHHHHHHHHHHHc
Confidence            56799999 2 2333222334444544455667777665443  233444444566777888889998888877654

>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=84.36  E-value=0.37  Score=38.83  Aligned_cols=35  Identities=29%  Similarity=0.535  Sum_probs=23.6

Q ss_pred             ChHHHHHHHHHHh---cCCCCeEEEECCCCCcHHHHHH
Q 021660           58 HRDIVDTIDRLTS---ENRLPHLLLYGPPGTGKTSTIL   92 (309)
Q Consensus        58 ~~~~~~~l~~~~~---~~~~~~~ll~G~~G~GKT~l~~   92 (309)
                      ++++.+.+...+.   .+....++-||+.|+|||+.+.
T Consensus        64 q~~vy~~v~~~v~~~l~G~n~~i~aYGqtgSGKT~T~~  101 (342)
T d1f9va_          64 NVDVFKEVGQLVQSSLDGYNVCIFAYGQTGSGKTFTML  101 (342)
T ss_dssp             HHHHHHHHHHHHGGGGGTCCEEEEEECCTTSSHHHHHH
T ss_pred             HHHHHHHhhhhhcchhcccccceeeeeccCCccccccc
Confidence            5666665554443   2333338999999999998773

>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=84.18  E-value=0.36  Score=38.95  Aligned_cols=21  Identities=38%  Similarity=0.504  Sum_probs=16.3

Q ss_pred             cCCCCeEEEECCCCCcHHHHH
Q 021660           71 ENRLPHLLLYGPPGTGKTSTI   91 (309)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~   91 (309)
                      .+....++-||+.|+|||+++
T Consensus        78 ~G~n~~i~aYGqtgSGKTyTm   98 (345)
T d1x88a1          78 MGYNCTIFAYGQTGTGKTFTM   98 (345)
T ss_dssp             TTCEEEEEEEECTTSSHHHHH
T ss_pred             ccCCceEEeeeeccccceEEe
Confidence            343334999999999999776

>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=83.84  E-value=0.43  Score=38.57  Aligned_cols=21  Identities=33%  Similarity=0.566  Sum_probs=16.9

Q ss_pred             cCCCCeEEEECCCCCcHHHHH
Q 021660           71 ENRLPHLLLYGPPGTGKTSTI   91 (309)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~   91 (309)
                      .+....++-||+.|+|||+++
T Consensus        84 ~G~n~ti~aYGqTgSGKT~Tm  104 (349)
T d2zfia1          84 EGYNVCIFAYGQTGAGKSYTM  104 (349)
T ss_dssp             TTCCEEEEEECSTTSSHHHHH
T ss_pred             hccCceeeeeccCCCCCceee
Confidence            343344999999999999987

>d1dbwa_ c.23.1.1 (A:) Transcriptional regulatory protein FixJ, receiver domain {Rhizobium meliloti [TaxId: 382]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein FixJ, receiver domain
species: Rhizobium meliloti [TaxId: 382]

Probab=83.65  E-value=4.3  Score=26.68  Aligned_cols=71  Identities=15%  Similarity=0.189  Sum_probs=44.6

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc--ccchhhhcceeEEEecCCChHHHHHHHHHHH
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQSRCTRFRFAPLEPVHVTERLKHVI  213 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~--~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~  213 (309)
                      .+.++++|=  .++.-..-.+.+.+....+..++|+.|....  ....++..-+.-+-.+|.+.+++...+++.+
T Consensus        47 ~~dlvi~D~--~mp~~~G~e~~~~lr~~~~~~~iI~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~a~  119 (123)
T d1dbwa_          47 RNGVLVTDL--RMPDMSGVELLRNLGDLKINIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERAS  119 (123)
T ss_dssp             CSEEEEEEC--CSTTSCHHHHHHHHHHTTCCCCEEEEECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHH
T ss_pred             CCcEEEEec--cCccccchHHHHHHHhcCCCCeEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            467888884  2332223445555665555667777764443  3344555555667778999999988887654

>d1ny5a1 c.23.1.1 (A:1-137) Transcriptional activator sigm54 (NtrC1), N-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional activator sigm54 (NtrC1), N-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=83.47  E-value=4.7  Score=27.03  Aligned_cols=72  Identities=17%  Similarity=0.224  Sum_probs=45.7

