Citrus Sinensis ID: 021937

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-----
Protein Sequence
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVLLL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccEEEEccccccHHHHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHHcccccccccccEEEEEEcccccccHHHHHHHHHHHHHccccEEEEEEEcccccccHHHHccccEEEEccccHHHHHHHHHHHHHHccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHcccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccccHHHHccccHcccccccccccccccccccccccccccccEEEcccccHHHHcccHHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHHHHHcHHHHHHHHEHccccccccHHHHHHHHHHHcccccccccccccEEEEEccHHHHcHHHHHHHHHHHHHHHHccHEEEEEccHHHccHHHHcccEEEEEccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHcccccHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEc
Coil and Loop (DISEMBL)
maeaetvslmdfdedenqnlkpkdngknvivsgtppdikaspwvekyrpqsladvaaHRDIVDTIdrltsenrlphlllygppgtgktSTILAVARKLYGAQYHNMILElnasddrgIDVVRQQIQDfastqsfsfgvKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPalqsrctrfrfaplepvhvTERLKHVIeaegldvteGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLctgnplpkdIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVLLL
Flexible Loop (DISEMBL)
maeaetvslmdfdedenqnlkpkdngknvivsgtppdikaspwVEKYRPQSLADVAAHRDIVDTidrltsenrlphlllygppgtgkTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFastqsfsfgvKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIeaegldvtegGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVLLL
Low Complexity Region (SEG)
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNlsfiirlvlfvlll
Disordered region (IsUnstruct)
*****************************************PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVLL*
Disordered Region (DISOPRED)
******************************************WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS*****KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVLLL
Disordered Region (DISEMBL)
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVLLL
Disordered Region (DISPRO)
**************************************KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVLLL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVLLL
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	305	2.2.26 [Sep-21-2011]
Q9D0F6	339	Replication factor C subu	yes	no	0.852	0.766	0.613	4e-91
P40937	340	Replication factor C subu	yes	no	0.865	0.776	0.597	4e-90
Q54ST4	347	Probable replication fact	yes	no	0.816	0.717	0.618	2e-85
O14003	342	Replication factor C subu	yes	no	0.813	0.725	0.553	8e-82
O74111	338	Replication factor C subu	N/A	no	0.809	0.730	0.538	5e-75
P34429	368	Probable replication fact	yes	no	0.829	0.687	0.519	2e-72
P38629	340	Replication factor C subu	yes	no	0.780	0.7	0.520	2e-70
A6VJ61	315	Replication factor C smal	yes	no	0.813	0.787	0.450	1e-62
Q6M044	315	Replication factor C smal	yes	no	0.813	0.787	0.446	4e-62
A4FZ74	315	Replication factor C smal	yes	no	0.813	0.787	0.442	2e-61

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

 Score =  334 bits (857), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 162/264 (61%), Positives = 204/264 (77%), Gaps = 4/264 (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 SFADSFKRIQNLSFIIRLVLFVLL 304
            F  ++K I  L  +  L L  +L
Sbjct: 257 DFTTAYKNIMELKTLKGLALHDIL 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.
Mus musculus (taxid: 10090)

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

 Score =  331 bits (848), Expect = 4e-90,   Method: Compositional matrix adjust.
 Identities = 160/268 (59%), Positives = 205/268 (76%), Gaps = 4/268 (1%)

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

Query: 98  LYG-AQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD 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 LLNESFADSFKRIQNLSFIIRLVLFVLL 304
           +LN+ F  +++ I  L  +  L L  +L
Sbjct: 254 MLNQDFTTAYRNITELKTLKGLALHDIL 281

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 =  315 bits (808), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 157/254 (61%), Positives = 186/254 (73%), Gaps = 5/254 (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 NESFADSFKRIQNL 292
           N  + ++F+ I +L
Sbjct: 263 NSDYEEAFQNISDL 276

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 =  303 bits (777), Expect = 8e-82,   Method: Compositional matrix adjust.
 Identities = 139/251 (55%), Positives = 182/251 (72%), Gaps = 3/251 (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 FADSFKRIQNL 292
           F  +F  I ++
Sbjct: 261 FVIAFNTISSI 271

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 =  281 bits (718), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 139/258 (53%), Positives = 183/258 (70%), Gaps = 11/258 (4%)

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 LNESFADSFKRIQNLSFI 295
           L+ S+  +   +   S+I
Sbjct: 254 LDGSWESA---LHTFSYI 268

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

 Score =  272 bits (696), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 135/260 (51%), Positives = 173/260 (66%), Gaps = 7/260 (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 YWLLNESFADSFKRIQNLSF 294
             LLN+        IQ   F
Sbjct: 270 KTLLNDPSKKCMNTIQTKLF 289

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

 Score =  266 bits (679), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 129/248 (52%), Positives = 171/248 (68%), Gaps = 10/248 (4%)

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

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

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

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

Query: 276 WLLNESFA 283
            +L + + 
Sbjct: 250 SILEDDWG 257

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

 Score =  239 bits (611), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 113/251 (45%), Positives = 163/251 (64%), Gaps = 3/251 (1%)

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 FADSFKRIQNL 292
           F +S +++ NL
Sbjct: 241 FVESREQLYNL 251

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 =  238 bits (608), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 112/251 (44%), Positives = 165/251 (65%), Gaps = 3/251 (1%)

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 FADSFKRIQNL 292
           F ++ +++ NL
Sbjct: 241 FVEAREQLYNL 251

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

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

>sp|A4FZ74|RFCS_METM5 Replication factor C small subunit OS=Methanococcus maripaludis (strain C5 / ATCC BAA-1333) GN=rfcS PE=3 SV=1

 Score =  236 bits (602), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 111/251 (44%), Positives = 163/251 (64%), Gaps = 3/251 (1%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP++L +V  H +I+  +     +  +PHLL  G PG GKT+  LA+A+ LYG 
Sbjct: 4   PWVEKYRPETLPEVVGHHEIIKRLTNYVEKKSMPHLLFSGSPGVGKTTAALALAKDLYGE 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 RRTMEKYSDICRFILSCNYPSKIIPPIQSRCAIFRFSPLKTEDLVENLKDISEKETLTLE 180

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

Query: 282 FADSFKRIQNL 292
           F ++ +++ NL
Sbjct: 241 FVEAKEQLYNL 251

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

Methanococcus maripaludis (strain C5 / ATCC BAA-1333) (taxid: 402880)

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	305
225459599	360	PREDICTED: replication factor C subunit	0.940	0.797	0.875	1e-146
224066809	363	predicted protein [Populus trichocarpa]	0.947	0.796	0.858	1e-145
255558636	360	replication factor C / DNA polymerase II	0.931	0.788	0.859	1e-143
449464168	363	PREDICTED: replication factor C subunit	0.947	0.796	0.841	1e-141
356515902	361	PREDICTED: replication factor C subunit	0.940	0.795	0.848	1e-140
356509405	363	PREDICTED: replication factor C subunit	0.947	0.796	0.841	1e-140
357463515	355	Replication factor C subunit [Medicago t	0.921	0.791	0.837	1e-137
297842523	369	hypothetical protein ARALYDRAFT_476911 [	0.940	0.777	0.787	1e-131
326489719	359	predicted protein [Hordeum vulgare subsp	0.940	0.799	0.770	1e-129
115449001	361	Os02g0775200 [Oryza sativa Japonica Grou	0.849	0.717	0.841	1e-129

>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 =  522 bits (1345), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 253/289 (87%), Positives = 267/289 (92%), Gaps = 2/289 (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 QSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           QSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFA SF RI  +
Sbjct: 240 QSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFAASFDRISEV 288

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 =  521 bits (1342), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 249/290 (85%), Positives = 266/290 (91%), Gaps = 1/290 (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 LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           LQSTHMASQQITEE VYLCTGNPLP+D++QI++WLLNESFA+S+KRI  +
Sbjct: 242 LQSTHMASQQITEETVYLCTGNPLPQDVQQITHWLLNESFAESYKRISEI 291

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 =  513 bits (1321), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 251/292 (85%), Positives = 266/292 (91%), Gaps = 8/292 (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 NILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           NILQSTHMASQQITEEAV+LCTGNPLPKDI+QISYWLLNESFA+SFKRI  +
Sbjct: 237 NILQSTHMASQQITEEAVHLCTGNPLPKDIQQISYWLLNESFAESFKRISEI 288

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 =  508 bits (1307), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 244/290 (84%), Positives = 259/290 (89%), Gaps = 1/290 (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 LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           LQSTHMASQ ITEEAVYLCTGNP+PKDIEQIS+WLLNE F+DSFKRI  +
Sbjct: 242 LQSTHMASQHITEEAVYLCTGNPMPKDIEQISFWLLNEPFSDSFKRISEI 291

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 =  503 bits (1294), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 246/290 (84%), Positives = 258/290 (88%), Gaps = 3/290 (1%)

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 LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           LQSTHMASQQITEEAVYLCTGNPLPKDIE ISYWLLNE FADSFKRI  +
Sbjct: 240 LQSTHMASQQITEEAVYLCTGNPLPKDIELISYWLLNEQFADSFKRIDEM 289

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 =  502 bits (1292), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 244/290 (84%), Positives = 257/290 (88%), Gaps = 1/290 (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 LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           LQSTHMASQQITEE VYLCTGNPLPKDIEQISYWLLNE FADSFKRI  +
Sbjct: 242 LQSTHMASQQITEETVYLCTGNPLPKDIEQISYWLLNEQFADSFKRIDEM 291

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 =  492 bits (1267), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 243/290 (83%), Positives = 254/290 (87%), Gaps = 9/290 (3%)

Query: 4   AETVSLMDFDEDENQNLKPKDNGKNVIVSGTPP-DIKASPWVEKYRPQSLADVAAHRDIV 62
           AE    MD D          D GK VI +G P    KAS WVEKYRPQSL DVAAHRDIV
Sbjct: 2   AEETYAMDID--------VTDKGKTVIAAGNPSFGGKASLWVEKYRPQSLDDVAAHRDIV 53

Query: 63  DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR 122
           DTIDRLT+ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR
Sbjct: 54  DTIDRLTTENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR 113

Query: 123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN 182
           QQIQDFASTQS SFGVK SVKLVLLDEADAMTKDAQFALRRVIEKYTK+TRFALICN VN
Sbjct: 114 QQIQDFASTQSLSFGVKPSVKLVLLDEADAMTKDAQFALRRVIEKYTKSTRFALICNHVN 173

Query: 183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNI 242
           KIIPALQSRCTRFRFAPL+ VHVTERLKHVI AE LDV + GL+ALVRL NGDMRKALNI
Sbjct: 174 KIIPALQSRCTRFRFAPLDAVHVTERLKHVINAERLDVQDSGLSALVRLSNGDMRKALNI 233

Query: 243 LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNE +++SFKRI ++
Sbjct: 234 LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNEQYSESFKRIYDM 283

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 =  474 bits (1219), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 233/296 (78%), Positives = 255/296 (86%), Gaps = 9/296 (3%)

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--------ITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           STHMAS++        ITEE VYLCTGNPLPKDIEQIS+WLLN+ F + +K I  +
Sbjct: 242 STHMASKEITEKESKKITEEEVYLCTGNPLPKDIEQISHWLLNKPFDECYKNISEI 297

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  468 bits (1204), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 225/292 (77%), Positives = 250/292 (85%), Gaps = 5/292 (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 NILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           NILQSTHMASQQITEEAVYLCTGNP+PKDIEQI++WLLNE F+ SFK I ++
Sbjct: 236 NILQSTHMASQQITEEAVYLCTGNPMPKDIEQIAFWLLNEPFSTSFKHIADM 287

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  467 bits (1202), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 218/259 (84%), Positives = 240/259 (92%)

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

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

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

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

Query: 274 SYWLLNESFADSFKRIQNL 292
           +YWLLNESF+ SFK I ++
Sbjct: 271 AYWLLNESFSTSFKCISDM 289

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

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	305
TAIR|locus:2204710	369	RFC3 "replication factor C sub	0.931	0.769	0.788	2.4e-115
MGI|MGI:1919401	339	Rfc5 "replication factor C (ac	0.803	0.722	0.634	4.1e-81
RGD|1309280	339	Rfc5 "replication factor C (ac	0.803	0.722	0.634	4.1e-81
UNIPROTKB|Q32PI3	316	RFC5 "Uncharacterized protein"	0.816	0.787	0.620	1.8e-80
UNIPROTKB|F1RKG3	354	RFC5 "Uncharacterized protein"	0.816	0.703	0.620	1.8e-80
ZFIN|ZDB-GENE-040907-1	334	rfc5 "replication factor C (ac	0.836	0.763	0.613	1.8e-80
UNIPROTKB|P40937	340	RFC5 "Replication factor C sub	0.816	0.732	0.616	3.7e-80
UNIPROTKB|E2RCF4	339	RFC5 "Uncharacterized protein"	0.816	0.734	0.620	1.2e-79
UNIPROTKB|J9NUF8	316	RFC5 "Uncharacterized protein"	0.816	0.787	0.620	1.2e-79
DICTYBASE|DDB_G0282235	347	rfc5 "replication factor C sub	0.813	0.714	0.616	1.5e-76

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

 Score = 1137 (405.3 bits), Expect = 2.4e-115, P = 2.4e-115
 Identities = 231/293 (78%), Positives = 253/293 (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--------QITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRI 289
             STHMAS+        QITEE VYLCTGNPLPKDIEQIS+WLLN+ F + +K +
Sbjct:   242 STHMASKEITEEESKQITEEDVYLCTGNPLPKDIEQISHWLLNKPFDECYKDV 294

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 = 814 (291.6 bits), Expect = 4.1e-81, P = 4.1e-81
 Identities = 158/249 (63%), Positives = 198/249 (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 SFADSFKRI 289
              F  ++K I
Sbjct:   257 DFTTAYKNI 265

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 = 814 (291.6 bits), Expect = 4.1e-81, P = 4.1e-81
 Identities = 158/249 (63%), Positives = 198/249 (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 SFADSFKRI 289
              F  ++K I
Sbjct:   257 DFTTAYKNI 265

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 = 808 (289.5 bits), Expect = 1.8e-80, P = 1.8e-80
 Identities = 157/253 (62%), Positives = 199/253 (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 LLNESFADSFKRI 289
             +LN+ F  +++ I
Sbjct:   253 MLNQDFTTAYRNI 265

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 = 808 (289.5 bits), Expect = 1.8e-80, P = 1.8e-80
 Identities = 157/253 (62%), Positives = 199/253 (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 LLNESFADSFKRI 289
             +LN+ F  +++ I
Sbjct:   268 MLNQDFTTAYRNI 280

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 = 808 (289.5 bits), Expect = 1.8e-80, P = 1.8e-80
 Identities = 159/259 (61%), Positives = 197/259 (76%)

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 EQISYWLLNESFADSFKRI 289
               I  W LN+ F  ++ +I
Sbjct:   242 ANILDWALNKDFTTAYNQI 260

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 = 805 (288.4 bits), Expect = 3.7e-80, P = 3.7e-80
 Identities = 156/253 (61%), Positives = 199/253 (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 LLNESFADSFKRI 289
             +LN+ F  +++ I
Sbjct:   254 MLNQDFTTAYRNI 266

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 = 800 (286.7 bits), Expect = 1.2e-79, P = 1.2e-79
 Identities = 157/253 (62%), Positives = 198/253 (78%)

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 LLNESFADSFKRI 289
             +LN+ F  +++ I
Sbjct:   253 MLNQDFTTAYRNI 265

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 = 800 (286.7 bits), Expect = 1.2e-79, P = 1.2e-79
 Identities = 157/253 (62%), Positives = 198/253 (78%)

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 LLNESFADSFKRI 289
             +LN+ F  +++ I
Sbjct:   253 MLNQDFTTAYRNI 265

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 = 771 (276.5 bits), Expect = 1.5e-76, P = 1.5e-76
 Identities = 156/253 (61%), Positives = 185/253 (73%)

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 NESFADSFKRIQN 291
             N  + ++F+ I +
Sbjct:   263 NSDYEEAFQNISD 275

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)
P40937	RFC5_HUMAN	No assigned EC number	0.5970	0.8655	0.7764	yes	no
Q54ST4	RFC5_DICDI	No assigned EC number	0.6181	0.8163	0.7175	yes	no
O14003	RFC3_SCHPO	No assigned EC number	0.5537	0.8131	0.7251	yes	no
Q9D0F6	RFC5_MOUSE	No assigned EC number	0.6136	0.8524	0.7669	yes	no
P34429	RFC5_CAEEL	No assigned EC number	0.5192	0.8295	0.6875	yes	no
P38629	RFC3_YEAST	No assigned EC number	0.5201	0.7803	0.7	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	305
PRK00440	319	PRK00440, rfc, replication factor C small subunit;	1e-103
PLN03025	319	PLN03025, PLN03025, replication factor C subunit;	7e-79
PRK12402	337	PRK12402, PRK12402, replication factor C small sub	8e-61
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	3e-56
PHA02544	316	PHA02544, 44, clamp loader, small subunit; Provisi	4e-42
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-32
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	2e-25
COG2812	515	COG2812, DnaX, DNA polymerase III, gamma/tau subun	2e-25
PRK14953	486	PRK14953, PRK14953, DNA polymerase III subunits ga	5e-25
TIGR02397	355	TIGR02397, dnaX_nterm, DNA polymerase III, subunit	8e-25
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	1e-22
PRK14950	585	PRK14950, PRK14950, DNA polymerase III subunits ga	4e-22
PRK14962	472	PRK14962, PRK14962, DNA polymerase III subunits ga	2e-20
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	1e-19
TIGR00678	188	TIGR00678, holB, DNA polymerase III, delta' subuni	7e-19
PRK14970	367	PRK14970, PRK14970, DNA polymerase III subunits ga	8e-17
PRK07133	725	PRK07133, PRK07133, DNA polymerase III subunits ga	1e-16
PRK14963	504	PRK14963, PRK14963, DNA polymerase III subunits ga	3e-16
PRK08691	709	PRK08691, PRK08691, DNA polymerase III subunits ga	6e-16
COG0470	230	COG0470, HolB, ATPase involved in DNA replication	9e-16
PRK14965	576	PRK14965, PRK14965, DNA polymerase III subunits ga	2e-15
PRK14961	363	PRK14961, PRK14961, DNA polymerase III subunits ga	3e-15
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	3e-15
pfam13177	161	pfam13177, DNA_pol3_delta2, DNA polymerase III, de	5e-15
PRK05896	605	PRK05896, PRK05896, DNA polymerase III subunits ga	2e-14
PRK14959	624	PRK14959, PRK14959, DNA polymerase III subunits ga	3e-14
PRK05563	559	PRK05563, PRK05563, DNA polymerase III subunits ga	3e-14
PRK14951	618	PRK14951, PRK14951, DNA polymerase III subunits ga	1e-12
PRK14969	527	PRK14969, PRK14969, DNA polymerase III subunits ga	1e-12
PRK06305	451	PRK06305, PRK06305, DNA polymerase III subunits ga	3e-12
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	6e-12
PRK08451	535	PRK08451, PRK08451, DNA polymerase III subunits ga	9e-12
TIGR00602	637	TIGR00602, rad24, checkpoint protein rad24	1e-11
PRK14952	584	PRK14952, PRK14952, DNA polymerase III subunits ga	4e-11
smart00382	148	smart00382, AAA, ATPases associated with a variety	4e-11
PRK07471	365	PRK07471, PRK07471, DNA polymerase III subunit del	4e-11
PRK14964	491	PRK14964, PRK14964, DNA polymerase III subunits ga	2e-10
PRK12323	700	PRK12323, PRK12323, DNA polymerase III subunits ga	2e-10
PRK14955	397	PRK14955, PRK14955, DNA polymerase III subunits ga	2e-10
PRK14958	509	PRK14958, PRK14958, DNA polymerase III subunits ga	3e-10
PRK06645	507	PRK06645, PRK06645, DNA polymerase III subunits ga	7e-10
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	1e-09
PRK14954	620	PRK14954, PRK14954, DNA polymerase III subunits ga	1e-09
PRK14971	614	PRK14971, PRK14971, DNA polymerase III subunits ga	3e-09
PRK08058	329	PRK08058, PRK08058, DNA polymerase III subunit del	4e-09
pfam03215	490	pfam03215, Rad17, Rad17 cell cycle checkpoint prot	4e-09
PRK14957	546	PRK14957, PRK14957, DNA polymerase III subunits ga	5e-09
PRK06647	563	PRK06647, PRK06647, DNA polymerase III subunits ga	8e-08
PRK07003	830	PRK07003, PRK07003, DNA polymerase III subunits ga	1e-07
PRK09112	351	PRK09112, PRK09112, DNA polymerase III subunit del	1e-07
PRK05707	328	PRK05707, PRK05707, DNA polymerase III subunit del	1e-07
PRK05564	313	PRK05564, PRK05564, DNA polymerase III subunit del	2e-07
PRK14956	484	PRK14956, PRK14956, DNA polymerase III subunits ga	4e-07
PRK08769	319	PRK08769, PRK08769, DNA polymerase III subunit del	4e-06
PRK06964	342	PRK06964, PRK06964, DNA polymerase III subunit del	4e-06
PRK14948	620	PRK14948, PRK14948, DNA polymerase III subunits ga	6e-06
PRK07993	334	PRK07993, PRK07993, DNA polymerase III subunit del	9e-06
pfam13401	124	pfam13401, AAA_22, AAA domain	9e-06
PRK06090	319	PRK06090, PRK06090, DNA polymerase III subunit del	3e-05
PRK07399	314	PRK07399, PRK07399, DNA polymerase III subunit del	4e-05
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	6e-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	8e-05
PRK14960	702	PRK14960, PRK14960, DNA polymerase III subunits ga	2e-04
pfam13173	127	pfam13173, AAA_14, AAA domain	2e-04
pfam13086	220	pfam13086, AAA_11, AAA domain	2e-04
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	2e-04
PRK09111	598	PRK09111, PRK09111, DNA polymerase III subunits ga	3e-04
TIGR03922	557	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPas	0.001
pfam05496	231	pfam05496, RuvB_N, Holliday junction DNA helicase	0.002
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	0.002
TIGR02902	531	TIGR02902, spore_lonB, ATP-dependent protease LonB	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
TIGR03345	852	TIGR03345, VI_ClpV1, type VI secretion ATPase, Clp	0.003
PRK07132	299	PRK07132, PRK07132, DNA polymerase III subunit del	0.003
TIGR02928	365	TIGR02928, TIGR02928, orc1/cdc6 family replication	0.003

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

 Score =  304 bits (781), Expect = e-103
 Identities = 116/251 (46%), Positives = 168/251 (66%), Gaps = 3/251 (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 FADSFKRIQNL 292
           F ++ +++++L
Sbjct: 243 FTEAREKLRDL 253

Length = 319

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

 Score =  241 bits (618), Expect = 7e-79
 Identities = 112/252 (44%), Positives = 153/252 (60%), Gaps = 4/252 (1%)

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

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

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

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

Query: 281 SFADSFKRIQNL 292
            F D+   ++ L
Sbjct: 239 KFDDACDGLKQL 250

Length = 319

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

 Score =  196 bits (500), Expect = 8e-61
 Identities = 93/277 (33%), Positives = 146/277 (52%), Gaps = 31/277 (11%)

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-PLPKDIEQISYWLLNESFADSFKRIQNL 292
           A Y   G+    + IE +        F D+ K + +L
Sbjct: 241 AAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDL 277

Length = 337

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

 Score =  194 bits (494), Expect = 3e-56
 Identities = 88/195 (45%), Positives = 132/195 (67%), Gaps = 3/195 (1%)

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

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

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

Query: 268 KDIEQISYWLLNESF 282
           +DI ++    L  +F
Sbjct: 757 EDIREMMLLALKGNF 771

Length = 846

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

 Score =  147 bits (372), Expect = 4e-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 =  124 bits (313), Expect = 3e-32
 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 =  104 bits (262), Expect = 2e-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 =  105 bits (263), Expect = 2e-25
 Identities = 65/271 (23%), Positives = 124/271 (45%), Gaps = 30/271 (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 GNPLPKDIEQISYWLLNESFADSFKRIQNLS 293
           G    + +  +   +L     ++ + I  L 
Sbjct: 242 GLTDIEKLLSLLEAILKGDAKEALRLINELI 272

Length = 515

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

 Score =  103 bits (259), Expect = 5e-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|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau

 Score =  101 bits (255), Expect = 8e-25
 Identities = 74/272 (27%), Positives = 126/272 (46%), Gaps = 32/272 (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 TGNPLPKDIEQISYWLLNESFADSFKRIQNLS 293
            G    + + ++   +LN+  A++ K +  + 
Sbjct: 239 LGLVDDEKLIELLEAILNKDTAEALKILDEIL 270

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

>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

 Score = 91.1 bits (226), Expect = 1e-22
 Identities = 44/148 (29%), Positives = 64/148 (43%), Gaps = 11/148 (7%)

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

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

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

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases. Length = 151

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

 Score = 96.0 bits (239), Expect = 4e-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 = 91.0 bits (226), 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 = 1e-19
 Identities = 67/240 (27%), Positives = 104/240 (43%), Gaps = 38/240 (15%)

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

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

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

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

Length = 436

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

 Score = 82.3 bits (204), Expect = 7e-19
 Identities = 50/191 (26%), Positives = 79/191 (41%), Gaps = 32/191 (16%)

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

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

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

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

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

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

 Score = 79.5 bits (196), Expect = 8e-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|235943 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau; Validated

 Score = 79.9 bits (197), Expect = 1e-16
 Identities = 62/234 (26%), Positives = 114/234 (48%), Gaps = 23/234 (9%)

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

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

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

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

Length = 725

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

 Score = 78.3 bits (193), Expect = 3e-16
 Identities = 62/240 (25%), Positives = 109/240 (45%), Gaps = 24/240 (10%)

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

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

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

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

Length = 504

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

 Score = 77.8 bits (191), Expect = 6e-16
 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|223546 COG0470, HolB, ATPase involved in DNA replication [DNA replication, recombination, and repair]

 Score = 74.7 bits (183), Expect = 9e-16
 Identities = 43/138 (31%), Positives = 68/138 (49%), Gaps = 16/138 (11%)

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

Query: 228 LVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFK 287
           +  +  GD RKA+N LQ+  +A+ +I EE++Y      LP+ + Q++   L      +  
Sbjct: 90  IAAVAEGDARKAINPLQA--LAALEIGEESIYEALLLALPESLAQLAALEL---LKLAEN 144

Query: 288 RIQNLSFIIRLVLFVLLL 305
           +       + L+L +  L
Sbjct: 145 KFLEALEKLWLLLLLEGL 162

Length = 230

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

 Score = 75.9 bits (187), Expect = 2e-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|184925 PRK14961, PRK14961, DNA polymerase III subunits gamma and tau; Provisional

 Score = 75.2 bits (185), Expect = 3e-15
 Identities = 65/271 (23%), Positives = 118/271 (43%), Gaps = 29/271 (10%)

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 PLPKDIEQISYWLLNESFADSFKRIQNLSFI 295
              K    ++  LL     DS K +  L+ I
Sbjct: 244 LNEKQSFLLTDALLK---KDSKKTMLLLNKI 271

Length = 363

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

 Score = 70.7 bits (174), Expect = 3e-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 = 70.7 bits (174), Expect = 5e-15
 Identities = 41/165 (24%), Positives = 72/165 (43%), Gaps = 26/165 (15%)

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

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

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

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

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

 Score = 73.0 bits (179), Expect = 2e-14
 Identities = 56/220 (25%), Positives = 94/220 (42%), Gaps = 25/220 (11%)

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

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

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

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

Length = 605

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

 Score = 72.8 bits (178), Expect = 3e-14
 Identities = 53/223 (23%), Positives = 95/223 (42%), Gaps = 25/223 (11%)

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

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

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

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

Length = 624

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

 Score = 72.6 bits (179), Expect = 3e-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|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau; Provisional

 Score = 67.8 bits (166), Expect = 1e-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|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|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau; Validated

 Score = 66.7 bits (163), Expect = 3e-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 = 65.5 bits (160), Expect = 6e-12
 Identities = 60/222 (27%), Positives = 94/222 (42%), Gaps = 38/222 (17%)

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

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

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

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

Length = 725

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

 Score = 65.1 bits (159), Expect = 9e-12
 Identities = 74/269 (27%), Positives = 115/269 (42%), Gaps = 26/269 (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 PLPKDIEQISYWLLNESFADSFKRIQNLS 293
             P  +E     +LN+     F+ ++ L 
Sbjct: 242 LDPSKLEDFFQAILNQDKEKLFELLKELE 270

Length = 535

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

 Score = 63.0 bits (153), Expect = 4e-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|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 59.7 bits (144), Expect = 4e-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 = 4e-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|237870 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau; Provisional

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

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

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

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

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

Length = 491

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

 Score = 61.0 bits (148), Expect = 2e-10
 Identities = 60/241 (24%), Positives = 103/241 (42%), Gaps = 35/241 (14%)

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

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

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

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

Query: 258 V 258
           V
Sbjct: 242 V 242

Length = 700

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

 Score = 60.3 bits (146), Expect = 2e-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 = 59.5 bits (144), Expect = 7e-10
 Identities = 52/238 (21%), Positives = 96/238 (40%), Gaps = 33/238 (13%)

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 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQI 253
               L    + + L+++ + E L      L  +     G  R A++IL      S + 
Sbjct: 183 DLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAKS 240

Length = 507

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

 Score = 58.7 bits (142), Expect = 1e-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 = 1e-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|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|181214 PRK08058, PRK08058, DNA polymerase III subunit delta'; Validated

 Score = 56.5 bits (137), Expect = 4e-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|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein

 Score = 57.0 bits (137), Expect = 4e-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 = 56.6 bits (136), 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|235845 PRK06647, PRK06647, DNA polymerase III subunits gamma and tau; Validated

 Score = 52.9 bits (127), Expect = 8e-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|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated

 Score = 52.9 bits (127), Expect = 1e-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|169667 PRK09112, PRK09112, DNA polymerase III subunit delta'; Validated

 Score = 52.0 bits (125), 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|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated

 Score = 52.0 bits (125), Expect = 1e-07
 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|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|181551 PRK08769, PRK08769, DNA polymerase III subunit delta'; Validated

 Score = 47.3 bits (112), Expect = 4e-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|235898 PRK06964, PRK06964, DNA polymerase III subunit delta'; Validated

 Score = 47.1 bits (112), 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|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau; Provisional

 Score = 47.3 bits (113), Expect = 6e-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|181190 PRK07993, PRK07993, DNA polymerase III subunit delta'; Validated

 Score = 46.2 bits (110), Expect = 9e-06
 Identities = 49/192 (25%), Positives = 75/192 (39%), Gaps = 34/192 (17%)

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

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

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

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

Length = 334

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

 Score = 43.8 bits (104), Expect = 9e-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|180394 PRK06090, PRK06090, DNA polymerase III subunit delta'; Validated

 Score = 44.8 bits (106), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 33/57 (57%)

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

Length = 319

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

 Score = 44.1 bits (105), Expect = 4e-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 = 42.2 bits (99), Expect = 6e-05
 Identities = 24/120 (20%), Positives = 43/120 (35%), Gaps = 5/120 (4%)

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

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

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

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

 Score = 43.6 bits (103), 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 = 8e-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|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|221955 pfam13173, AAA_14, AAA domain

 Score = 40.2 bits (95), Expect = 2e-04
 Identities = 24/100 (24%), Positives = 43/100 (43%), Gaps = 11/100 (11%)

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

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

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

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

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

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

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

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

 Score = 42.0 bits (99), Expect = 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 = 41.8 bits (99), Expect = 3e-04
 Identities = 62/241 (25%), Positives = 106/241 (43%), Gaps = 35/241 (14%)

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

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

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

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

Query: 258 V 258
           V
Sbjct: 250 V 250

Length = 598

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

 Score = 40.2 bits (94), Expect = 0.001
 Identities = 50/218 (22%), Positives = 86/218 (39%), Gaps = 33/218 (15%)

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

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

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

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

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

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

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

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

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

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

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

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

Length = 332

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

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

 Score = 39.0 bits (91), Expect = 0.002
 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|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|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|180855 PRK07132, PRK07132, DNA polymerase III subunit delta'; Validated

 Score = 38.2 bits (89), Expect = 0.003
 Identities = 22/91 (24%), Positives = 43/91 (47%), Gaps = 3/91 (3%)

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

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

Length = 299

>gnl|CDD|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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	305
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	100.0
PLN03025	319	replication factor C subunit; Provisional	100.0
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	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
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	100.0
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	100.0
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14963	504	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
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	100.0
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	100.0
COG2256	436	MGS1 ATPase related to the helicase subunit of the	100.0
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK00440	319	rfc replication factor C small subunit; Reviewed	100.0
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07133	725	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
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12402	337	replication factor C small subunit 2; Reviewed	100.0
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	100.0
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	100.0
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK04195	482	replication factor C large subunit; Provisional	100.0
PRK13342	413	recombination factor protein RarA; Reviewed	99.98
PRK13341	725	recombination factor protein RarA/unknown domain f	99.98
KOG2028	554	consensus ATPase related to the helicase subunit o	99.97
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.97
PHA02544	316	44 clamp loader, small subunit; Provisional	99.97
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	99.97
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	99.97
PRK04132	846	replication factor C small subunit; Provisional	99.95
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.94
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.94
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.93
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.93
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.92
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.92
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.92
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.91
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.91
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.91
PRK08084	235	DNA replication initiation factor; Provisional	99.91
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.9
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.89
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.89
PRK08727	233	hypothetical protein; Validated	99.89
PRK07993	334	DNA polymerase III subunit delta'; Validated	99.88
PRK06893	229	DNA replication initiation factor; Validated	99.88
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.87
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.87
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.87
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.86
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.86
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.86
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.86
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.86
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.85
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.85
PRK05642	234	DNA replication initiation factor; Validated	99.85
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.84
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.84
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.84
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.84
PRK06620	214	hypothetical protein; Validated	99.83
PRK09087	226	hypothetical protein; Validated	99.82
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.82
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.81
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.81
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	99.81
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.8
CHL00181	287	cbbX CbbX; Provisional	99.8
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.79
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.79
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.79
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.79
PRK05917	290	DNA polymerase III subunit delta'; Validated	99.79
PRK07132	299	DNA polymerase III subunit delta'; Validated	99.78
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.78
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	99.78
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.78
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.78
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.78
CHL00195	489	ycf46 Ycf46; Provisional	99.77
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.77
PRK12422	445	chromosomal replication initiation protein; Provis	99.77
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.76
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.76
PRK07276	290	DNA polymerase III subunit delta'; Validated	99.76
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.75
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.75
CHL00176	638	ftsH cell division protein; Validated	99.75
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.75
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.74
PRK05818	261	DNA polymerase III subunit delta'; Validated	99.73
PRK08699	325	DNA polymerase III subunit delta'; Validated	99.72
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.72
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.72
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.72
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.7
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.7
PRK05907	311	hypothetical protein; Provisional	99.69
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.69
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.69
PRK05629	318	hypothetical protein; Validated	99.68
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.68
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.67
PRK07452	326	DNA polymerase III subunit delta; Validated	99.67
PRK07914	320	hypothetical protein; Reviewed	99.67
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.67
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.67
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.66
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.66
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.65
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.65
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.64
PRK10865	857	protein disaggregation chaperone; Provisional	99.64
PRK08487	328	DNA polymerase III subunit delta; Validated	99.64
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.64
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.63
PRK06585	343	holA DNA polymerase III subunit delta; Reviewed	99.63
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.63
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.62
CHL00095	821	clpC Clp protease ATP binding subunit	99.62
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.62
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.61
KOG1514	767	consensus Origin recognition complex, subunit 1, a	99.61
TIGR01128	302	holA DNA polymerase III, delta subunit. subunit ar	99.61
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.61
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.6
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.6
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.6
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.59
PRK05574	340	holA DNA polymerase III subunit delta; Reviewed	99.58
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.58
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.58
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	99.57
CHL00206	2281	ycf2 Ycf2; Provisional	99.57
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.57
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.57
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.57
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.57
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.56
PRK13531	498	regulatory ATPase RavA; Provisional	99.56
PF00004	132	AAA: ATPase family associated with various cellula	99.56
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.56
PRK14700	300	recombination factor protein RarA; Provisional	99.55
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.55
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	99.55
PRK10865	857	protein disaggregation chaperone; Provisional	99.55
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.55
COG2204	464	AtoC Response regulator containing CheY-like recei	99.55
CHL00095	821	clpC Clp protease ATP binding subunit	99.55
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.54
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.54
PRK06581	263	DNA polymerase III subunit delta'; Validated	99.53
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	99.53
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.53
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.52
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.52
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.52
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.52
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.51
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.5
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.5
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	99.5
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.49
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.49
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.48
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.48
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.48
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.46
COG1466	334	HolA DNA polymerase III, delta subunit [DNA replic	99.45
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.44
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.44
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.43
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	99.42
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.42
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.42
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.4
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.39
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.38
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.37
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	99.36
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.36
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	99.35
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.35
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.35
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.34
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.32
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.31
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.3
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.3
PRK08485	206	DNA polymerase III subunit delta'; Validated	99.3
PHA02244	383	ATPase-like protein	99.29
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.29
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.28
PRK15115	444	response regulator GlrR; Provisional	99.28
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.27
COG0714	329	MoxR-like ATPases [General function prediction onl	99.26
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.25
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.25
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.25
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.24
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.22
PRK12377	248	putative replication protein; Provisional	99.22
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.22
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.22
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.19
PRK13765	637	ATP-dependent protease Lon; Provisional	99.19
smart00350	509	MCM minichromosome maintenance proteins.	99.18
PRK04841	903	transcriptional regulator MalT; Provisional	99.15
PRK08116	268	hypothetical protein; Validated	99.14
PF13173	128	AAA_14: AAA domain	99.12
PRK08181	269	transposase; Validated	99.11
PF07726	131	AAA_3: ATPase family associated with various cellu	99.1
PRK07952	244	DNA replication protein DnaC; Validated	99.1
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	99.09
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	99.09
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.08
PF05729	166	NACHT: NACHT domain	99.07
PRK06526	254	transposase; Provisional	99.07
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	99.05
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.04
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	99.03
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	99.01
PF14516	331	AAA_35: AAA-like domain	99.01
PRK06921	266	hypothetical protein; Provisional	99.0
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.0
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.99
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.98
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.97
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.97
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.96
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.95
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.95
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.95
PF06144	172	DNA_pol3_delta: DNA polymerase III, delta subunit;	98.94
KOG0736	953	consensus Peroxisome assembly factor 2 containing	98.93
PRK08939	306	primosomal protein DnaI; Reviewed	98.93
PRK06835	329	DNA replication protein DnaC; Validated	98.92
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.91
smart00382	148	AAA ATPases associated with a variety of cellular	98.91
PRK09862	506	putative ATP-dependent protease; Provisional	98.9
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.89
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.89
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.89
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.84
PRK09183	259	transposase/IS protein; Provisional	98.83
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.81
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.76
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	98.76
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	98.75
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.73
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.7
COG4650	531	RtcR Sigma54-dependent transcription regulator con	98.69
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.68
PHA00729	226	NTP-binding motif containing protein	98.61
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.58
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	98.57
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	98.57
PHA02774	613	E1; Provisional	98.51
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.5
PRK10536	262	hypothetical protein; Provisional	98.48
COG1241	682	MCM2 Predicted ATPase involved in replication cont	98.48
KOG0482	721	consensus DNA replication licensing factor, MCM7 c	98.41
PRK04296	190	thymidine kinase; Provisional	98.4
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.38
COG3899	849	Predicted ATPase [General function prediction only	98.38
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	98.38
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.37
PRK04132	846	replication factor C small subunit; Provisional	98.36
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.32
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.3
PTZ00202	550	tuzin; Provisional	98.29
PHA02624	647	large T antigen; Provisional	98.28
COG2884	223	FtsE Predicted ATPase involved in cell division [C	98.27
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	98.27
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	98.26
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.25
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	98.2
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.19
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.19
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	98.18
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.16
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.14
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	98.14
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	98.13
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	98.11
PRK14974	336	cell division protein FtsY; Provisional	98.11
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.1
cd03216	163	ABC_Carb_Monos_I This family represents the domain	98.09
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	98.08
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	98.06
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	98.06
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	98.05
PRK10875	615	recD exonuclease V subunit alpha; Provisional	98.05
cd01128	249	rho_factor Transcription termination factor rho is	98.04
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	98.02
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.01
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	98.0
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	97.98
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.98
PRK13695	174	putative NTPase; Provisional	97.97
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.97
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.96
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.96
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	97.96
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.95
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.95
KOG0481	729	consensus DNA replication licensing factor, MCM5 c	97.95
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.95
PRK08118	167	topology modulation protein; Reviewed	97.94
PRK09376	416	rho transcription termination factor Rho; Provisio	97.93
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.92
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.91
COG1485	367	Predicted ATPase [General function prediction only	97.91
PRK13889	988	conjugal transfer relaxase TraA; Provisional	97.91
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	97.91
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	97.9
PRK06067	234	flagellar accessory protein FlaH; Validated	97.88
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.88
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.87
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.87
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	97.85
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.85
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.84
TIGR00767	415	rho transcription termination factor Rho. Members	97.84
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.84
PRK15455	644	PrkA family serine protein kinase; Provisional	97.82
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.82
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	97.82
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.81
cd03246	173	ABCC_Protease_Secretion This family represents the	97.81
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.79
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.79
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.78
PF13245	76	AAA_19: Part of AAA domain	97.76
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	97.76
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.76
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.76
PRK12608	380	transcription termination factor Rho; Provisional	97.75
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	97.75
cd03215	182	ABC_Carb_Monos_II This family represents domain II	97.73
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.73
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	97.73
smart00487	201	DEXDc DEAD-like helicases superfamily.	97.73
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.73
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	97.73
PRK13826	1102	Dtr system oriT relaxase; Provisional	97.72
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.71
COG4178	604	ABC-type uncharacterized transport system, permeas	97.71
PRK14737	186	gmk guanylate kinase; Provisional	97.71
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.7
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.7
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.7
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	97.69
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.68
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.68
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	97.68
PRK13537	306	nodulation ABC transporter NodI; Provisional	97.67
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.66
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	97.66
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.66
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.66
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.65
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.65
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.65
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	97.63
PRK13536	340	nodulation factor exporter subunit NodI; Provision	97.62
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	97.61
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.61
cd03269	210	ABC_putative_ATPase This subfamily is involved in	97.6
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	97.59
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	97.59
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.59
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	97.59
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	97.58
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	97.58
PRK07261	171	topology modulation protein; Provisional	97.58
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.58
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.58
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.58
PRK06762	166	hypothetical protein; Provisional	97.58
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.57
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.57
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.57
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	97.57
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.57
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	97.56
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.56
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	97.56
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	97.56
PRK14532	188	adenylate kinase; Provisional	97.55
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	97.55
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	97.55
PRK13709	1747	conjugal transfer nickase/helicase TraI; Provision	97.55
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	97.55
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.55
PRK11823	446	DNA repair protein RadA; Provisional	97.55
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	97.54
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.54
KOG2383	467	consensus Predicted ATPase [General function predi	97.54
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.54
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.54
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.53
PF05872	502	DUF853: Bacterial protein of unknown function (DUF	97.52
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.52
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	97.52
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	97.52
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	97.51
KOG0479	818	consensus DNA replication licensing factor, MCM3 c	97.51
KOG3928	461	consensus Mitochondrial ribosome small subunit com	97.51
PRK06696	223	uridine kinase; Validated	97.51
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.5
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	97.5
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	97.5
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	97.49
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.48
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.48
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.48
PRK14712	1623	conjugal transfer nickase/helicase TraI; Provision	97.48
COG1100	219	GTPase SAR1 and related small G proteins [General	97.48
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.48
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	97.48
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	97.47
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.47
PRK04328	249	hypothetical protein; Provisional	97.47
PRK06547	172	hypothetical protein; Provisional	97.46
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	97.46
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	97.46
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	97.46
PRK10908	222	cell division protein FtsE; Provisional	97.46
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	97.45
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	97.45
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.45
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	97.45
PRK10867	433	signal recognition particle protein; Provisional	97.45
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.44
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	97.44
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.44
CHL00195	489	ycf46 Ycf46; Provisional	97.43
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	97.43
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.43
PRK00131	175	aroK shikimate kinase; Reviewed	97.43
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	97.43
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.42
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	97.41
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	97.41
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	97.41
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.41
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	97.41
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.41
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	97.41
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.4
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	97.4
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	97.39
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	97.39
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.38
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	97.38
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	97.37
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	97.37
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	97.37
PRK09354	349	recA recombinase A; Provisional	97.37
PRK13764	602	ATPase; Provisional	97.37
PRK13833	323	conjugal transfer protein TrbB; Provisional	97.36
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	97.36
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	97.36
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	97.35
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	97.35
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	97.34
PRK13546	264	teichoic acids export protein ATP-binding subunit;	97.34
COG4525	259	TauB ABC-type taurine transport system, ATPase com	97.34
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	97.34
PRK07667	193	uridine kinase; Provisional	97.34
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	97.34
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	97.33
PRK05973	237	replicative DNA helicase; Provisional	97.33
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	97.33
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.33
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	97.33

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

Probab=100.00  E-value=1.1e-40  Score=269.29  Aligned_cols=265  Identities=37%  Similarity=0.615  Sum_probs=236.5

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCC-CCcccEEEeecCCCcC
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNASDDRG  117 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~~~~~  117 (305)
                      ....|.++|+|++|++++||+..++.|.+.+.++..|+++||||||||||+++.++++++.++ -.+..+...+.+...+
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            556699999999999999999999999999999889999999999999999999999999883 4556677788888888


Q ss_pred             hhHHHHHHHHhhhcccc----cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhccee
Q 021937          118 IDVVRQQIQDFASTQSF----SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~~~----~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~  193 (305)
                      ....++.+..+......    ......+..|+||||+|.+..+.|++|.+.++..+.+++||++||..+.++..+.+||+
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            88777777665543221    11223345999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccC-HHHHHhhhCCCChhhHHH
Q 021937          194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQIT-EEAVYLCTGNPLPKDIEQ  272 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~-~~~v~~~~~~~~~~~~~~  272 (305)
                      .+.|+++..+.+...++.++.++|++++++++..|++.++||+|+|+..||+++...+.|+ .-.++.+.|...+..+..
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            9999999999999999999999999999999999999999999999999999999888899 556666667999999999


Q ss_pred             HHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          273 ISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       273 l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      +++..+..|+.+.....+.+...+-.|+++.
T Consensus       262 lle~a~S~d~~~~v~~~Rei~~sg~~~~~lm  292 (346)
T KOG0989|consen  262 LLELALSADTPNTVKRVREIMRSGYSPLQLM  292 (346)
T ss_pred             HHHHHHccChHHHHHHHHHHHHhccCHHHHH
Confidence            9999999999999999999999887777654

>PLN03025 replication factor C subunit; Provisional

Probab=100.00  E-value=2.6e-39  Score=278.24  Aligned_cols=261  Identities=43%  Similarity=0.671  Sum_probs=234.2

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhH
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (305)
                      .||.++|+|++|++++|+++.++.|+.++..+..++++|+||||+|||++|+++++.+.+.++...+++++.++..+.+.
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            37999999999999999999999999999999889999999999999999999999998777666788888887777777


Q ss_pred             HHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCC
Q 021937          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL  200 (305)
Q Consensus       121 ~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~  200 (305)
                      +++.+..........  ...+..+++|||+|.+....++.|+++++.++..++++++++....+.+++++||..+.|+++
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 VRNKIKMFAQKKVTL--PPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRL  158 (319)
T ss_pred             HHHHHHHHHhccccC--CCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCC
Confidence            777776654432111  113478999999999999999999999999888899999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCChhhHHHHHHHHHcc
Q 021937          201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNE  280 (305)
Q Consensus       201 ~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~  280 (305)
                      +.+++.+++..++.++|+.+++++++.+++.++||+|.+++.||.+....+.|+.++|.++.+......++.+++++..+
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            99999999999999999999999999999999999999999999776665679999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHHHHHHHHhh
Q 021937          281 SFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       281 ~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      |+++|+..++.|...+..+..++
T Consensus       239 ~~~~a~~~l~~ll~~g~~~~~Il  261 (319)
T PLN03025        239 KFDDACDGLKQLYDLGYSPTDII  261 (319)
T ss_pred             CHHHHHHHHHHHHHcCCCHHHHH
Confidence            99999999999998877666554

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.8e-38  Score=274.35  Aligned_cols=258  Identities=19%  Similarity=0.316  Sum_probs=226.7

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC---------------
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ---------------  102 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~---------------  102 (305)
                      ...+|.++|||++|++++||+.++..|..++..++.+| ++|+||+|+||||+|+.+++.+.|..               
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            56789999999999999999999999999999998887 89999999999999999999998742               


Q ss_pred             ----CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021937          103 ----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       103 ----~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                          ....+++++.....+.+.+++.........     ...++.|+||||+|.++.+.++.|++.+++++.++.||+++
T Consensus        84 i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p-----~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaT  158 (484)
T PRK14956         84 ITKGISSDVLEIDAASNRGIENIRELRDNVKFAP-----MGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILAT  158 (484)
T ss_pred             HHccCCccceeechhhcccHHHHHHHHHHHHhhh-----hcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeec
Confidence                122466777766666777777665543221     22347899999999999999999999999999999999999


Q ss_pred             cCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-ccCccCHHH
Q 021937          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEA  257 (305)
Q Consensus       179 ~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~  257 (305)
                      +....+.+++++||+.+.|.+++.+++.+++.+++..+|+.++++++..|++.++|++|.+++.|+++.. ..+.|+.+.
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            9999999999999999999999999999999999999999999999999999999999999999977554 445799999


Q ss_pred             HHhhhCCCChhhHHHHHHHHHcccH-HHHHHHHHHHHHHHHHHHH
Q 021937          258 VYLCTGNPLPKDIEQISYWLLNESF-ADSFKRIQNLSFIIRLVLF  301 (305)
Q Consensus       258 v~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~l~~l~~~~~~~~~  301 (305)
                      |.++++...+..++++++++.++|. .+++.+++.|...+..+.-
T Consensus       239 V~~~lg~~~~~~~~~l~~si~~~d~~~~al~~l~~l~~~G~d~~~  283 (484)
T PRK14956        239 IRKMIGYHGIEFLTSFIKSLIDPDNHSKSLEILESLYQEGQDIYK  283 (484)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCHHH
Confidence            9999999999999999999999875 6899999999988766543

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=5e-37  Score=278.22  Aligned_cols=253  Identities=22%  Similarity=0.327  Sum_probs=225.7

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC----------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (305)
                      +..|.+||||++|++++||+++++.|.+++.+++.+| ++|+||+|+||||+++.+++.+.|..                
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            5679999999999999999999999999999998888 69999999999999999999998742                


Q ss_pred             ---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                         ....+++++..+..+.+.+++.+.......     ...+++|+||||+|.|+...++.|++.||+++.+++||++|+
T Consensus        83 ~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P-----~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTt  157 (830)
T PRK07003         83 DEGRFVDYVEMDAASNRGVDEMAALLERAVYAP-----VDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATT  157 (830)
T ss_pred             hcCCCceEEEecccccccHHHHHHHHHHHHhcc-----ccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEEC
Confidence               112477787777677888888776654322     233479999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHh-hccCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH-MASQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v  258 (305)
                      +..++.+++++||+.+.|++++.+++.++|.+++..+++.++++.+..|++.++|++|.++++++++. ...+.|+.+.|
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            99999999999999999999999999999999999999999999999999999999999999986554 44567999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIR  297 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~  297 (305)
                      +.+++......+..+++.+..+|+.+++..+++|.....
T Consensus       238 ~~~LG~~d~~~i~~ll~aL~~~d~~~~l~~~~~l~~~g~  276 (830)
T PRK07003        238 SGMLGALDQTYMVRLLDALAAGDGPEILAVADEMALRSL  276 (830)
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            999999999999999999999999999999999987543

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.7e-37  Score=277.76  Aligned_cols=259  Identities=21%  Similarity=0.308  Sum_probs=232.1

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC----------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (305)
                      +.+|.++|||++|++++||+++++.|.+++..++.+| ++|+||+|+|||++|+.+++.+.|..                
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            5789999999999999999999999999999999888 79999999999999999999998742                


Q ss_pred             ---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                         ....+++++.+...+.+.+++.+.......     ...+++|+||||+|.++....+.|++++++++.++.||++|+
T Consensus        83 ~~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p-----~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlatt  157 (509)
T PRK14958         83 DEGRFPDLFEVDAASRTKVEDTRELLDNIPYAP-----TKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATT  157 (509)
T ss_pred             hcCCCceEEEEcccccCCHHHHHHHHHHHhhcc-----ccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEEC
Confidence               222478888777778888888776654322     234579999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (305)
                      +..++++++.+||+.+.|++++..++.+++..++.++|+.++++++..|++.++|++|.+++.++++... .+.|+.++|
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            9989999999999999999999999999999999999999999999999999999999999999766554 467999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      .++++......++.+++++..+|.++++..++.|...+..+..+|
T Consensus       238 ~~~lg~~~~~~i~~ll~al~~~d~~~~l~~~~~l~~~g~~~~~il  282 (509)
T PRK14958        238 KTMLGTIEPLLLFDILEALAAKAGDRLLGCVTRLVEQGVDFSNAL  282 (509)
T ss_pred             HHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            999999999999999999999999999999999999887765443

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=8.7e-37  Score=272.59  Aligned_cols=262  Identities=21%  Similarity=0.322  Sum_probs=233.2

Q ss_pred             CCCCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC-------------
Q 021937           37 DIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------  102 (305)
Q Consensus        37 ~~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------  102 (305)
                      +..+.+|.++|+|++|++++||+..++.|...+..++.++ ++|+||+|+||||+|+.+++.+.|..             
T Consensus         5 ~~~y~~la~kyRP~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~   84 (507)
T PRK06645          5 SNQYIPFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQ   84 (507)
T ss_pred             cccccchhhhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCC
Confidence            4567899999999999999999999999999988887665 89999999999999999999997742             


Q ss_pred             ----------CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCc
Q 021937          103 ----------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNT  172 (305)
Q Consensus       103 ----------~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~  172 (305)
                                ....+++++.....+.+.+++.+...... ++.    +++.|+||||+|.++...++.|++.+++++.++
T Consensus        85 C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~-P~~----~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~  159 (507)
T PRK06645         85 CTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYK-PLQ----GKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHI  159 (507)
T ss_pred             ChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhc-ccc----CCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCE
Confidence                      12356777776667788888877665433 322    347999999999999999999999999999999


Q ss_pred             eEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc--
Q 021937          173 RFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--  250 (305)
Q Consensus       173 ~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--  250 (305)
                      .||++++...++++++.+||+.+.|++++.+++.+++..++.++|+.+++++++.|++.++|++|.+++.|++++...  
T Consensus       160 vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~  239 (507)
T PRK06645        160 IFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAK  239 (507)
T ss_pred             EEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhcc
Confidence            999999988899999999999999999999999999999999999999999999999999999999999998886543  


Q ss_pred             --CccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          251 --QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       251 --~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                        +.|+.++|+++++.....+++++++++..+|..+|+..++.+..++..+..++
T Consensus       240 ~~~~It~~~V~~llg~~~~~~if~L~~ai~~~d~~~Al~~l~~L~~~g~~~~~~l  294 (507)
T PRK06645        240 SDNIISPQVINQMLGLVDSSVIIEFVEYIIHRETEKAINLINKLYGSSVNLEIFI  294 (507)
T ss_pred             CCCCcCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence              26999999999999999999999999999999999999999999988877653

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.1e-37  Score=270.96  Aligned_cols=253  Identities=23%  Similarity=0.357  Sum_probs=228.4

Q ss_pred             chhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC------------------
Q 021937           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------  102 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~------------------  102 (305)
                      .|.++|||++|++++||+.+++.|.+.+..++.+| ++|+||+|+||||+|+.+++.++|..                  
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            58899999999999999999999999999988886 99999999999999999999887632                  


Q ss_pred             -CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          103 -YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       103 -~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                       ....++++++++..+.+.+++.+...... ++.    ++++|+||||+|.++...++.|+++++++++++.+|++++..
T Consensus        82 ~~~~Dv~eidaas~~~vddIR~Iie~~~~~-P~~----~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~  156 (491)
T PRK14964         82 SNHPDVIEIDAASNTSVDDIKVILENSCYL-PIS----SKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEV  156 (491)
T ss_pred             cCCCCEEEEecccCCCHHHHHHHHHHHHhc-ccc----CCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCCh
Confidence             34567888888778888888877665433 332    348999999999999999999999999999999999999999


Q ss_pred             cccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHHHh
Q 021937          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAVYL  260 (305)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v~~  260 (305)
                      .++.+++++||+.+.|.+++.+++.+++..++.++|+.+++++++.|++.++|++|.+++.|++++.. .+.|+.++|++
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            99999999999999999999999999999999999999999999999999999999999999887764 45799999999


Q ss_pred             hhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHH
Q 021937          261 CTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVL  300 (305)
Q Consensus       261 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~  300 (305)
                      +++......++++++++..+|..+|+..++.|.... .+.
T Consensus       237 llg~~~~~~If~L~~aI~~~d~~~Al~~l~~Ll~~g-~~~  275 (491)
T PRK14964        237 LLGCVDKHILEDLVEAILLGDAQSALNVFRELCNTS-NPV  275 (491)
T ss_pred             HHccCCHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CHH
Confidence            999999999999999999999999999999999864 443

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

Probab=100.00  E-value=2.5e-37  Score=240.33  Aligned_cols=255  Identities=42%  Similarity=0.684  Sum_probs=239.4

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      .+.+|.++|+|..+.+++|++..++.|.-....++.|++++.||||+||||.+.++++++....+.-.+.++|.++..++
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            45679999999999999999999999999999999999999999999999999999999999888889999999999999


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~  198 (305)
                      +.++..++.+++..--.  ..++..+||+||+|.+....|++|.+.++-++..++|.++||...++.+.+.+||..+.|.
T Consensus        93 DvVRn~IK~FAQ~kv~l--p~grhKIiILDEADSMT~gAQQAlRRtMEiyS~ttRFalaCN~s~KIiEPIQSRCAiLRys  170 (333)
T KOG0991|consen   93 DVVRNKIKMFAQKKVTL--PPGRHKIIILDEADSMTAGAQQALRRTMEIYSNTTRFALACNQSEKIIEPIQSRCAILRYS  170 (333)
T ss_pred             HHHHHHHHHHHHhhccC--CCCceeEEEeeccchhhhHHHHHHHHHHHHHcccchhhhhhcchhhhhhhHHhhhHhhhhc
Confidence            99999999887764311  2345789999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCChhhHHHHHHHHH
Q 021937          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (305)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~~~  278 (305)
                      .++..++...+...++.+++.++++.++.|.-.+.||.|+++|.||+...+.+.++.+.|.++........+..++....
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            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccHHHHHHHHHHHHHH
Q 021937          279 NESFADSFKRIQNLSFI  295 (305)
Q Consensus       279 ~~~~~~~~~~l~~l~~~  295 (305)
                      .++++.|++.++.+=..
T Consensus       251 ~~~~~~A~~il~~lw~l  267 (333)
T KOG0991|consen  251 KRNIDEALKILAELWKL  267 (333)
T ss_pred             hccHHHHHHHHHHHHHc
Confidence            99999999999987543

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=3e-36  Score=268.36  Aligned_cols=258  Identities=24%  Similarity=0.400  Sum_probs=225.9

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC----------------
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------------  103 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~----------------  103 (305)
                      ..|.++|||++|++++||++..+.|...+..+..++ ++|+||||+||||+|+.+++.+.+...                
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            468899999999999999999999999999998877 899999999999999999999876321                


Q ss_pred             ---cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          104 ---HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       104 ---~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                         ...++.++++...+.+.+++..... ...++    .+++.|++|||+|.+....++.|+..+++++.++.+|++++.
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 EGTFMDVIELDAASNRGIDEIRKIRDAV-GYRPM----EGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTN  156 (472)
T ss_pred             cCCCCccEEEeCcccCCHHHHHHHHHHH-hhChh----cCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCC
Confidence               2257777777666777777644433 32222    234789999999999999999999999999888888888887


Q ss_pred             CcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc-CccCHHHHH
Q 021937          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (305)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~  259 (305)
                      +..+.+++.+||+.+.|.+++.+++..++...+..+++.+++++++.|++.++||+|.+++.|+.++... +.|+.++|+
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            7889999999999999999999999999999999999999999999999999999999999999876543 469999999


Q ss_pred             hhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          260 LCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       260 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      ++++......+++++++++++|.++|+.+++.|...+..+..++
T Consensus       237 ~~l~~~~~~~i~~li~si~~~d~~~Al~~l~~ll~~Gedp~~i~  280 (472)
T PRK14962        237 EALGLIPIEVVRDYINAIFNGDVKRVFTVLDDVYYSGKDYEVLI  280 (472)
T ss_pred             HHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            99999999999999999999999999999999999887777653

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.1e-36  Score=271.49  Aligned_cols=256  Identities=23%  Similarity=0.320  Sum_probs=227.2

Q ss_pred             chhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC------------------
Q 021937           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------  102 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~------------------  102 (305)
                      .|.++|||++|++++||+.+++.|.+++..++.+| ++|+||+|+||||+|+.+++.+.|..                  
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            47799999999999999999999999999999999 79999999999999999999998632                  


Q ss_pred             ---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                         ....++.++.+...+.+.+++........ ++    .+++.|+||||+|.++...++.|++.+++++.++.||++++
T Consensus        82 ~~~~~~dvieidaas~~gvd~iRel~~~~~~~-P~----~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tt  156 (584)
T PRK14952         82 NGPGSIDVVELDAASHGGVDDTRELRDRAFYA-PA----QSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATT  156 (584)
T ss_pred             ccCCCceEEEeccccccCHHHHHHHHHHHHhh-hh----cCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeC
Confidence               12456777776666788887766554332 22    23479999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc--cCccCHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA--SQQITEEA  257 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~--~~~i~~~~  257 (305)
                      ...++.+++++||+.+.|.+++.+++.+++..++.++|+.++++++..|++.++|++|.+++.|++++..  .+.|+.++
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            9999999999999999999999999999999999999999999999999999999999999999988775  35799999


Q ss_pred             HHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       258 v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                      +.++++......++.+++++..+|...++..++.+...++.+..+
T Consensus       237 v~~llg~~~~~~i~~lv~al~~~d~~~al~~l~~l~~~g~d~~~~  281 (584)
T PRK14952        237 ALGLLGATDVALIDDAVDALAADDAAALFGAIESVIDAGHDPRRF  281 (584)
T ss_pred             HHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHH
Confidence            999999999999999999999999999999999998776665433

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.4e-36  Score=269.56  Aligned_cols=255  Identities=18%  Similarity=0.289  Sum_probs=225.7

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC----------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (305)
                      +.+|.++|||++|++++|++...+.|.+++..++.+| ++|+||+|+|||++|+.+++.+.|..                
T Consensus         2 Y~~LarKyRPktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I   81 (702)
T PRK14960          2 YQVLARKYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAV   81 (702)
T ss_pred             chhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHH
Confidence            4679999999999999999999999999999998877 79999999999999999999997632                


Q ss_pred             ---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                         ....++.++.+...+.+.+++.+.......     ..++++|+||||+|.++....+.|++++++++.++.||++++
T Consensus        82 ~~g~hpDviEIDAAs~~~VddIReli~~~~y~P-----~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTt  156 (702)
T PRK14960         82 NEGRFIDLIEIDAASRTKVEDTRELLDNVPYAP-----TQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATT  156 (702)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhhhh-----hcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEEC
Confidence               223567777776667788887776553322     123479999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-ccCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v  258 (305)
                      ....++..+++||..+.|.+++.+++.+++..++.++|+.++++++..|++.++|++|.+++.++++.. ..+.|+.++|
T Consensus       157 d~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~GdLRdALnLLDQaIayg~g~IT~edV  236 (702)
T PRK14960        157 DPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDALSLTDQAIAYGQGAVHHQDV  236 (702)
T ss_pred             ChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHH
Confidence            988899999999999999999999999999999999999999999999999999999999999966554 4567999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLV  299 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~  299 (305)
                      .++++......++++++++..++..+++..++.+...+..+
T Consensus       237 ~~lLG~~d~e~IfdLldAI~k~d~~~al~~L~el~~~g~d~  277 (702)
T PRK14960        237 KEMLGLIDRTIIYDLILAVHQNQREKVSQLLLQFRYQALDV  277 (702)
T ss_pred             HHHhccCCHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCH
Confidence            99999999999999999999999999999999998765543

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.8e-36  Score=270.14  Aligned_cols=254  Identities=22%  Similarity=0.329  Sum_probs=226.1

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC----------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (305)
                      +..|.++|+|++|++++||+++++.|.+.+..++.+| ++|+||+|+||||+++.+++.+.|.+                
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            5779999999999999999999999999999999998 69999999999999999999998732                


Q ss_pred             --------CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceE
Q 021937          103 --------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRF  174 (305)
Q Consensus       103 --------~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~i  174 (305)
                              ....+++++.....+.+.+++.+.......     ...+++|+||||+|.|+....+.|++.||+++.++.|
T Consensus        83 sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P-----~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~F  157 (700)
T PRK12323         83 ACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAP-----TAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKF  157 (700)
T ss_pred             HHHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhch-----hcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceE
Confidence                    112567777776677888888777654432     2234799999999999999999999999999999999


Q ss_pred             EEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHh-hccCcc
Q 021937          175 ALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH-MASQQI  253 (305)
Q Consensus       175 il~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i  253 (305)
                      |++|++..++.+++++||+.+.|++++.+++.+++.+++..+++.++++.+..|++.++|++|.++++++++. ...+.|
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            9999999999999999999999999999999999999999999999999999999999999999999996544 445679


Q ss_pred             CHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHH
Q 021937          254 TEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRL  298 (305)
Q Consensus       254 ~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~  298 (305)
                      +.+.|.++++......+..+++.+..+|...++..++.+...+..
T Consensus       238 t~~~V~~~LG~~d~~~i~~Ll~aL~~~d~~~~l~l~~~l~~~G~d  282 (700)
T PRK12323        238 SEEAVRGMLGAIDQSYLVRLLDALAAEDGAALLAIADEMAGRSLS  282 (700)
T ss_pred             CHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Confidence            999999999999999999999999999999999999888775544

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.3e-36  Score=271.74  Aligned_cols=258  Identities=25%  Similarity=0.350  Sum_probs=229.1

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC----------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (305)
                      +..|.++|||++|++++||+..++.|.+++..++.+| ++|+||+|+||||+++.+++.++|.+                
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            5679999999999999999999999999999999888 69999999999999999999998742                


Q ss_pred             --------CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceE
Q 021937          103 --------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRF  174 (305)
Q Consensus       103 --------~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~i  174 (305)
                              ....+++++.....+.+.+++.+.......     ...+++|+||||+|.++...++.|++.+++++.++.|
T Consensus        83 ~C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p-----~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~f  157 (618)
T PRK14951         83 ACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKP-----VQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKF  157 (618)
T ss_pred             HHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCc-----ccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEE
Confidence                    122567777776677888888776643322     2234799999999999999999999999999999999


Q ss_pred             EEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-ccCcc
Q 021937          175 ALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQI  253 (305)
Q Consensus       175 il~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i  253 (305)
                      |++|++..++..++++||..++|++++.+++.+++..++.++|+.++++++..|++.++|++|.+++.++++.. ..+.|
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            99999988999999999999999999999999999999999999999999999999999999999999976554 44679


Q ss_pred             CHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          254 TEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       254 ~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                      +.++|+++++......++.+++++..+|...++..++.|...+..+..+
T Consensus       238 t~~~V~~~Lg~~~~~~i~~LldaL~~~d~~~al~~l~~l~~~G~~~~~i  286 (618)
T PRK14951        238 QEAAVRQMLGSVDRSHVFRLIDALAQGDGRTVVETADELRLNGLSAAST  286 (618)
T ss_pred             CHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHH
Confidence            9999999999999999999999999999999999999998876665544

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.6e-36  Score=275.34  Aligned_cols=256  Identities=20%  Similarity=0.305  Sum_probs=223.3

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +.+|.++|||++|++++||+.+++.|++++..++.+| ++|+||+|+|||++++.+++.+.|...               
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            5689999999999999999999999999999999999 589999999999999999999987521               


Q ss_pred             ----cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                          ...++.++.....+.+.+++.+.......     ...++.|+||||+|.|....++.|++.|++++.+++||++++
T Consensus        83 ~~g~~~DviEidAas~~kVDdIReLie~v~~~P-----~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTT  157 (944)
T PRK14949         83 AQGRFVDLIEVDAASRTKVDDTRELLDNVQYRP-----SRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATT  157 (944)
T ss_pred             hcCCCceEEEeccccccCHHHHHHHHHHHHhhh-----hcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECC
Confidence                12345566654456777777766553321     234579999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-ccCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v  258 (305)
                      ...++.+.+++||+.+.|++++.+++.++|..++..+++.++++++..|++.++|++|.++++|+.+.. ..+.++.+.|
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            999999999999999999999999999999999999999999999999999999999999999965443 4567999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVL  300 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~  300 (305)
                      .++++......+..++..+..+|..+++.+++.|...+..+.
T Consensus       238 ~~llG~iD~~~V~~llksI~~~D~~aaL~~l~~Ll~~G~D~~  279 (944)
T PRK14949        238 QTMLGSIDEQHVIALLKALTDADIGVLMQTCAQVLAFGADAQ  279 (944)
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHH
Confidence            999999988889999999999999999999999987664443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.4e-35  Score=258.84  Aligned_cols=258  Identities=24%  Similarity=0.308  Sum_probs=222.0

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +.+|.++|+|++|++++||+..++.+.+.+..++.+| ++|+||+|+||||+|+.+++.+.|...               
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            5679999999999999999999999999999988888 699999999999999999999975321               


Q ss_pred             ----cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                          ...+..+++......+.+++.+..... .+    ...++.|+||||+|.++...++.|++.+++++.++.+|++++
T Consensus        83 ~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~-~p----~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~  157 (363)
T PRK14961         83 EKGLCLDLIEIDAASRTKVEEMREILDNIYY-SP----SKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATT  157 (363)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhc-Cc----ccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcC
Confidence                123455555443456666665554322 22    223478999999999999999999999999999999999998


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-ccCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v  258 (305)
                      ....+.+++.+||+.+.|++++.+++.+++..++.++|..+++++++.+++.++||+|.+++.++.++. ..+.|+.++|
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            888899999999999999999999999999999999999999999999999999999999999987655 3467999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                      .++++......++.+++++..+|..+++..++.+...+..+.-+
T Consensus       238 ~~~l~~~~~~~i~~l~~ai~~~~~~~~~~~~~~l~~~g~~~~~i  281 (363)
T PRK14961        238 TDMLGLLNEKQSFLLTDALLKKDSKKTMLLLNKISSIGIEWENI  281 (363)
T ss_pred             HHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHH
Confidence            99999999999999999999999999999999999876555443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.6e-35  Score=265.97  Aligned_cols=256  Identities=22%  Similarity=0.331  Sum_probs=224.2

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +.+|.++|||++|++++||+..++.|.+.+..++.+| ++|+||+|+|||++|+.+++.+.|.++               
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            4689999999999999999999999999999888777 899999999999999999999987532               


Q ss_pred             ----cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                          ...++.+++....+.+.++..+...... ++.    .+++|++|||+|.+....++.|++++++++.++.+|++++
T Consensus        83 ~~~~h~DiieIdaas~igVd~IReIi~~~~~~-P~~----~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt  157 (605)
T PRK05896         83 NTNQSVDIVELDAASNNGVDEIRNIIDNINYL-PTT----FKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATT  157 (605)
T ss_pred             HcCCCCceEEeccccccCHHHHHHHHHHHHhc-hhh----CCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECC
Confidence                1345666665556677777766554433 222    2378999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccC-ccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-QITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~-~i~~~~v  258 (305)
                      ....+.+++++||+.+.|.+++.+++..++...+.++|..+++++++.+++.++|++|.+++.++.++...+ .|+.++|
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            999999999999999999999999999999999999999999999999999999999999999998776543 4999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVL  300 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~  300 (305)
                      .++++......++.+++++..+|..+++.+++.|...+..+.
T Consensus       238 ~ellg~~~~~~Vf~Ll~AI~~kd~~~al~~l~~Ll~~ge~~~  279 (605)
T PRK05896        238 NKTFGLVDNNKKINLIELIQKNDIEELRNLINELESKGINFE  279 (605)
T ss_pred             HHHhccCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHH
Confidence            999999888889999999999999999999999988665443

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=3.8e-35  Score=263.30  Aligned_cols=257  Identities=25%  Similarity=0.353  Sum_probs=226.7

Q ss_pred             chhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC------------------
Q 021937           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------  102 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~------------------  102 (305)
                      .+.++|||++|++++||+..++.|..++..+..+| ++|+||+|+||||+++.+++.+.|.+                  
T Consensus         3 ~l~~KyRP~~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~   82 (504)
T PRK14963          3 ALYQRARPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRG   82 (504)
T ss_pred             hHHHhhCCCCHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcC
Confidence            35699999999999999999999999999999888 59999999999999999999997642                  


Q ss_pred             CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      ....+..++.....+.+.+++....... .++.    .++.|+||||+|.+....++.|++.+++++.++.+|++++...
T Consensus        83 ~h~dv~el~~~~~~~vd~iR~l~~~~~~-~p~~----~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~  157 (504)
T PRK14963         83 AHPDVLEIDAASNNSVEDVRDLREKVLL-APLR----GGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPE  157 (504)
T ss_pred             CCCceEEecccccCCHHHHHHHHHHHhh-cccc----CCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChh
Confidence            2335777777655667777775444433 2222    3478999999999999999999999999988899999998888


Q ss_pred             ccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhh
Q 021937          183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCT  262 (305)
Q Consensus       183 ~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~  262 (305)
                      .+.+.+.+||+.+.|.+++.+++.+++..++.++|+.+++++++.|++.++||+|.+++.|+.++...+.|+.++|++++
T Consensus       158 kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~GdlR~aln~Lekl~~~~~~It~~~V~~~l  237 (504)
T PRK14963        158 KMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLERLLALGTPVTRKQVEEAL  237 (504)
T ss_pred             hCChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999988776789999999999


Q ss_pred             CCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          263 GNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       263 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      +.....+++++++++..+|..+|+..++.|...+..+..++
T Consensus       238 ~~~~~~~if~Li~al~~~d~~~Al~~l~~Ll~~G~~~~~Il  278 (504)
T PRK14963        238 GLPPQERLRGIAAALAQGDAAEALSGAAQLYRDGFAARTLV  278 (504)
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            99999999999999999999999999999998876665543

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=5.1e-35  Score=266.45  Aligned_cols=263  Identities=24%  Similarity=0.361  Sum_probs=231.2

Q ss_pred             CCCCCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC-----------
Q 021937           36 PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-----------  103 (305)
Q Consensus        36 ~~~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~-----------  103 (305)
                      ....+..|.++|||++|++++||+.+++.|.+.+..++.+| ++|+||+|+|||++|+.+++.+.|.+.           
T Consensus         7 ~~~~y~~la~KyRP~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~c   86 (598)
T PRK09111          7 AATPYRVLARKYRPQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLC   86 (598)
T ss_pred             CCccchhHHhhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccC
Confidence            34567889999999999999999999999999999998887 999999999999999999999987532           


Q ss_pred             -------------cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcC
Q 021937          104 -------------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK  170 (305)
Q Consensus       104 -------------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~  170 (305)
                                   ...++.++.....+.+.+++.+.... ..++.    .+++|+||||+|.++....+.|++++++++.
T Consensus        87 g~c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~-~~P~~----a~~KVvIIDEad~Ls~~a~naLLKtLEePp~  161 (598)
T PRK09111         87 GVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVR-YRPVS----ARYKVYIIDEVHMLSTAAFNALLKTLEEPPP  161 (598)
T ss_pred             cccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHH-hchhc----CCcEEEEEEChHhCCHHHHHHHHHHHHhCCC
Confidence                         12355666666667888888776543 33332    3479999999999999999999999999999


Q ss_pred             CceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-
Q 021937          171 NTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-  249 (305)
Q Consensus       171 ~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-  249 (305)
                      ++.||++++...++.+.+++||+.+.|.+++.+++..++...+.++|..+++++++.|++.++|++|.+++.++++... 
T Consensus       162 ~~~fIl~tte~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~g  241 (598)
T PRK09111        162 HVKFIFATTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAHG  241 (598)
T ss_pred             CeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhc
Confidence            9999999998888999999999999999999999999999999999999999999999999999999999999776543 


Q ss_pred             cCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          250 SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       250 ~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      .+.|+.++|+++++......++++++++..+|..+++..++.+...+..++.++
T Consensus       242 ~g~It~e~V~~llg~~~~~~if~L~~ai~~gd~~~Al~~l~~l~~~G~~p~~il  295 (598)
T PRK09111        242 AGEVTAEAVRDMLGLADRARVIDLFEALMRGDVAAALAEFRAQYDAGADPVVVL  295 (598)
T ss_pred             CCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            457999999999999999999999999999999999999999988776666544

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=2.6e-35  Score=266.91  Aligned_cols=257  Identities=24%  Similarity=0.361  Sum_probs=226.3

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +..|.++|||++|++++|++.+++.|.+++..++.+| ++|+||+|+|||++++.+++.+.|...               
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            5679999999999999999999999999999998887 799999999999999999999876521               


Q ss_pred             ----cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                          ...+++++.....+.+.+++.+...... ++.    .+++|+||||+|.++....+.|++.+++++.++.||++++
T Consensus        83 ~~g~~~DvlEidaAs~~gVd~IRelle~a~~~-P~~----gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTt  157 (709)
T PRK08691         83 DAGRYVDLLEIDAASNTGIDNIREVLENAQYA-PTA----GKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATT  157 (709)
T ss_pred             hccCccceEEEeccccCCHHHHHHHHHHHHhh-hhh----CCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeC
Confidence                1245667766667777787777654322 221    2379999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-ccCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v  258 (305)
                      +...+...+++||..+.|++++.+++.+++..++.++|+.++++++..|++.++||+|.+++.|+++.. ..+.|+.++|
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            999999999999999999999999999999999999999999999999999999999999999977665 3467999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLF  301 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~  301 (305)
                      ..+++......++.+++++..+|...++..++.|...+..+..
T Consensus       238 ~~lLG~~d~~~If~LldAL~~~d~~~al~~l~~L~~~G~d~~~  280 (709)
T PRK08691        238 RQMIGAVDKQYLYELLTGIINQDGAALLAKAQEMAACAVGFDN  280 (709)
T ss_pred             HHHHcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHH
Confidence            9999999999999999999999999999999999887655443

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

Probab=100.00  E-value=4.4e-36  Score=264.85  Aligned_cols=257  Identities=25%  Similarity=0.391  Sum_probs=235.2

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC----------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (305)
                      +..+.++|||+.|++++||+.+...|.+.+..++..| ++|+||.|+||||+++.+++.++|.+                
T Consensus         3 yq~L~rKyRP~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I   82 (515)
T COG2812           3 YQVLARKYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEI   82 (515)
T ss_pred             hHHHHHHhCcccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhh
Confidence            4568899999999999999999999999999999888 89999999999999999999998864                


Q ss_pred             ---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                         ....+++++.++..+++++++..+.....     +..++++|++|||+|.++....++|++.++++|.++.||++|+
T Consensus        83 ~~g~~~DviEiDaASn~gVddiR~i~e~v~y~-----P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATT  157 (515)
T COG2812          83 NEGSLIDVIEIDAASNTGVDDIREIIEKVNYA-----PSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATT  157 (515)
T ss_pred             hcCCcccchhhhhhhccChHHHHHHHHHhccC-----CccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecC
Confidence               23467777888888899988887776443     3456689999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (305)
                      ...+++.++.+||+.+.|+.++.+++...+..++.++++.++++++..|++.++|.+|.++++|+++... .+.|+.+.|
T Consensus       158 e~~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~Gs~RDalslLDq~i~~~~~~It~~~v  237 (515)
T COG2812         158 EPQKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQAIAFGEGEITLESV  237 (515)
T ss_pred             CcCcCchhhhhccccccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCCChhhHHHHHHHHHHccCCcccHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999776664 468999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLF  301 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~  301 (305)
                      ..+++......+..++.++..+|...++..++++...++.+-.
T Consensus       238 ~~~lG~~~~~~~~~~~~~i~~~d~~~~~~~~~~l~~~G~~~~~  280 (515)
T COG2812         238 RDMLGLTDIEKLLSLLEAILKGDAKEALRLINELIEEGKDPEA  280 (515)
T ss_pred             HHHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcCHHH
Confidence            9999999999999999999999999999999999998765543

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=7.9e-35  Score=260.10  Aligned_cols=248  Identities=29%  Similarity=0.427  Sum_probs=221.5

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC-----------------
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------  102 (305)
                      ..|.++|||++|++++||+..++.|...+.+++.+| ++|+||+|+|||++|+.+++.+.|..                 
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            468999999999999999999999999999999888 68999999999999999999997643                 


Q ss_pred             --CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          103 --YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       103 --~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                        ....++.++.....+.+.+++.+...... ++    .+++.|+||||+|.+..+.+++|++.++++++++.||++++.
T Consensus        82 ~~~h~dv~eldaas~~gId~IRelie~~~~~-P~----~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd  156 (535)
T PRK08451         82 ENRHIDIIEMDAASNRGIDDIRELIEQTKYK-PS----MARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTD  156 (535)
T ss_pred             hcCCCeEEEeccccccCHHHHHHHHHHHhhC-cc----cCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECC
Confidence              23456777766556778888877664322 22    234799999999999999999999999999999999999998


Q ss_pred             CcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHHH
Q 021937          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAVY  259 (305)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v~  259 (305)
                      ...+.+++++||+.++|.+++.+++.+++..++.++|+.++++++..|++.++|++|.+++.|++++.. .+.|+.++|.
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            889999999999999999999999999999999999999999999999999999999999999877764 4579999999


Q ss_pred             hhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHH
Q 021937          260 LCTGNPLPKDIEQISYWLLNESFADSFKRIQNLS  293 (305)
Q Consensus       260 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~  293 (305)
                      ++++......++.+++++..+|...++.++..+.
T Consensus       237 ~~lg~~~~~~I~~li~ai~~~d~~~a~~~l~~L~  270 (535)
T PRK08451        237 DMLGLLDPSKLEDFFQAILNQDKEKLFELLKELE  270 (535)
T ss_pred             HHhCCCCHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999999999999999999999999999998874

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

Probab=100.00  E-value=2.6e-35  Score=246.72  Aligned_cols=249  Identities=25%  Similarity=0.370  Sum_probs=210.5

Q ss_pred             cchhhhcCCCCccccccchHHHH---HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~---~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (305)
                      .|+..++||+++++++||++.+.   -|++.+.++..++++|||||||||||+|+.++...     ...|..++... .+
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            48999999999999999999994   89999999999999999999999999999999987     66788877665 67


Q ss_pred             hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEe--cCCcccchhhhcceeEE
Q 021937          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCTRF  195 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~--~~~~~l~~~l~~r~~~i  195 (305)
                      ..+++..++.+......     .++.||||||+|++++.+|..|+..+|+.  ...+|.+|  |....+.+++++||+++
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            88888888887554433     23689999999999999999999999955  23333333  55567899999999999


Q ss_pred             EecCCCHHHHHHHHHHHHH--HcCCC-----CCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCc---cCHHHHHhhh---
Q 021937          196 RFAPLEPVHVTERLKHVIE--AEGLD-----VTEGGLAALVRLCNGDMRKALNILQSTHMASQQ---ITEEAVYLCT---  262 (305)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~--~~~~~-----~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~---i~~~~v~~~~---  262 (305)
                      .|+|++.+++.+.+.+.+.  ..++.     +++++.+.++..++||.|.++|.|+.+....+.   ++.+.+++.+   
T Consensus       159 ~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~~l~~~  238 (436)
T COG2256         159 ELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEEILQRR  238 (436)
T ss_pred             eeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHHHHhhh
Confidence            9999999999999998443  33444     789999999999999999999999988875532   4578887766   


Q ss_pred             -------CCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          263 -------GNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       263 -------~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                             ++..++.+++++..|+++|+++|+.++..|..-+..|.++
T Consensus       239 ~~~~Dk~gD~hYdliSA~hKSvRGSD~dAALyylARmi~~GeDp~yi  285 (436)
T COG2256         239 SARFDKDGDAHYDLISALHKSVRGSDPDAALYYLARMIEAGEDPLYI  285 (436)
T ss_pred             hhccCCCcchHHHHHHHHHHhhccCCcCHHHHHHHHHHhcCCCHHHH
Confidence                   4567789999999999999999999999999988877654

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=5.1e-35  Score=266.25  Aligned_cols=254  Identities=21%  Similarity=0.331  Sum_probs=222.9

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +.+|.++|||++|++++||+..++.|.+.+..++.+| ++|+||+|+||||+++.+++.+.|...               
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            5789999999999999999999999999999999888 689999999999999999999987421               


Q ss_pred             ----cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                          ...+++++.....+.+.+++.+.......     ..+++.|+||||+|.|+...++.|++.+|+++.+++||++|+
T Consensus        83 ~~g~~~D~ieidaas~~~VddiR~li~~~~~~p-----~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt  157 (647)
T PRK07994         83 EQGRFVDLIEIDAASRTKVEDTRELLDNVQYAP-----ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT  157 (647)
T ss_pred             HcCCCCCceeecccccCCHHHHHHHHHHHHhhh-----hcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecC
Confidence                12456677665566777887766543322     223479999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-ccCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v  258 (305)
                      +...+.+++++||+.++|++++.+++..++..++..+++.++++++..|++.++|++|.++++++.+.. ..+.|+.++|
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            999999999999999999999999999999999999999999999999999999999999999976554 3567999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRL  298 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~  298 (305)
                      ..+++......+.++++++..+|..+++.++..|...+..
T Consensus       238 ~~~lg~~d~~~~~~ll~al~~~d~~~~l~~~~~l~~~g~d  277 (647)
T PRK07994        238 SAMLGTLDDDQALSLLEALVEGDGERVMALINQLAERGPD  277 (647)
T ss_pred             HHHHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            9999988888899999999999999999999998765533

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=100.00  E-value=2e-34  Score=249.47  Aligned_cols=253  Identities=46%  Similarity=0.805  Sum_probs=226.2

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      ...+|.++|+|++|++++|+++.++.+..++..+..++++|+||+|+|||++++.+++.+.+.++...++.++.......
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            35789999999999999999999999999999988888999999999999999999999977776667788877665555


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~  198 (305)
                      ..+.+.+.......++.   ...+.+|+|||+|.+....++.|..+++.++.++.+|++++....+.+.+.+|+..++|+
T Consensus        83 ~~~~~~i~~~~~~~~~~---~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~  159 (319)
T PRK00440         83 DVIRNKIKEFARTAPVG---GAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFS  159 (319)
T ss_pred             HHHHHHHHHHHhcCCCC---CCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeC
Confidence            55556666665544433   123689999999999998899999999988888999999988888889999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCChhhHHHHHHHHH
Q 021937          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (305)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~~~  278 (305)
                      +++.+++..++..++.+.|+.+++++++.+++.++||+|.+++.++.++..++.||.++|+.+++.....+++++++++.
T Consensus       160 ~l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~~~~it~~~v~~~~~~~~~~~i~~l~~~~~  239 (319)
T PRK00440        160 PLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAATGKEVTEEAVYKITGTARPEEIREMIELAL  239 (319)
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999888777899999999999999999999999999


Q ss_pred             cccHHHHHHHHHHHHH
Q 021937          279 NESFADSFKRIQNLSF  294 (305)
Q Consensus       279 ~~~~~~~~~~l~~l~~  294 (305)
                      .++..+|+..++.|..
T Consensus       240 ~~~~~~a~~~l~~ll~  255 (319)
T PRK00440        240 NGDFTEAREKLRDLMI  255 (319)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            9999999999999874

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.2e-34  Score=260.38  Aligned_cols=252  Identities=20%  Similarity=0.344  Sum_probs=221.7

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC----------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (305)
                      +.+|.++|||++|++++|++..++.|.+.+..++.+| ++|+||+|+|||++|+.+++.+.|..                
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            5789999999999999999999999999999988888 78999999999999999999997632                


Q ss_pred             ---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                         ....++.++.....+.+.+++.+...... ++    ..++.|+||||+|.++...++.|++.+++++..+.||++|+
T Consensus        83 ~~~~~~dlieidaas~~gvd~ir~ii~~~~~~-p~----~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Tt  157 (546)
T PRK14957         83 NNNSFIDLIEIDAASRTGVEETKEILDNIQYM-PS----QGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATT  157 (546)
T ss_pred             hcCCCCceEEeecccccCHHHHHHHHHHHHhh-hh----cCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEEC
Confidence               12245666665556677777766554332 22    23478999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (305)
                      +...+.+++++||+.+.|.+++.+++.+++...+.++|+.++++++..|++.++||+|.+++.|+.++.. .+.|+.++|
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            8888998999999999999999999999999999999999999999999999999999999999877653 467999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFII  296 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~  296 (305)
                      +++++......++++++++..+|..+++..++.+...+
T Consensus       238 ~~~l~~~~~~~v~~ll~Al~~~d~~~~l~~~~~l~~~~  275 (546)
T PRK14957        238 KQMLGIIDSEEVYSIINAIIDNDPKAILPAIKNLALTE  275 (546)
T ss_pred             HHHHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999988888999999999999999999999988754

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.4e-35  Score=266.65  Aligned_cols=257  Identities=21%  Similarity=0.358  Sum_probs=228.2

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +..|.++|||++|++++|++++++.|.+.+..+..+| ++|+||+|+|||++++.+++.+.|...               
T Consensus         3 y~~l~~k~RP~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i   82 (576)
T PRK14965          3 YLVLARKYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEI   82 (576)
T ss_pred             cHHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHH
Confidence            4568899999999999999999999999999998888 799999999999999999999987431               