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc--ccchhhhcceeEEEecCCChHHHHHHHHHHHH
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQSRCTRFRFAPLEPVHVTERLKHVIE  214 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~--~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~  214 (309)
                      .+.++++|-  .++....-.+...+....+..++|++|...+  ....++..-+.-+-.+|.+.+++...+.+.+.
T Consensus        44 ~~dlvilD~--~mp~~~G~e~~~~lr~~~~~~piI~lT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  117 (137)
T d1ny5a1          44 HFNVVLLDL--LLPDVNGLEILKWIKERSPETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIE  117 (137)
T ss_dssp             CCSEEEEES--BCSSSBHHHHHHHHHHHCTTSEEEEEEETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHH
T ss_pred             ccccchHHH--hhhhhhHHHHHHHHHHhCCCCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            467999993  3443333455556665666677777664432  33345544456677789999999888876654

>d1xhfa1 c.23.1.1 (A:2-122) Aerobic respiration control protein ArcA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Aerobic respiration control protein ArcA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=83.21  E-value=4.4  Score=26.51  Aligned_cols=71  Identities=18%  Similarity=0.354  Sum_probs=43.4

Q ss_pred             ccEEEEEe-CCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc--ccchhhhcceeEEEecCCChHHHHHHHHHHHHH
Q 021660          141 SVKLVLLD-EADAMTKDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA  215 (309)
Q Consensus       141 ~~~lliiD-e~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~--~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~  215 (309)
                      .+.++++| +...+.   ...+.+.+...+ ..++|++|....  .....+..-+.-+-.+|.+.+++...++..+++
T Consensus        46 ~~dlii~D~~mp~~~---G~~~~~~~r~~~-~~pii~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~v~~~l~R  119 (121)
T d1xhfa1          46 DINLVIMDINLPGKN---GLLLARELREQA-NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR  119 (121)
T ss_dssp             CCSEEEECSSCSSSC---HHHHHHHHHHHC-CCEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CCCEEEeecccCCcc---CcHHHHHHHhcC-CCcEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            46789998 233322   234555565554 556666664333  223444444577888999999998888876653

>d1qkka_ c.23.1.1 (A:) Transcriptional regulatory protein DctD, receiver domain {Sinorhizobium meliloti [TaxId: 382]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein DctD, receiver domain
species: Sinorhizobium meliloti [TaxId: 382]

Probab=83.08  E-value=1.1  Score=30.56  Aligned_cols=73  Identities=18%  Similarity=0.187  Sum_probs=45.7

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC--cccchhhhcceeEEEecCCChHHHHHHHHHHHHH
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV--NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA  215 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~--~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~  215 (309)
                      .+.++++| + .++.-..-.+++.+....++.++|++|...  .....++..-+.-+-.+|.+.+++...+++.+.+
T Consensus        44 ~~dlil~D-~-~mP~~~G~el~~~lr~~~~~~pvI~lT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~~  118 (140)
T d1qkka_          44 FAGIVISD-I-RMPGMDGLALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEK  118 (140)
T ss_dssp             CCSEEEEE-S-CCSSSCHHHHHHHHHHHCTTSCEEEEECGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CcchHHHh-h-ccCCCCHHHHHHHHHHhCCCCcEEEEECCCCHHHHHHHHHcCCCEeecCCCCHHHHHHHHHHHHHH
Confidence            46788888 2 233322334455555555567777766433  3344556555677788899999988888776544

>d1u0sy_ c.23.1.1 (Y:) CheY protein {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Thermotoga maritima [TaxId: 2336]

Probab=82.70  E-value=4.5  Score=26.30  Aligned_cols=70  Identities=21%  Similarity=0.328  Sum_probs=43.0

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCCc--ccchhhhcceeEEEecCCChHHHHHHHHHH
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQSRCTRFRFAPLEPVHVTERLKHV  212 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~--~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~  212 (309)
                      .+.++++| + .++....-.+...+....++.++|++|....  ....++..-+.-+-.+|.+.+++.+.+++.
T Consensus        46 ~~dliilD-~-~mp~~~G~e~~~~ir~~~~~~pvi~ls~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~l~~v  117 (118)
T d1u0sy_          46 KPDIVTMD-I-TMPEMNGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV  117 (118)
T ss_dssp             CCSEEEEE-C-SCGGGCHHHHHHHHHHHCTTCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             cCCEEEEe-c-CCCCCCHHHHHHHHHHhCCCCcEEEEEccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            46789998 2 3333333344444554555677777664332  333455555566777899999998887654