Q ss_pred             ----cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                          ...++++++....+.+.+++.+...... +    ...+++|+||||+|.++...++.|++++++++.++.||++++
T Consensus        83 ~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~-p----~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~  157 (576)
T PRK14965         83 TEGRSVDVFEIDGASNTGVDDIRELRENVKYL-P----SRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATT  157 (576)
T ss_pred             hcCCCCCeeeeeccCccCHHHHHHHHHHHHhc-c----ccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeC
Confidence                3346777777666777877766555332 2    233489999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (305)
                      ...++.+++++||+.+.|.+++..++..++..++.++|+.++++++..|++.++||+|.+++.|+++... .+.|+.++|
T Consensus       158 ~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~G~lr~al~~Ldqliay~g~~It~edV  237 (576)
T PRK14965        158 EPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQVLAFCGDAVGDDDV  237 (576)
T ss_pred             ChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999877654 467999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLF  301 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~  301 (305)
                      ..+++......++++++++..+|..+++..++.+...+..+..
T Consensus       238 ~~llG~~~~~~l~~ll~al~~~d~~~al~~l~~l~~~G~~~~~  280 (576)
T PRK14965        238 AELLGVVDRRLLLDISAAVFGRDTRALLEIVERVDEFGYNMRQ  280 (576)
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHH
Confidence            9999999999999999999999999999999999987766543

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.6e-34  Score=263.31  Aligned_cols=258  Identities=25%  Similarity=0.388  Sum_probs=229.2

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC----------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (305)
                      +..|.++|||++|++++||+++++.|.+++..++.+| ++|+||+|+|||++|+.+++.+.|..                
T Consensus         3 y~al~~k~rP~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i   82 (559)
T PRK05563          3 YQALYRKWRPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAI   82 (559)
T ss_pred             cHHHHHHhCCCcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHH
Confidence            4568899999999999999999999999999988888 78999999999999999999998653                


Q ss_pred             ---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                         ....++.++++...+.+.+++........ +    ..+++.|+||||+|.+.....+.|++.+++++.++.||++++
T Consensus        83 ~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~-p----~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt  157 (559)
T PRK05563         83 TNGSLMDVIEIDAASNNGVDEIRDIRDKVKYA-P----SEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATT  157 (559)
T ss_pred             hcCCCCCeEEeeccccCCHHHHHHHHHHHhhC-c----ccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeC
Confidence               23457777777666777777776654332 2    234589999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (305)
                      ....+++++++||+.+.|.+++..++..++..++.+.|+.++++++..+++.++|++|.+++.|+++... .+.|+.++|
T Consensus       158 ~~~ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s~G~~R~al~~Ldq~~~~~~~~It~~~V  237 (559)
T PRK05563        158 EPHKIPATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSILDQAISFGDGKVTYEDA  237 (559)
T ss_pred             ChhhCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHH
Confidence            8999999999999999999999999999999999999999999999999999999999999999877653 457999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                      .++++......++++++++..+|..+++..++.+...++.+..+
T Consensus       238 ~~vlg~~~~~~i~~l~~al~~~d~~~al~~l~~l~~~g~d~~~~  281 (559)
T PRK05563        238 LEVTGSVSQEALDDLVDAIVEGDVAKALKILEELLDEGKDPNRF  281 (559)
T ss_pred             HHHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCHHHH
Confidence            99999999999999999999999999999999998877766543

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.2e-34  Score=257.93  Aligned_cols=260  Identities=21%  Similarity=0.330  Sum_probs=226.2

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC---------------
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ---------------  102 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~---------------  102 (305)
                      .+..|.++|||++|++++|++..++.|.+.+..+..++ ++|+||+|+|||++|+.+++.+.|..               
T Consensus         3 ~~~~~~~kyRP~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~   82 (451)
T PRK06305          3 SYQVSSRKYRPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCK   82 (451)
T ss_pred             chHHHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHH
Confidence            35779999999999999999999999999999988877 89999999999999999999997642               


Q ss_pred             -----CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEE
Q 021937          103 -----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALI  177 (305)
Q Consensus       103 -----~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~  177 (305)
                           ....++.+++....+.+.+++.........     ...++.|+||||+|.+..+.++.|++++++++.++.+|++
T Consensus        83 ~i~~~~~~d~~~i~g~~~~gid~ir~i~~~l~~~~-----~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~  157 (451)
T PRK06305         83 EISSGTSLDVLEIDGASHRGIEDIRQINETVLFTP-----SKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLA  157 (451)
T ss_pred             HHhcCCCCceEEeeccccCCHHHHHHHHHHHHhhh-----hcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEE
Confidence                 123466666655556677766554443221     2234799999999999999999999999999889999999


Q ss_pred             ecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHH
Q 021937          178 CNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEE  256 (305)
Q Consensus       178 ~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~  256 (305)
                      ++....+.+++++||..+.|++++.+++.+++...+.++|+.+++++++.|++.++||+|.+++.++.++.. .+.|+.+
T Consensus       158 t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~gdlr~a~~~Lekl~~~~~~~It~~  237 (451)
T PRK06305        158 TTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESLYDYVVGLFPKSLDPD  237 (451)
T ss_pred             eCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCcCHH
Confidence            988889999999999999999999999999999999999999999999999999999999999999987653 4569999


Q ss_pred             HHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          257 AVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       257 ~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      +|..+++.....+++++++++..+|..+|+.++..|...+..+..+|
T Consensus       238 ~V~~l~~~~~~~~vf~L~~ai~~~d~~~al~~l~~L~~~g~~~~~iL  284 (451)
T PRK06305        238 SVAKALGLLSQDSLYTLDEAITTQNYAQALEPVTDAMNSGVAPAHFL  284 (451)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcCHHHHH
Confidence            99999999999999999999999999999999999998877665543

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1e-34  Score=272.22  Aligned_cols=253  Identities=22%  Similarity=0.329  Sum_probs=223.5

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC-----------------
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------  102 (305)
                      ..|.++|||++|++++||+.+++.|.+.+..++.+| +||+||+|||||++++.+++.+.|..                 
T Consensus         3 ~~l~~KyRP~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~   82 (824)
T PRK07764          3 LALYRRYRPATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALA   82 (824)
T ss_pred             hhHHHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHH
Confidence            457899999999999999999999999999999888 89999999999999999999998742                 


Q ss_pred             ----CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021937          103 ----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       103 ----~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                          ....++.++.....+++.+++........ .    ...+++|+||||+|.|+...++.|+++|++++.+++||+++
T Consensus        83 ~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~-p----~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~t  157 (824)
T PRK07764         83 PGGPGSLDVTEIDAASHGGVDDARELRERAFFA-P----AESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFAT  157 (824)
T ss_pred             cCCCCCCcEEEecccccCCHHHHHHHHHHHHhc-h----hcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence                12346667766656778887765544322 2    23458999999999999999999999999999999999999


Q ss_pred             cCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc--cCccCHH
Q 021937          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA--SQQITEE  256 (305)
Q Consensus       179 ~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~--~~~i~~~  256 (305)
                      +..+++.+.+++||+.+.|.+++.+++.++|.+++.++|+.++++.+..|++.++||+|.+++.|++++..  .+.|+.+
T Consensus       158 t~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~~IT~e  237 (824)
T PRK07764        158 TEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEGVTYE  237 (824)
T ss_pred             CChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCCHH
Confidence            98889999999999999999999999999999999999999999999999999999999999999988764  3569999


Q ss_pred             HHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHH
Q 021937          257 AVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRL  298 (305)
Q Consensus       257 ~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~  298 (305)
                      +++++++......++++++++..+|..+++..++.+...+..
T Consensus       238 ~V~allg~~~~~~I~~lidAL~~~D~a~al~~l~~Li~~G~d  279 (824)
T PRK07764        238 RAVALLGVTDSALIDEAVDALAAGDGAALFGTVDRVIEAGHD  279 (824)
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Confidence            999999999999999999999999999999999998865433

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.9e-34  Score=258.00  Aligned_cols=259  Identities=26%  Similarity=0.374  Sum_probs=224.2

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +.+|.++|+|++|.+++|++..++.|.+++..+..+| ++|+||+|+|||++|+.+++.+.|...               
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            5689999999999999999999999999999988888 689999999999999999999876221               


Q ss_pred             ----cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                          ...++.++.+...+.+.++...... ...++.    +++.|+||||+|.+.....+.|++++++++.++.+|++++
T Consensus        83 ~~g~~~d~~eidaas~~gvd~ir~I~~~~-~~~P~~----~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt  157 (486)
T PRK14953         83 DKGSFPDLIEIDAASNRGIDDIRALRDAV-SYTPIK----GKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTT  157 (486)
T ss_pred             hcCCCCcEEEEeCccCCCHHHHHHHHHHH-HhCccc----CCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEEC
Confidence                1235556655555666666544333 333332    3479999999999999999999999999999999999998


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (305)
                      ....+.+++.+||+.+.|++++.+++..++..++...|+.+++++++.|++.++|++|.+.+.|+.++.. .+.++.++|
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            8888999999999999999999999999999999999999999999999999999999999999887654 456999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      +.+++......++++++++..+|..+|+..++.|...+..+..+|
T Consensus       238 ~~~lg~~~~~~vf~Li~ai~~~d~~~al~~l~~L~~~g~~~~~iL  282 (486)
T PRK14953        238 EEFLGIVSQESVRKFLNLLLESDVDEAIKFLRTLEEKGYNLNKFW  282 (486)
T ss_pred             HHHhCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            999999999999999999999999999999999988765555443

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.5e-34  Score=264.42  Aligned_cols=258  Identities=25%  Similarity=0.397  Sum_probs=224.7

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC--------------
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY--------------  103 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~--------------  103 (305)
                      .+.+|.++|||++|++++||+..++.|.+.+..++.+| ++|+||+|+|||++|+.+++.+.|...              
T Consensus         4 ~y~~l~~KyRP~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~   83 (725)
T PRK07133          4 KYKALYRKYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENV   83 (725)
T ss_pred             chhhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhh
Confidence            45789999999999999999999999999999988888 689999999999999999999987432              


Q ss_pred             --cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          104 --HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       104 --~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                        ...++.+++....+.+.+++.+...... ++    .+++.|+||||+|.+....+++|++.+++++..+.+|++++..
T Consensus        84 ~~~~Dvieidaasn~~vd~IReLie~~~~~-P~----~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~  158 (725)
T PRK07133         84 NNSLDIIEMDAASNNGVDEIRELIENVKNL-PT----QSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEV  158 (725)
T ss_pred             cCCCcEEEEeccccCCHHHHHHHHHHHHhc-hh----cCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCCh
Confidence              1234555554445667777766554333 32    2347999999999999999999999999999999999999999


Q ss_pred             cccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHHHh
Q 021937          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAVYL  260 (305)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v~~  260 (305)
                      ..+++++++||+.+.|.+++.+++.+++..++.++|+.+++++++.+++.++|++|.+++.++.++.. .+.|+.+.|++
T Consensus       159 ~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~GslR~AlslLekl~~y~~~~It~e~V~e  238 (725)
T PRK07133        159 HKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFGNNKITLKNVEE  238 (725)
T ss_pred             hhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999877653 35699999999


Q ss_pred             hhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHH
Q 021937          261 CTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLF  301 (305)
Q Consensus       261 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~  301 (305)
                      +++......++.+++++..++..+++.++..+...+..+..
T Consensus       239 llg~~~~e~If~Ll~aI~~kd~~~aL~~l~~L~~~ged~~~  279 (725)
T PRK07133        239 LFGLVSNENLINLLNLLYSKDIKEVLNILNQIKEQGIDPEL  279 (725)
T ss_pred             HHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHH
Confidence            99999999999999999999999999999999877655543

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.1e-34  Score=254.16  Aligned_cols=259  Identities=21%  Similarity=0.267  Sum_probs=224.3

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      ...+.++|||++|++++||+..++.|.+++.+++.+| ++|+||+|+||||+|+.+++.+.|...               
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            4567899999999999999999999999999998888 899999999999999999999987421               


Q ss_pred             ------------cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCC
Q 021937          104 ------------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKN  171 (305)
Q Consensus       104 ------------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~  171 (305)
                                  ...+..+++....+.+.+++....+... ++.    +++.|+||||+|.+....++.|+++++++++.
T Consensus        83 ~c~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~-p~~----~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~  157 (397)
T PRK14955         83 ECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYG-PQK----GRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPH  157 (397)
T ss_pred             CCHHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhc-hhc----CCeEEEEEeChhhCCHHHHHHHHHHHhcCCCC
Confidence                        1234555554445567777765555333 222    33799999999999999999999999999989


Q ss_pred             ceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc--
Q 021937          172 TRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA--  249 (305)
Q Consensus       172 ~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~--  249 (305)
                      +.+|++++....+.+++.+||+.+.|++++.+++.+++...+...+..+++++++.|++.++||+|.+.+.++++...  
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            999999988888999999999999999999999999999999999999999999999999999999999999987653  


Q ss_pred             ----cCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          250 ----SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       250 ----~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                          .+.|+.++|.++++.....+++++++++..++..+++..++.|...+..++-+|
T Consensus       238 ~~~~~~~It~~~v~~~v~~~~~~~vf~l~~ai~~~~~~~al~~~~~l~~~~~~~~~iL  295 (397)
T PRK14955        238 ESEGEGSIRYDKVAELLNYIDDEHFFAVTDAVADGDAVAMLDVAQFVIRNGYDEQDFL  295 (397)
T ss_pred             ccCCCCccCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence                246999999999999999999999999999999999999999998776665443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=3.6e-34  Score=258.47  Aligned_cols=253  Identities=22%  Similarity=0.346  Sum_probs=219.0

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC----------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (305)
                      ..+|.++|||++|++++|++.+++.|.+.+..++.++ ++|+||+|+|||++|+.+++.+.|..                
T Consensus         3 ~~~la~KyRP~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i   82 (624)
T PRK14959          3 HASLTARYRPQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKV   82 (624)
T ss_pred             cchHHHHhCCCCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHH
Confidence            4689999999999999999999999999999987555 88999999999999999999998742                


Q ss_pred             ---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                         ....++.++......++.++...... ...++    ..++.||||||+|.+....++.|++++++++.++.+|++++
T Consensus        83 ~~g~hpDv~eId~a~~~~Id~iR~L~~~~-~~~p~----~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt  157 (624)
T PRK14959         83 TQGMHVDVVEIDGASNRGIDDAKRLKEAI-GYAPM----EGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATT  157 (624)
T ss_pred             hcCCCCceEEEecccccCHHHHHHHHHHH-Hhhhh----cCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecC
Confidence               12346667665556677776644333 22222    23478999999999999999999999999888999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-ccCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v  258 (305)
                      ....+.+.+++||+.+.|++++.+++.+++...+.++++.+++++++.|++.++|++|.+++.|+++.. ..+.|+.++|
T Consensus       158 ~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~GdlR~Al~lLeqll~~g~~~It~d~V  237 (624)
T PRK14959        158 EPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVLALGESRLTIDGA  237 (624)
T ss_pred             ChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHH
Confidence            988999999999999999999999999999999999999999999999999999999999999976653 3457999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIR  297 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~  297 (305)
                      +++++......++++++++...|...++.++..+...+.
T Consensus       238 ~~~lg~~~~e~vfeLl~AL~~~D~~aal~~l~~Ll~~g~  276 (624)
T PRK14959        238 RGVLGLAGQELFLRLMEALAAQDCLGVANVVRELLDRGV  276 (624)
T ss_pred             HHHhCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Confidence            999999999999999999999999999999999876543

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4e-34  Score=258.95  Aligned_cols=254  Identities=22%  Similarity=0.337  Sum_probs=223.0

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +..|.++|+|++|++++|++..++.|.+++..++.+| ++|+||+|+|||++|+.+++.+.|...               
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            5679999999999999999999999999999998888 689999999999999999999977421               


Q ss_pred             ----cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                          ...++.++.......+.+++.+..... .++    ..+++|+||||+|.++...++.|++.+++++.++.||++|+
T Consensus        83 ~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~-~p~----~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~  157 (527)
T PRK14969         83 DSGRFVDLIEVDAASNTQVDAMRELLDNAQY-APT----RGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATT  157 (527)
T ss_pred             hcCCCCceeEeeccccCCHHHHHHHHHHHhh-Ccc----cCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeC
Confidence                124566666655667777776665433 222    33479999999999999999999999999999999999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-ccCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v  258 (305)
                      +...+.+++++||+.+.|++++.+++.+++..++.++|+.++++++..|++.++|++|.+++.++++.. ..+.|+.++|
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            988998899999999999999999999999999999999999999999999999999999999976655 4567999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRL  298 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~  298 (305)
                      +++++......++++++++..+|...++..++.|...+..
T Consensus       238 ~~~~~~~~~~~i~~ll~al~~~~~~~~l~~~~~l~~~~~~  277 (527)
T PRK14969        238 RAMLGAIDQDYLFALLEALLAQDGAALLAIADAMEERSLS  277 (527)
T ss_pred             HHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            9999999888999999999999999999999999876543

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.4e-34  Score=259.99  Aligned_cols=259  Identities=21%  Similarity=0.280  Sum_probs=226.3

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +..+.++|||++|++++||+.+++.|.+.+..++.+| ++|+||+|+||||+|+.+++.+.|...               
T Consensus         3 ~~~l~~kyRP~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg   82 (620)
T PRK14954          3 YQVIARKYRPSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCG   82 (620)
T ss_pred             cHHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCc
Confidence            3457899999999999999999999999999988888 899999999999999999999987421               


Q ss_pred             ------------cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCC
Q 021937          104 ------------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKN  171 (305)
Q Consensus       104 ------------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~  171 (305)
                                  ...+..+++....+.+.+++.+....... +.    +++.|+||||+|.+....++.|++++++++..
T Consensus        83 ~C~sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P-~~----~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~  157 (620)
T PRK14954         83 ECESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGP-QK----GRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPH  157 (620)
T ss_pred             cCHHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhh-hc----CCCEEEEEeChhhcCHHHHHHHHHHHhCCCCC
Confidence                        12455555555455777877766654332 22    23799999999999999999999999999999


Q ss_pred             ceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc-
Q 021937          172 TRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-  250 (305)
Q Consensus       172 ~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~-  250 (305)
                      +.+|++++...++.+++.+||+.+.|.+++.+++..++..++..+|..+++++++.|++.++||+|.+++.+++++... 
T Consensus       158 tv~IL~t~~~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I~~eal~~La~~s~Gdlr~al~eLeKL~~y~~  237 (620)
T PRK14954        158 AIFIFATTELHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDAQSILDQVIAFSV  237 (620)
T ss_pred             eEEEEEeCChhhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcc
Confidence            9999999888899999999999999999999999999999999999999999999999999999999999999877653 


Q ss_pred             -----CccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          251 -----QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       251 -----~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                           +.|+.++|.++++.....+++++++++..++..+++..++.|...+..++-+|
T Consensus       238 ~~~~~~~It~~~V~~lv~~~~e~~iF~L~dai~~~d~~~al~~l~~Ll~~ge~p~~iL  295 (620)
T PRK14954        238 GSEAEKVIAYQGVAELLNYIDDEQFFDVTDAIAENDAVKMLEVARFVIDNGYDEQDFL  295 (620)
T ss_pred             ccccCCccCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHH
Confidence                 46999999999999999999999999999999999999999998776666443

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=100.00  E-value=1.8e-33  Score=245.35  Aligned_cols=249  Identities=36%  Similarity=0.616  Sum_probs=211.4

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc----
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR----  116 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~----  116 (305)
                      .+|.++|+|++|++++|++..++.|..++..+..++++|+||+|+|||++++++++.+.+.++...++.+++.+..    
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            5799999999999999999999999999999888889999999999999999999998765544445565554310    


Q ss_pred             ----------------------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceE
Q 021937          117 ----------------------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRF  174 (305)
Q Consensus       117 ----------------------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~i  174 (305)
                                            ..+.++..+.......++    ...+.+|+|||+|.+....++.|..+++..+..+.+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~  158 (337)
T PRK12402         83 KYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPL----SADYKTILLDNAEALREDAQQALRRIMEQYSRTCRF  158 (337)
T ss_pred             hhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCC----CCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeE
Confidence                                  011122222222222222    233679999999999988899999999988878889


Q ss_pred             EEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccC
Q 021937          175 ALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQIT  254 (305)
Q Consensus       175 il~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~  254 (305)
                      |++++....+.+.+.+|+..+.|.+++.+++.+++...+.+.++.+++++++.+++.++||+|.+++.++.++...+.||
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            99988777888999999999999999999999999999999999999999999999999999999999998887667899


Q ss_pred             HHHHHhhhCC-CChhhHHHHHHHHHcccHHHHHHHHHHHH
Q 021937          255 EEAVYLCTGN-PLPKDIEQISYWLLNESFADSFKRIQNLS  293 (305)
Q Consensus       255 ~~~v~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~l~~l~  293 (305)
                      .++++++++. ....+++++++++..++..+|+..+..|.
T Consensus       239 ~~~v~~~~~~~~~~~~i~~l~~ai~~~~~~~a~~~l~~l~  278 (337)
T PRK12402        239 MEAAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLL  278 (337)
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999997 55889999999999999999999999986

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=9.7e-34  Score=257.08  Aligned_cols=259  Identities=21%  Similarity=0.286  Sum_probs=225.3

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC----------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~----------------  102 (305)
                      +..+.++|||++|++++||+..++.|..++..+..+| ++|+||+|+|||++|+.+++.+.|..                
T Consensus         3 y~~l~~kyRP~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i   82 (563)
T PRK06647          3 YRGTATKRRPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSI   82 (563)
T ss_pred             cHHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHH
Confidence            4568899999999999999999999999999988888 89999999999999999999997642                


Q ss_pred             ---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                         ....++.+++......+.+++....... .++    .+++.|+||||+|.++...++.|++.+++++..+.+|++++
T Consensus        83 ~~~~~~dv~~idgas~~~vddIr~l~e~~~~-~p~----~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tt  157 (563)
T PRK06647         83 DNDNSLDVIEIDGASNTSVQDVRQIKEEIMF-PPA----SSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATT  157 (563)
T ss_pred             HcCCCCCeEEecCcccCCHHHHHHHHHHHHh-chh----cCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecC
Confidence               1234566665554566777765544433 222    23479999999999999999999999999999999999998


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (305)
                      ...++.+++++||+.+.|.+++.+++.+++...+...|+.++++++..|++.++|++|.+++.|++++.. .+.|+.++|
T Consensus       158 e~~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s~GdlR~alslLdklis~~~~~It~e~V  237 (563)
T PRK06647        158 EVHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAYTLFDQVVSFSDSDITLEQI  237 (563)
T ss_pred             ChHHhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCHHHH
Confidence            8888999999999999999999999999999999999999999999999999999999999999876654 457999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      .++++......++++++++..+|..+++.+++.+...+..+..+|
T Consensus       238 ~~llg~~~~~~if~LidaI~~~D~~~al~~l~~Ll~~G~d~~~iL  282 (563)
T PRK06647        238 RSKMGLTGDEFLEKLASSILNEDAKELLCVLDSVFLSGVSVEQFL  282 (563)
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            999999999999999999999999999999999998776655443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=100.00  E-value=2.5e-33  Score=246.00  Aligned_cols=258  Identities=27%  Similarity=0.394  Sum_probs=222.3

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +.||.++|+|++|++++|++..++.|...+..+..++ ++|+||+|+|||++++.+++.+.+...               
T Consensus         1 ~~~~~~~~rp~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~   80 (355)
T TIGR02397         1 YQVLARKYRPQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEI   80 (355)
T ss_pred             CccHHHHhCCCcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHH
Confidence            3689999999999999999999999999999888777 799999999999999999999876421               


Q ss_pred             ----cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                          ...++.+++......+.+++.+..... .++.    .++.|++|||+|.+.....+.|++.+++++.++.+|++++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~p~~----~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~  155 (355)
T TIGR02397        81 NSGSSLDVIEIDAASNNGVDDIREILDNVKY-APSS----GKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATT  155 (355)
T ss_pred             hcCCCCCEEEeeccccCCHHHHHHHHHHHhc-Cccc----CCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeC
Confidence                234566666544455556666555432 2222    3378999999999999999999999999888889999998


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc-CccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v  258 (305)
                      +...+.+++++||..+.|++++.+++.+++..++.+.|..+++++++.+++.++||+|.+.+.++++.... +.|+.++|
T Consensus       156 ~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~~~it~~~v  235 (355)
T TIGR02397       156 EPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGNGNITYEDV  235 (355)
T ss_pred             CHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcCCCCCHHHH
Confidence            88888899999999999999999999999999999999999999999999999999999999998877644 45999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                      +++++.....+++++++++..+|..+|+..+..+...+..++.+
T Consensus       236 ~~~~~~~~~~~i~~l~~ai~~~~~~~a~~~~~~l~~~~~~~~~i  279 (355)
T TIGR02397       236 NELLGLVDDEKLIELLEAILNKDTAEALKILDEILESGVDPEKF  279 (355)
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHH
Confidence            99999999999999999999999999999999998876665543

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.

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.3e-33  Score=258.94  Aligned_cols=261  Identities=22%  Similarity=0.298  Sum_probs=229.6

Q ss_pred             CCCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC--------------
Q 021937           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ--------------  102 (305)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~--------------  102 (305)
                      ++...|.++|||++|++++||+..++.|.+.+..+..+| ++|+||+|+|||++++.+++.+.|..              
T Consensus         2 ~~~~~~~~kyRP~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC   81 (614)
T PRK14971          2 ENYIVSARKYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESC   81 (614)
T ss_pred             chhHHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHH
Confidence            456779999999999999999999999999999998888 89999999999999999999997532              


Q ss_pred             ------CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEE
Q 021937          103 ------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL  176 (305)
Q Consensus       103 ------~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil  176 (305)
                            ....+..+++......+.+++.+..+... ++.+    ++.|+||||+|.++...++.|++++++++.++.+|+
T Consensus        82 ~~~~~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~-P~~~----~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL  156 (614)
T PRK14971         82 VAFNEQRSYNIHELDAASNNSVDDIRNLIEQVRIP-PQIG----KYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFIL  156 (614)
T ss_pred             HHHhcCCCCceEEecccccCCHHHHHHHHHHHhhC-cccC----CcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEE
Confidence                  23456677776555677788777665333 3332    379999999999999999999999999999999999


Q ss_pred             EecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCH
Q 021937          177 ICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITE  255 (305)
Q Consensus       177 ~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~  255 (305)
                      +++....+.+++++||+.+.|.+++.+++..++..++.++|+.+++++++.|++.++||+|.+++.++.++.. .+.|+.
T Consensus       157 ~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~gdlr~al~~Lekl~~y~~~~It~  236 (614)
T PRK14971        157 ATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGNITY  236 (614)
T ss_pred             EeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCccH
Confidence            9998899999999999999999999999999999999999999999999999999999999999999887653 345999


Q ss_pred             HHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          256 EAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       256 ~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      ++|.+.+......+++++++++..++..+++..++.|...+..++.+|
T Consensus       237 ~~V~~~l~~~~~~~iF~L~dai~~~~~~~al~ll~~Ll~~g~~~~~iL  284 (614)
T PRK14971        237 KSVIENLNILDYDYYFRLTDALLAGKVSDSLLLFDEILNKGFDGSHFI  284 (614)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            999999999999999999999999999999999999998776665443

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.1e-33  Score=243.87  Aligned_cols=260  Identities=23%  Similarity=0.346  Sum_probs=223.2

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC-------CcccEEEe
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------YHNMILEL  110 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------~~~~~~~~  110 (305)
                      .+.+|.++|+|++|++++|++..++.+.+.+..+..++ ++||||+|+|||++++.+++.+.+.+       ....++.+
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            45789999999999999999999999999999887665 89999999999999999999987632       23445555


Q ss_pred             ecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhc
Q 021937          111 NASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQS  190 (305)
Q Consensus       111 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~  190 (305)
                      +.......+.+++.+..+... ++    ..++.+|+|||+|.+....++.|++.+++++..+.+|++++....+.+++.+
T Consensus        83 ~~~~~~~~~~i~~l~~~~~~~-p~----~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~s  157 (367)
T PRK14970         83 DAASNNSVDDIRNLIDQVRIP-PQ----TGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILS  157 (367)
T ss_pred             ccccCCCHHHHHHHHHHHhhc-cc----cCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHh
Confidence            554444556676666654332 22    2237899999999999988999999999988888899999888899999999


Q ss_pred             ceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHHHhhhCCCChhh
Q 021937          191 RCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAVYLCTGNPLPKD  269 (305)
Q Consensus       191 r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v~~~~~~~~~~~  269 (305)
                      ||..+.|++++.+++..++...+.+.|+.+++++++.++..++||+|.+.+.++.++.. .+.|+.++++++++.....+
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            99999999999999999999999999999999999999999999999999999988764 34599999999999999999


Q ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          270 IEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       270 ~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      ++++++++..++..+++..++.+...+..++-++
T Consensus       238 if~l~~ai~~~~~~~a~~~~~~l~~~~~~~~~il  271 (367)
T PRK14970        238 YINVTDLILENKIPELLLAFNEILRKGFDGHHFI  271 (367)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            9999999999999999999999988766665443

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.2e-33  Score=254.48  Aligned_cols=259  Identities=25%  Similarity=0.378  Sum_probs=226.4

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCC-eEEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      +.||.++|+|++|++++|++.++..|..++..++.+ +++|+||+|+|||++|+.+++.+.|...               
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            578999999999999999999999999999988754 5999999999999999999999987421               


Q ss_pred             ------cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEE
Q 021937          104 ------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALI  177 (305)
Q Consensus       104 ------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~  177 (305)
                            ...++.++.......+.+++.+..... .++    .++++|+||||+|.+..+.++.|++++++++..+.||++
T Consensus        83 ~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~-~p~----~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~  157 (620)
T PRK14948         83 AIAAGNALDVIEIDAASNTGVDNIRELIERAQF-APV----QARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLA  157 (620)
T ss_pred             HHhcCCCccEEEEeccccCCHHHHHHHHHHHhh-Chh----cCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEE
Confidence                  123555665555667778777765432 222    234799999999999999999999999999999999999


Q ss_pred             ecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHH
Q 021937          178 CNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEA  257 (305)
Q Consensus       178 ~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~  257 (305)
                      +++...+.+++++||+.+.|.+++.+++..++..++.+++..++++++..+++.++|++|.+++.++.++...+.|+.++
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            98888899999999999999999999999999999999999999999999999999999999999999888778899999


Q ss_pred             HHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       258 v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      |+++++......++++++++..++..+++..+..|...+..++.+|
T Consensus       238 V~~lvg~~~e~~i~~Ll~ai~~~d~~~al~~~~~Ll~~g~~p~~iL  283 (620)
T PRK14948        238 VWDLLGAVPEQDLLNLLKALASNDPESLLDSCRQLLDRGREPLAIL  283 (620)
T ss_pred             HHHHhcCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            9999999988999999999999999999999999987766665443

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-32  Score=253.82  Aligned_cols=259  Identities=24%  Similarity=0.374  Sum_probs=223.9

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---------------  103 (305)
                      .+.|.++|+|++|++++||+..++.|..++..+..+| ++|+||+|+|||++++.+++.+.|...               
T Consensus         3 ~~~l~~kyRP~~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~   82 (585)
T PRK14950          3 VQVLYRKWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRA   82 (585)
T ss_pred             cHHHHHHhCCCCHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHH
Confidence            3458899999999999999999999999999888777 799999999999999999999976432               


Q ss_pred             -----cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021937          104 -----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       104 -----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                           ...++.++.......+.+++.+.... ..++    ..++.|+||||+|.+..+..+.|++++++++.++.||+++
T Consensus        83 i~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~-~~p~----~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t  157 (585)
T PRK14950         83 IAEGSAVDVIEMDAASHTSVDDAREIIERVQ-FRPA----LARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILAT  157 (585)
T ss_pred             HhcCCCCeEEEEeccccCCHHHHHHHHHHHh-hCcc----cCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEe
Confidence                 12355566555456677776654433 2222    2347999999999999999999999999999899999999


Q ss_pred             cCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHH
Q 021937          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEA  257 (305)
Q Consensus       179 ~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~  257 (305)
                      +....+.+.+++||+.+.|++++..++..++...+.+.|+.++++++..|++.++||+|.+++.|++++.. .+.|+.++
T Consensus       158 ~~~~kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~Gdlr~al~~LekL~~y~~~~It~e~  237 (585)
T PRK14950        158 TEVHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATTYGGEISLSQ  237 (585)
T ss_pred             CChhhhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCCHHH
Confidence            88888999999999999999999999999999999999999999999999999999999999999987764 45799999


Q ss_pred             HHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       258 v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      |+++++......++++++++..+|..+++.+++.|...+..+..++
T Consensus       238 V~~ll~~s~~~~vf~Lidal~~~d~~~al~~l~~L~~~g~~~~~il  283 (585)
T PRK14950        238 VQSLLGISGDEEVKALAEALLAKDLKAALRTLNAVAADGADLRQFT  283 (585)
T ss_pred             HHHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            9999999999999999999999999999999999998776555443

>PRK04195 replication factor C large subunit; Provisional

Probab=100.00  E-value=1.2e-30  Score=235.98  Aligned_cols=242  Identities=29%  Similarity=0.400  Sum_probs=205.0

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCC----CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR----LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~----~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      .+|.++|+|+++++++|++..++.|..++....    .++++|+||||+|||++|+++++.+     ...++.++.++..
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            579999999999999999999999999987532    5569999999999999999999997     4578888888766


Q ss_pred             ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH----HHHHHHHHHHHHhcCCceEEEEecCCcccch-hhhcc
Q 021937          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK----DAQFALRRVIEKYTKNTRFALICNQVNKIIP-ALQSR  191 (305)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~----~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~-~l~~r  191 (305)
                      ....+...+........+.+   .++.||+|||+|.+..    ...+.|+++++..  +..+|++++....... .++++
T Consensus        77 ~~~~i~~~i~~~~~~~sl~~---~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~--~~~iIli~n~~~~~~~k~Lrsr  151 (482)
T PRK04195         77 TADVIERVAGEAATSGSLFG---ARRKLILLDEVDGIHGNEDRGGARAILELIKKA--KQPIILTANDPYDPSLRELRNA  151 (482)
T ss_pred             cHHHHHHHHHHhhccCcccC---CCCeEEEEecCcccccccchhHHHHHHHHHHcC--CCCEEEeccCccccchhhHhcc
Confidence            66677766666555443332   2478999999999975    4577888888843  5678888888777666 88999


Q ss_pred             eeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCChhhHH
Q 021937          192 CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIE  271 (305)
Q Consensus       192 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~  271 (305)
                      |..+.|++|+..++..++...+..+++.+++++++.|++.++||+|.+++.|+.++...+.++.+++..+.......+++
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            99999999999999999999999999999999999999999999999999999977767789999999988788888999


Q ss_pred             HHHHHHHc-ccHHHHHHHHHHH
Q 021937          272 QISYWLLN-ESFADSFKRIQNL  292 (305)
Q Consensus       272 ~l~~~~~~-~~~~~~~~~l~~l  292 (305)
                      ++++.+.. .+...++..+..+
T Consensus       232 ~~l~~i~~~k~~~~a~~~~~~~  253 (482)
T PRK04195        232 DALDAVFKARNADQALEASYDV  253 (482)
T ss_pred             HHHHHHHCCCCHHHHHHHHHcc
Confidence            99999987 7888887766543

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.98  E-value=1.6e-30  Score=231.04  Aligned_cols=248  Identities=26%  Similarity=0.386  Sum_probs=203.1

Q ss_pred             chhhhcCCCCccccccchHHHHH---HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           42 PWVEKYRPQSLADVAAHRDIVDT---IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~~~~~~---l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      ||.++|||++|++++|+++.+..   |..++.++..++++|+|||||||||+|+.+++..     ...+..+++.. .+.
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            79999999999999999999877   9999999988899999999999999999999987     44567776654 345


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec--CCcccchhhhcceeEEE
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN--QVNKIIPALQSRCTRFR  196 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~--~~~~l~~~l~~r~~~i~  196 (305)
                      +.++..+........     ..++.+|+|||+|.+....++.|+..+++.  ...++.+++  ....+.+++.+||..+.
T Consensus        75 ~~ir~ii~~~~~~~~-----~g~~~vL~IDEi~~l~~~~q~~LL~~le~~--~iilI~att~n~~~~l~~aL~SR~~~~~  147 (413)
T PRK13342         75 KDLREVIEEARQRRS-----AGRRTILFIDEIHRFNKAQQDALLPHVEDG--TITLIGATTENPSFEVNPALLSRAQVFE  147 (413)
T ss_pred             HHHHHHHHHHHHhhh-----cCCceEEEEechhhhCHHHHHHHHHHhhcC--cEEEEEeCCCChhhhccHHHhccceeeE
Confidence            556665555433221     123689999999999999999999999863  344444443  23468899999999999


Q ss_pred             ecCCCHHHHHHHHHHHHHHc--CC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCC--------
Q 021937          197 FAPLEPVHVTERLKHVIEAE--GL-DVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNP--------  265 (305)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~--~~-~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~--------  265 (305)
                      |++++.+++..++...+...  +. .+++++++.+++.++||+|.+++.++.++.....|+.+++..+++..        
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            99999999999999887653  44 78999999999999999999999999887766679999999888642        


Q ss_pred             --ChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          266 --LPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       266 --~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                        .++.++.+.+.++++|+++++.++..|...+..+.++
T Consensus       228 ~~~~~~isa~~ks~rgsd~~aal~~l~~~l~~G~d~~~i  266 (413)
T PRK13342        228 DEHYDLISALHKSIRGSDPDAALYYLARMLEAGEDPLFI  266 (413)
T ss_pred             cHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHH
Confidence              3456778888899999999999999999888777654

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

Probab=99.98  E-value=1.9e-30  Score=240.96  Aligned_cols=252  Identities=22%  Similarity=0.289  Sum_probs=199.3

Q ss_pred             CCcchhhhcCCCCccccccchHHHH---HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~---~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      ...||.++|||++|++++|+++.+.   .|.+.+..+..++++|+||||+||||+|+.+++..     ...++.+++.. 
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            4569999999999999999999984   68888998888899999999999999999999986     33455666543 


Q ss_pred             cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec--CCcccchhhhccee
Q 021937          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN--QVNKIIPALQSRCT  193 (305)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~--~~~~l~~~l~~r~~  193 (305)
                      .+...+++.+..........    .++.++||||+|.+....++.|+..++..  ...+|.+++  ....+.+++.+|+.
T Consensus        88 ~~i~dir~~i~~a~~~l~~~----~~~~IL~IDEIh~Ln~~qQdaLL~~lE~g--~IiLI~aTTenp~~~l~~aL~SR~~  161 (725)
T PRK13341         88 AGVKDLRAEVDRAKERLERH----GKRTILFIDEVHRFNKAQQDALLPWVENG--TITLIGATTENPYFEVNKALVSRSR  161 (725)
T ss_pred             hhhHHHHHHHHHHHHHhhhc----CCceEEEEeChhhCCHHHHHHHHHHhcCc--eEEEEEecCCChHhhhhhHhhcccc
Confidence            23344444444432221111    13679999999999999999999888753  233333332  23457889999999


Q ss_pred             EEEecCCCHHHHHHHHHHHHH-------HcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc-------CccCHHHHH
Q 021937          194 RFRFAPLEPVHVTERLKHVIE-------AEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-------QQITEEAVY  259 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~-------~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~-------~~i~~~~v~  259 (305)
                      .+.|++++.+++..++...+.       ..++.+++++++.|++.++||+|.+++.|+.++...       ..++.+.++
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       456789999999999999999999999999876532       126666666


Q ss_pred             hhh----------CCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          260 LCT----------GNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       260 ~~~----------~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                      +.+          +...++.+++++++++++|+++|+.++..|...+..+.++
T Consensus       242 e~l~~~~~~ydk~gd~hyd~Isa~~ksirgsD~daAl~~la~ml~~Gedp~~I  294 (725)
T PRK13341        242 ESIQQRAVLYDKEGDAHFDTISAFIKSLRGSDPDAALYWLARMVEAGEDPRFI  294 (725)
T ss_pred             HHHHHhhhhcccCCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHH
Confidence            644          4577889999999999999999999999999988777765

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

Probab=99.97  E-value=1.3e-30  Score=215.38  Aligned_cols=254  Identities=24%  Similarity=0.300  Sum_probs=208.2

Q ss_pred             CcchhhhcCCCCccccccchHHHH---HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~---~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      ..|+.++.||+++++++||++++.   .|+.+++++..|+++||||||||||++|+.++..-..  ..+.|++++... .
T Consensus       125 h~PLaermRPktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~--~SyrfvelSAt~-a  201 (554)
T KOG2028|consen  125 HKPLAERMRPKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKK--HSYRFVELSATN-A  201 (554)
T ss_pred             cCChhhhcCcchHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCC--CceEEEEEeccc-c
Confidence            348999999999999999999986   7888999999999999999999999999999987532  335577776655 5


Q ss_pred             ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEe--cCCcccchhhhcceeE
Q 021937          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCTR  194 (305)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~--~~~~~l~~~l~~r~~~  194 (305)
                      +..+++..+++......+...    +.|+||||+|++.+.+|..|+..++..  ...+|.+|  |....+..++.+||.+
T Consensus       202 ~t~dvR~ife~aq~~~~l~kr----kTilFiDEiHRFNksQQD~fLP~VE~G--~I~lIGATTENPSFqln~aLlSRC~V  275 (554)
T KOG2028|consen  202 KTNDVRDIFEQAQNEKSLTKR----KTILFIDEIHRFNKSQQDTFLPHVENG--DITLIGATTENPSFQLNAALLSRCRV  275 (554)
T ss_pred             chHHHHHHHHHHHHHHhhhcc----eeEEEeHHhhhhhhhhhhcccceeccC--ceEEEecccCCCccchhHHHHhccce
Confidence            667788888877666654443    789999999999999999999988854  23333333  4556789999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHc-----------C--CCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh----cc-----Cc
Q 021937          195 FRFAPLEPVHVTERLKHVIEAE-----------G--LDVTEGGLAALVRLCNGDMRKALNILQSTHM----AS-----QQ  252 (305)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~~-----------~--~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~-----~~  252 (305)
                      +.+.+++..++..++.+.....           +  +.+++.+++.++..+.||.|.++|.|+....    ..     ..
T Consensus       276 fvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR~aLN~Lems~~m~~tr~g~~~~~~  355 (554)
T KOG2028|consen  276 FVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNALEMSLSMFCTRSGQSSRVL  355 (554)
T ss_pred             eEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhcCCcccce
Confidence            9999999999999988744411           1  2467889999999999999999999987632    12     24


Q ss_pred             cCHHHHHhhh----------CCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          253 ITEEAVYLCT----------GNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       253 i~~~~v~~~~----------~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                      ++.++|++.+          ++..+..|+++...|+++|.+++++||..|+.-++.|+.+
T Consensus       356 lSidDvke~lq~s~~~YDr~Ge~HYntISA~HKSmRG~D~nAslY~LaRMLegGEdPLYV  415 (554)
T KOG2028|consen  356 LSIDDVKEGLQRSHILYDRAGEEHYNTISALHKSMRGSDQNASLYWLARMLEGGEDPLYV  415 (554)
T ss_pred             ecHHHHHHHHhhccceecccchhHHHHHHHHHHhhcCCccchHHHHHHHHHccCCCcHHH
Confidence            8888887666          6678889999999999999999999999999999888765

>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=6e-30  Score=201.43  Aligned_cols=197  Identities=18%  Similarity=0.275  Sum_probs=143.6

Q ss_pred             CCCCCcchhhhcCCCCccccccchHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           36 PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        36 ~~~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      ..+.+.++.+++||++|++++||+++++.+.-++..     ...+|++||||||+||||+|+.+++++     ...+...
T Consensus         7 ~~~~~~~l~~~lRP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~-----~~~~~~~   81 (233)
T PF05496_consen    7 EQEEEAPLAERLRPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL-----GVNFKIT   81 (233)
T ss_dssp             -----S-HHHHTS-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC-----T--EEEE
T ss_pred             cCCcchhhHHhcCCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc-----CCCeEec
Confidence            345668899999999999999999999988776652     346789999999999999999999998     5566667


Q ss_pred             ecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc------------------CCc
Q 021937          111 NASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNT  172 (305)
Q Consensus       111 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~  172 (305)
                      +++......++...+..+.           ++.|+||||+|++++.+++.|+..+|+..                  ++.
T Consensus        82 sg~~i~k~~dl~~il~~l~-----------~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~F  150 (233)
T PF05496_consen   82 SGPAIEKAGDLAAILTNLK-----------EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPF  150 (233)
T ss_dssp             ECCC--SCHHHHHHHHT-------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----
T ss_pred             cchhhhhHHHHHHHHHhcC-----------CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCc
Confidence            7655455556555544331           25899999999999999999999999642                  123


Q ss_pred             eEEEEecCCcccchhhhcceeE-EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh
Q 021937          173 RFALICNQVNKIIPALQSRCTR-FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM  248 (305)
Q Consensus       173 ~iil~~~~~~~l~~~l~~r~~~-i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  248 (305)
                      .+|.+|+....+.+.+++||.. .++..++.+++.+++.+.+...+++++++...+|++.+.|+||-|.++|+.+--
T Consensus       151 TligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrGtPRiAnrll~rvrD  227 (233)
T PF05496_consen  151 TLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRGTPRIANRLLRRVRD  227 (233)
T ss_dssp             EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTTSHHHHHHHHHHHCC
T ss_pred             eEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCCChHHHHHHHHHHHH
Confidence            4566778888899999999955 589999999999999999999999999999999999999999999999987643

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.97  E-value=4.9e-28  Score=208.98  Aligned_cols=237  Identities=32%  Similarity=0.455  Sum_probs=191.3

Q ss_pred             CCCCCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeE-EEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           36 PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHL-LLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        36 ~~~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~-ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      ..+...+|.++|+|++|++++|+++..+.+..++..+..+++ +++||+|+|||++++++++.+     ...+..+++..
T Consensus         4 ~~~~~~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~-----~~~~~~i~~~~   78 (316)
T PHA02544          4 VNPNEFMWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV-----GAEVLFVNGSD   78 (316)
T ss_pred             cCCCCCcceeccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh-----CccceEeccCc
Confidence            356778999999999999999999999999999998887775 559999999999999999987     33566677666


Q ss_pred             CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcC-CHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhccee
Q 021937          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM-TKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (305)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l-~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~  193 (305)
                      . ..+.++..+..+....++.    ..+++|+|||+|.+ ..+.++.|..++++++.++.+|++++....+.+++++||.
T Consensus        79 ~-~~~~i~~~l~~~~~~~~~~----~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~  153 (316)
T PHA02544         79 C-RIDFVRNRLTRFASTVSLT----GGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCR  153 (316)
T ss_pred             c-cHHHHHHHHHHHHHhhccc----CCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhce
Confidence            2 3444555454444433322    23689999999999 6677888888899988889999999998899999999999


Q ss_pred             EEEecCCCHHHHHHHHHH-------HHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCC
Q 021937          194 RFRFAPLEPVHVTERLKH-------VIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPL  266 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~-------~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~  266 (305)
                      .+.|+.|+.++..+++..       .+...|..++++++..+++.+.|+.|.+++.++.++. .+.++.+++....    
T Consensus       154 ~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~i~~~al~~l~~~~~~d~r~~l~~l~~~~~-~~~i~~~~l~~~~----  228 (316)
T PHA02544        154 VIDFGVPTKEEQIEMMKQMIVRCKGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYAS-TGKIDAGILSEVT----  228 (316)
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHc-cCCCCHHHHHHhh----
Confidence            999999998887755443       3445688999999999999999999999999997764 4578888877755    


Q ss_pred             hhhHHHHHHHHHcccHHHHHH
Q 021937          267 PKDIEQISYWLLNESFADSFK  287 (305)
Q Consensus       267 ~~~~~~l~~~~~~~~~~~~~~  287 (305)
                      ...+..+++++...|..++..
T Consensus       229 ~~~~~~l~~~l~~~d~~~~~~  249 (316)
T PHA02544        229 NSDIDDVVEALKAKDFKAVRA  249 (316)
T ss_pred             HHHHHHHHHHHHcCCHHHHHH
Confidence            466778888888888776655

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

Probab=99.97  E-value=2.7e-28  Score=194.56  Aligned_cols=259  Identities=32%  Similarity=0.544  Sum_probs=206.8

Q ss_pred             chhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-------------------
Q 021937           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-------------------  102 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------  102 (305)
                      .|.++|+|+++.++.++.+....|+.....+..||+++|||+|+||-|.+.++.+++.+.+                   
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            5999999999999999999999999999988899999999999999999999999997643                   


Q ss_pred             -----CcccEEEeecCCCcChh--HHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEE
Q 021937          103 -----YHNMILELNASDDRGID--VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFA  175 (305)
Q Consensus       103 -----~~~~~~~~~~~~~~~~~--~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~ii  175 (305)
                           .+...+++++++....+  .+.+.+++.++..+.....+....|++|-|+|.+..++|++|.+.++.+..+.++|
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                 12235556655543333  56778888888877666666678999999999999999999999999999999999


Q ss_pred             EEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCH
Q 021937          176 LICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITE  255 (305)
Q Consensus       176 l~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~  255 (305)
                      +++|+.+++.+++++||..+.++.|+.+++...+...+.++|+.++.+.+.+|++.++||+|+++-+|+.++...+..+.
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            99999999999999999999999999999999999999999999999999999999999999999999999876544333


Q ss_pred             HHHHhhhCCCChhhHHHHHHHHHcc----cHHHHHHHHHHHHHHHHHHHH
Q 021937          256 EAVYLCTGNPLPKDIEQISYWLLNE----SFADSFKRIQNLSFIIRLVLF  301 (305)
Q Consensus       256 ~~v~~~~~~~~~~~~~~l~~~~~~~----~~~~~~~~l~~l~~~~~~~~~  301 (305)
                      .- ...........+..+.+.+...    ...+....+..|+.+-..|-+
T Consensus       242 ~~-~~i~~~dWe~~i~e~a~~i~~eQs~~~L~~vR~~LYeLL~~CIPP~~  290 (351)
T KOG2035|consen  242 NS-QVIPKPDWEIYIQEIARVILKEQSPAKLLEVRGRLYELLSHCIPPNT  290 (351)
T ss_pred             cC-CCCCCccHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhccCChHH
Confidence            21 1111222223333444444332    233445555666555444433

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

Probab=99.97  E-value=3.1e-29  Score=204.08  Aligned_cols=267  Identities=53%  Similarity=0.684  Sum_probs=235.1

Q ss_pred             CCCCCCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC-CCCcccEEEeecC
Q 021937           35 PPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG-AQYHNMILELNAS  113 (305)
Q Consensus        35 ~~~~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~-~~~~~~~~~~~~~  113 (305)
                      .+.....||.++|+|..+.+++++++++..+.+....++.||+++|||||+|||+.+.+.++.+.+ .++...+.+++.+
T Consensus        23 ~~~~~~~pwvekyrP~~l~dv~~~~ei~st~~~~~~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaS  102 (360)
T KOG0990|consen   23 QSPQYPQPWVEKYRPPFLGIVIKQEPIWSTENRYSGMPGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNAS  102 (360)
T ss_pred             CCcccCCCCccCCCCchhhhHhcCCchhhHHHHhccCCCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhcc
Confidence            334577899999999999999999999999999999999999999999999999999999999988 5666678889999


Q ss_pred             CCcChhHHHHHHHHhhhcccccC-CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcce
Q 021937          114 DDRGIDVVRQQIQDFASTQSFSF-GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (305)
Q Consensus       114 ~~~~~~~~~~~i~~~~~~~~~~~-~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~  192 (305)
                      +..+.+..++.+.......++.. .......++|+||+|.+..+.|++|.+.++.+..+++|+++++....+.+.+++||
T Consensus       103 d~rgid~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~AQnALRRviek~t~n~rF~ii~n~~~ki~pa~qsRc  182 (360)
T KOG0990|consen  103 DDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDAQNALRRVIEKYTANTRFATISNPPQKIHPAQQSRC  182 (360)
T ss_pred             CccCCcchHHHHHHHHhhccceeccccCceeEEEecchhHhhHHHHHHHHHHHHHhccceEEEEeccChhhcCchhhccc
Confidence            98999988888877766553211 11245789999999999999999999999999999999999999999999999999


Q ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHH-----HHhhhCCCCh
Q 021937          193 TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEA-----VYLCTGNPLP  267 (305)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~-----v~~~~~~~~~  267 (305)
                      +.+.|.|++..+....+.+++..+....+++....+++.+.||.|.++|.||..+.....+++..     ++...+....
T Consensus       183 trfrf~pl~~~~~~~r~shi~e~e~~~~~~~~~~a~~r~s~gDmr~a~n~Lqs~~~~~~~~~e~~~~~~~vy~c~g~p~~  262 (360)
T KOG0990|consen  183 TRFRFAPLTMAQQTERQSHIRESEQKETNPEGYSALGRLSVGDMRVALNYLQSILKKVMERKELNNPNDLVYQCKGAPQP  262 (360)
T ss_pred             ccCCCCCCChhhhhhHHHHHHhcchhhcCHHHHHHHHHHhHHHHHHHHHHHHHHHHHhCCCCCCCCchhhHHHhcCCCCh
Confidence            99999999999999999999999999999999999999999999999999999988665555544     9999999999


Q ss_pred             hhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHH
Q 021937          268 KDIEQISYWLLNESFADSFKRIQNLSFIIRLVLF  301 (305)
Q Consensus       268 ~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~  301 (305)
                      .++..+++.+...++..++.-+..+...+...+.
T Consensus       263 ~dI~~I~~~il~~~~~~~~~~is~lk~~~gla~~  296 (360)
T KOG0990|consen  263 SDIRQIIEKRMNGEDIELMLDDSELKKPKGLARQ  296 (360)
T ss_pred             hHHHHHHHHHhcCchHHHHhhhhhhhhhhhhHHH
Confidence            9999999999999998888888777666555443

>PRK04132 replication factor C small subunit; Provisional

Probab=99.95  E-value=5.6e-26  Score=212.18  Aligned_cols=214  Identities=42%  Similarity=0.725  Sum_probs=196.0

Q ss_pred             EEEEC--CCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC
Q 021937           77 LLLYG--PPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (305)
Q Consensus        77 ~ll~G--~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~  154 (305)
                      .+..|  |.+.||||+|+++++.+.+.++...++++|+++..+.+.+++.+..+....+...   .+..|+||||+|.++
T Consensus       567 ~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~~---~~~KVvIIDEaD~Lt  643 (846)
T PRK04132        567 NFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGG---ASFKIIFLDEADALT  643 (846)
T ss_pred             hhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcCC---CCCEEEEEECcccCC
Confidence            45668  8999999999999999977777888999999998899999999988776554421   236899999999999


Q ss_pred             HHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 021937          155 KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (305)
Q Consensus       155 ~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g  234 (305)
                      ..++++|++++++++.++.||++||....+.+++++||+.+.|++++.+++...+...+.++|+.++++.+..|++.++|
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             CHHHHHHHHHHHhhccCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHH
Q 021937          235 DMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLS  293 (305)
Q Consensus       235 ~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~  293 (305)
                      |+|.+++.||.++...+.|+.+.+..+.+......+.+++..+...++..+...+..+.
T Consensus       724 DlR~AIn~Lq~~~~~~~~It~~~V~~~~~~~~~~~I~~il~~~l~~~~~~ar~~l~ell  782 (846)
T PRK04132        724 DMRRAINILQAAAALDDKITDENVFLVASRARPEDIREMMLLALKGNFLKAREKLREIL  782 (846)
T ss_pred             CHHHHHHHHHHHHHhcCCCCHHHHHHHhCCCCHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            99999999999887777899999999999999999999999999999999999888876

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.94  E-value=2.2e-24  Score=185.90  Aligned_cols=237  Identities=22%  Similarity=0.347  Sum_probs=173.3

Q ss_pred             hcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC-----C----------------
Q 021937           46 KYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----Y----------------  103 (305)
Q Consensus        46 ~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----~----------------  103 (305)
                      ...|..+.+++|+.+..+.|...+.+++.+| ++|+||+|+|||++++.+++.+.|..     .                
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            3688999999999999999999999999888 89999999999999999999998721     0                


Q ss_pred             ----cccEEEeecC---------CCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcC
Q 021937          104 ----HNMILELNAS---------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK  170 (305)
Q Consensus       104 ----~~~~~~~~~~---------~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~  170 (305)
                          ...+..+..+         .....+.++.....+... +    ...+..|+||||+|.++....+.|++.+++++.
T Consensus        96 ~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~-~----~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~  170 (351)
T PRK09112         96 AQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQT-S----GDGNWRIVIIDPADDMNRNAANAILKTLEEPPA  170 (351)
T ss_pred             HcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhc-c----ccCCceEEEEEchhhcCHHHHHHHHHHHhcCCC
Confidence                0012223211         012245555443333222 2    223478999999999999999999999999999


Q ss_pred             CceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc
Q 021937          171 NTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS  250 (305)
Q Consensus       171 ~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~  250 (305)
                      ++.++++++.+..+.+++++||+.+.|++++.+++.+++.......+  ++++.+..+++.++|++|.++++++..... 
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            99999999999999999999999999999999999999988543333  678889999999999999999998654321 


Q ss_pred             CccCHHHHHhhhC--CCChhhHHHHHHHHHcccHHHHHHHHHHHH
Q 021937          251 QQITEEAVYLCTG--NPLPKDIEQISYWLLNESFADSFKRIQNLS  293 (305)
Q Consensus       251 ~~i~~~~v~~~~~--~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~  293 (305)
                        +. ..+...+.  .........+.+.+.+.+.+..+.++..+.
T Consensus       248 --~~-~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~~~~~~~~l  289 (351)
T PRK09112        248 --II-ATIDQLLAGSGPDARKAHKLADALSGRESEVQFDFFRDHL  289 (351)
T ss_pred             --HH-HHHHHHHhhccCCcchHHHHHHHHhCCChHHHHHHHHHHH
Confidence              11 11222222  112124456666666655555554444433

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.94  E-value=6.5e-25  Score=189.86  Aligned_cols=208  Identities=18%  Similarity=0.245  Sum_probs=163.5

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      ..|..+|+|.+|++++|+++.++.+..++..     ...++++|+||||+|||++++.+++.+.     ..+...+....
T Consensus        13 ~~~~~~~rP~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~-----~~~~~~~~~~~   87 (328)
T PRK00080         13 DEIERSLRPKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMG-----VNIRITSGPAL   87 (328)
T ss_pred             chhhhhcCcCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhC-----CCeEEEecccc
Confidence            4577899999999999999999999887753     3345699999999999999999999983     23333333332


Q ss_pred             cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc------------------CCceEEEE
Q 021937          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALI  177 (305)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~iil~  177 (305)
                      .....+...+...           ..+.+|+|||+|.++....+.|+..+++..                  +...+|.+
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            3333333333221           125899999999999888888888887542                  23456777


Q ss_pred             ecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-----ccC
Q 021937          178 CNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-----ASQ  251 (305)
Q Consensus       178 ~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-----~~~  251 (305)
                      ++....+.+.+++|| ..+.|++++.+++.+++...+...++.++++++..|++.++|++|.+.+.++.+..     ...
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            788788889999998 67899999999999999999999999999999999999999999999999976543     235


Q ss_pred             ccCHHHHHhhhCC
Q 021937          252 QITEEAVYLCTGN  264 (305)
Q Consensus       252 ~i~~~~v~~~~~~  264 (305)
                      .|+.+.++.++..
T Consensus       237 ~I~~~~v~~~l~~  249 (328)
T PRK00080        237 VITKEIADKALDM  249 (328)
T ss_pred             CCCHHHHHHHHHH
Confidence            6888888877743

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.93  E-value=1.1e-23  Score=181.13  Aligned_cols=185  Identities=22%  Similarity=0.403  Sum_probs=152.6

Q ss_pred             CCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC---cccEEEeecC--CCcChhHHHH
Q 021937           50 QSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---HNMILELNAS--DDRGIDVVRQ  123 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~---~~~~~~~~~~--~~~~~~~~~~  123 (305)
                      ++|++++|++..++.+...+..+..+| ++|+||+|+|||++|+.+++.+.|...   ...+..+...  .....+.+++
T Consensus         1 m~~~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~   80 (313)
T PRK05564          1 MSFHTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRN   80 (313)
T ss_pred             CChhhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHH
Confidence            368899999999999999999998888 689999999999999999999977432   2234444432  2234567777


Q ss_pred             HHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCCHH
Q 021937          124 QIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPV  203 (305)
Q Consensus       124 ~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~  203 (305)
                      .+..... .++.    ++++|++||++|.++...++.|++.++++|+++.+|++++..+.+.+++++||+.+.|.+++.+
T Consensus        81 ~~~~~~~-~p~~----~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~  155 (313)
T PRK05564         81 IIEEVNK-KPYE----GDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKE  155 (313)
T ss_pred             HHHHHhc-Cccc----CCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHH
Confidence            6655433 2222    3489999999999999999999999999999999999999899999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 021937          204 HVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (305)
Q Consensus       204 ~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  243 (305)
                      ++..++.+...    .++++.++.++.+++|++..+...+
T Consensus       156 ~~~~~l~~~~~----~~~~~~~~~l~~~~~g~~~~a~~~~  191 (313)
T PRK05564        156 EIEKFISYKYN----DIKEEEKKSAIAFSDGIPGKVEKFI  191 (313)
T ss_pred             HHHHHHHHHhc----CCCHHHHHHHHHHcCCCHHHHHHHh
Confidence            99999876542    4678888899999999999887665

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.93  E-value=2.9e-23  Score=179.94  Aligned_cols=190  Identities=28%  Similarity=0.452  Sum_probs=153.2

Q ss_pred             cCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCc---------------------
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYH---------------------  104 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~---------------------  104 (305)
                      .+|+.+.+++||+..++.|.+.+.+++.+| ++|+||+|+||+++|..+++.+.|....                     
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 8999999999999999999999875421                     


Q ss_pred             --------ccEEEeecC--C-------CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHH
Q 021937          105 --------NMILELNAS--D-------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK  167 (305)
Q Consensus       105 --------~~~~~~~~~--~-------~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~  167 (305)
                              ..+..+...  .       ...++.+++....+... +    ...++.|++|||+|.++....+.|++.+++
T Consensus        93 ~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~-~----~~~~~kVviIDead~m~~~aanaLLK~LEe  167 (365)
T PRK07471         93 RRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLT-A----AEGGWRVVIVDTADEMNANAANALLKVLEE  167 (365)
T ss_pred             HHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcC-c----ccCCCEEEEEechHhcCHHHHHHHHHHHhc
Confidence                    012223221  1       11345555544433222 2    234479999999999999999999999999


Q ss_pred             hcCCceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q 021937          168 YTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQS  245 (305)
Q Consensus       168 ~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~  245 (305)
                      ++.++.+|++++....+.+++++||+.+.|++++.+++.+++...    +...+++.+..+++.++|+++.++..++.
T Consensus       168 pp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~----~~~~~~~~~~~l~~~s~Gsp~~Al~ll~~  241 (365)
T PRK07471        168 PPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAA----GPDLPDDPRAALAALAEGSVGRALRLAGG  241 (365)
T ss_pred             CCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHh----cccCCHHHHHHHHHHcCCCHHHHHHHhcc
Confidence            998999999999998999999999999999999999999999775    23345555578999999999999998864

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

Probab=99.92  E-value=9e-24  Score=169.76  Aligned_cols=204  Identities=16%  Similarity=0.251  Sum_probs=164.9

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (305)
                      .-...||+.|++|+||++++++|.-.++.     ....|++|+||||.||||+|..+++++     ...+....++....
T Consensus        16 ~e~~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em-----gvn~k~tsGp~leK   90 (332)
T COG2255          16 IERSLRPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL-----GVNLKITSGPALEK   90 (332)
T ss_pred             hhcccCcccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh-----cCCeEecccccccC
Confidence            44678999999999999999999888764     345579999999999999999999998     44555555555555


Q ss_pred             hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc------------------CCceEEEEec
Q 021937          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALICN  179 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~iil~~~  179 (305)
                      ..++...+..+..           ++|+||||+|++++..-+.|+..+++..                  +...+|.+|+
T Consensus        91 ~gDlaaiLt~Le~-----------~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATT  159 (332)
T COG2255          91 PGDLAAILTNLEE-----------GDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATT  159 (332)
T ss_pred             hhhHHHHHhcCCc-----------CCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeecc
Confidence            5565555544322           6999999999999999999999999742                  2234566678


Q ss_pred             CCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-----ccCcc
Q 021937          180 QVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-----ASQQI  253 (305)
Q Consensus       180 ~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-----~~~~i  253 (305)
                      ....+...++.|| ...++..++.+++.+++.+.+...++.++++...+|++.+.|.||-|..+|...--     ....|
T Consensus       160 r~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~V~~~~~I  239 (332)
T COG2255         160 RAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQVKGDGDI  239 (332)
T ss_pred             ccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccCCcHHHHHHHHHHHHHHHHhcCCcc
Confidence            8888999999998 67889999999999999999999999999999999999999999999999965543     23457


Q ss_pred             CHHHHHhhh
Q 021937          254 TEEAVYLCT  262 (305)
Q Consensus       254 ~~~~v~~~~  262 (305)
                      +.+...+++
T Consensus       240 ~~~ia~~aL  248 (332)
T COG2255         240 DRDIADKAL  248 (332)
T ss_pred             cHHHHHHHH
Confidence            766665555

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.92  E-value=2.2e-23  Score=179.12  Aligned_cols=199  Identities=15%  Similarity=0.220  Sum_probs=154.1

Q ss_pred             CCccccccchHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHH
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (305)
                      ++|++|+|+++.++.|..++..     ...++++|+||||+|||++++++++.+.     ..+.............+...
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            4689999999999999998873     4456799999999999999999999873     22333333322233333333


Q ss_pred             HHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc------------------CCceEEEEecCCcccch
Q 021937          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALICNQVNKIIP  186 (305)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~iil~~~~~~~l~~  186 (305)
                      +...           ..+.+++|||+|.+++..++.|+.++++..                  +...++.+++....+.+
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            3322           115799999999999988888988887543                  12456666777778888


Q ss_pred             hhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-----cCccCHHHHHh
Q 021937          187 ALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-----SQQITEEAVYL  260 (305)
Q Consensus       187 ~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-----~~~i~~~~v~~  260 (305)
                      ++++|| ..+.|++++.+++.+++...+...+..+++++++.|++.++|++|.+.+.+..+...     ...|+.+.+++
T Consensus       145 ~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~  224 (305)
T TIGR00635       145 PLRDRFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALK  224 (305)
T ss_pred             HHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHH
Confidence            999998 668999999999999999999989999999999999999999999999998765432     24588888877


Q ss_pred             hhCC
Q 021937          261 CTGN  264 (305)
Q Consensus       261 ~~~~  264 (305)
                      .+..
T Consensus       225 ~l~~  228 (305)
T TIGR00635       225 ALEM  228 (305)
T ss_pred             HHHH
Confidence            7643

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.92  E-value=3.1e-23  Score=188.80  Aligned_cols=226  Identities=23%  Similarity=0.325  Sum_probs=172.5

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCC-----CCcccEEEeecCC
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-----QYHNMILELNASD  114 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~-----~~~~~~~~~~~~~  114 (305)
                      ..||.++|||.+|++++|++..++.++..+......+++|+||+|||||++|+.+++.....     .....++.+++..
T Consensus        52 ~~~~~~~~rp~~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~  131 (531)
T TIGR02902        52 TEPLSEKTRPKSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATT  131 (531)
T ss_pred             cchHHHhhCcCCHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEcccc
Confidence            47899999999999999999999999988877777889999999999999999998765321     1135678888764


Q ss_pred             CcC-hhHHH-HHHHH-------hhh---cc-----cccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh---------
Q 021937          115 DRG-IDVVR-QQIQD-------FAS---TQ-----SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY---------  168 (305)
Q Consensus       115 ~~~-~~~~~-~~i~~-------~~~---~~-----~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~---------  168 (305)
                      ... ...+. ..+..       ...   ..     ....-..+++++|+|||++.++...++.|++.+++.         
T Consensus       132 ~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~~  211 (531)
T TIGR02902       132 ARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYY  211 (531)
T ss_pred             ccCCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeeccccc
Confidence            211 11111 11100       000   00     000112455789999999999999999999999752         


Q ss_pred             -------------------cCCceEEEEe-cCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 021937          169 -------------------TKNTRFALIC-NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAAL  228 (305)
Q Consensus       169 -------------------~~~~~iil~~-~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l  228 (305)
                                         +.+.++|++| +.+..+++++++||..+.|++++.+++.++++..+++.++.+++++++.|
T Consensus       212 ~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrsR~~~I~f~pL~~eei~~Il~~~a~k~~i~is~~al~~I  291 (531)
T TIGR02902       212 NSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRSRCVEIFFRPLLDEEIKEIAKNAAEKIGINLEKHALELI  291 (531)
T ss_pred             cccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhhhhheeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHH
Confidence                               1234566554 56778999999999999999999999999999999999999999999998


Q ss_pred             HHHcCCCHHHHHHHHHHHhhcc-----CccCHHHHHhhhCCCC
Q 021937          229 VRLCNGDMRKALNILQSTHMAS-----QQITEEAVYLCTGNPL  266 (305)
Q Consensus       229 ~~~~~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~~~~  266 (305)
                      .+++. |.|.+.+.++.++..+     ..|+.++++.+++...
T Consensus       292 ~~y~~-n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~~~~  333 (531)
T TIGR02902       292 VKYAS-NGREAVNIVQLAAGIALGEGRKRILAEDIEWVAENGN  333 (531)
T ss_pred             HHhhh-hHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhCCcc
Confidence            88775 8999999999877532     3599999999987553

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.

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

Probab=99.91  E-value=1.9e-22  Score=180.26  Aligned_cols=209  Identities=25%  Similarity=0.410  Sum_probs=174.5

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcC--------------------------------CCC--eEEEECCCC
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN--------------------------------RLP--HLLLYGPPG   84 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~--------------------------------~~~--~~ll~G~~G   84 (305)
                      +...|.++|+|+.|.+++|.+..-..+..|++.+                                +++  .++|+||||
T Consensus       257 h~kLWVdky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppG  336 (877)
T KOG1969|consen  257 HDKLWVDKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPG  336 (877)
T ss_pred             CcceeecccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCC
Confidence            3348999999999999999888888777777532                                122  289999999


Q ss_pred             CcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHH
Q 021937           85 TGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRV  164 (305)
Q Consensus        85 ~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~  164 (305)
                      .||||||+.+|+..     ++.++++|+++......+.+.+..+.....+.. ...++.++||||+|.-.......++.+
T Consensus       337 lGKTTLAHViAkqa-----GYsVvEINASDeRt~~~v~~kI~~avq~~s~l~-adsrP~CLViDEIDGa~~~~Vdvilsl  410 (877)
T KOG1969|consen  337 LGKTTLAHVIAKQA-----GYSVVEINASDERTAPMVKEKIENAVQNHSVLD-ADSRPVCLVIDEIDGAPRAAVDVILSL  410 (877)
T ss_pred             CChhHHHHHHHHhc-----CceEEEecccccccHHHHHHHHHHHHhhccccc-cCCCcceEEEecccCCcHHHHHHHHHH
Confidence            99999999999997     778999999999999999999998887776542 234578999999999998888888888


Q ss_pred             HHHh------cC---------------CceEEEEecCCcc-cchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCH
Q 021937          165 IEKY------TK---------------NTRFALICNQVNK-IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTE  222 (305)
Q Consensus       165 l~~~------~~---------------~~~iil~~~~~~~-l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~  222 (305)
                      ++.-      ++               ...||++||+... -...|+..+.++.|.+|+...+.+.|+.+|.++|+..+.
T Consensus       411 v~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLYaPaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~mr~d~  490 (877)
T KOG1969|consen  411 VKATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLYAPALRPLRPFAEIIAFVPPSQSRLVERLNEICHRENMRADS  490 (877)
T ss_pred             HHhhcchhhcCcccchhhhhhhccccccCCEEEEecCccchhhhhcccceEEEEecCCChhHHHHHHHHHHhhhcCCCCH
Confidence            8721      11               1357888887653 345566668999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHhhccCcc
Q 021937          223 GGLAALVRLCNGDMRKALNILQSTHMASQQI  253 (305)
Q Consensus       223 ~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i  253 (305)
                      .++..+++++++|+|.++|.||.++...+.+
T Consensus       491 ~aL~~L~el~~~DIRsCINtLQfLa~~~~r~  521 (877)
T KOG1969|consen  491 KALNALCELTQNDIRSCINTLQFLASNVDRR  521 (877)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHhcccc
Confidence            9999999999999999999999999877663

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.91  E-value=6.1e-23  Score=179.27  Aligned_cols=183  Identities=22%  Similarity=0.354  Sum_probs=148.1

Q ss_pred             CccccccchHHHHHHHHHHhcCC---------CCe-EEEECCCCCcHHHHHHHHHHHHhCCCC-----------------
Q 021937           51 SLADVAAHRDIVDTIDRLTSENR---------LPH-LLLYGPPGTGKTSTILAVARKLYGAQY-----------------  103 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~---------~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~-----------------  103 (305)
                      .|++++||+..++.|.+.+..+.         .+| ++|+||+|+|||++|+.+++.+.|...                 
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         555 899999999999999999999987531                 


Q ss_pred             -cccEEEeecC-CCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          104 -HNMILELNAS-DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       104 -~~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                       ...+..+... .....+.+++.+......+     ...+++|+||||+|.+....++.|++.+++++.++.+|++++..
T Consensus        83 ~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p-----~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~  157 (394)
T PRK07940         83 THPDVRVVAPEGLSIGVDEVRELVTIAARRP-----STGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSP  157 (394)
T ss_pred             CCCCEEEeccccccCCHHHHHHHHHHHHhCc-----ccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECCh
Confidence             1112222222 2245666776665554322     23347899999999999999999999999999999999999999


Q ss_pred             cccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 021937          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (305)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  243 (305)
                      ..+.+++++||+.+.|++|+.+++.+++...   .+  ++++.+..+++.++|+++.++..+
T Consensus       158 ~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~---~~--~~~~~a~~la~~s~G~~~~A~~l~  214 (394)
T PRK07940        158 EDVLPTIRSRCRHVALRTPSVEAVAEVLVRR---DG--VDPETARRAARASQGHIGRARRLA  214 (394)
T ss_pred             HHChHHHHhhCeEEECCCCCHHHHHHHHHHh---cC--CCHHHHHHHHHHcCCCHHHHHHHh
Confidence            9999999999999999999999998888642   23  678888899999999999887665

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.91  E-value=5e-22  Score=169.14  Aligned_cols=230  Identities=20%  Similarity=0.303  Sum_probs=163.3

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC-------------cccEEEeecC---
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------HNMILELNAS---  113 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~-------------~~~~~~~~~~---  113 (305)
                      .|++++||+..++.|.+.+..++.+| ++|+||+|+||+++|.++++.+.|...             ...+..+.+.   
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 899999999999999999999987531             1112222211   


Q ss_pred             C--------------------CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCce
Q 021937          114 D--------------------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTR  173 (305)
Q Consensus       114 ~--------------------~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~  173 (305)
                      .                    ....+.+++... .....++.    ++++|+|||++|.+.....++|++.+|++| ++.
T Consensus        82 ~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~-~l~~~p~~----~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~  155 (314)
T PRK07399         82 QGKLITASEAEEAGLKRKAPPQIRLEQIREIKR-FLSRPPLE----APRKVVVIEDAETMNEAAANALLKTLEEPG-NGT  155 (314)
T ss_pred             cccccchhhhhhccccccccccCcHHHHHHHHH-HHccCccc----CCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCe
Confidence            0                    011234444333 33333333    348999999999999999999999999999 889


Q ss_pred             EEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCcc
Q 021937          174 FALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQI  253 (305)
Q Consensus       174 iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i  253 (305)
                      ||++++..+.+.+++++||+.+.|++++.+++.+++.......+.   +.....++..++|+++.+++.++....    +
T Consensus       156 fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~~---~~~~~~l~~~a~Gs~~~al~~l~~~~~----~  228 (314)
T PRK07399        156 LILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEIL---NINFPELLALAQGSPGAAIANIEQLQS----I  228 (314)
T ss_pred             EEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccccc---hhHHHHHHHHcCCCHHHHHHHHHHHHH----H
Confidence            999999999999999999999999999999999999886432221   122567889999999999998865432    2


Q ss_pred             CHHHHHhhhC-CCChhhHHHHHHHHH-cccHHHHHHHHHHHH
Q 021937          254 TEEAVYLCTG-NPLPKDIEQISYWLL-NESFADSFKRIQNLS  293 (305)
Q Consensus       254 ~~~~v~~~~~-~~~~~~~~~l~~~~~-~~~~~~~~~~l~~l~  293 (305)
                      ..+.+..+.. ......+..+.+.+. ..+.++-...++.+.
T Consensus       229 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~e~Q~~~l~~~~  270 (314)
T PRK07399        229 PPELLQKLEQPPKSPLEALELAKDISEELDIEQQLWLIDYLQ  270 (314)
T ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            2222222221 112334445555555 455555444444443

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.91  E-value=2.3e-22  Score=165.45  Aligned_cols=198  Identities=15%  Similarity=0.208  Sum_probs=149.4

Q ss_pred             Cccccc--cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHh
Q 021937           51 SLADVA--AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (305)
Q Consensus        51 ~~~~~~--g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (305)
                      +|++|+  ++...+..+.++......++++|+||+|+||||+++++++.+...+....++.++.... ...   +.+..+
T Consensus        20 ~fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~-~~~---~~~~~~   95 (235)
T PRK08084         20 TFASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAW-FVP---EVLEGM   95 (235)
T ss_pred             CccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhh-hhH---HHHHHh
Confidence            566666  46778888888877766677999999999999999999998866555455555443211 111   111111


Q ss_pred             hhcccccCCCCCceEEEEEeCCCcCC--HHHHHHHHHHHHHhcC--CceEEEEecCCc----ccchhhhcce---eEEEe
Q 021937          129 ASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK--NTRFALICNQVN----KIIPALQSRC---TRFRF  197 (305)
Q Consensus       129 ~~~~~~~~~~~~~~~vliiDe~~~l~--~~~~~~l~~~l~~~~~--~~~iil~~~~~~----~l~~~l~~r~---~~i~~  197 (305)
                      .           ...+|+|||+|.+.  +..+..|+.+++....  +..++++++...    ...+++++|+   .++.+
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           13689999999986  3446677788876533  346777776443    2579999998   78999


Q ss_pred             cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh----ccCccCHHHHHhhhC
Q 021937          198 APLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCTG  263 (305)
Q Consensus       198 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~~  263 (305)
                      ++|+.+++.+++++.+...|+.++++++++|++.++||+|.+.+.++.+..    ....||.+.++++++
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            999999999999998888899999999999999999999999999987652    235699998888764

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.90  E-value=1.4e-21  Score=168.45  Aligned_cols=182  Identities=26%  Similarity=0.446  Sum_probs=144.6

Q ss_pred             Ccccccc-chHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC-------------------cccEEE
Q 021937           51 SLADVAA-HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------------HNMILE  109 (305)
Q Consensus        51 ~~~~~~g-~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~-------------------~~~~~~  109 (305)
                      .|+.++| |+.+++.|...+..++.+| ++|+||+|+||+++|+.+++.+.|...                   ...+..
T Consensus         3 ~~~~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~   82 (329)
T PRK08058          3 TWEQLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHL   82 (329)
T ss_pred             cHHHHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEE
Confidence            3677888 9999999999999998888 699999999999999999999987531                   112333


Q ss_pred             eecC-CCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhh
Q 021937          110 LNAS-DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPAL  188 (305)
Q Consensus       110 ~~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l  188 (305)
                      +... .....+.+++.+..+.... +    .++++|+||||+|.+..+.+++|++.+|++|+++.+|++++....+.+++
T Consensus        83 i~~~~~~i~id~ir~l~~~~~~~~-~----~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TI  157 (329)
T PRK08058         83 VAPDGQSIKKDQIRYLKEEFSKSG-V----ESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTI  157 (329)
T ss_pred             eccccccCCHHHHHHHHHHHhhCC-c----ccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHH
Confidence            3222 2234567777666654432 2    23479999999999999999999999999999999999999999999999


Q ss_pred             hcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 021937          189 QSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (305)
Q Consensus       189 ~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  244 (305)
                      ++||+.++|++++.+++.+++..    .|  ++.+....++.. .|+++.++..++
T Consensus       158 rSRc~~i~~~~~~~~~~~~~L~~----~g--i~~~~~~~l~~~-~g~~~~A~~l~~  206 (329)
T PRK08058        158 LSRCQVVEFRPLPPESLIQRLQE----EG--ISESLATLLAGL-TNSVEEALALSE  206 (329)
T ss_pred             HhhceeeeCCCCCHHHHHHHHHH----cC--CChHHHHHHHHH-cCCHHHHHHHhc
Confidence            99999999999999999888754    35  555655566655 578999888774

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.89  E-value=1.5e-21  Score=155.70  Aligned_cols=166  Identities=28%  Similarity=0.464  Sum_probs=131.7

Q ss_pred             HHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC-------------------CcccEEEeecC-CCcChhHH
Q 021937           63 DTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNAS-DDRGIDVV  121 (305)
Q Consensus        63 ~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------~~~~~~~~~~~-~~~~~~~~  121 (305)
                      +.|.+.+..++.++ ++|+||+|+|||++++.+++.+.+..                   ....+..+... .....+.+
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            45777888887776 89999999999999999999997641                   01112222221 12345566


Q ss_pred             HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCC
Q 021937          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLE  201 (305)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~  201 (305)
                      ++.+..... .++.    ..+.|++|||+|.+..+.++.|+++++++++++.+|++++....+.+++++|++.+.|.+++
T Consensus        82 ~~i~~~~~~-~~~~----~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~  156 (188)
T TIGR00678        82 RELVEFLSR-TPQE----SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLS  156 (188)
T ss_pred             HHHHHHHcc-Cccc----CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCC
Confidence            665544433 2222    34799999999999999999999999999989999999988889999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHH
Q 021937          202 PVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKA  239 (305)
Q Consensus       202 ~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~  239 (305)
                      .+++.+|+.+.    |  +++++++.+++.++|++|.+
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            99999999776    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.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.89  E-value=8.7e-21  Score=162.34  Aligned_cols=171  Identities=26%  Similarity=0.376  Sum_probs=135.9

Q ss_pred             HHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC-------------------cccEEEeecC---CCcChhHH
Q 021937           65 IDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------------HNMILELNAS---DDRGIDVV  121 (305)
Q Consensus        65 l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~-------------------~~~~~~~~~~---~~~~~~~~  121 (305)
                      ..+.+..++.+| ++|+||+|+|||++|+.+++.+.|...                   ...+..+...   ....++.+
T Consensus        12 ~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~i   91 (328)
T PRK05707         12 WQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQV   91 (328)
T ss_pred             HHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHH
Confidence            344455577777 899999999999999999999987531                   1234444332   23467788


Q ss_pred             HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCC
Q 021937          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLE  201 (305)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~  201 (305)
                      ++.+..+.....     .++++|++||++|.+.....++|++.+|+++.++.||++|+....+++++++||+.+.|++++
T Consensus        92 R~l~~~~~~~~~-----~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~  166 (328)
T PRK05707         92 RELVSFVVQTAQ-----LGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPS  166 (328)
T ss_pred             HHHHHHHhhccc-----cCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcC
Confidence            886665544332     233799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 021937          202 PVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (305)
Q Consensus       202 ~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  244 (305)
                      .+++.+++....   + ..+++....++..++|++..++..++
T Consensus       167 ~~~~~~~L~~~~---~-~~~~~~~~~~l~la~Gsp~~A~~l~~  205 (328)
T PRK05707        167 NEESLQWLQQAL---P-ESDERERIELLTLAGGSPLRALQLHE  205 (328)
T ss_pred             HHHHHHHHHHhc---c-cCChHHHHHHHHHcCCCHHHHHHHHC
Confidence            999999997643   1 24566667788999999999988764

>PRK08727 hypothetical protein; Validated

Probab=99.89  E-value=6e-21  Score=156.81  Aligned_cols=200  Identities=21%  Similarity=0.315  Sum_probs=145.3

Q ss_pred             CccccccchH-HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhh
Q 021937           51 SLADVAAHRD-IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (305)
Q Consensus        51 ~~~~~~g~~~-~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  129 (305)
                      +|++|++.+. .+..+.....+.....++|+||+|+|||+++.++++.+...+....++......    ..+...+..+.
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            6787776553 444444444444444599999999999999999999887666544444432211    11222222221


Q ss_pred             hcccccCCCCCceEEEEEeCCCcCC--HHHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhhcc---eeEEEecC
Q 021937          130 STQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSR---CTRFRFAP  199 (305)
Q Consensus       130 ~~~~~~~~~~~~~~vliiDe~~~l~--~~~~~~l~~~l~~~~~-~~~iil~~~~~~----~l~~~l~~r---~~~i~~~~  199 (305)
                                 ...+|+|||++.+.  ...+..++++++.... ...+|++++...    .+.+++.+|   +..+.+++
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                       14799999999986  3455678888876543 445777776443    346899999   67899999


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh----ccCccCHHHHHhhhCCC
Q 021937          200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCTGNP  265 (305)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~~~~  265 (305)
                      |+.+++.+++++++...++.+++++++.|++.++||+|.+++.++.+..    ....||.+.+++++...
T Consensus       162 ~~~e~~~~iL~~~a~~~~l~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~~it~~~~~~~l~~~  231 (233)
T PRK08727        162 LDDVARAAVLRERAQRRGLALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKRRVTVPFLRRVLEEG  231 (233)
T ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhhc
Confidence            9999999999999998999999999999999999999999998876642    23568888888877543

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=99.88  E-value=6.8e-21  Score=163.42  Aligned_cols=178  Identities=28%  Similarity=0.368  Sum_probs=145.6

Q ss_pred             chHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC-------------------cccEEEeecCC---
Q 021937           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------------HNMILELNASD---  114 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~-------------------~~~~~~~~~~~---  114 (305)
                      +....+++.+.+.+++.+| ++|+||+|+||+++|.++++.+.|...                   ...+..+.+..   
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            4467788999999988888 789999999999999999999987421                   12344443322   


Q ss_pred             CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeE
Q 021937          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (305)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~  194 (305)
                      ...++.+++....+....     ..++++|+|||++|.+.....++|++.+|++|+++.||++++.+..+.++++|||+.
T Consensus        87 ~I~idqiR~l~~~~~~~~-----~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~  161 (334)
T PRK07993         87 SLGVDAVREVTEKLYEHA-----RLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRL  161 (334)
T ss_pred             cCCHHHHHHHHHHHhhcc-----ccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcccc
Confidence            246777887666654443     223479999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q 021937          195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQS  245 (305)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~  245 (305)
                      +.|++++.+++.+++...     ..++.+.+..+++.++|++..++..++.
T Consensus       162 ~~~~~~~~~~~~~~L~~~-----~~~~~~~a~~~~~la~G~~~~Al~l~~~  207 (334)
T PRK07993        162 HYLAPPPEQYALTWLSRE-----VTMSQDALLAALRLSAGAPGAALALLQP  207 (334)
T ss_pred             ccCCCCCHHHHHHHHHHc-----cCCCHHHHHHHHHHcCCCHHHHHHHhcC
Confidence            999999999999998642     2367777788899999999999988753

>PRK06893 DNA replication initiation factor; Validated

Probab=99.88  E-value=3.3e-21  Score=158.05  Aligned_cols=200  Identities=17%  Similarity=0.264  Sum_probs=142.4

Q ss_pred             CCCccccccchHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHH
Q 021937           49 PQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (305)
Q Consensus        49 p~~~~~~~g~~~~~--~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (305)
                      +.+|++|++++...  ..+.+.......+.++|+||+|+||||+++++++++...+....++..+......    ...+.
T Consensus        12 ~~~fd~f~~~~~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~~~----~~~~~   87 (229)
T PRK06893         12 DETLDNFYADNNLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQYFS----PAVLE   87 (229)
T ss_pred             cccccccccCChHHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhhhh----HHHHh
Confidence            45789999765443  2333333444445689999999999999999999986666555555543221111    11111


Q ss_pred             HhhhcccccCCCCCceEEEEEeCCCcCC--HHHHHHHHHHHHHhcCC-ce-EEEEecCCc----ccchhhhccee---EE
Q 021937          127 DFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTKN-TR-FALICNQVN----KIIPALQSRCT---RF  195 (305)
Q Consensus       127 ~~~~~~~~~~~~~~~~~vliiDe~~~l~--~~~~~~l~~~l~~~~~~-~~-iil~~~~~~----~l~~~l~~r~~---~i  195 (305)
                      .+           .+..+|+|||++.+.  ......|+.+++..... .. ++++++...    ...+.+.+|+.   .+
T Consensus        88 ~~-----------~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~  156 (229)
T PRK06893         88 NL-----------EQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIY  156 (229)
T ss_pred             hc-----------ccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCee
Confidence            11           125799999999885  33355788888865433 33 345554432    23478999874   78


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc----cCccCHHHHHhhhC
Q 021937          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTG  263 (305)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~~  263 (305)
                      .+++|+.+++.+++++.+...++.++++++++|++.++||+|.+.+.++.+...    ...||.+.++++++
T Consensus       157 ~l~~pd~e~~~~iL~~~a~~~~l~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~v~~~L~  228 (229)
T PRK06893        157 QLNDLTDEQKIIVLQRNAYQRGIELSDEVANFLLKRLDRDMHTLFDALDLLDKASLQAQRKLTIPFVKEILG  228 (229)
T ss_pred             eCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHhc
Confidence            999999999999999999999999999999999999999999999999866431    24588888887764

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

Probab=99.87  E-value=5.1e-21  Score=166.12  Aligned_cols=184  Identities=40%  Similarity=0.639  Sum_probs=149.2

Q ss_pred             ccccchHHHHHHHHHHh-cCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC-------------------CcccEEEeec
Q 021937           54 DVAAHRDIVDTIDRLTS-ENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNA  112 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~-~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------~~~~~~~~~~  112 (305)
                      ++++++.....+..+.. .++.+| ++|+||+|+|||++|.++++.+.+..                   ....+.+++.
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            56788888888888887 566888 99999999999999999999997654                   3467888998


Q ss_pred             CCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcce
Q 021937          113 SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (305)
Q Consensus       113 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~  192 (305)
                      ++....+...+.+..+....... +...+..|++|||+|.+..+.++++++.+++++.+++|+++++....+.+++++||
T Consensus        82 s~~~~~~i~~~~vr~~~~~~~~~-~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~SRc  160 (325)
T COG0470          82 SDLRKIDIIVEQVRELAEFLSES-PLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSRC  160 (325)
T ss_pred             cccCCCcchHHHHHHHHHHhccC-CCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhhcc
Confidence            88766544444455444433221 12345799999999999999999999999999999999999999999999999999