>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)62
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=82.62  E-value=3.1  Score=24.37  Aligned_cols=55  Identities=9%  Similarity=0.163  Sum_probs=40.3

Q ss_pred             HHHHHHHcCC-CCCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc--CCcCHHHHHhhhC
Q 021660          209 LKHVIEAEGL-DVTEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEAVYLCTG  263 (309)
Q Consensus       209 l~~~~~~~~~-~~~~~~l~~i~~~~~g~~r~~~~~l~~~~~~~--~~i~~~~v~~~~~  263 (309)
                      ++.++...|+ .+++++...|++-..--++.++...-+.-..+  ..+|.++|..++.
T Consensus        12 ik~iAeS~Gi~~l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Ltt~Did~ALk   69 (70)
T d1tafb_          12 MKVIAESIGVGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             HHHHHHHTTCCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             HHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCcHHHHHHHHc
Confidence            4445555699 59999999999988877777777654444333  5789999988764

>d2pl1a1 c.23.1.1 (A:1-119) PhoP receiver domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Escherichia coli [TaxId: 562]

Probab=82.40  E-value=4.7  Score=26.27  Aligned_cols=72  Identities=10%  Similarity=0.141  Sum_probs=44.6

Q ss_pred             ccEEEEEeC-CCCCCHHHHHHHHHHHHHhcCCceEEEEecCCcc--cchhhhcceeEEEecCCChHHHHHHHHHHHHH
Q 021660          141 SVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK--IIPALQSRCTRFRFAPLEPVHVTERLKHVIEA  215 (309)
Q Consensus       141 ~~~lliiDe-~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~--l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~  215 (309)
                      .+.++++|= ...+.   .-.+.+.+....+..++|+.|.....  ....+..-+.-+-.+|.+.+++...++..+++
T Consensus        44 ~~dliilD~~mP~~~---G~e~~~~i~~~~~~~pvi~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~lrR  118 (119)
T d2pl1a1          44 IPDIAIVDLGLPDED---GLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR  118 (119)
T ss_dssp             CCSEEEECSCCSSSC---HHHHHHHHHHTTCCSCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             ccceeehhccCCCch---hHHHHHHHHhcCcccceEeeeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            467899984 33332   23344455554556667776654432  33444444566778899999998888877654

>d1p2fa2 c.23.1.1 (A:1-120) Response regulator DrrB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator DrrB
species: Thermotoga maritima [TaxId: 2336]

Probab=82.04  E-value=2.8  Score=27.53  Aligned_cols=74  Identities=18%  Similarity=0.356  Sum_probs=47.5

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC--cccchhhhcceeEEEecCCChHHHHHHHHHHHHHc
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV--NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE  216 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~--~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~  216 (309)
                      .+.++++|=  .++.-..-.+...+....+...+|++|...  .....++..-+.-+-.+|.+.+++...+++.+++.
T Consensus        43 ~~dlillD~--~mP~~~G~~~~~~lr~~~~~~~ii~it~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~r~  118 (120)
T d1p2fa2          43 AFHVVVLDV--MLPDYSGYEICRMIKETRPETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLERE  118 (120)
T ss_dssp             CCSEEEEES--BCSSSBHHHHHHHHHHHCTTSEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHC
T ss_pred             CCCEEEEeC--cccccchhHHHHHHhhcCCCCcEEEEecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHc
Confidence            367899993  233222344555666555677777766433  23344554455778889999999999988877654

>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=81.83  E-value=0.34  Score=39.43  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=16.8

Q ss_pred             cCCCCeEEEECCCCCcHHHHHH
Q 021660           71 ENRLPHLLLYGPPGTGKTSTIL   92 (309)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~~   92 (309)
                      .+....++-||+.|+|||+++.
T Consensus       111 ~G~n~tifaYGqTGSGKTyTm~  132 (362)
T d1v8ka_         111 EGGKATCFAYGQTGSGKTHTMG  132 (362)
T ss_dssp             TTCEEEEEEEESTTSSHHHHHH
T ss_pred             hccCceEEeeccCCCCCceeee
Confidence            3333349999999999998874

>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=81.37  E-value=0.24  Score=40.53  Aligned_cols=21  Identities=33%  Similarity=0.569  Sum_probs=16.2