Q ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc
Q 021937          193 TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (305)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~  249 (305)
                      +.+.|++++......+..           ++.+..++..+.||.|.+++.++..+..
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            999999855544433332           5678889999999999999999988875

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.87  E-value=5.4e-20  Score=156.22  Aligned_cols=178  Identities=23%  Similarity=0.291  Sum_probs=142.8

Q ss_pred             chHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC-------------------cccEEEeecC--CC
Q 021937           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------------HNMILELNAS--DD  115 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~-------------------~~~~~~~~~~--~~  115 (305)
                      +....+.+.+.+..++.+| ++|+||+|+||+++|+.+++.+.|...                   ...+..+...  ..
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            4467788999999988888 789999999999999999999987431                   1234444332  23


Q ss_pred             cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEE
Q 021937          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (305)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i  195 (305)
                      .+++.+++........+     ..++.+|++||++|.+.....++|++.+|++|+++.||++++....+.++++|||+.+
T Consensus        87 I~id~iR~l~~~~~~~~-----~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~  161 (325)
T PRK06871         87 IGVDQVREINEKVSQHA-----QQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTW  161 (325)
T ss_pred             CCHHHHHHHHHHHhhcc-----ccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEE
Confidence            46777777665554333     2334799999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q 021937          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQS  245 (305)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~  245 (305)
                      .|.+++.+++.+++....     ..+...+..++..++|.+..++..++.
T Consensus       162 ~~~~~~~~~~~~~L~~~~-----~~~~~~~~~~~~l~~g~p~~A~~~~~~  206 (325)
T PRK06871        162 LIHPPEEQQALDWLQAQS-----SAEISEILTALRINYGRPLLALTFLEQ  206 (325)
T ss_pred             eCCCCCHHHHHHHHHHHh-----ccChHHHHHHHHHcCCCHHHHHHHhhC
Confidence            999999999999998653     134444667788999999988877643

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.87  E-value=6.6e-20  Score=155.51  Aligned_cols=176  Identities=25%  Similarity=0.320  Sum_probs=140.5

Q ss_pred             chHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCc----------------ccEEEee--cCC----
Q 021937           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYH----------------NMILELN--ASD----  114 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~----------------~~~~~~~--~~~----  114 (305)
                      +....+.+...+..++.+| ++|+||+|+||+++|..+++.+.|.+..                ..+..+.  ...    
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            5578889999999999998 8999999999999999999999875411                1233331  111    


Q ss_pred             ---CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcc
Q 021937          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSR  191 (305)
Q Consensus       115 ---~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r  191 (305)
                         ...++.+++.........     ..++.+|+|||++|.+.....++|++.+|++++++.||++++....+.++++||
T Consensus        89 ~~~~I~idqIR~l~~~~~~~p-----~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSR  163 (319)
T PRK08769         89 LRTEIVIEQVREISQKLALTP-----QYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSR  163 (319)
T ss_pred             ccccccHHHHHHHHHHHhhCc-----ccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhh
Confidence               123555665555443332     223479999999999999999999999999999999999999999999999999


Q ss_pred             eeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 021937          192 CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (305)
Q Consensus       192 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  244 (305)
                      |+.+.|.+|+.+++..++...    +  ++......++..++|.+..++..++
T Consensus       164 Cq~i~~~~~~~~~~~~~L~~~----~--~~~~~a~~~~~l~~G~p~~A~~~~~  210 (319)
T PRK08769        164 CQRLEFKLPPAHEALAWLLAQ----G--VSERAAQEALDAARGHPGLAAQWLR  210 (319)
T ss_pred             heEeeCCCcCHHHHHHHHHHc----C--CChHHHHHHHHHcCCCHHHHHHHhc
Confidence            999999999999999998642    3  5556566789999999999988774

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.86  E-value=3.1e-20  Score=152.68  Aligned_cols=198  Identities=15%  Similarity=0.238  Sum_probs=146.1

Q ss_pred             CCCCccccc--cchHHHHHHHHHHhc-CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHH
Q 021937           48 RPQSLADVA--AHRDIVDTIDRLTSE-NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (305)
Q Consensus        48 ~p~~~~~~~--g~~~~~~~l~~~l~~-~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (305)
                      .|.+|++++  ++...+..+..+... .....++|+||+|+|||++++++++.....+..  +..+++....      ..
T Consensus        13 ~~~~~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~--~~~i~~~~~~------~~   84 (227)
T PRK08903         13 PPPTFDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGRN--ARYLDAASPL------LA   84 (227)
T ss_pred             ChhhhcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCc--EEEEehHHhH------HH
Confidence            345678877  346677778777664 233459999999999999999999987655543  3444433211      11


Q ss_pred             HHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCc--eEEEEecCCc---ccchhhhcce---eEEE
Q 021937          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNT--RFALICNQVN---KIIPALQSRC---TRFR  196 (305)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~--~iil~~~~~~---~l~~~l~~r~---~~i~  196 (305)
                      +.       +    .....+|+|||+|.+....+..|+.+++......  .++++++...   .+.+.+.+|+   ..+.
T Consensus        85 ~~-------~----~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~  153 (227)
T PRK08903         85 FD-------F----DPEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYE  153 (227)
T ss_pred             Hh-------h----cccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEE
Confidence            10       0    1125799999999999888889999998654333  3444444322   2456777775   7899


Q ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh----ccCccCHHHHHhhhCC
Q 021937          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCTGN  264 (305)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~~~  264 (305)
                      ++||+.++...++...+.+.++.+++++++.|++.++||+|.+.+.++.+..    ....||...++++++.
T Consensus       154 l~pl~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~~~gn~~~l~~~l~~l~~~~~~~~~~i~~~~~~~~l~~  225 (227)
T PRK08903        154 LKPLSDADKIAALKAAAAERGLQLADEVPDYLLTHFRRDMPSLMALLDALDRYSLEQKRPVTLPLLREMLAQ  225 (227)
T ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhc
Confidence            9999999999999998888999999999999999999999999999877653    3356999999988764

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.86  E-value=1.1e-19  Score=153.96  Aligned_cols=174  Identities=23%  Similarity=0.339  Sum_probs=139.0

Q ss_pred             chHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC------------------cccEEEeecC---CC
Q 021937           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY------------------HNMILELNAS---DD  115 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~------------------~~~~~~~~~~---~~  115 (305)
                      +....+.+.+.+..++.+| ++|+||.|+||+++|+.+++.+.|...                  ...+..+...   ..
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            4467788899999998888 899999999999999999999987531                  2234444432   22


Q ss_pred             cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEE
Q 021937          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (305)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i  195 (305)
                      ..++.+++........ +    ..++.+|++||++|.+.....++|++.+|++|+++.||++++..+.+.++++|||+.+
T Consensus        88 I~vdqiR~l~~~~~~~-~----~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~  162 (319)
T PRK06090         88 ITVEQIRQCNRLAQES-S----QLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQW  162 (319)
T ss_pred             CCHHHHHHHHHHHhhC-c----ccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeE
Confidence            3566776654443332 2    2234799999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 021937          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (305)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  244 (305)
                      .|++|+.+++.+++...    +..    ....+++.++|++..++..++
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            99999999999988643    432    235678899999999988874

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.86  E-value=2.6e-20  Score=170.40  Aligned_cols=211  Identities=21%  Similarity=0.370  Sum_probs=139.6

Q ss_pred             CCCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCC-----eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLP-----HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~-----~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      +...+|.++|+|+++++++|+++.++.+..++.....+     .++|+||+|+||||+++.+++.+...... +.-.+++
T Consensus        69 ~~~~pW~eKyrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~E-w~npv~~  147 (637)
T TIGR00602        69 DGNEPWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELGIQVQE-WSNPTLP  147 (637)
T ss_pred             cccCchHHHhCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHH-Hhhhhhh
Confidence            45678999999999999999999999999998864322     28999999999999999999987321100 0000000


Q ss_pred             CC------------------CcChhHHHHHHHHhhhcccc-cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHH-Hh--cC
Q 021937          113 SD------------------DRGIDVVRQQIQDFASTQSF-SFGVKASVKLVLLDEADAMTKDAQFALRRVIE-KY--TK  170 (305)
Q Consensus       113 ~~------------------~~~~~~~~~~i~~~~~~~~~-~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~-~~--~~  170 (305)
                      ..                  ....+.+...+..+...... ......++.||+|||++.+.......+..++. ..  ..
T Consensus       148 ~~~~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~  227 (637)
T TIGR00602       148 DFQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIG  227 (637)
T ss_pred             cccccccccchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhhHHHHHHHHHHHhhcCC
Confidence            00                  01122233333322211111 11123457899999997776444334444444 21  22


Q ss_pred             CceEEEEecCCcc---------------cchhhhc--ceeEEEecCCCHHHHHHHHHHHHHHcCCC------C-CHHHHH
Q 021937          171 NTRFALICNQVNK---------------IIPALQS--RCTRFRFAPLEPVHVTERLKHVIEAEGLD------V-TEGGLA  226 (305)
Q Consensus       171 ~~~iil~~~~~~~---------------l~~~l~~--r~~~i~~~~~~~~~~~~~l~~~~~~~~~~------~-~~~~~~  226 (305)
                      ...+|++++....               +.+++.+  |+..+.|+|++..++.+.|..++..++..      + +++++.
T Consensus       228 ~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~l~  307 (637)
T TIGR00602       228 RCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVE  307 (637)
T ss_pred             CceEEEEecCCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCCHHHHH
Confidence            4456665542111               2267776  56789999999999999999999876431      2 467899


Q ss_pred             HHHHHcCCCHHHHHHHHHHHhhc
Q 021937          227 ALVRLCNGDMRKALNILQSTHMA  249 (305)
Q Consensus       227 ~l~~~~~g~~r~~~~~l~~~~~~  249 (305)
                      .|+..++||+|.|++.||.++..
T Consensus       308 ~I~~~s~GDiRsAIn~LQf~~~~  330 (637)
T TIGR00602       308 LLCQGCSGDIRSAINSLQFSSSK  330 (637)
T ss_pred             HHHHhCCChHHHHHHHHHHHHhc
Confidence            99999999999999999998653

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

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

Probab=99.86  E-value=1.9e-20  Score=155.33  Aligned_cols=197  Identities=22%  Similarity=0.316  Sum_probs=144.4

Q ss_pred             CccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC---
Q 021937           51 SLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD---  114 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~---  114 (305)
                      +++++-|-++.++++++.+.-             .++..++||||||||||.+|+++|++.     ...|+.+.++.   
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            678999999999999988752             345559999999999999999999987     66788887764   


Q ss_pred             ---CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHH-----hcCCceEE
Q 021937          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEK-----YTKNTRFA  175 (305)
Q Consensus       115 ---~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~-----~~~~~~ii  175 (305)
                         ..+..-+++.+.-+..         ..+++|||||+|.+.           .+.|..+++++.+     ...++++|
T Consensus       224 KYiGEGaRlVRelF~lAre---------kaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI  294 (406)
T COG1222         224 KYIGEGARLVRELFELARE---------KAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVI  294 (406)
T ss_pred             HHhccchHHHHHHHHHHhh---------cCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEE
Confidence               2233444444443333         337999999999984           3467778888774     34688999


Q ss_pred             EEecCCcccchhhhcc--e-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH-HHHHHHHHHhhc--
Q 021937          176 LICNQVNKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMR-KALNILQSTHMA--  249 (305)
Q Consensus       176 l~~~~~~~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r-~~~~~l~~~~~~--  249 (305)
                      ++||+.+-++|++.+-  + +.+.|+.|+.+...++++.+..+.++. ++-.++.|++.+.|--. .+.+.|..+...  
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            9999999999999884  4 679999999999999999998877642 22336778887765322 333444444432  


Q ss_pred             ---cCccCHHHHHhhh
Q 021937          250 ---SQQITEEAVYLCT  262 (305)
Q Consensus       250 ---~~~i~~~~v~~~~  262 (305)
                         ...++.+++.++.
T Consensus       374 R~~R~~Vt~~DF~~Av  389 (406)
T COG1222         374 RERRDEVTMEDFLKAV  389 (406)
T ss_pred             HhccCeecHHHHHHHH
Confidence               2347777766554

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.86  E-value=1.1e-19  Score=166.99  Aligned_cols=212  Identities=20%  Similarity=0.266  Sum_probs=150.4

Q ss_pred             cccccchHHHHHHHHHHhc----CCCCe-EEEECCCCCcHHHHHHHHHHHHhC----CCC-cccEEEeecCCCcChhHHH
Q 021937           53 ADVAAHRDIVDTIDRLTSE----NRLPH-LLLYGPPGTGKTSTILAVARKLYG----AQY-HNMILELNASDDRGIDVVR  122 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~----~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~----~~~-~~~~~~~~~~~~~~~~~~~  122 (305)
                      +.+.|++..++.|...+..    ..+.. ++|+|+||||||++++.+.+++..    ... .+.+++++|........+.
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            5788999999888777653    33333 579999999999999999988742    122 2668899997655554443


Q ss_pred             HHHHHhh-hccccc-------------C--CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc---CCceEEEEecC---
Q 021937          123 QQIQDFA-STQSFS-------------F--GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---KNTRFALICNQ---  180 (305)
Q Consensus       123 ~~i~~~~-~~~~~~-------------~--~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~---~~~~iil~~~~---  180 (305)
                      ..+.... ...+..             .  .......||+|||+|.+....+..|+.+++...   ..+.+|.+++.   
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            3333222 111100             0  011234699999999998777788888888543   23345555554   


Q ss_pred             Ccccchhhhccee--EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHhhcc--Ccc
Q 021937          181 VNKIIPALQSRCT--RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR---LCNGDMRKALNILQSTHMAS--QQI  253 (305)
Q Consensus       181 ~~~l~~~l~~r~~--~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~---~~~g~~r~~~~~l~~~~~~~--~~i  253 (305)
                      ...+.+.+++|+.  .+.|+|++.+++.++|..++......+++++++.+++   ..+||+|.|+++|..++..+  ..|
T Consensus       915 perLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEikegskV  994 (1164)
T PTZ00112        915 PERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENKRGQKI  994 (1164)
T ss_pred             chhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhcCCCcc
Confidence            3456788888874  4899999999999999999986555689999999998   66799999999999887643  347


Q ss_pred             CHHHHHhhhCC
Q 021937          254 TEEAVYLCTGN  264 (305)
Q Consensus       254 ~~~~v~~~~~~  264 (305)
                      +.++|.++...
T Consensus       995 T~eHVrkAlee 1005 (1164)
T PTZ00112        995 VPRDITEATNQ 1005 (1164)
T ss_pred             CHHHHHHHHHH
Confidence            77777766643

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

Probab=99.85  E-value=5.4e-20  Score=146.20  Aligned_cols=205  Identities=21%  Similarity=0.237  Sum_probs=146.9

Q ss_pred             hhcCCCCccccccchHHHHHHHHH---Hh------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           45 EKYRPQSLADVAAHRDIVDTIDRL---TS------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        45 ~~~~p~~~~~~~g~~~~~~~l~~~---l~------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      +..+--.|++++||++.+...+-.   +.      .+.+.+++++||||+|||.+|++++++.     ...++.+.....
T Consensus       113 e~~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~-----kvp~l~vkat~l  187 (368)
T COG1223         113 EIISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA-----KVPLLLVKATEL  187 (368)
T ss_pred             hhhccccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc-----CCceEEechHHH
Confidence            344455789999999998855443   33      3456679999999999999999999987     566777666542


Q ss_pred             c------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH------------HHHHHHHHHHHHhc--CCceEE
Q 021937          116 R------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIEKYT--KNTRFA  175 (305)
Q Consensus       116 ~------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~------------~~~~~l~~~l~~~~--~~~~ii  175 (305)
                      .      +...+++....+.         +..++|+||||+|.+.-            +..++|+.-++...  ..++.|
T Consensus       188 iGehVGdgar~Ihely~rA~---------~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtI  258 (368)
T COG1223         188 IGEHVGDGARRIHELYERAR---------KAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTI  258 (368)
T ss_pred             HHHHhhhHHHHHHHHHHHHH---------hcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEE
Confidence            1      2223333333332         23379999999998742            34567777777544  346777


Q ss_pred             EEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHH-----H-HHHh
Q 021937          176 LICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNI-----L-QSTH  247 (305)
Q Consensus       176 l~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~-----l-~~~~  247 (305)
                      .+||++..+++++++|| ..+.|.-|+.+++.+++..++++..++++.+ ++.++..+.| +-|.+..-     | +..+
T Consensus       259 aaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~-~~~~~~~t~g~SgRdikekvlK~aLh~Ai~  337 (368)
T COG1223         259 AATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDAD-LRYLAAKTKGMSGRDIKEKVLKTALHRAIA  337 (368)
T ss_pred             eecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccccC-HHHHHHHhCCCCchhHHHHHHHHHHHHHHH
Confidence            78899999999999999 7799999999999999999999988887766 7788887765 33333322     2 2333


Q ss_pred             hccCccCHHHHHhhhCC
Q 021937          248 MASQQITEEAVYLCTGN  264 (305)
Q Consensus       248 ~~~~~i~~~~v~~~~~~  264 (305)
                      ...+.++.++++.++..
T Consensus       338 ed~e~v~~edie~al~k  354 (368)
T COG1223         338 EDREKVEREDIEKALKK  354 (368)
T ss_pred             hchhhhhHHHHHHHHHh
Confidence            34566888888777653

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.85  E-value=1.4e-19  Score=151.62  Aligned_cols=189  Identities=19%  Similarity=0.243  Sum_probs=132.3

Q ss_pred             ccccccchHHHHHHHHHHhc---------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCC--CcccEEEeecCC
Q 021937           52 LADVAAHRDIVDTIDRLTSE---------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ--YHNMILELNASD  114 (305)
Q Consensus        52 ~~~~~g~~~~~~~l~~~l~~---------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~--~~~~~~~~~~~~  114 (305)
                      +++++|.+.++++++.....               ....+++|+||||||||++|+.+++.+...+  ....++.+++++
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            56789998888877655321               1334699999999999999999999875433  122455554433


Q ss_pred             CcC--hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC--------HHHHHHHHHHHHHhcCCceEEEEecCC---
Q 021937          115 DRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--------KDAQFALRRVIEKYTKNTRFALICNQV---  181 (305)
Q Consensus       115 ~~~--~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~--------~~~~~~l~~~l~~~~~~~~iil~~~~~---  181 (305)
                      ..+  .......+.......        .++||||||+|.+.        .+.+..|++.+++...+..+++++...   
T Consensus        85 l~~~~~g~~~~~~~~~~~~a--------~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~  156 (261)
T TIGR02881        85 LVGEYIGHTAQKTREVIKKA--------LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMD  156 (261)
T ss_pred             hhhhhccchHHHHHHHHHhc--------cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhH
Confidence            111  001111112222111        14799999999976        345677888888776666666665322   


Q ss_pred             --cccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH----------cCCCHHHHHHHHHHHhh
Q 021937          182 --NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL----------CNGDMRKALNILQSTHM  248 (305)
Q Consensus       182 --~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~----------~~g~~r~~~~~l~~~~~  248 (305)
                        ..+.+.+.+|+ ..++|++++.+++.++++..+...+..++++++..+++.          +.||.|.+.+.++.+..
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              23578999999 679999999999999999999988888999998888653          25999999999987654

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=99.85  E-value=2.3e-19  Score=147.49  Aligned_cols=208  Identities=17%  Similarity=0.220  Sum_probs=142.8

Q ss_pred             cchhhhcCCC-Ccccccc--chHHHHHHHHHHhc---CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           41 SPWVEKYRPQ-SLADVAA--HRDIVDTIDRLTSE---NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        41 ~~~~~~~~p~-~~~~~~g--~~~~~~~l~~~l~~---~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      .++.-.+.|. +|++|+.  +...++.+.++...   +..+.++|+||+|+|||+|++++++++...+...  ++++...
T Consensus         6 l~l~~~~~~~~tfdnF~~~~~~~a~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v--~y~~~~~   83 (234)
T PRK05642          6 LPLGVRLRDDATFANYYPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPA--VYLPLAE   83 (234)
T ss_pred             cccCCCCCCcccccccCcCChHHHHHHHHHHhhccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcE--EEeeHHH
Confidence            3343344443 6777763  33333444444332   2234589999999999999999999876554433  3333322


Q ss_pred             CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC--HHHHHHHHHHHHHhcC-CceEEEEecCC----cccchh
Q 021937          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK-NTRFALICNQV----NKIIPA  187 (305)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~--~~~~~~l~~~l~~~~~-~~~iil~~~~~----~~l~~~  187 (305)
                      ...  .....+..+.           ...+++|||++.+.  +..+..|+.+++.... +..++++++..    ....++
T Consensus        84 ~~~--~~~~~~~~~~-----------~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~  150 (234)
T PRK05642         84 LLD--RGPELLDNLE-----------QYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPD  150 (234)
T ss_pred             HHh--hhHHHHHhhh-----------hCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCcc
Confidence            110  0111111111           13689999999885  3446779999986554 45566666532    234689


Q ss_pred             hhcce---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh---c-cCccCHHHHHh
Q 021937          188 LQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM---A-SQQITEEAVYL  260 (305)
Q Consensus       188 l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~---~-~~~i~~~~v~~  260 (305)
                      +++|+   ..+.+++|+.++..++++..+...++.++++++++|++.++||+|.+.+.++.+..   . ...||...+++
T Consensus       151 L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~~~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~~~~~  230 (234)
T PRK05642        151 LKSRLTLALVFQMRGLSDEDKLRALQLRASRRGLHLTDEVGHFILTRGTRSMSALFDLLERLDQASLQAQRKLTIPFLKE  230 (234)
T ss_pred             HHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHcCCcCCHHHHHH
Confidence            99998   78999999999999999988888899999999999999999999999999876643   2 35699988888


Q ss_pred             hhC
Q 021937          261 CTG  263 (305)
Q Consensus       261 ~~~  263 (305)
                      +++
T Consensus       231 ~L~  233 (234)
T PRK05642        231 TLG  233 (234)
T ss_pred             Hhc
Confidence            764

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.84  E-value=1.4e-19  Score=148.95  Aligned_cols=198  Identities=18%  Similarity=0.270  Sum_probs=143.8

Q ss_pred             CCccccc--cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH
Q 021937           50 QSLADVA--AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (305)
Q Consensus        50 ~~~~~~~--g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (305)
                      .+|++++  ++...++.+.+++......+++|+||+|||||++++.+++.....+.  .++.+++.....  .....+..
T Consensus        12 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~--~~~~i~~~~~~~--~~~~~~~~   87 (226)
T TIGR03420        12 PTFDNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGK--SAIYLPLAELAQ--ADPEVLEG   87 (226)
T ss_pred             hhhcCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCC--cEEEEeHHHHHH--hHHHHHhh
Confidence            4566666  36778899999887776777999999999999999999998765433  344454433211  11111111


Q ss_pred             hhhcccccCCCCCceEEEEEeCCCcCCHHH--HHHHHHHHHHhc-CCceEEEEecCCc-c--c-chhhhcce---eEEEe
Q 021937          128 FASTQSFSFGVKASVKLVLLDEADAMTKDA--QFALRRVIEKYT-KNTRFALICNQVN-K--I-IPALQSRC---TRFRF  197 (305)
Q Consensus       128 ~~~~~~~~~~~~~~~~vliiDe~~~l~~~~--~~~l~~~l~~~~-~~~~iil~~~~~~-~--l-~~~l~~r~---~~i~~  197 (305)
                      .           .+..+|+|||+|.+....  ++.|+.+++... .+..+|++++... .  . .+.+.+|+   ..+.+
T Consensus        88 ~-----------~~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l  156 (226)
T TIGR03420        88 L-----------EQADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQL  156 (226)
T ss_pred             c-----------ccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEec
Confidence            1           114699999999998643  778888887643 2346666665332 2  2 26677775   57999


Q ss_pred             cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh----ccCccCHHHHHhhh
Q 021937          198 APLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCT  262 (305)
Q Consensus       198 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~  262 (305)
                      ++++.++...+++..+.+.++.+++++++.|++.++||+|.+.+.++.+..    ..+.|+.+.+++++
T Consensus       157 ~~l~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~~~i~~~~~~~~~  225 (226)
T TIGR03420       157 PPLSDEEKIAALQSRAARRGLQLPDEVADYLLRHGSRDMGSLMALLDALDRASLAAKRKITIPFVKEVL  225 (226)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHh
Confidence            999999999999998888899999999999999999999999999865543    33568888888765

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=99.84  E-value=7e-19  Score=155.07  Aligned_cols=222  Identities=18%  Similarity=0.251  Sum_probs=149.7

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHh----cCCCCeEEEECCCCCcHHHHHHHHHHHHhCC----CCcccEEEeec
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTS----ENRLPHLLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNA  112 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~----~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~----~~~~~~~~~~~  112 (305)
                      ..+...|.|.   +++|++..++.|...+.    +..++.++|+||||+|||++++.+++.+...    +....++.+++
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            3455667775   57899999988888875    3445569999999999999999999987432    22256788888


Q ss_pred             CCCcChhHHHH-HHHHhh--hcccccC---------------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHH-----hc
Q 021937          113 SDDRGIDVVRQ-QIQDFA--STQSFSF---------------GVKASVKLVLLDEADAMTKDAQFALRRVIEK-----YT  169 (305)
Q Consensus       113 ~~~~~~~~~~~-~i~~~~--~~~~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~-----~~  169 (305)
                      ........+.. ....+.  .......               ....++.||+|||+|.+.......|+.+++.     .+
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            76544333322 222221  1000000               0123467999999999964333444444432     12


Q ss_pred             -CCceEEEEecCCc---ccchhhhcce--eEEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHH---HHcCCCHHH
Q 021937          170 -KNTRFALICNQVN---KIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALV---RLCNGDMRK  238 (305)
Q Consensus       170 -~~~~iil~~~~~~---~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~l~---~~~~g~~r~  238 (305)
                       .++.+|++++...   .+.+.+.+|+  ..+.|+|++.+++.+++..++..  .+..+++++++.++   ..+.||+|.
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             3456777777654   4667777776  56999999999999999998863  23347787766654   455799999


Q ss_pred             HHHHHHHHhhc-----cCccCHHHHHhhhCCC
Q 021937          239 ALNILQSTHMA-----SQQITEEAVYLCTGNP  265 (305)
Q Consensus       239 ~~~~l~~~~~~-----~~~i~~~~v~~~~~~~  265 (305)
                      +++.|+.++..     ...|+.++|+++....
T Consensus       243 al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~  274 (365)
T TIGR02928       243 AIDLLRVAGEIAEREGAERVTEDHVEKAQEKI  274 (365)
T ss_pred             HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            99999876642     2469999998877654

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.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.84  E-value=2.1e-18  Score=147.59  Aligned_cols=169  Identities=25%  Similarity=0.375  Sum_probs=128.2

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCc--------------------ccEEEeecC-----
Q 021937           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYH--------------------NMILELNAS-----  113 (305)
Q Consensus        60 ~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~--------------------~~~~~~~~~-----  113 (305)
                      ...+++...  .++.+| ++|+||+|+||+++|+.+++.+.|....                    ..+..+...     
T Consensus         8 ~~~~~l~~~--~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~   85 (342)
T PRK06964          8 DDWNRLQAL--RARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAE   85 (342)
T ss_pred             HHHHHHHHh--cCCcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEeccccccc
Confidence            455555554  345566 8999999999999999999999885311                    122223211     


Q ss_pred             ------------------------CCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc
Q 021937          114 ------------------------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT  169 (305)
Q Consensus       114 ------------------------~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~  169 (305)
                                              ....++.+++....... .+    ..++.+|+|||++|.+.....++|++.+|+++
T Consensus        86 ~~~~~~~~~~~~~~~~~~k~~~~~~~I~idqiR~l~~~~~~-~~----~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp  160 (342)
T PRK06964         86 APGAADEAKEADADEGGKKTKAPSKEIKIEQVRALLDFCGV-GT----HRGGARVVVLYPAEALNVAAANALLKTLEEPP  160 (342)
T ss_pred             ccccccccccchhhcccccccccccccCHHHHHHHHHHhcc-CC----ccCCceEEEEechhhcCHHHHHHHHHHhcCCC
Confidence                                    11234566655544322 22    33447999999999999999999999999999


Q ss_pred             CCceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 021937          170 KNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (305)
Q Consensus       170 ~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  243 (305)
                      +++.||+++++.+.++++++|||+.+.|++|+.+++.+++...    +  +++.  +.++..++|++..++..+
T Consensus       161 ~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~----~--~~~~--~~~l~~~~Gsp~~Al~~~  226 (342)
T PRK06964        161 PGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ----G--VADA--DALLAEAGGAPLAALALA  226 (342)
T ss_pred             cCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc----C--CChH--HHHHHHcCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999764    3  3332  345778899999998876

>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=1.8e-19  Score=139.42  Aligned_cols=140  Identities=36%  Similarity=0.611  Sum_probs=107.5

Q ss_pred             cchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC------------------cccEEEeecCCC--
Q 021937           57 AHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY------------------HNMILELNASDD--  115 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~------------------~~~~~~~~~~~~--  115 (305)
                      ||++.++.|.+.+..++.+| ++|+||+|+||+++|..+++.+.+...                  ...+..+.....  
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 799999999999999999999977542                  335666655543  


Q ss_pred             -cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeE
Q 021937          116 -RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (305)
Q Consensus       116 -~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~  194 (305)
                       ...+.++........ .+    ...+++|++|||+|.+..+.+++|++.||+++.++.||++++....+.+++++||+.
T Consensus        81 ~i~i~~ir~i~~~~~~-~~----~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~  155 (162)
T PF13177_consen   81 SIKIDQIREIIEFLSL-SP----SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQV  155 (162)
T ss_dssp             SBSHHHHHHHHHHCTS-S-----TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEE
T ss_pred             hhhHHHHHHHHHHHHH-HH----hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceE
Confidence             456677755544432 22    223489999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCC
Q 021937          195 FRFAPLE  201 (305)
Q Consensus       195 i~~~~~~  201 (305)
                      +.|++++
T Consensus       156 i~~~~ls  162 (162)
T PF13177_consen  156 IRFRPLS  162 (162)
T ss_dssp             EEE----
T ss_pred             EecCCCC
Confidence            9998864

...

>PRK06620 hypothetical protein; Validated

Probab=99.83  E-value=5.3e-19  Score=142.87  Aligned_cols=190  Identities=14%  Similarity=0.165  Sum_probs=129.9

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHhcCC--C--CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENR--L--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~--~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      +..+|...+|-.--.+......+..+...+.  +  +.++||||+|+||||+++++++..     ...++.  ... . .
T Consensus         9 ~~~~~tfd~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~-----~~~~~~--~~~-~-~   79 (214)
T PRK06620          9 TSSKYHPDEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLS-----NAYIIK--DIF-F-N   79 (214)
T ss_pred             CCCCCCchhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhcc-----CCEEcc--hhh-h-c
Confidence            3344444444222225566777777776422  2  459999999999999999987764     111111  000 0 0


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCC-ceEEEEecCCc---ccchhhhccee-
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKN-TRFALICNQVN---KIIPALQSRCT-  193 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~-~~iil~~~~~~---~l~~~l~~r~~-  193 (305)
                      .       ....          ...+++|||+|.+..   ..|+.+++..... ..++++++...   .+ +++++|+. 
T Consensus        80 ~-------~~~~----------~~d~lliDdi~~~~~---~~lf~l~N~~~e~g~~ilits~~~p~~l~l-~~L~SRl~~  138 (214)
T PRK06620         80 E-------EILE----------KYNAFIIEDIENWQE---PALLHIFNIINEKQKYLLLTSSDKSRNFTL-PDLSSRIKS  138 (214)
T ss_pred             h-------hHHh----------cCCEEEEeccccchH---HHHHHHHHHHHhcCCEEEEEcCCCccccch-HHHHHHHhC
Confidence            0       0000          147899999997743   3555665544323 34555554322   24 88999985 


Q ss_pred             --EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh----ccCccCHHHHHhhh
Q 021937          194 --RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCT  262 (305)
Q Consensus       194 --~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~  262 (305)
                        ++.+++|+.+++..++++.+...++.++++++++|++.++||+|.+.+.++.+..    ....||.+.+++++
T Consensus       139 gl~~~l~~pd~~~~~~~l~k~~~~~~l~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~~~~~l  213 (214)
T PRK06620        139 VLSILLNSPDDELIKILIFKHFSISSVTISRQIIDFLLVNLPREYSKIIEILENINYFALISKRKITISLVKEVL  213 (214)
T ss_pred             CceEeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHh
Confidence              8999999999999999999988899999999999999999999999999987643    23458888888765

>PRK09087 hypothetical protein; Validated

Probab=99.82  E-value=5.2e-19  Score=144.15  Aligned_cols=198  Identities=19%  Similarity=0.210  Sum_probs=139.2

Q ss_pred             cchhhhcCCC-Ccccccc---chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           41 SPWVEKYRPQ-SLADVAA---HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        41 ~~~~~~~~p~-~~~~~~g---~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      .++.-.+.|. +|++|+.   +......+.++. +...+.++|+||+|+|||||++++++..     ...++...  . .
T Consensus         8 l~l~~~~~~~~~~~~Fi~~~~N~~a~~~l~~~~-~~~~~~l~l~G~~GsGKThLl~~~~~~~-----~~~~i~~~--~-~   78 (226)
T PRK09087          8 LPLNFSHDPAYGRDDLLVTESNRAAVSLVDHWP-NWPSPVVVLAGPVGSGKTHLASIWREKS-----DALLIHPN--E-I   78 (226)
T ss_pred             eeeCCCCCCCCChhceeecCchHHHHHHHHhcc-cCCCCeEEEECCCCCCHHHHHHHHHHhc-----CCEEecHH--H-c
Confidence            3333333333 6788875   455556555544 3334559999999999999999998764     22222221  1 1


Q ss_pred             ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhhcc
Q 021937          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSR  191 (305)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~----~l~~~l~~r  191 (305)
                      ..+.    +... .           ..+|+|||++.+. ..+..|+.+++.... ...++++++...    ...+++++|
T Consensus        79 ~~~~----~~~~-~-----------~~~l~iDDi~~~~-~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SR  141 (226)
T PRK09087         79 GSDA----ANAA-A-----------EGPVLIEDIDAGG-FDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSR  141 (226)
T ss_pred             chHH----HHhh-h-----------cCeEEEECCCCCC-CCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHH
Confidence            1111    1111 0           2589999999875 345678888886554 455666665332    246889999


Q ss_pred             e---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHh---hc-cCccCHHHHHhhhCC
Q 021937          192 C---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH---MA-SQQITEEAVYLCTGN  264 (305)
Q Consensus       192 ~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~---~~-~~~i~~~~v~~~~~~  264 (305)
                      +   ..+.+++|+.+++.+++++.+...++.++++++++|++.+.|+++.+...+..+.   .. ...+|...+++++..
T Consensus       142 l~~gl~~~l~~pd~e~~~~iL~~~~~~~~~~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~it~~~~~~~l~~  221 (226)
T PRK09087        142 LKAATVVEIGEPDDALLSQVIFKLFADRQLYVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSRITRALAAEVLNE  221 (226)
T ss_pred             HhCCceeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHh
Confidence            7   8899999999999999999999999999999999999999999999998665443   22 456999999888864

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.82  E-value=1.9e-18  Score=153.78  Aligned_cols=220  Identities=23%  Similarity=0.323  Sum_probs=150.1

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHh----cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTS----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~----~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      +...|.|   +.++|++..++.|...+.    +..+++++|+||||+|||++++.+++.+........++.+++......
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            3344444   567899999988888764    334566999999999999999999998865544567888887754443


Q ss_pred             hHHH-HHHHHhhhcc-cccC--------------CCCCceEEEEEeCCCcCC----HHHHHHHHHHHHHhcC-CceEEEE
Q 021937          119 DVVR-QQIQDFASTQ-SFSF--------------GVKASVKLVLLDEADAMT----KDAQFALRRVIEKYTK-NTRFALI  177 (305)
Q Consensus       119 ~~~~-~~i~~~~~~~-~~~~--------------~~~~~~~vliiDe~~~l~----~~~~~~l~~~l~~~~~-~~~iil~  177 (305)
                      ..+. ..+..+.... +...              ....++.||+|||+|.+.    .+....|+++.+..+. +..+|++
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            3222 2222221100 0000              012346799999999986    2233444444444332 4557777


Q ss_pred             ecCCc---ccchhhhcce--eEEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHc---CCCHHHHHHHHHHHh
Q 021937          178 CNQVN---KIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLC---NGDMRKALNILQSTH  247 (305)
Q Consensus       178 ~~~~~---~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~l~~~~---~g~~r~~~~~l~~~~  247 (305)
                      ++...   .+.+.+.+|+  ..+.|+|++.+++.+++..++...  ...+++++++.+++.+   .||+|.+++.|..++
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            76543   3556666665  578999999999999999988643  2358899999998888   899999999997655


Q ss_pred             hc-----cCccCHHHHHhhhCCC
Q 021937          248 MA-----SQQITEEAVYLCTGNP  265 (305)
Q Consensus       248 ~~-----~~~i~~~~v~~~~~~~  265 (305)
                      ..     ...|+.+++.++....
T Consensus       260 ~~a~~~~~~~I~~~~v~~a~~~~  282 (394)
T PRK00411        260 LIAEREGSRKVTEEDVRKAYEKS  282 (394)
T ss_pred             HHHHHcCCCCcCHHHHHHHHHHH
Confidence            32     2469999998777654

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.81  E-value=4.1e-18  Score=157.68  Aligned_cols=226  Identities=22%  Similarity=0.289  Sum_probs=162.2

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCCC
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD  115 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~  115 (305)
                      .+..+.++|.+|++++|++..++.+...+......+++|+||+||||||+|+.+.+......     ....++.+++...
T Consensus       142 ~~~~~~~rp~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l  221 (615)
T TIGR02903       142 KSAQSLLRPRAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTL  221 (615)
T ss_pred             hHHhhhcCcCcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhc
Confidence            45677899999999999999999998888777777899999999999999999988763211     1345777776543


Q ss_pred             cC-hhHHHH------------HHHHhhhccc-----ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc--------
Q 021937          116 RG-IDVVRQ------------QIQDFASTQS-----FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT--------  169 (305)
Q Consensus       116 ~~-~~~~~~------------~i~~~~~~~~-----~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~--------  169 (305)
                      .. ...+..            ..........     ........+++|||||++.++...+..|++.+++..        
T Consensus       222 ~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~  301 (615)
T TIGR02903       222 RWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYY  301 (615)
T ss_pred             cCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeeccee
Confidence            21 111100            0000000000     000112346799999999999999999999998531        


Q ss_pred             ------------------CCceEEEE--e-cCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 021937          170 ------------------KNTRFALI--C-NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAAL  228 (305)
Q Consensus       170 ------------------~~~~iil~--~-~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l  228 (305)
                                        ....++++  + +....+.+.+++||..+.|++++.+++..++...+.+.+..+++++++.|
T Consensus       302 ~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~ls~eal~~L  381 (615)
T TIGR02903       302 DPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHLAAGVEELI  381 (615)
T ss_pred             ccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence                              11223333  3 44567889999999999999999999999999999988888999999999


Q ss_pred             HHHcCCCHHHHHHHHHHHhhc----------c---CccCHHHHHhhhCCCCh
Q 021937          229 VRLCNGDMRKALNILQSTHMA----------S---QQITEEAVYLCTGNPLP  267 (305)
Q Consensus       229 ~~~~~g~~r~~~~~l~~~~~~----------~---~~i~~~~v~~~~~~~~~  267 (305)
                      ++++. +.|++++.|+.+...          .   ..|+.++++++++....
T Consensus       382 ~~ys~-~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~~r~  432 (615)
T TIGR02903       382 ARYTI-EGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQISRL  432 (615)
T ss_pred             HHCCC-cHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCCCcC
Confidence            88764 779999988655322          1   14888999988877643

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.

>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=99.81  E-value=1.7e-18  Score=140.59  Aligned_cols=189  Identities=18%  Similarity=0.303  Sum_probs=127.5

Q ss_pred             Cccccc-c--chHHHHHHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHH
Q 021937           51 SLADVA-A--HRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (305)
Q Consensus        51 ~~~~~~-g--~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (305)
                      +|++|+ |  +................  +.++||||+|+|||+|++++++++........+++++....  ...+...+
T Consensus         6 tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f--~~~~~~~~   83 (219)
T PF00308_consen    6 TFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEF--IREFADAL   83 (219)
T ss_dssp             SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHH--HHHHHHHH
T ss_pred             ccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHH--HHHHHHHH
Confidence            567775 4  45555666666555332  34899999999999999999999865444445555543321  11111111


Q ss_pred             H-----HhhhcccccCCCCCceEEEEEeCCCcCCHHH--HHHHHHHHHHhc-CCceEEEEecCC----cccchhhhcce-
Q 021937          126 Q-----DFASTQSFSFGVKASVKLVLLDEADAMTKDA--QFALRRVIEKYT-KNTRFALICNQV----NKIIPALQSRC-  192 (305)
Q Consensus       126 ~-----~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~--~~~l~~~l~~~~-~~~~iil~~~~~----~~l~~~l~~r~-  192 (305)
                      .     .+...  +     ....+++|||+|.+....  +..|+.+++... .+..+|++++..    ..+.+.+.+|+ 
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     00000  0     125899999999998654  788999998654 345677777433    24577888985 


Q ss_pred             --eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh
Q 021937          193 --TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM  248 (305)
Q Consensus       193 --~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  248 (305)
                        ..+.+.+|+.++..+++++.+...|+.+++++++.|++...+|+|.+...|..+..
T Consensus       157 ~Gl~~~l~~pd~~~r~~il~~~a~~~~~~l~~~v~~~l~~~~~~~~r~L~~~l~~l~~  214 (219)
T PF00308_consen  157 WGLVVELQPPDDEDRRRILQKKAKERGIELPEEVIEYLARRFRRDVRELEGALNRLDA  214 (219)
T ss_dssp             CSEEEEE----HHHHHHHHHHHHHHTT--S-HHHHHHHHHHTTSSHHHHHHHHHHHHH
T ss_pred             hcchhhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhcCCHHHHHHHHHHHHH
Confidence              67999999999999999999999999999999999999999999999999987764

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=99.81  E-value=3e-18  Score=154.25  Aligned_cols=206  Identities=25%  Similarity=0.435  Sum_probs=137.4

Q ss_pred             CCCcchhhhcCCCCccccccchHHHHHHHHHHhcCC-----CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~-----~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      ....+|.++|+|++.++++.++..+++++.|+....     ...++|+||+||||||+++.+++++.     ..+.+...
T Consensus         4 ~~~~~W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg-----~~v~Ew~n   78 (519)
T PF03215_consen    4 DESEPWVEKYAPKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG-----FEVQEWIN   78 (519)
T ss_pred             cccCccchhcCCCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC-----CeeEEecC
Confidence            356889999999999999999999999999998531     23489999999999999999999983     22222211


Q ss_pred             CCC-----------c----ChhHHH---HHHHHh-hhcccc------cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHH
Q 021937          113 SDD-----------R----GIDVVR---QQIQDF-ASTQSF------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEK  167 (305)
Q Consensus       113 ~~~-----------~----~~~~~~---~~i~~~-~~~~~~------~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~  167 (305)
                      +..           .    ..+...   ..+..+ .....+      ......++.||+|||+..........|..++..
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            110           0    000001   112222 111111      112235688999999988765444666666654


Q ss_pred             h---cCC-ceEEEEec--C------Cc--------ccchhhhcc--eeEEEecCCCHHHHHHHHHHHHHHc-----CC-C
Q 021937          168 Y---TKN-TRFALICN--Q------VN--------KIIPALQSR--CTRFRFAPLEPVHVTERLKHVIEAE-----GL-D  219 (305)
Q Consensus       168 ~---~~~-~~iil~~~--~------~~--------~l~~~l~~r--~~~i~~~~~~~~~~~~~l~~~~~~~-----~~-~  219 (305)
                      .   ... ..|++++.  .      ..        -+.+.+...  +..+.|.|.+..-+.+.|.+++..+     +. .
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   112 33333331  1      00        234555554  5789999999999999999999877     22 2


Q ss_pred             CC--HHHHHHHHHHcCCCHHHHHHHHHHHhh
Q 021937          220 VT--EGGLAALVRLCNGDMRKALNILQSTHM  248 (305)
Q Consensus       220 ~~--~~~~~~l~~~~~g~~r~~~~~l~~~~~  248 (305)
                      .+  .++++.|++.++||+|.|++.||.++.
T Consensus       239 ~p~~~~~l~~I~~~s~GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  239 VPDKQSVLDSIAESSNGDIRSAINNLQFWCL  269 (519)
T ss_pred             CCChHHHHHHHHHhcCchHHHHHHHHHHHhc
Confidence            33  356899999999999999999999998

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.80  E-value=6.6e-18  Score=150.88  Aligned_cols=213  Identities=13%  Similarity=0.185  Sum_probs=145.7

Q ss_pred             CCCccccccch---HHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHH
Q 021937           49 PQSLADVAAHR---DIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (305)
Q Consensus        49 p~~~~~~~g~~---~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (305)
                      +.+|++|+..+   .....+..+....  ..+.++|+|++|+|||+|++++++.+........++++++...  ...+..
T Consensus       111 ~~tFdnFv~g~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f--~~~~~~  188 (450)
T PRK14087        111 ENTFENFVIGSSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEF--ARKAVD  188 (450)
T ss_pred             ccchhcccCCCcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHH--HHHHHH
Confidence            45788777432   2344555555432  2345999999999999999999998764333445555554321  111111


Q ss_pred             HHHHhhhcc-cccCCCCCceEEEEEeCCCcCC--HHHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhhcce---
Q 021937          124 QIQDFASTQ-SFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSRC---  192 (305)
Q Consensus       124 ~i~~~~~~~-~~~~~~~~~~~vliiDe~~~l~--~~~~~~l~~~l~~~~~-~~~iil~~~~~~----~l~~~l~~r~---  192 (305)
                      .+....... .+.. .-....+|+|||++.+.  ...++.|+.+++.... +..+|++++...    .+.+++.+|+   
T Consensus       189 ~l~~~~~~~~~~~~-~~~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~G  267 (450)
T PRK14087        189 ILQKTHKEIEQFKN-EICQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMG  267 (450)
T ss_pred             HHHHhhhHHHHHHH-HhccCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCC
Confidence            111100000 0000 00125799999999987  5567889998886543 346777776543    3567888886   


Q ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHHHhh---cc---CccCHHHHHhhhCC
Q 021937          193 TRFRFAPLEPVHVTERLKHVIEAEGL--DVTEGGLAALVRLCNGDMRKALNILQSTHM---AS---QQITEEAVYLCTGN  264 (305)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~---~~---~~i~~~~v~~~~~~  264 (305)
                      ..+.+++|+.+++.+++++.+...|.  .+++++++.|++.++||+|.+.+.|..+..   ..   ..||.+.+++++..
T Consensus       268 l~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~  347 (450)
T PRK14087        268 LSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRD  347 (450)
T ss_pred             ceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhh
Confidence            57899999999999999999988775  699999999999999999999999976643   22   46999999888764

>CHL00181 cbbX CbbX; Provisional

Probab=99.80  E-value=7.7e-18  Score=141.99  Aligned_cols=188  Identities=22%  Similarity=0.300  Sum_probs=130.8

Q ss_pred             cccccchHHHHHHHHHHh---------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCc--ccEEEeecCCC
Q 021937           53 ADVAAHRDIVDTIDRLTS---------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILELNASDD  115 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~---------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~--~~~~~~~~~~~  115 (305)
                      .+++|.+.+++++.++..               .....+++|+||||||||++|+++++.+...+..  ..++.++....
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            468999888887766532               0123458999999999999999999987543321  23555553321


Q ss_pred             cC--hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcC---------CHHHHHHHHHHHHHhcCCceEEEEecCC--c
Q 021937          116 RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM---------TKDAQFALRRVIEKYTKNTRFALICNQV--N  182 (305)
Q Consensus       116 ~~--~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l---------~~~~~~~l~~~l~~~~~~~~iil~~~~~--~  182 (305)
                      ..  ..............        ..++||||||++.+         ..+.+..|+.++++...++++|+++...  .
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            00  00000001111111        12579999999987         3556788999998877677777766432  1


Q ss_pred             ---ccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------cCCCHHHHHHHHHHHhh
Q 021937          183 ---KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL--------CNGDMRKALNILQSTHM  248 (305)
Q Consensus       183 ---~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~--------~~g~~r~~~~~l~~~~~  248 (305)
                         ...|.+.+|+ ..+.|++++.+++.+++...+.+.+..++++....+..+        ..||.|.+.+.++.+..
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               2358899998 679999999999999999999999988988877666664        23899999999987765

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.79  E-value=7.7e-18  Score=142.13  Aligned_cols=184  Identities=16%  Similarity=0.222  Sum_probs=132.8

Q ss_pred             cccccchHHHHHHHHHHhc----------C-----CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCc--ccEEEeecCCC
Q 021937           53 ADVAAHRDIVDTIDRLTSE----------N-----RLPHLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILELNASDD  115 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~----------~-----~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~--~~~~~~~~~~~  115 (305)
                      ++++|.+..++++..+...          +     ...+++|+||||||||++|+++++.+...+..  ..++.+++...
T Consensus        22 ~~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l  101 (284)
T TIGR02880        22 RELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDL  101 (284)
T ss_pred             HhccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHH
Confidence            3689988888877665320          1     22369999999999999999999988654432  24666554321


Q ss_pred             c------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcC---------CHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          116 R------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM---------TKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       116 ~------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l---------~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      .      ........+..            ..+++|||||++.+         ..+.++.|++.++....+.++|+++..
T Consensus       102 ~~~~~g~~~~~~~~~~~~------------a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~  169 (284)
T TIGR02880       102 VGQYIGHTAPKTKEILKR------------AMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYK  169 (284)
T ss_pred             hHhhcccchHHHHHHHHH------------ccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCc
Confidence            0      01111111111            12589999999977         245678899999877667777766543


Q ss_pred             C--c---ccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------cCCCHHHHHHHHHHH
Q 021937          181 V--N---KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL--------CNGDMRKALNILQST  246 (305)
Q Consensus       181 ~--~---~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~--------~~g~~r~~~~~l~~~  246 (305)
                      .  .   .+.+.+.+|+ ..++|++++.+++..++...+.+.+..+++++.+.+.++        ..||.|.+.+.++.+
T Consensus       170 ~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~ve~~  249 (284)
T TIGR02880       170 DRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANARSIRNAIDRA  249 (284)
T ss_pred             HHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHH
Confidence            2  1   2468999998 679999999999999999999998888999988888775        359999999999877


Q ss_pred             hh
Q 021937          247 HM  248 (305)
Q Consensus       247 ~~  248 (305)
                      ..
T Consensus       250 ~~  251 (284)
T TIGR02880       250 RL  251 (284)
T ss_pred             HH
Confidence            65

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.

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

Probab=99.79  E-value=2.4e-17  Score=142.83  Aligned_cols=218  Identities=21%  Similarity=0.317  Sum_probs=157.1

Q ss_pred             hhcCCCCccccccchHHHHHHHHHH----hcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhH
Q 021937           45 EKYRPQSLADVAAHRDIVDTIDRLT----SENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (305)
Q Consensus        45 ~~~~p~~~~~~~g~~~~~~~l~~~l----~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (305)
                      ..|.|..   +.+++..++++...+    .++.+.+++++|+||||||++++.+.+++........++++||....+...
T Consensus        12 ~~~iP~~---l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~   88 (366)
T COG1474          12 EDYIPEE---LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQ   88 (366)
T ss_pred             CCCCccc---ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHH
Confidence            4455544   778888888776554    456666699999999999999999999997766555689999988766655


Q ss_pred             HHHHHHHhhhcccccCC--------------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCC---ceEEEEecCC--
Q 021937          121 VRQQIQDFASTQSFSFG--------------VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKN---TRFALICNQV--  181 (305)
Q Consensus       121 ~~~~i~~~~~~~~~~~~--------------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~---~~iil~~~~~--  181 (305)
                      +...+-......+..+.              ......||++||+|.+.......|+.++......   +.++.++|..  
T Consensus        89 i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~  168 (366)
T COG1474          89 VLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKF  168 (366)
T ss_pred             HHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHH
Confidence            54444443322221110              2245679999999999877667788887754332   3455555554  


Q ss_pred             -cccchhhhcce--eEEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHhhcc---
Q 021937          182 -NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVR---LCNGDMRKALNILQSTHMAS---  250 (305)
Q Consensus       182 -~~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~l~~---~~~g~~r~~~~~l~~~~~~~---  250 (305)
                       ..+++.+.+++  ..+.|+|++.+|+.+++..++...  ...+++++++.++.   ..+||.|.++..|..++..+   
T Consensus       169 ~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~  248 (366)
T COG1474         169 LDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAERE  248 (366)
T ss_pred             HHHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhh
Confidence             35677888876  458899999999999999998743  33578888777664   44789999999998888644   


Q ss_pred             --CccCHHHHHhhhCCC
Q 021937          251 --QQITEEAVYLCTGNP  265 (305)
Q Consensus       251 --~~i~~~~v~~~~~~~  265 (305)
                        ..++.+.++++....
T Consensus       249 ~~~~v~~~~v~~a~~~~  265 (366)
T COG1474         249 GSRKVSEDHVREAQEEI  265 (366)
T ss_pred             CCCCcCHHHHHHHHHHh
Confidence              468999988884433

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

Probab=99.79  E-value=9e-18  Score=147.86  Aligned_cols=178  Identities=22%  Similarity=0.270  Sum_probs=138.4

Q ss_pred             CccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC----
Q 021937           51 SLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD----  114 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~----  114 (305)
                      +|.++-|.+..+.+|...+..            .++..++|+||||||||.+|++++.++     ...++.++++.    
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            589999999999988877642            123349999999999999999999998     67777777654    


Q ss_pred             --CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH-----------HHHHHHHHHHHhc------CCceEE
Q 021937          115 --DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKYT------KNTRFA  175 (305)
Q Consensus       115 --~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-----------~~~~l~~~l~~~~------~~~~ii  175 (305)
                        +...+.+++.+.++.+..         ++|+||||+|.+.+.           ....|+..+++..      ..+.+|
T Consensus       263 vSGESEkkiRelF~~A~~~a---------PcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVI  333 (802)
T KOG0733|consen  263 VSGESEKKIRELFDQAKSNA---------PCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVI  333 (802)
T ss_pred             cCcccHHHHHHHHHHHhccC---------CeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEE
Confidence              345667788777776654         699999999999742           2356888888653      335667


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 021937          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (305)
Q Consensus       176 l~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  243 (305)
                      .+||+++.++++|++  || +.+.+.-|+.....++++..++...+.- +-.+..|++.++|-+..-++.|
T Consensus       334 gATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g-~~d~~qlA~lTPGfVGADL~AL  403 (802)
T KOG0733|consen  334 GATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSG-DFDFKQLAKLTPGFVGADLMAL  403 (802)
T ss_pred             ecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCC-CcCHHHHHhcCCCccchhHHHH
Confidence            778999999999987  45 6699999999999999999998665543 2336789999998777666555

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

Probab=99.79  E-value=9e-18  Score=149.43  Aligned_cols=187  Identities=20%  Similarity=0.245  Sum_probs=138.5

Q ss_pred             cCCCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      ....+|+++-|.++.+..|...+.-             ..+..+++|||||||||++|++++++.     ...|+.+.++
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            3455899999999999999877641             344559999999999999999999998     6677777665


Q ss_pred             C------CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH-----------HHHHHHHHHHHhc--CCceE
Q 021937          114 D------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKYT--KNTRF  174 (305)
Q Consensus       114 ~------~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-----------~~~~l~~~l~~~~--~~~~i  174 (305)
                      .      +.+...+++.+..+...         .++|||+||+|.+...           ..+.|+.-++...  +++.+
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            4      23344455555554333         2699999999998543           2445566665433  45667


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC-CHHHHHHHHHHHhhc
Q 021937          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNG-DMRKALNILQSTHMA  249 (305)
Q Consensus       175 il~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g-~~r~~~~~l~~~~~~  249 (305)
                      +.+||+++.+++++.+  |+ +.+++++|+.+...++++..+++..  ++++ .++.|++.+.| +-..+.++||.++..
T Consensus       574 iAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp--~~~~vdl~~La~~T~g~SGAel~~lCq~A~~~  651 (693)
T KOG0730|consen  574 IAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMP--FSEDVDLEELAQATEGYSGAEIVAVCQEAALL  651 (693)
T ss_pred             EeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCC--CCccccHHHHHHHhccCChHHHHHHHHHHHHH
Confidence            7778999999999999  76 7899999999999999999887655  4444 57888887765 455666777776653

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=99.79  E-value=8.9e-17  Score=133.68  Aligned_cols=158  Identities=18%  Similarity=0.251  Sum_probs=126.2

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC-----------CcccEEEeecCC---CcChhHHHHH
Q 021937           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------YHNMILELNASD---DRGIDVVRQQ  124 (305)
Q Consensus        60 ~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-----------~~~~~~~~~~~~---~~~~~~~~~~  124 (305)
                      ...+.|.+.+..++.+| ++|+||+|+||+++|..+++.+.|..           ....+..+.+..   ...++.+++.
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            45678889999998888 78999999999999999999998843           122333333222   1356677666


Q ss_pred             HHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCCHHH
Q 021937          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH  204 (305)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~  204 (305)
                      ....... +    ..++.+|++||++|.+..+.+++|++.+|++|+++.+|++++....+.++++|||+.+.|+++.   
T Consensus        84 ~~~~~~~-p----~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~~~~~~~---  155 (290)
T PRK05917         84 KKQIWIH-P----YESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIHIPMEE---  155 (290)
T ss_pred             HHHHhhC-c----cCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEEEccchh---
Confidence            5554333 2    2334899999999999999999999999999999999999999999999999999999998861   


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Q 021937          205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMR  237 (305)
Q Consensus       205 ~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r  237 (305)
                                  ...++++.+..++..++|+++
T Consensus       156 ------------~~~i~~~~~~~l~~~~~g~~~  176 (290)
T PRK05917        156 ------------KTLVSKEDIAYLIGYAQGKES  176 (290)
T ss_pred             ------------ccCCCHHHHHHHHHHhCCChh
Confidence                        124788888889999999885

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=99.78  E-value=1.5e-16  Score=134.09  Aligned_cols=174  Identities=18%  Similarity=0.267  Sum_probs=136.0

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC--------CcccEEEeec-CCCcChhHHHHHHHHhh
Q 021937           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ--------YHNMILELNA-SDDRGIDVVRQQIQDFA  129 (305)
Q Consensus        60 ~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~--------~~~~~~~~~~-~~~~~~~~~~~~i~~~~  129 (305)
                      .+++.+.+.+..+..+| ++|+|+.|+||++++..+++.+.|..        .+..+..++. ......+.+++.+.+..
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            46788899999988888 67999999999999999999996632        2223444442 12234556666555543


Q ss_pred             hcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHH
Q 021937          130 STQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (305)
Q Consensus       130 ~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (305)
                      ..+.    ..++++|++||+++.+.....++|+++++++|+++.+|++++....+.+++++||+.+.|.+++.+++.+++
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            3221    123589999999999999999999999999999999999999889999999999999999999999999888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 021937          210 KHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (305)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  244 (305)
                      ...    +  ++++....++..++ ++.+|+..+.
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            653    3  66666676777766 5988888764

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.78  E-value=4.7e-17  Score=146.65  Aligned_cols=205  Identities=16%  Similarity=0.226  Sum_probs=144.3

Q ss_pred             Cccccc-c--chHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHH
Q 021937           51 SLADVA-A--HRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (305)
Q Consensus        51 ~~~~~~-g--~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (305)
                      +|++|+ |  +......+..+....  ..+.++|+||+|+|||++++++++++........++.+++...  ...+...+
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  333555666665542  2345999999999999999999999876544455666555431  11111111


Q ss_pred             H-----HhhhcccccCCCCCceEEEEEeCCCcCCH--HHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhhcce-
Q 021937          126 Q-----DFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSRC-  192 (305)
Q Consensus       126 ~-----~~~~~~~~~~~~~~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~-~~~iil~~~~~~----~l~~~l~~r~-  192 (305)
                      .     .+...  +     ....+|+|||+|.+..  ..+..|+.+++.... +..++++++...    .+.+++.+|+ 
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     01000  0     1257999999999864  346678888775533 345666665442    2567889997 


Q ss_pred             --eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh----ccCccCHHHHHhhhCC
Q 021937          193 --TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCTGN  264 (305)
Q Consensus       193 --~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~~~  264 (305)
                        ..+.+++|+.+++.++++..+...++.+++++++.|++.+.||+|.+...|..+..    ....||.+.+++++..
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              57999999999999999999999999999999999999999999998888765553    3356899988888764

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

Probab=99.78  E-value=8.5e-17  Score=140.38  Aligned_cols=206  Identities=21%  Similarity=0.358  Sum_probs=139.3

Q ss_pred             CCCcchhhhcCCCCccccccchHHHHHHHHHHh-----cCCCC--eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTS-----ENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~-----~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      ....+|.++|+|...+++..++..+.+++.|+.     ....+  .++|+||+||||||+++.+++++     .+.+.+.
T Consensus        67 d~~elW~eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel-----g~~~~Ew  141 (634)
T KOG1970|consen   67 DEFELWVEKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL-----GYQLIEW  141 (634)
T ss_pred             cccchhHHhcCcccHHHHhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh-----Cceeeee
Confidence            456789999999999999999999999999998     33333  38999999999999999999998     2233332


Q ss_pred             ecCC-------------CcC--hhHHHHHHHHhhhcc---c----ccCCCCCceEEEEEeCCCcCCHH-HHHHHHHHHHH
Q 021937          111 NASD-------------DRG--IDVVRQQIQDFASTQ---S----FSFGVKASVKLVLLDEADAMTKD-AQFALRRVIEK  167 (305)
Q Consensus       111 ~~~~-------------~~~--~~~~~~~i~~~~~~~---~----~~~~~~~~~~vliiDe~~~l~~~-~~~~l~~~l~~  167 (305)
                      ..+.             ...  ...-...++.+....   .    ........+.+|+|||+...... ....|..+|..
T Consensus       142 ~Npi~~~~~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~~d~~~~f~evL~~  221 (634)
T KOG1970|consen  142 SNPINLKEPENLHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFYRDDSETFREVLRL  221 (634)
T ss_pred             cCCccccccccccccchhcccchhhHHHHHHHHHHHHHhhchhhhcccccccCceEEEeeccchhhhhhhHHHHHHHHHH
Confidence            2110             000  111111222222111   0    11123344679999998776543 44555555553


Q ss_pred             h---cCCceEEEEecCCc--------ccchhh--hcceeEEEecCCCHHHHHHHHHHHHHHcCCCCC------HHHHHHH
Q 021937          168 Y---TKNTRFALICNQVN--------KIIPAL--QSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT------EGGLAAL  228 (305)
Q Consensus       168 ~---~~~~~iil~~~~~~--------~l~~~l--~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~------~~~~~~l  228 (305)
                      +   +....|+++|+...        .+..++  ..|...+.|.|....-+++.+..++..++...+      ...++.+
T Consensus       222 y~s~g~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri~~IsFNPIa~T~MKK~L~ric~~e~~~~s~~k~~~~~~v~~i  301 (634)
T KOG1970|consen  222 YVSIGRCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRISNISFNPIAPTIMKKFLKRICRIEANKKSGIKVPDTAEVELI  301 (634)
T ss_pred             HHhcCCCcEEEEEeccccCCCcchhhhchhhhhhccCcceEeecCCcHHHHHHHHHHHHHHhcccccCCcCchhHHHHHH
Confidence            3   22334444542211        223333  345678999999999999999999998876665      5678899


Q ss_pred             HHHcCCCHHHHHHHHHHHhh
Q 021937          229 VRLCNGDMRKALNILQSTHM  248 (305)
Q Consensus       229 ~~~~~g~~r~~~~~l~~~~~  248 (305)
                      +..++||+|.|++.||..+.
T Consensus       302 ~~~s~GDIRsAInsLQlsss  321 (634)
T KOG1970|consen  302 CQGSGGDIRSAINSLQLSSS  321 (634)
T ss_pred             HHhcCccHHHHHhHhhhhcc
Confidence            99999999999999999854

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.78  E-value=4.6e-17  Score=144.99  Aligned_cols=210  Identities=15%  Similarity=0.196  Sum_probs=140.4

Q ss_pred             Cccccc-cc--hHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHH
Q 021937           51 SLADVA-AH--RDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (305)
Q Consensus        51 ~~~~~~-g~--~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (305)
                      +|++|+ |.  ......+..+....  ..+.++|+||+|+|||++++++++++........++.+++...  ...+...+
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            466644 43  22344555555442  2335899999999999999999999865543445556554321  01111111


Q ss_pred             HHhhhcccccCCCCCceEEEEEeCCCcCCH--HHHHHHHHHHHHhc-CCceEEEEecCCc----ccchhhhcce---eEE
Q 021937          126 QDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSRC---TRF  195 (305)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~-~~~~iil~~~~~~----~l~~~l~~r~---~~i  195 (305)
                      ..-. ...+.. .-....+|+|||+|.+..  ..+..|+.+++... .+..++++++...    .+.+.+.+|+   ..+
T Consensus       186 ~~~~-~~~~~~-~~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v  263 (405)
T TIGR00362       186 RNNK-MEEFKE-KYRSVDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVV  263 (405)
T ss_pred             HcCC-HHHHHH-HHHhCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEE
Confidence            0000 000000 001147999999999864  34667888887643 3456777776432    3567888887   469


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh----ccCccCHHHHHhhhCC
Q 021937          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCTGN  264 (305)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~~~  264 (305)
                      .+++|+.+++..+++..+...++.+++++++.|++.+.||+|.+...+..+..    ....||.+.+++++..
T Consensus       264 ~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~  336 (405)
T TIGR00362       264 DIEPPDLETRLAILQKKAEEEGLELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKD  336 (405)
T ss_pred             EeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999998877765543    3356888888777753

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=99.78  E-value=1.9e-17  Score=157.04  Aligned_cols=215  Identities=16%  Similarity=0.178  Sum_probs=154.1

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC-----cccEEEeecCCC
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASDD  115 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-----~~~~~~~~~~~~  115 (305)
                      .++.++.+|..+++++|+++.+..+...+.....++++|+||||||||++++.+++.+.....     ...++.++....
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            457777899999999999999999999998888888999999999999999999998844322     234555553221


Q ss_pred             ----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH---------HHHHHHHHHHHHhcCCceEEEEecC--
Q 021937          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------DAQFALRRVIEKYTKNTRFALICNQ--  180 (305)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~---------~~~~~l~~~l~~~~~~~~iil~~~~--  180 (305)
                          .......+.+........     ...+.||||||+|.+..         +..+.|...+++.  ...+|.+|+.  
T Consensus       250 ~a~~~~~g~~e~~l~~i~~~~~-----~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g--~i~~IgaTt~~e  322 (731)
T TIGR02639       250 LAGTKYRGDFEERLKAVVSEIE-----KEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSG--KLRCIGSTTYEE  322 (731)
T ss_pred             hhhccccchHHHHHHHHHHHHh-----ccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCC--CeEEEEecCHHH
Confidence                112223333333332211     11258999999998852         2345566655532  4566666654  


Q ss_pred             ---CcccchhhhcceeEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHh
Q 021937          181 ---VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTH  247 (305)
Q Consensus       181 ---~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g------~~r~~~~~l~~~~  247 (305)
                         ....++++.+||+.+.+++|+.++..++++.....    .++.++++++..+++.++.      -|+.++.+++.++
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               23468899999999999999999999999977654    3567999999999988753      3889999998766


Q ss_pred             hcc---------CccCHHHHHhhh
Q 021937          248 MAS---------QQITEEAVYLCT  262 (305)
Q Consensus       248 ~~~---------~~i~~~~v~~~~  262 (305)
                      ...         ..++.++|..++
T Consensus       403 a~~~~~~~~~~~~~v~~~~i~~~i  426 (731)
T TIGR02639       403 ASFRLRPKAKKKANVSVKDIENVV  426 (731)
T ss_pred             hhhhcCcccccccccCHHHHHHHH
Confidence            421         237777776655

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.78  E-value=2.9e-17  Score=149.66  Aligned_cols=203  Identities=21%  Similarity=0.236  Sum_probs=137.8

Q ss_pred             cCCCCccccccchHHHHHHHHHHh------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTS------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      ....+|+++.|.++.++.+...+.            ...+.+++|+||||||||+++++++...     ...++.+++..
T Consensus        49 ~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~-----~~~~~~i~~~~  123 (495)
T TIGR01241        49 KPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-----GVPFFSISGSD  123 (495)
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc-----CCCeeeccHHH
Confidence            445589999999999887776654            1223459999999999999999999986     44566655442


Q ss_pred             C------cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------------HHHHHHHHHHHhc--CCc
Q 021937          115 D------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYT--KNT  172 (305)
Q Consensus       115 ~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------------~~~~l~~~l~~~~--~~~  172 (305)
                      .      .....++..+..+...         .++||+|||+|.+...              ..+.|+..++...  .++
T Consensus       124 ~~~~~~g~~~~~l~~~f~~a~~~---------~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v  194 (495)
T TIGR01241       124 FVEMFVGVGASRVRDLFEQAKKN---------APCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGV  194 (495)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhc---------CCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCe
Confidence            1      1223444444443222         2589999999987532              2234555555432  245


Q ss_pred             eEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhh
Q 021937          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM  248 (305)
Q Consensus       173 ~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~  248 (305)
                      .+|.+||.++.+++++.+  |+ ..+.++.|+.+++.++++..+...+.. ++..+..+++.+.| +...+.++++.++.
T Consensus       195 ~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~G~sgadl~~l~~eA~~  273 (495)
T TIGR01241       195 IVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLA-PDVDLKAVARRTPGFSGADLANLLNEAAL  273 (495)
T ss_pred             EEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCC-cchhHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            667778888999999987  55 679999999999999999888765443 33456788888765 44455555544332


Q ss_pred             -----ccCccCHHHHHhhhCC
Q 021937          249 -----ASQQITEEAVYLCTGN  264 (305)
Q Consensus       249 -----~~~~i~~~~v~~~~~~  264 (305)
                           ....|+.++++.++..
T Consensus       274 ~a~~~~~~~i~~~~l~~a~~~  294 (495)
T TIGR01241       274 LAARKNKTEITMNDIEEAIDR  294 (495)
T ss_pred             HHHHcCCCCCCHHHHHHHHHH
Confidence                 2345999998877754

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=99.77  E-value=9.1e-17  Score=143.92  Aligned_cols=203  Identities=15%  Similarity=0.167  Sum_probs=137.0

Q ss_pred             CCccccccchHHHHHHHHHHhc----------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC----
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE----------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD----  115 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~----------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~----  115 (305)
                      .+|+++.|.+..++.+......          ..+.+++|+||||||||.+|+++++++     ...++.++....    
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            4688999988888877654221          223459999999999999999999997     455666665431    


Q ss_pred             --cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH------------HHHHHHHHHHHhcCCceEEEEecCC
Q 021937          116 --RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD------------AQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       116 --~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~------------~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                        .+...+++.+..+...         .++||+|||+|.+...            ....|+..+++....+.+|.+||..
T Consensus       300 vGese~~l~~~f~~A~~~---------~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~  370 (489)
T CHL00195        300 VGESESRMRQMIRIAEAL---------SPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNI  370 (489)
T ss_pred             cChHHHHHHHHHHHHHhc---------CCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCCh
Confidence              1223344444333221         2699999999977431            2344566666655566677788999


Q ss_pred             cccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCC----CHHHHHHHHHHHhh-ccCc
Q 021937          182 NKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLD-VTEGGLAALVRLCNG----DMRKALNILQSTHM-ASQQ  252 (305)
Q Consensus       182 ~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~g----~~r~~~~~l~~~~~-~~~~  252 (305)
                      +.+++++.+  || ..+.++.|+.+++.++++.++.+.+.. .++..++.+++.+.|    +++.+.......+. ....
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  67 678999999999999999998876532 334557788887755    44444333322222 2345


Q ss_pred             cCHHHHHhhhCCCC
Q 021937          253 ITEEAVYLCTGNPL  266 (305)
Q Consensus       253 i~~~~v~~~~~~~~  266 (305)
                      ++.+++..++....
T Consensus       451 lt~~dl~~a~~~~~  464 (489)
T CHL00195        451 FTTDDILLALKQFI  464 (489)
T ss_pred             cCHHHHHHHHHhcC
Confidence            78887777765443

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.77  E-value=4.6e-17  Score=145.36  Aligned_cols=210  Identities=11%  Similarity=0.186  Sum_probs=140.5

Q ss_pred             Cccccc-cc--hHHHHHHHHHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHH
Q 021937           51 SLADVA-AH--RDIVDTIDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (305)
Q Consensus        51 ~~~~~~-g~--~~~~~~l~~~l~~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (305)
                      +|++|+ |.  .........+.... ..++++||||+|+|||+|++++++.+........++.+++...  ...+...+.
T Consensus       103 tFdnFv~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f--~~~~~~~~~  180 (440)
T PRK14088        103 TFENFVVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF--LNDLVDSMK  180 (440)
T ss_pred             cccccccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHH--HHHHHHHHh
Confidence            577777 42  22334555555432 2345999999999999999999999865544445555554321  111111111


Q ss_pred             HhhhcccccCCCCCceEEEEEeCCCcCCH--HHHHHHHHHHHHhcC-CceEEEEecCCc----ccchhhhccee---EEE
Q 021937          127 DFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSRCT---RFR  196 (305)
Q Consensus       127 ~~~~~~~~~~~~~~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~-~~~iil~~~~~~----~l~~~l~~r~~---~i~  196 (305)
                      .- ....+.........+|+|||++.+..  ..+..|+.+++.... +..++++++...    .+.+.+.+|+.   .+.
T Consensus       181 ~~-~~~~f~~~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~  259 (440)
T PRK14088        181 EG-KLNEFREKYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAK  259 (440)
T ss_pred             cc-cHHHHHHHHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEe
Confidence            00 00000000011257999999998853  345677777776443 345666665332    35678888874   789


Q ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh----ccCccCHHHHHhhhC
Q 021937          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCTG  263 (305)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~~  263 (305)
                      +++|+.+.+.+++++.+...++.+++++++.|++.+.||+|.+...+..+..    ....||.+.+++++.
T Consensus       260 i~~pd~e~r~~IL~~~~~~~~~~l~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L~  330 (440)
T PRK14088        260 LEPPDEETRKKIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLK  330 (440)
T ss_pred             eCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999998876653    235688888776664

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.77  E-value=3.2e-17  Score=145.98  Aligned_cols=207  Identities=15%  Similarity=0.189  Sum_probs=142.3

Q ss_pred             Cccccc-cc--hHHHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHH
Q 021937           51 SLADVA-AH--RDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (305)
Q Consensus        51 ~~~~~~-g~--~~~~~~l~~~l~~------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (305)
                      +|++|+ |.  ......+..+...      ...+.++|+||+|+|||+|++++++.+.+.+..  +++++....  ...+
T Consensus       109 tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~--v~yi~~~~f--~~~~  184 (445)
T PRK12422        109 TFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESGGK--ILYVRSELF--TEHL  184 (445)
T ss_pred             cccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCC--EEEeeHHHH--HHHH
Confidence            677776 42  2233455555532      123459999999999999999999998765433  344433211  1111


Q ss_pred             HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--HHHHHHHHHHHHhc-CCceEEEEecCC----cccchhhhcce--
Q 021937          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQV----NKIIPALQSRC--  192 (305)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~-~~~~iil~~~~~----~~l~~~l~~r~--  192 (305)
                      ...+.... ...+. ..-....+++|||++.+..  ..++.|+.+++... ....+|++++..    ..+.+++.+|+  
T Consensus       185 ~~~l~~~~-~~~f~-~~~~~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~  262 (445)
T PRK12422        185 VSAIRSGE-MQRFR-QFYRNVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEW  262 (445)
T ss_pred             HHHHhcch-HHHHH-HHcccCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcC
Confidence            11111000 00000 0011257999999999863  45777888877542 345677777654    34678999998  


Q ss_pred             -eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHh---h----ccCccCHHHHHhhhC
Q 021937          193 -TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH---M----ASQQITEEAVYLCTG  263 (305)
Q Consensus       193 -~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~---~----~~~~i~~~~v~~~~~  263 (305)
                       ..+.+++|+.+++..+++..+...++.+++++++.|+....+|+|.+.+.+..++   .    ....|+.+.+++++.
T Consensus       263 Gl~~~l~~pd~e~r~~iL~~k~~~~~~~l~~evl~~la~~~~~dir~L~g~l~~l~~~~a~~~~~~~~i~~~~~~~~l~  341 (445)
T PRK12422        263 GIAIPLHPLTKEGLRSFLERKAEALSIRIEETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSHQLLYVDDIKALLH  341 (445)
T ss_pred             CeEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHH
Confidence             6899999999999999999999999999999999999999999999999998774   2    224688888877764

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.76  E-value=1.1e-16  Score=144.99  Aligned_cols=209  Identities=13%  Similarity=0.124  Sum_probs=141.9

Q ss_pred             CccccccchH---HHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHH
Q 021937           51 SLADVAAHRD---IVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (305)
Q Consensus        51 ~~~~~~g~~~---~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (305)
                      +|++|+..+.   ....+..++...  ..+.++|||++|+|||+|++++++.+........+++++....  ...+...+
T Consensus       286 TFDnFvvG~sN~~A~aaa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef--~~el~~al  363 (617)
T PRK14086        286 TFDTFVIGASNRFAHAAAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEF--TNEFINSI  363 (617)
T ss_pred             CHhhhcCCCccHHHHHHHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHH--HHHHHHHH
Confidence            6788774322   233445554432  2234999999999999999999999854322334455444321  11111111


Q ss_pred             HHhhhcccccCCCCCceEEEEEeCCCcCCH--HHHHHHHHHHHHhcC-CceEEEEecCC----cccchhhhcce---eEE
Q 021937          126 QDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTK-NTRFALICNQV----NKIIPALQSRC---TRF  195 (305)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~-~~~iil~~~~~----~~l~~~l~~r~---~~i  195 (305)
                      ..-. ...|.. .-....+|+|||++.+..  ..+..|+.+++.... +..+|++++..    ..+.+.|.+|+   ..+
T Consensus       364 ~~~~-~~~f~~-~y~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv  441 (617)
T PRK14086        364 RDGK-GDSFRR-RYREMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLIT  441 (617)
T ss_pred             Hhcc-HHHHHH-HhhcCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceE
Confidence            1000 000000 001258999999999864  346778888886654 45677777654    24678899996   668


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh----ccCccCHHHHHhhhC
Q 021937          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCTG  263 (305)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~~  263 (305)
                      .+.+|+.+.+.++|+..+...++.++++++++|++...+|+|.+...|..+..    ....|+.+.++.++.
T Consensus       442 ~I~~PD~EtR~aIL~kka~~r~l~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~  513 (617)
T PRK14086        442 DVQPPELETRIAILRKKAVQEQLNAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLR  513 (617)
T ss_pred             EcCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998876653    235588877776664

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.76  E-value=1.4e-16  Score=140.51  Aligned_cols=199  Identities=21%  Similarity=0.281  Sum_probs=132.0

Q ss_pred             CCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      ..++++.|.+..++.+...+..             ..+.+++|+||||||||++|+++++.+     ...++.+++....
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            3678899999999988887632             234459999999999999999999987     3456666554321


Q ss_pred             ------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHHh-----cCCceE
Q 021937          117 ------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRF  174 (305)
Q Consensus       117 ------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~~-----~~~~~i  174 (305)
                            ....++..+..+..         ..+++|+|||+|.+.           .+.+..+..++...     ..++.+
T Consensus       203 ~~~~g~~~~~i~~~f~~a~~---------~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~V  273 (389)
T PRK03992        203 QKFIGEGARLVRELFELARE---------KAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKI  273 (389)
T ss_pred             HhhccchHHHHHHHHHHHHh---------cCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEE
Confidence                  11222222222211         226899999999983           33445566666432     235678


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhhc-
Q 021937          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHMA-  249 (305)
Q Consensus       175 il~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~~-  249 (305)
                      |+++|..+.+++++.+  |+ ..+.+++|+.+++.++++.++....+.- +..+..+++.+.| +...+..++..++.. 
T Consensus       274 I~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~-~~~~~~la~~t~g~sgadl~~l~~eA~~~a  352 (389)
T PRK03992        274 IAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLAD-DVDLEELAELTEGASGADLKAICTEAGMFA  352 (389)
T ss_pred             EEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCC-cCCHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            8888998889999876  66 6799999999999999998876554321 1336777877765 334444444444331 


Q ss_pred             ----cCccCHHHHHhhhC
Q 021937          250 ----SQQITEEAVYLCTG  263 (305)
Q Consensus       250 ----~~~i~~~~v~~~~~  263 (305)
                          ...|+.+++.+++.
T Consensus       353 ~~~~~~~i~~~d~~~A~~  370 (389)
T PRK03992        353 IRDDRTEVTMEDFLKAIE  370 (389)
T ss_pred             HHcCCCCcCHHHHHHHHH
Confidence                23466666665553

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=99.76  E-value=4.1e-16  Score=130.26  Aligned_cols=172  Identities=20%  Similarity=0.344  Sum_probs=132.3

Q ss_pred             cchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC-------------------cccEEEeecCC-C
Q 021937           57 AHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------------HNMILELNASD-D  115 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~-------------------~~~~~~~~~~~-~  115 (305)
                      .++..++.+.+.+..++.+| ++|+||  .||+++|..+++.+.|.+.                   ...+..+.... .
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            47888999999999999888 899996  6899999999999987531                   12333333322 2


Q ss_pred             cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEE
Q 021937          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (305)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i  195 (305)
                      ..++.+++.+..+...+     ..++++|+|||++|.+.....++|++.+|++++++.+|+++++...+.++++|||+.+
T Consensus        84 I~idqIR~l~~~~~~~p-----~~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i  158 (290)
T PRK07276         84 IKTDTIRELVKNFSQSG-----YEGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIF  158 (290)
T ss_pred             CCHHHHHHHHHHHhhCc-----ccCCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceee
Confidence            34677777666654432     2334799999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 021937          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (305)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  243 (305)
                      +|++ +.+++.+++.    +.|  ++.+....++.. .|++..++..+
T Consensus       159 ~f~~-~~~~~~~~L~----~~g--~~~~~a~~la~~-~~s~~~A~~l~  198 (290)
T PRK07276        159 HFPK-NEAYLIQLLE----QKG--LLKTQAELLAKL-AQSTSEAEKLA  198 (290)
T ss_pred             eCCC-cHHHHHHHHH----HcC--CChHHHHHHHHH-CCCHHHHHHHh
Confidence            9976 6666666664    345  444444445544 46898888877

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.75  E-value=5e-17  Score=155.26  Aligned_cols=198  Identities=16%  Similarity=0.207  Sum_probs=144.3

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC-----cccEEEeecCC-
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASD-  114 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-----~~~~~~~~~~~-  114 (305)
                      .++.++.+|..+++++|+++.+..+...+.....++++|+||||||||++++.+++.+.....     ...++.++... 
T Consensus       175 ~~L~~~~r~~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l  254 (852)
T TIGR03345       175 TDLTAQAREGKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLL  254 (852)
T ss_pred             hhHHHHhcCCCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhh
Confidence            346667789999999999999999999998988888999999999999999999998843321     12334333321 


Q ss_pred             ---CcCh----hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----HH---HHHHHHHHHHhcCCceEEEEec
Q 021937          115 ---DRGI----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----DA---QFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       115 ---~~~~----~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----~~---~~~l~~~l~~~~~~~~iil~~~  179 (305)
                         ....    ..++..+......        ..+.||||||+|.+..     ..   .+.|...++..  ...+|.+|+
T Consensus       255 ~ag~~~~ge~e~~lk~ii~e~~~~--------~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G--~l~~IgaTT  324 (852)
T TIGR03345       255 QAGASVKGEFENRLKSVIDEVKAS--------PQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARG--ELRTIAATT  324 (852)
T ss_pred             hcccccchHHHHHHHHHHHHHHhc--------CCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCC--CeEEEEecC
Confidence               1122    2344444433221        1268999999999963     12   22455555533  456666665


Q ss_pred             C-----CcccchhhhcceeEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHH
Q 021937          180 Q-----VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQ  244 (305)
Q Consensus       180 ~-----~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g------~~r~~~~~l~  244 (305)
                      .     ....+++|.+||+.+.+++|+.++..++++.....    .++.++++++..+++.+.+      -|..++.+++
T Consensus       325 ~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~LPDKAIdlld  404 (852)
T TIGR03345       325 WAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQLPDKAVSLLD  404 (852)
T ss_pred             HHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccccccCccHHHHHHH
Confidence            4     23578999999999999999999999997665543    3678899999999998864      5889999998


Q ss_pred             HHhh
Q 021937          245 STHM  248 (305)
Q Consensus       245 ~~~~  248 (305)
                      .+++
T Consensus       405 ea~a  408 (852)
T TIGR03345       405 TACA  408 (852)
T ss_pred             HHHH
Confidence            8776

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.