Q ss_pred             cCCCCeEEEECCCCCcHHHHH
Q 021660           71 ENRLPHLLLYGPPGTGKTSTI   91 (309)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~   91 (309)
                      .+....++-||+.|+|||+++
T Consensus       122 ~G~n~ti~aYGqtGSGKT~Tm  142 (368)
T d2ncda_         122 DGYNICIFAYGQTGSGKTYTM  142 (368)
T ss_dssp             TTCEEEEEEECSTTSSHHHHH
T ss_pred             cccceeEEeeccCCCccceEe
Confidence            333334999999999999875

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.11  E-value=0.6  Score=36.30  Aligned_cols=41  Identities=17%  Similarity=0.247  Sum_probs=28.0

Q ss_pred             cccChHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q 021660           55 VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (309)
Q Consensus        55 ~ig~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (309)
                      +.-.++.++.|..+  ..+...+-+.||.++|||+|+..+...
T Consensus        15 l~~~~e~l~~l~~~--~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          15 LMANPEALKILSAI--TQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             EEECHHHHHHHHTC--CSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             EEECHHHHHHHHcC--CCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            44566666655443  222223888999999999999988764

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=80.97  E-value=0.46  Score=34.31  Aligned_cols=20  Identities=25%  Similarity=0.370  Sum_probs=17.9

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021660           77 LLLYGPPGTGKTSTILAVAR   96 (309)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (309)
                      +|++|+.++|||.+|..++.
T Consensus         2 iLVtGGarSGKS~~AE~l~~   21 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIG   21 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHC
T ss_pred             EEEECCCCccHHHHHHHHHh
Confidence            68999999999999998763

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), 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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=80.86  E-value=1.7  Score=36.14  Aligned_cols=24  Identities=42%  Similarity=0.403  Sum_probs=18.4

Q ss_pred             CeEEEECCCCCcHHHHH-HHHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTI-LAVARKL   98 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~-~~l~~~~   98 (309)
                      +++++.+.+|||||+++ ..++..+
T Consensus        17 g~~lv~A~AGsGKT~~l~~r~~~ll   41 (485)
T d1w36b1          17 GERLIEASAGTGKTFTIAALYLRLL   41 (485)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEcCchHHHHHHHHHHHHHH
Confidence            44999999999999765 5555555

>d1mvoa_ c.23.1.1 (A:) PhoP receiver domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Bacillus subtilis [TaxId: 1423]

Probab=80.56  E-value=5.6  Score=25.91  Aligned_cols=73  Identities=14%  Similarity=0.229  Sum_probs=42.6

Q ss_pred             ccEEEEEeCCCCCCHHHHHHHHHHHHHhcCCceEEEEecCC--cccchhhhcceeEEEecCCChHHHHHHHHHHHHH
Q 021660          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV--NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA  215 (309)
Q Consensus       141 ~~~lliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~--~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~  215 (309)
                      .+.++++|=  .++....-.+...+....+...+|+.+...  ......+..-+.-+-.+|.+.+++...++..+++
T Consensus        46 ~~dlillD~--~mp~~~G~~~~~~~r~~~~~~~ii~lt~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~lrR  120 (121)
T d1mvoa_          46 KPDLIVLDV--MLPKLDGIEVCKQLRQQKLMFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRR  120 (121)
T ss_dssp             CCSEEEEES--SCSSSCHHHHHHHHHHTTCCCCEEEEECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHT
T ss_pred             cccEEEecc--cccCCCCchhhhhhhccCCCCEEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            467899984  222212223344445444455555555332  2233444444567888999999999888877654

>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=80.02  E-value=0.51  Score=38.38  Aligned_cols=17  Identities=47%  Similarity=0.763  Sum_probs=14.9

Q ss_pred             CeEEEECCCCCcHHHHH
Q 021660           75 PHLLLYGPPGTGKTSTI   91 (309)
Q Consensus        75 ~~~ll~G~~G~GKT~l~   91 (309)
                      ..++-||+.|+|||+++
T Consensus        76 ~~i~aYGqTGSGKTyTm   92 (364)
T d1sdma_          76 VCIFAYGQTGSGKTFTI   92 (364)
T ss_dssp             EEEEEECSTTSSHHHHH
T ss_pred             eeeeccccCCCCccccc
Confidence            34999999999999985