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

Probab=99.75  E-value=7.2e-17  Score=142.48  Aligned_cols=206  Identities=19%  Similarity=0.265  Sum_probs=134.7

Q ss_pred             hhhcCCCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           44 VEKYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        44 ~~~~~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      .++..+.+|+++.|.+..++.+...+..             ..+.+++|+||||||||++|+++++.+     ...++.+
T Consensus       174 ~~~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el-----~~~fi~V  248 (438)
T PTZ00361        174 VDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET-----SATFLRV  248 (438)
T ss_pred             cccCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh-----CCCEEEE
Confidence            4555667899999999999988887741             233459999999999999999999987     3345655


Q ss_pred             ecCCCc------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHh-----
Q 021937          111 NASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-----  168 (305)
Q Consensus       111 ~~~~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~-----  168 (305)
                      .++...      ....++..+..+..         ..+++|+|||+|.+..           +.+..+..++...     
T Consensus       249 ~~seL~~k~~Ge~~~~vr~lF~~A~~---------~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~  319 (438)
T PTZ00361        249 VGSELIQKYLGDGPKLVRELFRVAEE---------NAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDS  319 (438)
T ss_pred             ecchhhhhhcchHHHHHHHHHHHHHh---------CCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcc
Confidence            544321      11222333322211         2368999999987742           2234444554432     


Q ss_pred             cCCceEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHH
Q 021937          169 TKNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQ  244 (305)
Q Consensus       169 ~~~~~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~  244 (305)
                      ..++.+|++||..+.+++++.+  |+ ..+.|++|+.+++.+++..++.+..+.-+ ..++.++..+.| +...+.+++.
T Consensus       320 ~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~d-vdl~~la~~t~g~sgAdI~~i~~  398 (438)
T PTZ00361        320 RGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAED-VDLEEFIMAKDELSGADIKAICT  398 (438)
T ss_pred             cCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcC-cCHHHHHHhcCCCCHHHHHHHHH
Confidence            3467788899999999998875  56 67999999999999999988776554221 234556655543 3333444444


Q ss_pred             HHhh-----ccCccCHHHHHhhhCC
Q 021937          245 STHM-----ASQQITEEAVYLCTGN  264 (305)
Q Consensus       245 ~~~~-----~~~~i~~~~v~~~~~~  264 (305)
                      .++.     ....|+.+++.+++..
T Consensus       399 eA~~~Alr~~r~~Vt~~D~~~A~~~  423 (438)
T PTZ00361        399 EAGLLALRERRMKVTQADFRKAKEK  423 (438)
T ss_pred             HHHHHHHHhcCCccCHHHHHHHHHH
Confidence            4433     2245788877766544

>CHL00176 ftsH cell division protein; Validated

Probab=99.75  E-value=1.5e-16  Score=146.81  Aligned_cols=200  Identities=21%  Similarity=0.274  Sum_probs=137.5

Q ss_pred             CCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc-
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-  116 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~-  116 (305)
                      .+|+++.|.++..+.+...+..            ..+.+++|+||||||||++|++++.+.     ...++.++++... 
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            4789999999888887776531            123459999999999999999999987     4456666554321 


Q ss_pred             -----ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHH---HHh--cCCceEE
Q 021937          117 -----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVI---EKY--TKNTRFA  175 (305)
Q Consensus       117 -----~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l---~~~--~~~~~ii  175 (305)
                           ....++..+..+.         ...++||+|||+|.+..           +....+..++   +..  ..++.+|
T Consensus       255 ~~~g~~~~~vr~lF~~A~---------~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVI  325 (638)
T CHL00176        255 MFVGVGAARVRDLFKKAK---------ENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVI  325 (638)
T ss_pred             HhhhhhHHHHHHHHHHHh---------cCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEE
Confidence                 1222333333332         22368999999998842           2233444444   332  2345677


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhh---
Q 021937          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM---  248 (305)
Q Consensus       176 l~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~---  248 (305)
                      .+||..+.+++++.+  |+ ..+.+++|+.+++.++++.++..... .++..+..+++.+.| +.+.+.+++..++.   
T Consensus       326 aaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~-~~d~~l~~lA~~t~G~sgaDL~~lvneAal~a~  404 (638)
T CHL00176        326 AATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL-SPDVSLELIARRTPGFSGADLANLLNEAAILTA  404 (638)
T ss_pred             EecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc-chhHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            778888888998886  45 67999999999999999999876443 345567889998887 66666666655443   


Q ss_pred             --ccCccCHHHHHhhhCC
Q 021937          249 --ASQQITEEAVYLCTGN  264 (305)
Q Consensus       249 --~~~~i~~~~v~~~~~~  264 (305)
                        ....++.+++++++.+
T Consensus       405 r~~~~~It~~dl~~Ai~r  422 (638)
T CHL00176        405 RRKKATITMKEIDTAIDR  422 (638)
T ss_pred             HhCCCCcCHHHHHHHHHH
Confidence              2245888888877643

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

Probab=99.75  E-value=6.7e-17  Score=139.67  Aligned_cols=206  Identities=17%  Similarity=0.261  Sum_probs=148.5

Q ss_pred             Ccccccc---chHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC--hhHHHH
Q 021937           51 SLADVAA---HRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--IDVVRQ  123 (305)
Q Consensus        51 ~~~~~~g---~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  123 (305)
                      +|++|+.   +.........+....  ..+.++|||++|.|||||++++++.....+....+++++......  ...++.
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            4555554   444444555555543  245599999999999999999999998887777777766543210  111111


Q ss_pred             -HHHHhhhcccccCCCCCceEEEEEeCCCcCCH--HHHHHHHHHHHHhcCCc-eEEEEecCCc----ccchhhhcce---
Q 021937          124 -QIQDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTKNT-RFALICNQVN----KIIPALQSRC---  192 (305)
Q Consensus       124 -~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~~~-~iil~~~~~~----~l~~~l~~r~---  192 (305)
                       .+..+...  +      ...+++|||++.+..  ..++.|+.+++...... .++++++..+    .+.+++++|+   
T Consensus       165 ~~~~~Fk~~--y------~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~G  236 (408)
T COG0593         165 NEMEKFKEK--Y------SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWG  236 (408)
T ss_pred             hhHHHHHHh--h------ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhce
Confidence             11111111  1      158999999999875  45888999888765443 6777775543    3568899986   


Q ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc----cCccCHHHHHhhhCC
Q 021937          193 TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTGN  264 (305)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~~~  264 (305)
                      ..+.+.+|+.+....++...+...++.++++++..+++....|+|.+...+..+...    ...||.+.+.+++..
T Consensus       237 l~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~  312 (408)
T COG0593         237 LVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKD  312 (408)
T ss_pred             eEEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHHHHHHHHHH
Confidence            679999999999999999999999999999999999999999999999998766653    235777777766633

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

Probab=99.74  E-value=3.4e-16  Score=137.39  Aligned_cols=201  Identities=20%  Similarity=0.253  Sum_probs=133.0

Q ss_pred             CCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      ..+|+++.|.+..++.++..+..             ..+.+++|+||||||||++++++++.+     ...++.+.+...
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            34788999999999988887641             134459999999999999999999987     344555544321


Q ss_pred             ------cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHh-----cCCce
Q 021937          116 ------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-----TKNTR  173 (305)
Q Consensus       116 ------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~-----~~~~~  173 (305)
                            .+...+++.+..+.         ...++||+|||+|.+..           ..+..+..++...     ..++.
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                  11122222222221         12368999999998732           2333444544432     23567


Q ss_pred             EEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhhc
Q 021937          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHMA  249 (305)
Q Consensus       174 iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~~  249 (305)
                      +|++||.++.+++++.+  |+ ..+.|++|+.+++..+++.++.+.++.- +-.+..+++.+.| +...+.++++.++..
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            88889999999999876  66 6699999999999999998887666432 2235677777754 455555556555442


Q ss_pred             -----cCccCHHHHHhhhCC
Q 021937          250 -----SQQITEEAVYLCTGN  264 (305)
Q Consensus       250 -----~~~i~~~~v~~~~~~  264 (305)
                           ...++.+++.+++..
T Consensus       366 A~r~~~~~i~~~df~~A~~~  385 (398)
T PTZ00454        366 AVRKNRYVILPKDFEKGYKT  385 (398)
T ss_pred             HHHcCCCccCHHHHHHHHHH
Confidence                 234777776665543

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=99.73  E-value=1.1e-15  Score=124.40  Aligned_cols=204  Identities=17%  Similarity=0.136  Sum_probs=143.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCC-----------------cccEEEeecC-CCcChhHHHHHHHHhhhcccccCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQY-----------------HNMILELNAS-DDRGIDVVRQQIQDFASTQSFSFG  137 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~-----------------~~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~~  137 (305)
                      .++|+||.|+||..+|.++++.+.|...                 ...+..+... .....+.+++....+.... +.  
T Consensus         9 A~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          9 PLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPS-VE--   85 (261)
T ss_pred             ceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCc-hh--
Confidence            3899999999999999999999977531                 1123332222 1235666676665554221 11  


Q ss_pred             CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCC----------CHHHHHH
Q 021937          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL----------EPVHVTE  207 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~----------~~~~~~~  207 (305)
                       ..+++|++||++|.+.....++|++.+|++|+++.++++++....+.++++|||+.+.|+++          +..++.+
T Consensus        86 -~~~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~~~~~~~i~~  164 (261)
T PRK05818         86 -SNGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYVVLSKEKKVPFKVESNDRYFQY  164 (261)
T ss_pred             -cCCCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhheeeeecCChhhhcccccccChHHHHH
Confidence             12479999999999999999999999999999999999999999999999999999999888          4444444


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc-CccCHHHHHhhhCCCChhhHHHHHHHHH-cccHHHH
Q 021937          208 RLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYLCTGNPLPKDIEQISYWLL-NESFADS  285 (305)
Q Consensus       208 ~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~v~~~~~~~~~~~~~~l~~~~~-~~~~~~~  285 (305)
                      .+...   .+  +++    .++...+|+...++..++.+.... ..++...+...+..-....+..+...+. ..|+++-
T Consensus       165 ~L~~~---~~--~d~----~i~~~a~g~~~~a~~l~~~l~n~~~~~~~v~kl~~~~~~~~~q~~~~~l~~l~~~~~~~~k  235 (261)
T PRK05818        165 ILLSF---YS--VDE----QLQAYNNGSFSKLKNIIETLINKKNKLIQIHKAWILFKTFSYYEIAQLLNLLIPTVDPEKK  235 (261)
T ss_pred             HHHHc---cC--ccH----HHHHHcCCCHHHHHHHHHHHHcccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhccCchHH
Confidence            44322   12  333    677788999999999998652111 2245555666666666666665555554 3566666


Q ss_pred             HHHHHHH
Q 021937          286 FKRIQNL  292 (305)
Q Consensus       286 ~~~l~~l  292 (305)
                      -..+.-|
T Consensus       236 ~~~~~~~  242 (261)
T PRK05818        236 SKLYNLL  242 (261)
T ss_pred             HHHHHHH
Confidence            5555555

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=99.72  E-value=1.8e-15  Score=129.57  Aligned_cols=145  Identities=25%  Similarity=0.381  Sum_probs=113.0

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC--------------------cccEEEeecCC----
Q 021937           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY--------------------HNMILELNASD----  114 (305)
Q Consensus        60 ~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~--------------------~~~~~~~~~~~----  114 (305)
                      ...+.+...  .++.+| ++|+||+|+|||++|+.+++.+.|...                    ...+..+.+..    
T Consensus         8 ~~w~~l~~~--~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~   85 (325)
T PRK08699          8 EQWRQIAEH--WERRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPE   85 (325)
T ss_pred             HHHHHHHHh--cCCcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEeccccccc
Confidence            344444444  346666 899999999999999999999987432                    13455565422    


Q ss_pred             ------CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhh
Q 021937          115 ------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPAL  188 (305)
Q Consensus       115 ------~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l  188 (305)
                            ...++.+++........ +    ..++++|+++|+++.++...++.|++.+++++.++.+|++++....+.+.+
T Consensus        86 ~g~~~~~I~id~iR~l~~~~~~~-p----~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti  160 (325)
T PRK08699         86 NGRKLLQIKIDAVREIIDNVYLT-S----VRGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTI  160 (325)
T ss_pred             ccccCCCcCHHHHHHHHHHHhhC-c----ccCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHH
Confidence                  13467777765554332 2    223479999999999999999999999999988888999999999999999


Q ss_pred             hcceeEEEecCCCHHHHHHHHHH
Q 021937          189 QSRCTRFRFAPLEPVHVTERLKH  211 (305)
Q Consensus       189 ~~r~~~i~~~~~~~~~~~~~l~~  211 (305)
                      .+||+.+.|++++.+++.+++..
T Consensus       161 ~SRc~~~~~~~~~~~~~~~~L~~  183 (325)
T PRK08699        161 KSRCRKMVLPAPSHEEALAYLRE  183 (325)
T ss_pred             HHHhhhhcCCCCCHHHHHHHHHh
Confidence            99999999999999999999965

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

Probab=99.72  E-value=1.1e-15  Score=126.89  Aligned_cols=121  Identities=17%  Similarity=0.238  Sum_probs=99.5

Q ss_pred             eEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec------------CCcccchhhhcceeEEEecCCCHHHHHHHH
Q 021937          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN------------QVNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~------------~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (305)
                      ++|+||||+|.|+-+...+|.+.++..- ...+|+++|            .+.-++.++..|..++...|++.+++++++
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            4599999999999999999999998654 345556664            234678899999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhh-----ccCccCHHHHHhhhC
Q 021937          210 KHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHM-----ASQQITEEAVYLCTG  263 (305)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~~  263 (305)
                      +.++..+++.+++++++.++... .-++|.++++|.-+..     ..+.+..++|+.+..
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            99999999999999999999875 4689999999964433     234688888876653

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

Probab=99.72  E-value=7.1e-16  Score=129.41  Aligned_cols=232  Identities=16%  Similarity=0.162  Sum_probs=144.4

Q ss_pred             CCccccccchHHHHHHHHHHh----------c--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc-
Q 021937           50 QSLADVAAHRDIVDTIDRLTS----------E--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-  116 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~----------~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~-  116 (305)
                      ..|+++.|..+.++-|++.+-          +  .+...++++||||+|||.||++++.++     ...|+.++.+... 
T Consensus       209 ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc-----~tTFFNVSsstltS  283 (491)
T KOG0738|consen  209 IKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATEC-----GTTFFNVSSSTLTS  283 (491)
T ss_pred             cChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhh-----cCeEEEechhhhhh
Confidence            468899999999988887753          2  233449999999999999999999998     5678877766421 


Q ss_pred             ----ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH------------HHHHHHHHHHHHhc-----CCceEE
Q 021937          117 ----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIEKYT-----KNTRFA  175 (305)
Q Consensus       117 ----~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~------------~~~~~l~~~l~~~~-----~~~~ii  175 (305)
                          ..+.+...+.+.+....        +.+|||||+|.+..            .....|+-.++...     .+++++
T Consensus       284 KwRGeSEKlvRlLFemARfyA--------PStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmV  355 (491)
T KOG0738|consen  284 KWRGESEKLVRLLFEMARFYA--------PSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMV  355 (491)
T ss_pred             hhccchHHHHHHHHHHHHHhC--------CceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhccccccccceeEEE
Confidence                22334444444444332        68999999999842            23456777777432     133444


Q ss_pred             E-EecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH-HHHHHHHHHhhcc--
Q 021937          176 L-ICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMR-KALNILQSTHMAS--  250 (305)
Q Consensus       176 l-~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r-~~~~~l~~~~~~~--  250 (305)
                      + +||-+..++.++++|+ ..+.++-|+.+....+|+..+..... -++-.++.|++.+.|--. .+.+.|..++..+  
T Consensus       356 LAATN~PWdiDEAlrRRlEKRIyIPLP~~~~R~~Li~~~l~~~~~-~~~~~~~~lae~~eGySGaDI~nvCreAsm~~mR  434 (491)
T KOG0738|consen  356 LAATNFPWDIDEALRRRLEKRIYIPLPDAEARSALIKILLRSVEL-DDPVNLEDLAERSEGYSGADITNVCREASMMAMR  434 (491)
T ss_pred             EeccCCCcchHHHHHHHHhhheeeeCCCHHHHHHHHHHhhccccC-CCCccHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Confidence            4 4688889999999999 77899999999999888876653321 233345667776655322 2333444443321  


Q ss_pred             ---CccCHHHHHhhhC-----CCChhhHHHHHHHHHcccHHHHHHHHHHHHHH
Q 021937          251 ---QQITEEAVYLCTG-----NPLPKDIEQISYWLLNESFADSFKRIQNLSFI  295 (305)
Q Consensus       251 ---~~i~~~~v~~~~~-----~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~  295 (305)
                         ..++.+.+..+..     .....++...++.+...-...-+..+.+++..
T Consensus       435 R~i~g~~~~ei~~lakE~~~~pv~~~Dfe~Al~~v~pSvs~~d~~k~ekW~~e  487 (491)
T KOG0738|consen  435 RKIAGLTPREIRQLAKEEPKMPVTNEDFEEALRKVRPSVSAADLEKYEKWMDE  487 (491)
T ss_pred             HHHhcCCcHHhhhhhhhccccccchhhHHHHHHHcCcCCCHHHHHHHHHHHHH
Confidence               2244444443332     23334555555555554443444444444443

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

Probab=99.72  E-value=5.2e-16  Score=136.93  Aligned_cols=236  Identities=15%  Similarity=0.140  Sum_probs=152.7

Q ss_pred             CCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      .+|+++-+.+++..+|.-.+..             ..+..++||||||||||.+|+++|++.     ..+|+.+.++...
T Consensus       508 VtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEa-----g~NFisVKGPELl  582 (802)
T KOG0733|consen  508 VTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEA-----GANFISVKGPELL  582 (802)
T ss_pred             CChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhc-----cCceEeecCHHHH
Confidence            3678888888888888776542             234459999999999999999999997     6788888776532


Q ss_pred             C--hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHhc--CCceEEEEecCC
Q 021937          117 G--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNTRFALICNQV  181 (305)
Q Consensus       117 ~--~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~~--~~~~iil~~~~~  181 (305)
                      +  ..+-...+.+....     ...+-++|||+||+|.|.+           ...+.|+.-++...  ..+.+|.+||++
T Consensus       583 NkYVGESErAVR~vFqR-----AR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRP  657 (802)
T KOG0733|consen  583 NKYVGESERAVRQVFQR-----ARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRP  657 (802)
T ss_pred             HHHhhhHHHHHHHHHHH-----hhcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCC
Confidence            1  12222223333222     2333479999999999953           24567777777543  345566678999


Q ss_pred             cccchhhhcc--e-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcC--C----CHHHHHHHHHHHhhcc-
Q 021937          182 NKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCN--G----DMRKALNILQSTHMAS-  250 (305)
Q Consensus       182 ~~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~~~--g----~~r~~~~~l~~~~~~~-  250 (305)
                      +.+++++.+-  + ..+.+..|+.++..++|+...+..+..+++++ ++.|++...  |    |+-.++...-.++... 
T Consensus       658 DiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~~c~gftGADLaaLvreAsi~AL~~~  737 (802)
T KOG0733|consen  658 DIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNTKCEGFTGADLAALVREASILALRES  737 (802)
T ss_pred             cccchhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcccccCCchhhHHHHHHHHHHHHHHHH
Confidence            9999999874  4 56888999999999999998875555555543 566775432  3    4333332222221110 


Q ss_pred             -CccCHHHHHhh----hCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHH
Q 021937          251 -QQITEEAVYLC----TGNPLPKDIEQISYWLLNESFADSFKRIQNLSFI  295 (305)
Q Consensus       251 -~~i~~~~v~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~  295 (305)
                       ..++...-.-.    --...+.++..-++.+.....++-...++.|...
T Consensus       738 ~~~~~~~~~~~~~~~~~~~~t~~hF~eA~~~i~pSv~~~dr~~Yd~l~k~  787 (802)
T KOG0733|consen  738 LFEIDSSEDDVTVRSSTIIVTYKHFEEAFQRIRPSVSERDRKKYDRLNKS  787 (802)
T ss_pred             HhhccccCcccceeeeeeeecHHHHHHHHHhcCCCccHHHHHHHHHHhhh
Confidence             01111111111    1134556788888888888878777777777644

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.70  E-value=1.1e-15  Score=133.09  Aligned_cols=202  Identities=20%  Similarity=0.222  Sum_probs=136.6

Q ss_pred             hhhcCCCCccccccchHHHHHHHHHHh-----------cCCC-CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           44 VEKYRPQSLADVAAHRDIVDTIDRLTS-----------ENRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        44 ~~~~~p~~~~~~~g~~~~~~~l~~~l~-----------~~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      ++......|+++.|.++.+++|.+...           +++. ..++|+||||+|||.||++++-+.     ..+|+...
T Consensus       295 p~~~~nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA-----~VPFF~~s  369 (752)
T KOG0734|consen  295 PEQMKNVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA-----GVPFFYAS  369 (752)
T ss_pred             hhhhcccccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc-----CCCeEecc
Confidence            344455679999999999988887764           2333 349999999999999999999987     66777776


Q ss_pred             cCCC------cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHhcCC--c
Q 021937          112 ASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYTKN--T  172 (305)
Q Consensus       112 ~~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~~~~--~  172 (305)
                      ++..      .+...++.++..+....         ++||||||+|.+..           ...+.|+--++...++  .
T Consensus       370 GSEFdEm~VGvGArRVRdLF~aAk~~A---------PcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGi  440 (752)
T KOG0734|consen  370 GSEFDEMFVGVGARRVRDLFAAAKARA---------PCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGI  440 (752)
T ss_pred             ccchhhhhhcccHHHHHHHHHHHHhcC---------CeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCce
Confidence            6653      24556666666654443         69999999998852           1234455455544433  4


Q ss_pred             eEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC----CHHHHHHHH-
Q 021937          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNG----DMRKALNIL-  243 (305)
Q Consensus       173 ~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g----~~r~~~~~l-  243 (305)
                      .+|.+||.++.+++++.+  || ..+.++.|+..-+.+|+..+..+-.  ++++ ....|++-+.|    |+..++|.. 
T Consensus       441 IvigATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki~--~~~~VD~~iiARGT~GFsGAdLaNlVNqAA  518 (752)
T KOG0734|consen  441 IVIGATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKIP--LDEDVDPKIIARGTPGFSGADLANLVNQAA  518 (752)
T ss_pred             EEEeccCChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHHhcCC--cccCCCHhHhccCCCCCchHHHHHHHHHHH
Confidence            455567888999999987  45 6799999999999999999887543  3322 23556776655    333344332 


Q ss_pred             -HHHhhccCccCHHHHHhh
Q 021937          244 -QSTHMASQQITEEAVYLC  261 (305)
Q Consensus       244 -~~~~~~~~~i~~~~v~~~  261 (305)
                       ..+...++.++..+++.+
T Consensus       519 lkAa~dga~~VtM~~LE~a  537 (752)
T KOG0734|consen  519 LKAAVDGAEMVTMKHLEFA  537 (752)
T ss_pred             HHHHhcCcccccHHHHhhh
Confidence             122224456777766543

>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=99.70  E-value=1.5e-15  Score=128.14  Aligned_cols=105  Identities=19%  Similarity=0.279  Sum_probs=78.8

Q ss_pred             eEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC------------CcccchhhhcceeEEEecCCCHHHHHHHH
Q 021937          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ------------VNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~------------~~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (305)
                      ++|+||||+|.|+-+....|-+.++..- .+.+|++||+            +..++.+|.+|+.++...|++.+++.+++
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            4599999999999999999999998654 4456666652            23567899999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHh
Q 021937          210 KHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTH  247 (305)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~  247 (305)
                      ..+++.+++.+++++++.+.+.. ..++|.|++++..+.
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            99999999999999999998765 578999999886553

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.

>PRK05907 hypothetical protein; Provisional

Probab=99.69  E-value=1.1e-14  Score=123.63  Aligned_cols=224  Identities=11%  Similarity=0.066  Sum_probs=168.0

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCce
Q 021937           63 DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASV  142 (305)
Q Consensus        63 ~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~  142 (305)
                      ..+.+.++.+. |.++++|..-   ....+.+.+.+.....    ..+++... ..+   + +.....+.+|...    +
T Consensus         8 ~~~~~~~~~~~-~~y~~~g~~~---~~~~~~l~~~~~~~~~----~~fdg~~~-~~~---~-ii~~aetlPfFae----r   70 (311)
T PRK05907          8 KDFSQYYEEKR-PAVIVIGSSS---EEDKDIFIELLVSGRK----SEFDGQGL-LQQ---E-LLSWTEHFGLFAS----Q   70 (311)
T ss_pred             HHHHHHHhcCC-ceEEEecCCc---HHHHHHHHHHhCCCcc----ceecCCCC-CHH---H-HHHHHhcCCcccC----e
Confidence            44555677777 8899999987   5556666555432221    22333331 222   2 3333444444433    7


Q ss_pred             EEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcc---cchhhhcceeE----EEecCCCHHHHHHHHHHHHHH
Q 021937          143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK---IIPALQSRCTR----FRFAPLEPVHVTERLKHVIEA  215 (305)
Q Consensus       143 ~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~---l~~~l~~r~~~----i~~~~~~~~~~~~~l~~~~~~  215 (305)
                      ++|++.+.+.+.....+.|..+++++++.+.+++.+...+.   +.+.+.. ...    +.++++...++..|+.+.+++
T Consensus        71 RlV~v~~~~~~~~~~~~~L~~Yl~np~~~~~liv~~~~~d~~kkl~K~i~k-~~~v~~~~e~~~l~e~~L~~Wi~~~~~~  149 (311)
T PRK05907         71 ETIGIYQAEKMSSSTQEFLIRYARNPNPHLTLFLFTTKQECFSSLSKKLSS-ALCLSLFGEWFADRDKRIAQLLIQRAKE  149 (311)
T ss_pred             EEEEEecccccccccHHHHHHHHhCCCCCeEEEEEEecccHHHHHHHHHhh-cceeccccccCCCCHHHHHHHHHHHHHH
Confidence            88888888777766778999999998886555533322221   2233332 433    489999999999999999999


Q ss_pred             cCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhc---cCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHH
Q 021937          216 EGLDVTEGGLAALVRLC-NGDMRKALNILQSTHMA---SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQN  291 (305)
Q Consensus       216 ~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~---~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~  291 (305)
                      .|..+++++++.++..+ +||+..+.+.+++++..   .+.||.++|+.++......+++++++++..++..+|+..++.
T Consensus       150 ~g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~e~nIF~L~dai~~~~~~~Al~il~~  229 (311)
T PRK05907        150 LGISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKEAASLWKLRDALLRRDRVEGHSLLRS  229 (311)
T ss_pred             cCCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCcccccHHHHHHHHHccCHHHHHHHHHH
Confidence            99999999999999999 69999999999998875   346999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHhhc
Q 021937          292 LSFI-IRLVLFVLL  304 (305)
Q Consensus       292 l~~~-~~~~~~~~~  304 (305)
                      |..+ +..|+.+|.
T Consensus       230 Ll~~~ge~p~~ILa  243 (311)
T PRK05907        230 LLSDMGEDPLGIIA  243 (311)
T ss_pred             HHHhcCCChHHHHH
Confidence            9999 888887764

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.69  E-value=1.8e-15  Score=132.82  Aligned_cols=204  Identities=20%  Similarity=0.241  Sum_probs=130.1

Q ss_pred             CCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      ...++++.|.+..++.+...+..             ..+.+++|+||||||||++|+++++.+     ...++.+.+...
T Consensus       118 ~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l-----~~~~~~v~~~~l  192 (364)
T TIGR01242       118 NVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET-----NATFIRVVGSEL  192 (364)
T ss_pred             CCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC-----CCCEEecchHHH
Confidence            34678999999999999887642             123459999999999999999999987     334444443221


Q ss_pred             c--ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHHh-----cCCceEEEE
Q 021937          116 R--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRFALI  177 (305)
Q Consensus       116 ~--~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~~-----~~~~~iil~  177 (305)
                      .  ........+.......     ....+.||+|||+|.+.           ...+..+..++...     ..++.+|++
T Consensus       193 ~~~~~g~~~~~i~~~f~~a-----~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~t  267 (364)
T TIGR01242       193 VRKYIGEGARLVREIFELA-----KEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAA  267 (364)
T ss_pred             HHHhhhHHHHHHHHHHHHH-----HhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEe
Confidence            0  0011111111111111     11225899999999883           23345566665432     246778888


Q ss_pred             ecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHhh-----
Q 021937          178 CNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTHM-----  248 (305)
Q Consensus       178 ~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~-~r~~~~~l~~~~~-----  248 (305)
                      +|..+.+++++.+  |+ ..+.++.|+.++..++++.++......- +..+..+++.+.|- .+.+.+++..+..     
T Consensus       268 tn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~-~~~~~~la~~t~g~sg~dl~~l~~~A~~~a~~~  346 (364)
T TIGR01242       268 TNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAE-DVDLEAIAKMTEGASGADLKAICTEAGMFAIRE  346 (364)
T ss_pred             cCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCc-cCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHh
Confidence            8988888898875  55 6799999999999999988776544321 12367788877653 3344444443333     


Q ss_pred             ccCccCHHHHHhhhC
Q 021937          249 ASQQITEEAVYLCTG  263 (305)
Q Consensus       249 ~~~~i~~~~v~~~~~  263 (305)
                      ....|+.+++.+++.
T Consensus       347 ~~~~i~~~d~~~a~~  361 (364)
T TIGR01242       347 ERDYVTMDDFIKAVE  361 (364)
T ss_pred             CCCccCHHHHHHHHH
Confidence            224577777776654

Many proteins may score above the trusted cutoff because an internal

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.69  E-value=2e-15  Score=135.18  Aligned_cols=167  Identities=20%  Similarity=0.252  Sum_probs=113.0

Q ss_pred             hhhcCCCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----Ccc
Q 021937           44 VEKYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHN  105 (305)
Q Consensus        44 ~~~~~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~  105 (305)
                      .+.+.+.+|+++.|.+..++.++..+..             ..+.+++||||||||||++++++++.+....     ...
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            3455667899999999999988887641             1334599999999999999999999985431     122


Q ss_pred             cEEEeecCCC------cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH------------HHHHHHHHHHH
Q 021937          106 MILELNASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD------------AQFALRRVIEK  167 (305)
Q Consensus       106 ~~~~~~~~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~------------~~~~l~~~l~~  167 (305)
                      .++.+.....      .....++..+..+....     ....+.||||||+|.+...            ....|+..++.
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 YFLNIKGPELLNKYVGETERQIRLIFQRAREKA-----SDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDG  327 (512)
T ss_pred             eEEeccchhhcccccchHHHHHHHHHHHHHHHh-----hcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcc
Confidence            3443333221      11112222222222111     1223689999999988421            12456666664


Q ss_pred             hc--CCceEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHH
Q 021937          168 YT--KNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEA  215 (305)
Q Consensus       168 ~~--~~~~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~  215 (305)
                      ..  .++.+|.+||..+.+++++.+  |+ ..++|++|+.+++.++++.++..
T Consensus       328 l~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       328 VESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             cccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc
Confidence            33  356777788999999999987  77 66999999999999999988754

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.

>PRK05629 hypothetical protein; Validated

Probab=99.68  E-value=1.1e-14  Score=125.47  Aligned_cols=220  Identities=12%  Similarity=0.065  Sum_probs=172.0

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCC-CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCc
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA  152 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~  152 (305)
                      .+.++|||+..--.-.....+.+.+...+ ....+..+++.+.. ..   +.+ ... ..++..+    +++|++++.+.
T Consensus         6 ~~vyL~~G~e~~l~~~~~~~i~~~~~~~~~~~~n~~~~d~~e~~-~~---~l~-~~~-t~slF~~----~rlV~v~~~~~   75 (318)
T PRK05629          6 PPVHLVLGDDEFLAERARLNIVHDIRSSMADSLQVTTLKASEVS-QG---ELL-DAL-SPSLFGE----DRVIVLTNMEQ   75 (318)
T ss_pred             CceEEEEeCHHHHHHHHHHHHHHHHhccCCCCCceEEeecccCC-HH---HHH-Hhh-CcCccCC----ceEEEEeChHh
Confidence            34589999886555555555555554433 34567777765432 22   222 333 3333333    79999999887


Q ss_pred             CCHHHHHHHHHHHHHhcCCceEEEEecCCc---ccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 021937          153 MTKDAQFALRRVIEKYTKNTRFALICNQVN---KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALV  229 (305)
Q Consensus       153 l~~~~~~~l~~~l~~~~~~~~iil~~~~~~---~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~  229 (305)
                      ..+...+.+..++..+++.+.+|+++....   .+.+.+...+..+.+.++...++..|+...+.+.|..+++++++.++
T Consensus        76 ~~~~~~~~l~~~l~~~~~~~~Lil~~~~~~~~kk~~K~l~k~~~~ve~~~~~~~~l~~wi~~~~~~~g~~i~~~A~~~L~  155 (318)
T PRK05629         76 AGKEPTDLALSAAVDPSPGIYLIIMHSGGGRTKSMVPKLEKIAVVHEAAKLKPRERPGWVTQEFKNHGVRPTPDVVHALL  155 (318)
T ss_pred             cChhHHHHHHHHHhCCCCCeEEEEEcCCcchhhHHHHHHHhcceEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            766667788889988887777777764332   23346666778899999999999999999999999999999999999


Q ss_pred             HHcCCCHHHHHHHHHHHhhc-cCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          230 RLCNGDMRKALNILQSTHMA-SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       230 ~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      ..+++|+..+.+.+++++.. .+.||.++|++++......+++++++++..++..+|+..++.|...+..|+.++
T Consensus       156 ~~~g~dl~~l~~EleKL~~~~~~~It~e~V~~~v~~~~~~~iF~l~dAv~~g~~~~Al~~l~~l~~~g~~pi~il  230 (318)
T PRK05629        156 EGVGSDLRELASAISQLVEDTQGNVTVEKVRAYYVGVAEVSGFDIADLACAGQVSKAVASTRRALQLGVSPVALA  230 (318)
T ss_pred             HHHCccHHHHHHHHHHHHhcCCCCcCHHHHHHHhCCCccchHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHH
Confidence            99999999999999998764 457999999999999999999999999999999999999999999988777664

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.68  E-value=8.9e-15  Score=139.33  Aligned_cols=183  Identities=19%  Similarity=0.231  Sum_probs=125.8

Q ss_pred             CCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      ..+|+++.|.+..++.|...+..             ..+.+++|+||||||||++|+++++++     ...++.+.++..
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            34788999999999988887641             123349999999999999999999997     456777765432


Q ss_pred             ------cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH------------HHHHHHHHHHHH--hcCCceEE
Q 021937          116 ------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIEK--YTKNTRFA  175 (305)
Q Consensus       116 ------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~------------~~~~~l~~~l~~--~~~~~~ii  175 (305)
                            .....++..+..+..         ..++||||||+|.+.+            ...+.|+..++.  ...++.+|
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                  122233444433322         2269999999998742            223456666663  23456777


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHcCCCH-HHHHHHHHHHh
Q 021937          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTE-GGLAALVRLCNGDM-RKALNILQSTH  247 (305)
Q Consensus       176 l~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~~l~~~~~g~~-r~~~~~l~~~~  247 (305)
                      .+||.++.+++++.+  || ..+++++|+.+++.++++....+..  ++. ..++.+++.+.|-- ..+.++++.++
T Consensus       595 ~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~--~~~~~~l~~la~~t~g~sgadi~~~~~~A~  669 (733)
T TIGR01243       595 AATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMP--LAEDVDLEELAEMTEGYTGADIEAVCREAA  669 (733)
T ss_pred             EeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCC--CCccCCHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            788999999999986  77 7799999999999999987665433  333 34778888887633 33334444444

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.

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

Probab=99.67  E-value=2.4e-15  Score=127.15  Aligned_cols=148  Identities=16%  Similarity=0.224  Sum_probs=108.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC------cChhHHHHHHHHhhhcccccCCCCCceEEEEEeC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDE  149 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe  149 (305)
                      .++||||||||||.+++++++++     ...++.++....      .....+++.+..+.....    .+..++||||||
T Consensus       150 gllL~GPPGcGKTllAraiA~el-----g~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~----~~~aPcVLFIDE  220 (413)
T PLN00020        150 ILGIWGGKGQGKSFQCELVFKKM-----GIEPIVMSAGELESENAGEPGKLIRQRYREAADIIK----KKGKMSCLFIND  220 (413)
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHc-----CCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhh----ccCCCeEEEEeh
Confidence            38999999999999999999998     556777776542      234455666655543221    122379999999


Q ss_pred             CCcCCHH-------H-----HHHHHHHHHH--------------hcCCceEEEEecCCcccchhhhc--ceeEEEecCCC
Q 021937          150 ADAMTKD-------A-----QFALRRVIEK--------------YTKNTRFALICNQVNKIIPALQS--RCTRFRFAPLE  201 (305)
Q Consensus       150 ~~~l~~~-------~-----~~~l~~~l~~--------------~~~~~~iil~~~~~~~l~~~l~~--r~~~i~~~~~~  201 (305)
                      +|.+...       .     ...|+.+++.              ....+.||.++|+++.++++|++  |+..+ +..|+
T Consensus       221 IDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~-i~lPd  299 (413)
T PLN00020        221 LDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKF-YWAPT  299 (413)
T ss_pred             hhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCCce-eCCCC
Confidence            9987531       1     2456666653              23456788889999999999998  77443 45799


Q ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Q 021937          202 PVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD  235 (305)
Q Consensus       202 ~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~  235 (305)
                      .+++.++++.++++.+  ++...+..|+...+|-
T Consensus       300 ~e~R~eIL~~~~r~~~--l~~~dv~~Lv~~f~gq  331 (413)
T PLN00020        300 REDRIGVVHGIFRDDG--VSREDVVKLVDTFPGQ  331 (413)
T ss_pred             HHHHHHHHHHHhccCC--CCHHHHHHHHHcCCCC
Confidence            9999999999888765  5678888899988875

>PRK07452 DNA polymerase III subunit delta; Validated

Probab=99.67  E-value=1.2e-14  Score=126.04  Aligned_cols=220  Identities=18%  Similarity=0.218  Sum_probs=166.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCC-CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l  153 (305)
                      |.++|||+..--+...++.+.+.+..+. ....+..+++.+.   +...+.+.. ....++..+    +++|+|++++.+
T Consensus         2 ~~yll~G~e~~l~~~~~~~l~~~~~~~~~~~fn~~~~d~~~~---~~~~~~~~~-~~t~pff~~----~rlVvv~~~~~~   73 (326)
T PRK07452          2 PIYLYWGEDDFALNQAIEKLIDQVVDPEWKSFNYSRLDGDDA---DQAIQALNE-AMTPPFGSG----GRLVWLKNSPLC   73 (326)
T ss_pred             CEEEEEcChHHHHHHHHHHHHHHhCCchhhhcchhhcCCccc---hHHHHHHHH-hcCCCCCCC----ceEEEEeCchhh
Confidence            5689999998888888888877663322 1234444444332   223344433 334444433    799999997654


Q ss_pred             ---CHHHHHHHHHHHHHhcCCceEEEEecC-C---cccchhhhcceeEEEecCC---CHHHHHHHHHHHHHHcCCCCCHH
Q 021937          154 ---TKDAQFALRRVIEKYTKNTRFALICNQ-V---NKIIPALQSRCTRFRFAPL---EPVHVTERLKHVIEAEGLDVTEG  223 (305)
Q Consensus       154 ---~~~~~~~l~~~l~~~~~~~~iil~~~~-~---~~l~~~l~~r~~~i~~~~~---~~~~~~~~l~~~~~~~~~~~~~~  223 (305)
                         .++..+.|..+++.+++.+.+|+++.. .   .+..+.+...+.+..|.++   +.+++..|+...+.+.|..++++
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               566778899999988888888776432 2   2344556666666666554   55779999999999999999999


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHhhc----cCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHH
Q 021937          224 GLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLV  299 (305)
Q Consensus       224 ~~~~l~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~  299 (305)
                      +++.|+..+++|++.+.+.+++++..    .+.|+.++|++++... ..+++++++++..++..+|+..++.|..++..|
T Consensus       154 a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~~-~~~if~l~dai~~~~~~~A~~~l~~L~~~g~~p  232 (326)
T PRK07452        154 AAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSNT-TQNSLQLADALLQGNTGKALALLDDLLDANEPA  232 (326)
T ss_pred             HHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhccC-cCcHHHHHHHHHCCCHHHHHHHHHHHHHCCCcH
Confidence            99999999999999999999999885    2369999999999886 578999999999999999999999999988877


Q ss_pred             HHhh
Q 021937          300 LFVL  303 (305)
Q Consensus       300 ~~~~  303 (305)
                      +.++
T Consensus       233 ~~il  236 (326)
T PRK07452        233 LRIV  236 (326)
T ss_pred             HHHH
Confidence            7665

>PRK07914 hypothetical protein; Reviewed

Probab=99.67  E-value=2.7e-14  Score=123.21  Aligned_cols=219  Identities=13%  Similarity=0.094  Sum_probs=172.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhC-CC-CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCc
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYG-AQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA  152 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~  152 (305)
                      |.++|+|+.-.-.......+.+.+.. .+ ....+..+++.+...    .+ +.+.. ..++..+    +++|++++...
T Consensus         6 ~iYll~G~E~~l~~~~~~~i~~~~~~~~~~~~~n~~~~d~~~~~~----~~-i~~~~-t~plF~~----rRlV~v~~~~~   75 (320)
T PRK07914          6 PLHLVLGDEELLVERAVAAVLRSARQRAGTADVPVSRMRAGDVST----YE-LAELL-SPSLFAE----ERVVVLEAAAE   75 (320)
T ss_pred             ceEEEEecHHHHHHHHHHHHHHHHhcCcCCCCCceEEeccccCCH----HH-HHHhc-CCCCCCC----ceEEEEeChHh
Confidence            55899999977777666777666543 23 355667776654322    22 33443 3343333    79999999877


Q ss_pred             CCHHHHHHHHHHHHHhcCCceEEEEecCCc---ccchhhhcce-eEEEecCC-CHHHHHHHHHHHHHHcCCCCCHHHHHH
Q 021937          153 MTKDAQFALRRVIEKYTKNTRFALICNQVN---KIIPALQSRC-TRFRFAPL-EPVHVTERLKHVIEAEGLDVTEGGLAA  227 (305)
Q Consensus       153 l~~~~~~~l~~~l~~~~~~~~iil~~~~~~---~l~~~l~~r~-~~i~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~  227 (305)
                      +..+..+.|..+++.+++.+.+|++.+...   .+.+.+.... ..+.+.++ +..++..|+...+.+.|..+++++++.
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            766677889999998887777777653221   2334565554 57899988 999999999999999999999999999


Q ss_pred             HHHHcCCCHHHHHHHHHHHhhc-cCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          228 LVRLCNGDMRKALNILQSTHMA-SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       228 l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      +++.++||+..+.+.+++++.. .+.||.++|++++......+++++++++..++..+|+..++.|...+..|+.++
T Consensus       156 L~~~~g~dl~~l~~EleKL~~~~~~~It~e~V~~~v~~~~~~~vf~L~dAi~~g~~~~A~~~l~~L~~~ge~p~~il  232 (320)
T PRK07914        156 LLDAVGSDLRELASACSQLVADTGGAVDAAAVRRYHSGKAEVKGFDIADKAVAGDVAGAAEALRWAMMRGEPHVVLA  232 (320)
T ss_pred             HHHHHCccHHHHHHHHHHHhcCCCCCcCHHHHHHHcCCCeechHHHHHHHHHCCCHHHHHHHHHHHHHCCCchHHHH
Confidence            9999999999999999998763 467999999999999999999999999999999999999999999888777665

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.67  E-value=2.3e-15  Score=144.97  Aligned_cols=202  Identities=15%  Similarity=0.194  Sum_probs=140.6

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCCC
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD  115 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~  115 (305)
                      .++.++.+|..++.++|+++.+..+...+.....++.+|+||||+|||++++.++..+....     ....++.++....
T Consensus       161 ~~l~~~~~~~~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l  240 (852)
T TIGR03346       161 RDLTERAREGKLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGAL  240 (852)
T ss_pred             hhHHHHhhCCCCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHH
Confidence            35677789999999999999999999999888888899999999999999999999874321     1223444332211


Q ss_pred             ----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--------HHHHHHHHHHHHhcCCceEEEEecCC--
Q 021937          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------DAQFALRRVIEKYTKNTRFALICNQV--  181 (305)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------~~~~~l~~~l~~~~~~~~iil~~~~~--  181 (305)
                          .........+........    ...++.||||||+|.+..        +..+.|...+..  ....+|.+|+..  
T Consensus       241 ~a~~~~~g~~e~~l~~~l~~~~----~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~--g~i~~IgaTt~~e~  314 (852)
T TIGR03346       241 IAGAKYRGEFEERLKAVLNEVT----KSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR--GELHCIGATTLDEY  314 (852)
T ss_pred             hhcchhhhhHHHHHHHHHHHHH----hcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc--CceEEEEeCcHHHH
Confidence                111122222222222110    011268999999998863        223344444432  245566666543  


Q ss_pred             ---cccchhhhcceeEEEecCCCHHHHHHHHHHHHHHc----CCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHhh
Q 021937          182 ---NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE----GLDVTEGGLAALVRLCNG------DMRKALNILQSTHM  248 (305)
Q Consensus       182 ---~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~----~~~~~~~~~~~l~~~~~g------~~r~~~~~l~~~~~  248 (305)
                         ...++++.+||+.+.++.|+.++...++.....+.    ++.++++++..++..+.+      -|.+|+.+|+.++.
T Consensus       315 r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~~r~lPdkAidlld~a~a  394 (852)
T TIGR03346       315 RKYIEKDAALERRFQPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPDKAIDLIDEAAA  394 (852)
T ss_pred             HHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccccccccCCchHHHHHHHHHHH
Confidence               34689999999999999999999999988776653    567888899888887753      38999999987775

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.

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=99.67  E-value=6.1e-15  Score=117.27  Aligned_cols=196  Identities=21%  Similarity=0.274  Sum_probs=129.4

Q ss_pred             CccccccchHHHHHHHHHHh-------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC---
Q 021937           51 SLADVAAHRDIVDTIDRLTS-------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD---  114 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~-------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~---  114 (305)
                      ++.++-|.+-.++++++...             -.++..+++|||||||||.+++++++..     ...|+.+.++.   
T Consensus       153 sy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t-----~a~firvvgsefvq  227 (408)
T KOG0727|consen  153 SYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHT-----TAAFIRVVGSEFVQ  227 (408)
T ss_pred             cccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhcc-----chheeeeccHHHHH
Confidence            56677776655555555543             3455669999999999999999999975     55677777654   


Q ss_pred             ---CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHH-----hcCCceEE
Q 021937          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEK-----YTKNTRFA  175 (305)
Q Consensus       115 ---~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~-----~~~~~~ii  175 (305)
                         ..++..++..+.-+...         .+.+|||||+|.+..           +.+..|+.+++.     ...++.+|
T Consensus       228 kylgegprmvrdvfrlaken---------apsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvi  298 (408)
T KOG0727|consen  228 KYLGEGPRMVRDVFRLAKEN---------APSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVI  298 (408)
T ss_pred             HHhccCcHHHHHHHHHHhcc---------CCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEE
Confidence               23344444444444333         268999999998842           456667777764     34688999


Q ss_pred             EEecCCcccchhhhcce---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHhh-
Q 021937          176 LICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR---LCNGDMRKALNILQSTHM-  248 (305)
Q Consensus       176 l~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~---~~~g~~r~~~~~l~~~~~-  248 (305)
                      +++|+.+.++|++.+-.   +.+.|+-|+..+.+-++..+..+.++.-+-+.-+.+++   .++.++.   ..||.+.. 
T Consensus       299 matnradtldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rpdkis~adi~---aicqeagm~  375 (408)
T KOG0727|consen  299 MATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARPDKISGADIN---AICQEAGML  375 (408)
T ss_pred             EecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCccccchhhHH---HHHHHHhHH
Confidence            99999999999998754   66999988888887778777777665433333344443   2233333   33444433 


Q ss_pred             ----ccCccCHHHHHhhhC
Q 021937          249 ----ASQQITEEAVYLCTG  263 (305)
Q Consensus       249 ----~~~~i~~~~v~~~~~  263 (305)
                          +...+...++++...
T Consensus       376 avr~nryvvl~kd~e~ay~  394 (408)
T KOG0727|consen  376 AVRENRYVVLQKDFEKAYK  394 (408)
T ss_pred             HHHhcceeeeHHHHHHHHH
Confidence                223366666665543

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

Probab=99.66  E-value=2.5e-14  Score=120.78  Aligned_cols=203  Identities=19%  Similarity=0.218  Sum_probs=125.3

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccccc--
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS--  135 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--  135 (305)
                      +...+..+...+..+ .+.++|+||+|+||||+++.+++.+.+...  ....+.... .....+...+........-.  
T Consensus        28 ~~~~~~~l~~~~~~~-~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~--~~~~~~~~~-~~~~~~l~~i~~~lG~~~~~~~  103 (269)
T TIGR03015        28 HKRAMAYLEYGLSQR-EGFILITGEVGAGKTTLIRNLLKRLDQERV--VAAKLVNTR-VDAEDLLRMVAADFGLETEGRD  103 (269)
T ss_pred             HHHHHHHHHHHHhcC-CCEEEEEcCCCCCHHHHHHHHHHhcCCCCe--EEeeeeCCC-CCHHHHHHHHHHHcCCCCCCCC
Confidence            344444444444332 335899999999999999999998753221  111111111 11112221121111100000  


Q ss_pred             --------------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc---CCceEEEEecCC------cccchhhhcce
Q 021937          136 --------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---KNTRFALICNQV------NKIIPALQSRC  192 (305)
Q Consensus       136 --------------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~---~~~~iil~~~~~------~~l~~~l~~r~  192 (305)
                                    .....++.+++|||+|.+.....+.+..+.+...   ....+++++...      ......+.+|+
T Consensus       104 ~~~~~~~l~~~l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~  183 (269)
T TIGR03015       104 KAALLRELEDFLIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRI  183 (269)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhhe
Confidence                          0012346799999999999887776665544221   122344554321      01123466664


Q ss_pred             -eEEEecCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-----ccCccCHHHHHhhh
Q 021937          193 -TRFRFAPLEPVHVTERLKHVIEAEG----LDVTEGGLAALVRLCNGDMRKALNILQSTHM-----ASQQITEEAVYLCT  262 (305)
Q Consensus       193 -~~i~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~  262 (305)
                       ..+++++++.+++.+++...+...+    ..+++++++.|++.++|++|.+...+..+..     ..+.|+.++|+.++
T Consensus       184 ~~~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~  263 (269)
T TIGR03015       184 IASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVI  263 (269)
T ss_pred             eeeeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence             6789999999999999999887665    3689999999999999999998777765533     23569999988876


Q ss_pred             CC
Q 021937          263 GN  264 (305)
Q Consensus       263 ~~  264 (305)
                      ..
T Consensus       264 ~~  265 (269)
T TIGR03015       264 AE  265 (269)
T ss_pred             HH
Confidence            54

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.

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

Probab=99.66  E-value=6e-15  Score=135.27  Aligned_cols=202  Identities=20%  Similarity=0.245  Sum_probs=143.4

Q ss_pred             CCCCccccccchHHHHHHHHHHh-----------cCCC-CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTS-----------ENRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~-----------~~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      .+..|.++.|.++++++|.+...           +.+. ..++|+||||||||.||+++|.+.     ..+|+.++++..
T Consensus       306 t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-----gVPF~svSGSEF  380 (774)
T KOG0731|consen  306 TGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----GVPFFSVSGSEF  380 (774)
T ss_pred             CCCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-----CCceeeechHHH
Confidence            34579999999999998888765           2233 349999999999999999999987     778888887752


Q ss_pred             ------cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH---------------HHHHHHHHHHHh--cCCc
Q 021937          116 ------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD---------------AQFALRRVIEKY--TKNT  172 (305)
Q Consensus       116 ------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~---------------~~~~l~~~l~~~--~~~~  172 (305)
                            .+...+++.+..+....         +++|+|||+|.+...               ..+.|+--++..  ...+
T Consensus       381 vE~~~g~~asrvr~lf~~ar~~a---------P~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~v  451 (774)
T KOG0731|consen  381 VEMFVGVGASRVRDLFPLARKNA---------PSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGV  451 (774)
T ss_pred             HHHhcccchHHHHHHHHHhhccC---------CeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcE
Confidence                  23444455554443333         699999999987532               123344444432  3345


Q ss_pred             eEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH-HHHhh
Q 021937          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHM  248 (305)
Q Consensus       173 ~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l-~~~~~  248 (305)
                      .++.+||.++.+++++.+  |+ +.++++.|+.....++++.++...+...++..+..++..+.|....-+..+ ..++.
T Consensus       452 i~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~neaa~  531 (774)
T KOG0731|consen  452 IVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNEAAL  531 (774)
T ss_pred             EEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhHHHH
Confidence            666678999999999987  45 679999999999999999998877766566666669999988766655443 43333


Q ss_pred             -----ccCccCHHHHHhhhC
Q 021937          249 -----ASQQITEEAVYLCTG  263 (305)
Q Consensus       249 -----~~~~i~~~~v~~~~~  263 (305)
                           ....|+..++..++.
T Consensus       532 ~a~r~~~~~i~~~~~~~a~~  551 (774)
T KOG0731|consen  532 LAARKGLREIGTKDLEYAIE  551 (774)
T ss_pred             HHHHhccCccchhhHHHHHH
Confidence                 224466666655554

>TIGR00763 lon ATP-dependent protease La

Probab=99.65  E-value=3.6e-15  Score=142.39  Aligned_cols=198  Identities=22%  Similarity=0.272  Sum_probs=132.8

Q ss_pred             ccccchHHHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChh--------
Q 021937           54 DVAAHRDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID--------  119 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~--------  119 (305)
                      ++.|++..++.+..++..      ...++++|+||||||||++++++++.+     ...++.++........        
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l-----~~~~~~i~~~~~~~~~~i~g~~~~  395 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL-----NRKFVRFSLGGVRDEAEIRGHRRT  395 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh-----cCCeEEEeCCCcccHHHHcCCCCc
Confidence            578999999988886542      234569999999999999999999998     3345555443221111        


Q ss_pred             -------HHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHH----HHHHHHHHHHh---------------cCCce
Q 021937          120 -------VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA----QFALRRVIEKY---------------TKNTR  173 (305)
Q Consensus       120 -------~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~----~~~l~~~l~~~---------------~~~~~  173 (305)
                             .+.+.+...          .....||+|||+|.+....    .+.|+.+++..               ..++.
T Consensus       396 ~~g~~~g~i~~~l~~~----------~~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~  465 (775)
T TIGR00763       396 YVGAMPGRIIQGLKKA----------KTKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVI  465 (775)
T ss_pred             eeCCCCchHHHHHHHh----------CcCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEE
Confidence                   111111111          1113499999999997532    46788887641               03567


Q ss_pred             EEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHH-----Hc-----CCCCCHHHHHHHHHHcC--CCHHHHHH
Q 021937          174 FALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE-----AE-----GLDVTEGGLAALVRLCN--GDMRKALN  241 (305)
Q Consensus       174 iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~-----~~-----~~~~~~~~~~~l~~~~~--g~~r~~~~  241 (305)
                      ||+++|....+++++++|+.++.|++|+.++..++++.++.     ..     ++.++++++..|++...  ..+|.+..
T Consensus       466 ~I~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l~r  545 (775)
T TIGR00763       466 FIATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNLER  545 (775)
T ss_pred             EEEecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHHHH
Confidence            77888998899999999999999999999999888876552     22     34689999999887442  33454444


Q ss_pred             HHHHHhh------c--c---------CccCHHHHHhhhCCCC
Q 021937          242 ILQSTHM------A--S---------QQITEEAVYLCTGNPL  266 (305)
Q Consensus       242 ~l~~~~~------~--~---------~~i~~~~v~~~~~~~~  266 (305)
                      .++..+.      .  .         -.++.++++..++...
T Consensus       546 ~i~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~~~~~lg~~~  587 (775)
T TIGR00763       546 QIEKICRKAAVKLVEQGEKKKSEAESVVITPDNLKKYLGKPV  587 (775)
T ss_pred             HHHHHHHHHHHHHHhccCcccCCcccccCCHHHHHHhcCccc
Confidence            4433331      0  0         1467777777776553

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.65  E-value=3.7e-14  Score=118.70  Aligned_cols=192  Identities=20%  Similarity=0.213  Sum_probs=122.9

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHH---------HHHhh
Q 021937           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ---------IQDFA  129 (305)
Q Consensus        59 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------i~~~~  129 (305)
                      ...++.+..++..+  .+++|+||||||||++|+.+++.+     ...++.+++........+...         ...+.
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            34455666666655  358999999999999999999876     445666665543332222110         00000


Q ss_pred             ----hcc-----cccCC----CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc----------------CCceEEEEecC
Q 021937          130 ----STQ-----SFSFG----VKASVKLVLLDEADAMTKDAQFALRRVIEKYT----------------KNTRFALICNQ  180 (305)
Q Consensus       130 ----~~~-----~~~~~----~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~----------------~~~~iil~~~~  180 (305)
                          ...     .+..+    ....+.+++|||+++++++.++.|+.++++..                ++.++|+++|.
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                000     00000    01235799999999999999999999997521                24567777775


Q ss_pred             C-----cccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC----------CCHHHHHHHHHH
Q 021937          181 V-----NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCN----------GDMRKALNILQS  245 (305)
Q Consensus       181 ~-----~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~----------g~~r~~~~~l~~  245 (305)
                      .     ..+.+++.+||..+.++.|+.++..+++...+     .++++..+.+++...          -.+|.++...+.
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     24578899999999999999999998887753     356666666665431          127777777766


Q ss_pred             Hhhcc--CccCHHHHHhhh
Q 021937          246 THMAS--QQITEEAVYLCT  262 (305)
Q Consensus       246 ~~~~~--~~i~~~~v~~~~  262 (305)
                      +...+  ..++++++.++.
T Consensus       236 ~~~~~~~~~~~~~~~~~~~  254 (262)
T TIGR02640       236 ATQQDIPVDVDDEDFVDLC  254 (262)
T ss_pred             HHHcCCCCCCCcHHHHHHH
Confidence            66543  235555554443

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).

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

Probab=99.64  E-value=1.4e-14  Score=136.14  Aligned_cols=210  Identities=12%  Similarity=0.143  Sum_probs=138.1

Q ss_pred             CCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC-----cccEEEeecCC----CcCh
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASD----DRGI  118 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-----~~~~~~~~~~~----~~~~  118 (305)
                      +-..++.++|++..+..+...+.....++++|+||||+|||++|+.++..+.....     ...++.++...    ....
T Consensus       181 ~~g~~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~~  260 (758)
T PRK11034        181 RVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYR  260 (758)
T ss_pred             HcCCCCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccchh
Confidence            45678899999999999999999887788999999999999999999987643321     11222222111    0111


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----HHHHHHHHHHHHhc--CCceEEEEecCC-----cccch
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----DAQFALRRVIEKYT--KNTRFALICNQV-----NKIIP  186 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----~~~~~l~~~l~~~~--~~~~iil~~~~~-----~~l~~  186 (305)
                      ......+.......     ....+.+|||||+|.+..     ..+..+.+++...-  ....+|.+|+..     ...++
T Consensus       261 Ge~e~rl~~l~~~l-----~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g~i~vIgATt~~E~~~~~~~D~  335 (758)
T PRK11034        261 GDFEKRFKALLKQL-----EQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIFEKDR  335 (758)
T ss_pred             hhHHHHHHHHHHHH-----HhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCCCeEEEecCChHHHHHHhhccH
Confidence            12222222221111     011257999999998831     11222333333221  245555555543     24689


Q ss_pred             hhhcceeEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcC------CCHHHHHHHHHHHhhcc------
Q 021937          187 ALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCN------GDMRKALNILQSTHMAS------  250 (305)
Q Consensus       187 ~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~------g~~r~~~~~l~~~~~~~------  250 (305)
                      ++.+||+.+.+++|+.++..++++....+    .++.++++++..+++++.      .-|..++.+|+.++...      
T Consensus       336 AL~rRFq~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaidlldea~a~~~~~~~~  415 (758)
T PRK11034        336 ALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGARARLMPVS  415 (758)
T ss_pred             HHHhhCcEEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHHHHHHHHHHHhhccCccc
Confidence            99999999999999999999999876553    467899999988887664      35789999998887422      


Q ss_pred             ---CccCHHHHHhhh
Q 021937          251 ---QQITEEAVYLCT  262 (305)
Q Consensus       251 ---~~i~~~~v~~~~  262 (305)
                         ..++.++|.+++
T Consensus       416 ~~~~~v~~~~i~~v~  430 (758)
T PRK11034        416 KRKKTVNVADIESVV  430 (758)
T ss_pred             ccccccChhhHHHHH
Confidence               236666666554

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.64  E-value=4.9e-15  Score=142.13  Aligned_cols=199  Identities=16%  Similarity=0.196  Sum_probs=140.4

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCCC
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD  115 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~  115 (305)
                      .++.++.+|..++.++|++..+..+...+.....++++|+||||+|||++++.++..+....     ....++.++....
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            34666778999999999999999999999998888899999999999999999999874321     1233444433221


Q ss_pred             ----cC----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------HHHHHHHHHHHhcCCceEEEEec
Q 021937          116 ----RG----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       116 ----~~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                          ..    ...++..+......        ..+.||||||+|.+...        ..+.|...+...  ...+|.+|+
T Consensus       246 ~ag~~~~g~~e~~lk~~~~~~~~~--------~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g--~l~~IgaTt  315 (857)
T PRK10865        246 VAGAKYRGEFEERLKGVLNDLAKQ--------EGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVGATT  315 (857)
T ss_pred             hhccchhhhhHHHHHHHHHHHHHc--------CCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcC--CCeEEEcCC
Confidence                11    12233333333221        12689999999999632        345555555432  556666665


Q ss_pred             CCc-----ccchhhhcceeEEEecCCCHHHHHHHHHHHHHHc----CCCCCHHHHHHHHHHcC------CCHHHHHHHHH
Q 021937          180 QVN-----KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE----GLDVTEGGLAALVRLCN------GDMRKALNILQ  244 (305)
Q Consensus       180 ~~~-----~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~----~~~~~~~~~~~l~~~~~------g~~r~~~~~l~  244 (305)
                      ..+     ..++++.+||+.+.+..|+.++...+++....+.    ++.++++++...+..+.      .-|..|+.++.
T Consensus       316 ~~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~~~~e~~~~v~~~d~a~~~a~~ls~ry~~~~~~pdkAi~LiD  395 (857)
T PRK10865        316 LDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKAIDLID  395 (857)
T ss_pred             CHHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHhhhhccCCCCCcCHHHHHHHHHHhhccccCCCCChHHHHHHH
Confidence            443     4689999999889999999999999887766543    56778888877766653      35778888887


Q ss_pred             HHhhc
Q 021937          245 STHMA  249 (305)
Q Consensus       245 ~~~~~  249 (305)
                      .++..
T Consensus       396 ~aaa~  400 (857)
T PRK10865        396 EAASS  400 (857)
T ss_pred             HHhcc
Confidence            77653

>PRK08487 DNA polymerase III subunit delta; Validated

Probab=99.64  E-value=1.4e-13  Score=119.15  Aligned_cols=227  Identities=20%  Similarity=0.174  Sum_probs=168.8

Q ss_pred             HHHHHHHhcCC-CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCc
Q 021937           63 DTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKAS  141 (305)
Q Consensus        63 ~~l~~~l~~~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  141 (305)
                      +++...++.+. .|.++|+|..---....+..+.+.+...+.... +..+  . .+   ..+ +.......++.++    
T Consensus         4 ~~l~~~lk~~~l~~vyll~GeE~yli~~~~~~i~~~~~~~~~~~~-~~~~--~-~~---~~~-i~~~~~t~plF~~----   71 (328)
T PRK08487          4 KELDTLLKQNKLPNAFLLYGEDEFQIELYAKKISEKFKPENELKT-LYFD--E-YD---FEQ-AKDFLSQSSLFGG----   71 (328)
T ss_pred             HHHHHHHhcCCCCceEEEecCchhHHHHHHHHHHHHhcCchHhhh-hchh--h-cc---HHH-HHHHHhcccccCC----
Confidence            35666677664 455899999977777777777776543322211 2222  1 11   222 3333344443333    


Q ss_pred             eEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc---ccchhhhcc--eeEEEecCCCHHHHHHHHHHHHHHc
Q 021937          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN---KIIPALQSR--CTRFRFAPLEPVHVTERLKHVIEAE  216 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~---~l~~~l~~r--~~~i~~~~~~~~~~~~~l~~~~~~~  216 (305)
                      +.+|++.+.+.........|..+++.++..+.+|++.....   .+.+.+...  +..+.+.+++..++..|+...+.+.
T Consensus        72 ~rlViv~~~~~~~~~~~~~L~~~l~~~~~~~~lv~~~~~~~k~kkl~k~~~~~k~~~~v~~~~~~~~~l~~~i~~~~~~~  151 (328)
T PRK08487         72 KNLLIIKLDKKIPKKELKLLIELCEKNSDNYFIIELYGADSKTKDIEKLFQKKDEAVFVRFFKPNAREALELLQERAKEL  151 (328)
T ss_pred             ceEEEEecccccCHHHHHHHHHHHhcCCCCEEEEEecCCcchhHHHHHHhccCCCceEEEeeCCCHHHHHHHHHHHHHHh
Confidence            79999998877766667888888888765555554443322   122333322  4578899999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHH
Q 021937          217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFII  296 (305)
Q Consensus       217 ~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~  296 (305)
                      |..+++++++.++..+++|...+.+.|++++...+.||.++|..++......+++++++++..++  .++..++.|..++
T Consensus       152 g~~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~~It~edV~~~v~~~~e~~vF~l~dai~~g~--~a~~~l~~L~~~g  229 (328)
T PRK08487        152 GLDIDQNALNHLYFIHNEDLALAANELEKLAILNEPITLKDIQELVFGLGSVSFEDFFEKLLNKK--DIKDDLEKLLEEG  229 (328)
T ss_pred             CCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcCCCCHHHHHHHhcccccccHHHHHHHHHCCC--cHHHHHHHHHHCC
Confidence            99999999999999999999999999999999888899999999999999999999999999988  5788899998888


Q ss_pred             HHHHHhh
Q 021937          297 RLVLFVL  303 (305)
Q Consensus       297 ~~~~~~~  303 (305)
                      ..|+.++
T Consensus       230 ~~pi~Il  236 (328)
T PRK08487        230 FNEIALL  236 (328)
T ss_pred             CCHHHHH
Confidence            8877665

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.64  E-value=1.9e-14  Score=130.27  Aligned_cols=169  Identities=22%  Similarity=0.282  Sum_probs=117.1

Q ss_pred             CCccccccchHHHHHHHHHHhc----------C--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC--
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE----------N--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~----------~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (305)
                      .+|+++-|-++.+..+...+.-          +  +..+++||||||||||.+|+++|.++     ...|+.+.+++.  
T Consensus       669 V~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc-----sL~FlSVKGPELLN  743 (953)
T KOG0736|consen  669 VSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC-----SLNFLSVKGPELLN  743 (953)
T ss_pred             cchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc-----eeeEEeecCHHHHH
Confidence            3789999999999998888752          1  23459999999999999999999998     677888776652  


Q ss_pred             ----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH-------------HHHHHHHHHHHhc----CCceE
Q 021937          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-------------AQFALRRVIEKYT----KNTRF  174 (305)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-------------~~~~l~~~l~~~~----~~~~i  174 (305)
                          .....+++.++.+         +.+.++|||+||+|.+.+.             ....|+.-++...    ..+-+
T Consensus       744 MYVGqSE~NVR~VFerA---------R~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFV  814 (953)
T KOG0736|consen  744 MYVGQSEENVREVFERA---------RSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFV  814 (953)
T ss_pred             HHhcchHHHHHHHHHHh---------hccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEE
Confidence                2333444444443         3445799999999999542             3455666666443    23445


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCCHHHHHH-HHHHHHHHcCCCCCHHH-HHHHHHHcCC
Q 021937          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTE-RLKHVIEAEGLDVTEGG-LAALVRLCNG  234 (305)
Q Consensus       175 il~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~-~~~l~~~~~g  234 (305)
                      |.+||+++-+++++.+  || ..+++.+.+..+-+. +++...+  .+.+++++ +.+|++.|.-
T Consensus       815 iGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTr--kFkLdedVdL~eiAk~cp~  877 (953)
T KOG0736|consen  815 IGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTR--KFKLDEDVDLVEIAKKCPP  877 (953)
T ss_pred             EecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHH--HccCCCCcCHHHHHhhCCc
Confidence            5567999999999987  56 557777777655444 4444433  34455443 6778888753

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.63  E-value=8e-15  Score=140.31  Aligned_cols=193  Identities=25%  Similarity=0.325  Sum_probs=134.3

Q ss_pred             cccccchHHHHHHHHHHhcC--------CC-CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHH
Q 021937           53 ADVAAHRDIVDTIDRLTSEN--------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~--------~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (305)
                      ..++||+..++.+.+.+...        ++ ..++|+||+|+|||.+|+++++.+....  ..++.++.+..........
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            46889999999888887531        11 2389999999999999999999985432  2455555443221111111


Q ss_pred             HHHHhhhcccccC-------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC----
Q 021937          124 QIQDFASTQSFSF-------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV----  181 (305)
Q Consensus       124 ~i~~~~~~~~~~~-------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~----  181 (305)
                      .+.....+..+..       -.+.+++||+|||++.++++.++.|++++++..           .++.+|+++|..    
T Consensus       644 l~g~~~gyvg~~~~g~L~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg~~~~  723 (852)
T TIGR03345       644 LKGSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAGSDLI  723 (852)
T ss_pred             ccCCCCCcccccccchHHHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCCchHHH
Confidence            1111000000000       012457899999999999999999999999764           567788887521    


Q ss_pred             -------------------------cccchhhhcceeEEEecCCCHHHHHHHHHHHHHH-------c-C--CCCCHHHHH
Q 021937          182 -------------------------NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA-------E-G--LDVTEGGLA  226 (305)
Q Consensus       182 -------------------------~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~-------~-~--~~~~~~~~~  226 (305)
                                               ..+.|.+.+|+.++.|.|++.+++.+++...+..       . +  +.+++++++
T Consensus       724 ~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEflnRi~iI~F~pLs~e~l~~Iv~~~L~~l~~rl~~~~gi~l~i~d~a~~  803 (852)
T TIGR03345       724 MALCADPETAPDPEALLEALRPELLKVFKPAFLGRMTVIPYLPLDDDVLAAIVRLKLDRIARRLKENHGAELVYSEALVE  803 (852)
T ss_pred             HHhccCcccCcchHHHHHHHHHHHHHhccHHHhcceeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHH
Confidence                                     0245778889999999999999999988776543       1 4  367999999


Q ss_pred             HHHHHcCC---CHHHHHHHHHHHh
Q 021937          227 ALVRLCNG---DMRKALNILQSTH  247 (305)
Q Consensus       227 ~l~~~~~g---~~r~~~~~l~~~~  247 (305)
                      .|++.+.+   ..|.+.+.++...
T Consensus       804 ~La~~g~~~~~GAR~L~r~Ie~~i  827 (852)
T TIGR03345       804 HIVARCTEVESGARNIDAILNQTL  827 (852)
T ss_pred             HHHHHcCCCCCChHHHHHHHHHHH
Confidence            99999876   6899998887643

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.

>PRK06585 holA DNA polymerase III subunit delta; Reviewed

Probab=99.63  E-value=1.5e-13  Score=119.97  Aligned_cols=230  Identities=16%  Similarity=0.194  Sum_probs=170.8

Q ss_pred             HHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC-cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCC
Q 021937           64 TIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKA  140 (305)
Q Consensus        64 ~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  140 (305)
                      .+...+..  +..+.++|||+........++.+.+.+...+. ...+..+++....  ....+ +.......++.++   
T Consensus         8 ~~~~~l~~~~~~~~~yll~G~e~~li~~~~~~l~~~~~~~~~~~fn~~~~~~~e~~--~~~~~-~~~~~~t~slF~~---   81 (343)
T PRK06585          8 EVDRFLARPDPKIRAVLLYGPDRGLVRERARRLAKSVVPDLDDPFAVVRLDGDDLD--ADPAR-LEDEANAISLFGG---   81 (343)
T ss_pred             HHHHHHhCCCCCCeEEEEeCCchHHHHHHHHHHHHHhcCCCCCCcceeeccHHHhh--cCHHH-HHHHHhCCCCCCC---
Confidence            33444443  24566999999998888888888887643321 2344444432211  01223 3333444443333   


Q ss_pred             ceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc---ccchhhh--cceeEEEecCCCHHHHHHHHHHHHHH
Q 021937          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN---KIIPALQ--SRCTRFRFAPLEPVHVTERLKHVIEA  215 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~---~l~~~l~--~r~~~i~~~~~~~~~~~~~l~~~~~~  215 (305)
                       +.+|++.+.+   +...+.|..+++.+++.+.+|+.+...+   .+.+.+.  ..+..+.+.+++..++..|+...+.+
T Consensus        82 -~rlViv~~~~---~~~~~~L~~~l~~~~~~~~lil~~~~~~~~~kl~k~~~~~~~~~~v~~~~~~~~~l~~~i~~~~~~  157 (343)
T PRK06585         82 -RRLIWVRAGS---KNLAAALKALLESPPGDAFIVIEAGDLKKGSSLRKLFETAAYAAAIPCYADDERDLARLIDDELAE  157 (343)
T ss_pred             -ceEEEEECCc---hhHHHHHHHHHcCCCCCcEEEEEcCCCCcccHHHHHHhcCCCeeEEecCCCCHHHHHHHHHHHHHH
Confidence             6899999654   3345678888888777777776654322   2333332  23466788899999999999999999


Q ss_pred             cCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc---CccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHH
Q 021937          216 EGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS---QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL  292 (305)
Q Consensus       216 ~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~---~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l  292 (305)
                      .|..+++++++.+++.++||++.+.+.+++++...   +.||.++|++++......+++++++++..++..+|+..++.+
T Consensus       158 ~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~~e~~if~l~dai~~~~~~~a~~~l~~l  237 (343)
T PRK06585        158 AGLRITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDASALSLDDAADAALAGDLAAFERALDRA  237 (343)
T ss_pred             CCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCcccccHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999998863   469999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 021937          293 SFIIRLVLFVL  303 (305)
Q Consensus       293 ~~~~~~~~~~~  303 (305)
                      ..++..|+.++
T Consensus       238 l~~g~~p~~il  248 (343)
T PRK06585        238 LAEGTAPVLIL  248 (343)
T ss_pred             HHcCCCHHHHH
Confidence            99988877665

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

Probab=99.63  E-value=2.6e-14  Score=122.91  Aligned_cols=198  Identities=18%  Similarity=0.209  Sum_probs=131.5

Q ss_pred             CCCCccccccchHHHH----HHHHHHhcC---------CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           48 RPQSLADVAAHRDIVD----TIDRLTSEN---------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~----~l~~~l~~~---------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      .|.+|+.++-.+...+    .|...+++.         -..+++||||||||||+++.++|+.+     ...+..++.+.
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            4567877777655555    444554432         12349999999999999999999998     45556666555


Q ss_pred             CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH------------------HHHHHHHHHHHHhcC----Cc
Q 021937          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------------DAQFALRRVIEKYTK----NT  172 (305)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~------------------~~~~~l~~~l~~~~~----~~  172 (305)
                      .....+++.++.....           +.||+|+|+|+-..                  -....|+++++....    ..
T Consensus       271 v~~n~dLr~LL~~t~~-----------kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ER  339 (457)
T KOG0743|consen  271 VKLDSDLRHLLLATPN-----------KSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDER  339 (457)
T ss_pred             ccCcHHHHHHHHhCCC-----------CcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCce
Confidence            5556667776655433           68999999998621                  123458888886653    34


Q ss_pred             eEEEEecCCcccchhhhcce---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc
Q 021937          173 RFALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (305)
Q Consensus       173 ~iil~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~  249 (305)
                      .+|+|||..++++|+|.+++   ..+++...+.+..+.++.+++....   +......|.+...+               
T Consensus       340 IivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~---~h~L~~eie~l~~~---------------  401 (457)
T KOG0743|consen  340 IIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEE---DHRLFDEIERLIEE---------------  401 (457)
T ss_pred             EEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCC---CcchhHHHHHHhhc---------------
Confidence            67888999999999999954   6699999999999988888763221   34444444443222               


Q ss_pred             cCccCHHHHHhhhCC---CChhhHHHHHHHHHcc
Q 021937          250 SQQITEEAVYLCTGN---PLPKDIEQISYWLLNE  280 (305)
Q Consensus       250 ~~~i~~~~v~~~~~~---~~~~~~~~l~~~~~~~  280 (305)
                       ..+++.+|.+.+-.   .....+..+++.+...
T Consensus       402 -~~~tPA~V~e~lm~~~~dad~~lk~Lv~~l~~~  434 (457)
T KOG0743|consen  402 -TEVTPAQVAEELMKNKNDADVALKGLVEALESK  434 (457)
T ss_pred             -CccCHHHHHHHHhhccccHHHHHHHHHHHHHhh
Confidence             23566666544422   2344555555555443

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

Probab=99.62  E-value=1.3e-14  Score=136.48  Aligned_cols=186  Identities=19%  Similarity=0.261  Sum_probs=125.6

Q ss_pred             ccccchHHHHHHHHHHhc--------CC-CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHH
Q 021937           54 DVAAHRDIVDTIDRLTSE--------NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~--------~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (305)
                      .++||++.++.+...+..        ++ ..+++|+||+|||||.+|+.+++.+     ...++.++++.......+...
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l-----~~~~i~id~se~~~~~~~~~L  533 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTVSRL  533 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCCcEEeechhhcccccHHHH
Confidence            589999999999888763        12 2348999999999999999999998     345666666543322222222


Q ss_pred             HHHhhhcccccC-------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-----
Q 021937          125 IQDFASTQSFSF-------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-----  181 (305)
Q Consensus       125 i~~~~~~~~~~~-------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-----  181 (305)
                      +.....+..+..       -...+.+||+|||+++++++.++.|++++++..           .++.+|+++|..     
T Consensus       534 iG~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~~~~  613 (758)
T PRK11034        534 IGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETE  613 (758)
T ss_pred             cCCCCCcccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHHHHh
Confidence            211000000000       012346899999999999999999999998642           355678887621     


Q ss_pred             --------------------cccchhhhcce-eEEEecCCCHHHHHHHHHHHHH-------HcCC--CCCHHHHHHHHHH
Q 021937          182 --------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIE-------AEGL--DVTEGGLAALVRL  231 (305)
Q Consensus       182 --------------------~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~-------~~~~--~~~~~~~~~l~~~  231 (305)
                                          ..+.|.+.+|+ .++.|+|++.+++.+++...+.       ..|+  .+++++++.|++.
T Consensus       614 ~~~~g~~~~~~~~~~~~~~~~~f~pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~l~~~~i~l~~~~~~~~~l~~~  693 (758)
T PRK11034        614 RKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKGVSLEVSQEARDWLAEK  693 (758)
T ss_pred             hcccCcccchhhHHHHHHHHHhcCHHHHccCCEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHCCCCceECHHHHHHHHHh
Confidence                                12457888898 5899999999999888866544       2243  5789999999976


Q ss_pred             cC---CCHHHHHHHHH
Q 021937          232 CN---GDMRKALNILQ  244 (305)
Q Consensus       232 ~~---g~~r~~~~~l~  244 (305)
                      ..   .-.|.+...++
T Consensus       694 ~~~~~~GAR~l~r~i~  709 (758)
T PRK11034        694 GYDRAMGARPMARVIQ  709 (758)
T ss_pred             CCCCCCCCchHHHHHH
Confidence            52   12455544444

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.62  E-value=2e-14  Score=138.17  Aligned_cols=195  Identities=14%  Similarity=0.190  Sum_probs=137.6

Q ss_pred             cCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCC----CcC
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD----DRG  117 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~----~~~  117 (305)
                      -+...++.++|++..++++.+.+.....++++|+||||||||++|+.++..+....     ....++.++...    ...
T Consensus       173 a~~~~~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~  252 (821)
T CHL00095        173 AIDGNLDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKY  252 (821)
T ss_pred             HHcCCCCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCC
Confidence            35667899999999999999999998888899999999999999999999875322     124455665432    111


Q ss_pred             hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------HHHHHHHHHHHhcCCceEEEEecCC-----ccc
Q 021937          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICNQV-----NKI  184 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------~~~~l~~~l~~~~~~~~iil~~~~~-----~~l  184 (305)
                      .....+.+........     ..++.||||||+|.+...        ..+.|...+...  ...+|.+|+..     ...
T Consensus       253 ~ge~e~rl~~i~~~~~-----~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg--~l~~IgaTt~~ey~~~ie~  325 (821)
T CHL00095        253 RGEFEERLKRIFDEIQ-----ENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARG--ELQCIGATTLDEYRKHIEK  325 (821)
T ss_pred             ccHHHHHHHHHHHHHH-----hcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC--CcEEEEeCCHHHHHHHHhc
Confidence            2233333333322111     112589999999987532        234444444432  45666666543     245


Q ss_pred             chhhhcceeEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHhh
Q 021937          185 IPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTHM  248 (305)
Q Consensus       185 ~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g------~~r~~~~~l~~~~~  248 (305)
                      ++.+.+||+.+.++.|+.++...+++.....    .++.++++++..++..+.+      -|+.++.+|+.++.
T Consensus       326 D~aL~rRf~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~lPdkaidlld~a~a  399 (821)
T CHL00095        326 DPALERRFQPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDKAIDLLDEAGS  399 (821)
T ss_pred             CHHHHhcceEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccCchHHHHHHHHHHH
Confidence            7899999999999999999988887765432    3667899999999988864      48899999987775

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=99.62  E-value=3.1e-14  Score=113.12  Aligned_cols=168  Identities=22%  Similarity=0.314  Sum_probs=118.7

Q ss_pred             ccccccchHHHHHHHHHHh-------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC---
Q 021937           52 LADVAAHRDIVDTIDRLTS-------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD---  115 (305)
Q Consensus        52 ~~~~~g~~~~~~~l~~~l~-------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~---  115 (305)
                      ++-+-|-+..++.+++.+.             -..+..++|+||||+|||.++++++...     .+.|+.++++..   
T Consensus       146 YeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht-----~c~firvsgselvqk  220 (404)
T KOG0728|consen  146 YEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT-----DCTFIRVSGSELVQK  220 (404)
T ss_pred             HHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc-----ceEEEEechHHHHHH
Confidence            4455556777777777664             2344569999999999999999999876     567888776541   


Q ss_pred             ---cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHH-----hcCCceEEE
Q 021937          116 ---RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEK-----YTKNTRFAL  176 (305)
Q Consensus       116 ---~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~-----~~~~~~iil  176 (305)
                         .+...+++.+.-+         ...-+.+||.||+|.+.           .+.+..++.+++.     ..++..+|+
T Consensus       221 ~igegsrmvrelfvma---------rehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvim  291 (404)
T KOG0728|consen  221 YIGEGSRMVRELFVMA---------REHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIM  291 (404)
T ss_pred             HhhhhHHHHHHHHHHH---------HhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEE
Confidence               1222223332222         22336999999999984           3456667777664     346788999


Q ss_pred             EecCCcccchhhhcce---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 021937          177 ICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (305)
Q Consensus       177 ~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g  234 (305)
                      ++|+.+-+++++.+-.   +.+.|+||+.+...++++....+.+..- .-.+..|++..+|
T Consensus       292 atnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~r-gi~l~kiaekm~g  351 (404)
T KOG0728|consen  292 ATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTR-GINLRKIAEKMPG  351 (404)
T ss_pred             eccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhc-ccCHHHHHHhCCC
Confidence            9999999999998754   5699999999999999998887766421 1225667776655

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.61  E-value=3.8e-14  Score=121.29  Aligned_cols=215  Identities=15%  Similarity=0.221  Sum_probs=131.1

Q ss_pred             CCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC----CcccEEEeec-----------
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNA-----------  112 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~----~~~~~~~~~~-----------  112 (305)
                      .|..|.+++|++..+..+.-.+-....+|++|+|+||+|||++++.++..+.+..    ..+.+.....           
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            4678999999999999888665434446799999999999999999999873211    0000000000           


Q ss_pred             -----------CCC------cChhHHHHHHHHhhhcccccCC--CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc----
Q 021937          113 -----------SDD------RGIDVVRQQIQDFASTQSFSFG--VKASVKLVLLDEADAMTKDAQFALRRVIEKYT----  169 (305)
Q Consensus       113 -----------~~~------~~~~~~~~~i~~~~~~~~~~~~--~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~----  169 (305)
                                 +..      .+.-.+...+..  ....+..+  ..++.+++++||++.+++..+..|++.+++..    
T Consensus        83 ~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~--g~~~~~~G~l~~A~~GiL~lDEInrl~~~~q~~Lle~mee~~v~v~  160 (334)
T PRK13407         83 MIERPTPVVDLPLGVTEDRVVGALDIERALTR--GEKAFEPGLLARANRGYLYIDEVNLLEDHIVDLLLDVAQSGENVVE  160 (334)
T ss_pred             ccccCCccccCCCCCCcceeecchhhhhhhhc--CCeeecCCceEEcCCCeEEecChHhCCHHHHHHHHHHHHcCCeEEE
Confidence                       000      000011111110  11111111  23456899999999999999999999998642    


Q ss_pred             -------CCceEEEEe--cCCc-ccchhhhcce-eEEEecCCCH-HHHHHHHHHHHHH----------------------
Q 021937          170 -------KNTRFALIC--NQVN-KIIPALQSRC-TRFRFAPLEP-VHVTERLKHVIEA----------------------  215 (305)
Q Consensus       170 -------~~~~iil~~--~~~~-~l~~~l~~r~-~~i~~~~~~~-~~~~~~l~~~~~~----------------------  215 (305)
                             ....|++++  |..+ .+.+++..|| ..+.+.++.. ++..+++......                      
T Consensus       161 r~G~~~~~p~rfiviAt~NP~e~~l~~aLldRF~~~v~v~~~~~~~e~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i  240 (334)
T PRK13407        161 REGLSIRHPARFVLVGSGNPEEGELRPQLLDRFGLSVEVRSPRDVETRVEVIRRRDAYDADHDAFMAKWGAEDMQLRGRI  240 (334)
T ss_pred             ECCeEEecCCCEEEEecCCcccCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHhhcccccchhhhccccccccCCHHHH
Confidence                   122344433  4322 4788899998 5677777665 5655555542210                      


Q ss_pred             -------cCCCCCHHHHHHHHHHc---C-CCHHHHHHHHHHHhh-----ccCccCHHHHHhhhCC
Q 021937          216 -------EGLDVTEGGLAALVRLC---N-GDMRKALNILQSTHM-----ASQQITEEAVYLCTGN  264 (305)
Q Consensus       216 -------~~~~~~~~~~~~l~~~~---~-g~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~~~  264 (305)
                             ..+.+++++++++++.+   + ..+|..+.++..+..     ..+.++.++|+++...
T Consensus       241 ~~a~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~~~  305 (334)
T PRK13407        241 LGARARLPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVATM  305 (334)
T ss_pred             HHHHHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHHHH
Confidence                   13567888888777654   2 357777665543333     3356999999877733

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=99.61  E-value=7.7e-14  Score=125.38  Aligned_cols=194  Identities=23%  Similarity=0.290  Sum_probs=137.9

Q ss_pred             cccchHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHhC-----CCCcccEEEeecCCCcChhHHHHH
Q 021937           55 VAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYG-----AQYHNMILELNASDDRGIDVVRQQ  124 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~  124 (305)
                      +-+++.....+...+..     +.+..++++|-||+|||.++..+.+.+..     .-..+.++++|+........++..
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            44566666666666553     22234899999999999999999998752     235678999999887776666665


Q ss_pred             HHHhhhccc-------------c-cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-CCc--eEEEEecCCcccch-
Q 021937          125 IQDFASTQS-------------F-SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-KNT--RFALICNQVNKIIP-  186 (305)
Q Consensus       125 i~~~~~~~~-------------~-~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-~~~--~iil~~~~~~~l~~-  186 (305)
                      +-.......             | ......+..||+|||.|.|....|..|+++++++. ++.  .+|.++|.. .+++ 
T Consensus       478 I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNTm-dlPEr  556 (767)
T KOG1514|consen  478 IWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANTM-DLPER  556 (767)
T ss_pred             HHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecccc-cCHHH
Confidence            544322111             1 12345667899999999999999999999999865 233  333344433 3333 


Q ss_pred             ----hhhcc--eeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc---CCCHHHHHHHHHHHhhcc
Q 021937          187 ----ALQSR--CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC---NGDMRKALNILQSTHMAS  250 (305)
Q Consensus       187 ----~l~~r--~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~---~g~~r~~~~~l~~~~~~~  250 (305)
                          ...+|  ++.+.|.|++..++.+++..++... ..+..++++.+++..   .||.|+|++.|..++..+
T Consensus       557 ~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~-~~f~~~aielvarkVAavSGDaRraldic~RA~Eia  628 (767)
T KOG1514|consen  557 LLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL-DAFENKAIELVARKVAAVSGDARRALDICRRAAEIA  628 (767)
T ss_pred             HhccchhhhccceeeecCCCCHHHHHHHHHHhhcch-hhcchhHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence                33345  4889999999999999999887655 246777877777643   699999999999887643

>TIGR01128 holA DNA polymerase III, delta subunit

Probab=99.61  E-value=1.9e-13  Score=117.49  Aligned_cols=204  Identities=13%  Similarity=0.138  Sum_probs=158.2

Q ss_pred             HHHHHHHHhCCCC-cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-HHHHHHHHHHHHHh
Q 021937           91 ILAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-KDAQFALRRVIEKY  168 (305)
Q Consensus        91 ~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-~~~~~~l~~~l~~~  168 (305)
                      +..+...+...+. ...++.+++.+ ...+.    +.......++.++    +.+++|++++.+. ....+.|.++++.+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~e-~~~~~----l~~~~~~~slf~~----~kliii~~~~~~~~~~~~~~L~~~l~~~   74 (302)
T TIGR01128         4 ADAIRAAALAQGFDEFNVFRIDGEE-FDWNQ----LLEEAQTLPLFSE----RRLVELRNPEGKPGAKGLKALEEYLANP   74 (302)
T ss_pred             HHHHHHHHHhCCCchheeeeeccCC-CCHHH----HHHHhhccCcccC----CeEEEEECCCCCCCHHHHHHHHHHHhcC
Confidence            3444444433332 45566666553 23333    2233333333322    7999999999986 35678899999998


Q ss_pred             cCCceEEEEecCCcc---cchhhh--cceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 021937          169 TKNTRFALICNQVNK---IIPALQ--SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (305)
Q Consensus       169 ~~~~~iil~~~~~~~---l~~~l~--~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  243 (305)
                      +++..++++++..+.   +.+.+.  +++..+.|.+++..++..++...+.+.|..+++++++.++..++||++.+.+.+
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            888888887764432   222333  388999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhc--cCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          244 QSTHMA--SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       244 ~~~~~~--~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      ++++..  .+.||.++|+..+......+++.+++++..++..+++..++.+..++..++.++
T Consensus       155 ~KL~~~~~~~~It~e~I~~~~~~~~~~~if~l~dal~~~~~~~a~~~l~~l~~~~~~~~~il  216 (302)
T TIGR01128       155 EKLALYAPDGKITLEDVEEAVSDSARFNVFDLTDALLEGKAARALRILKGLLGEGEEPLILL  216 (302)
T ss_pred             HHHHhhCCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCcHHHHH
Confidence            998875  356999999999999999999999999999999999999999999887776554

subunit around DNA forming a DNA sliding clamp.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=1.4e-14  Score=133.82  Aligned_cols=192  Identities=19%  Similarity=0.286  Sum_probs=138.9

Q ss_pred             cccccchHHHHHHHHHHhcC---------CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHH
Q 021937           53 ADVAAHRDIVDTIDRLTSEN---------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~---------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (305)
                      ..++||++.+..+.+.+...         +..+++|.||+|+|||.++++++..+...  ....+.++-+.......+..
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~--e~aliR~DMSEy~EkHsVSr  568 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGD--EQALIRIDMSEYMEKHSVSR  568 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCC--CccceeechHHHHHHHHHHH
Confidence            46899999999998888632         22348999999999999999999998533  34567777666554555555


Q ss_pred             HHHHhhhcccccCC-------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC----
Q 021937          124 QIQDFASTQSFSFG-------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV----  181 (305)
Q Consensus       124 ~i~~~~~~~~~~~~-------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~----  181 (305)
                      ++..-..+..+..+       .+.+++||++||+++.+++..+.|++++++..           .++.||+|+|-.    
T Consensus       569 LIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs~~i  648 (786)
T COG0542         569 LIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEI  648 (786)
T ss_pred             HhCCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccchHHH
Confidence            55544444444332       34668999999999999999999999999643           467788887421    


Q ss_pred             ------------------------cccchhhhccee-EEEecCCCHHHHHHHHHHHHHH-------cCC--CCCHHHHHH
Q 021937          182 ------------------------NKIIPALQSRCT-RFRFAPLEPVHVTERLKHVIEA-------EGL--DVTEGGLAA  227 (305)
Q Consensus       182 ------------------------~~l~~~l~~r~~-~i~~~~~~~~~~~~~l~~~~~~-------~~~--~~~~~~~~~  227 (305)
                                              ..+.|.|.+|+. ++.|.+++.+++.+++...+.+       .++  .+++++.++
T Consensus       649 ~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~L~~~~i~l~~s~~a~~~  728 (786)
T COG0542         649 LRDADGDDFADKEALKEAVMEELKKHFRPEFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLAERGITLELSDEAKDF  728 (786)
T ss_pred             HhhccccccchhhhHHHHHHHHHHhhCCHHHHhhcccEEeccCCCHHHHHHHHHHHHHHHHHHHHhCCceEEECHHHHHH
Confidence                                    023567778874 8999999999988887665543       233  578999999


Q ss_pred             HHHHcC---CCHHHHHHHHHHH
Q 021937          228 LVRLCN---GDMRKALNILQST  246 (305)
Q Consensus       228 l~~~~~---g~~r~~~~~l~~~  246 (305)
                      |++.+.   .-.|-+...+|.-
T Consensus       729 l~~~gyd~~~GARpL~R~Iq~~  750 (786)
T COG0542         729 LAEKGYDPEYGARPLRRAIQQE  750 (786)
T ss_pred             HHHhccCCCcCchHHHHHHHHH
Confidence            998773   2356565555443

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

Probab=99.60  E-value=2.2e-14  Score=136.32  Aligned_cols=189  Identities=19%  Similarity=0.245  Sum_probs=127.2

Q ss_pred             cccccchHHHHHHHHHHhcC--------CC-CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHH
Q 021937           53 ADVAAHRDIVDTIDRLTSEN--------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~--------~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (305)
                      +.++||++.++.+.+.+...        ++ .+++|+||+|+|||++|+.+++.+     ...++.++.+..........
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l-----~~~~~~~d~se~~~~~~~~~  528 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL-----GVHLERFDMSEYMEKHTVSR  528 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh-----cCCeEEEeCchhhhcccHHH
Confidence            46889999999888887631        12 248999999999999999999988     23455555544222111111


Q ss_pred             HHHHhhhcccccC-------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc---
Q 021937          124 QIQDFASTQSFSF-------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN---  182 (305)
Q Consensus       124 ~i~~~~~~~~~~~-------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~~---  182 (305)
                      .+.....+..+..       -...+.+||+|||++++.++.++.|++++++..           .++.+|+++|...   
T Consensus       529 lig~~~gyvg~~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g~~~~  608 (731)
T TIGR02639       529 LIGAPPGYVGFEQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGASEM  608 (731)
T ss_pred             HhcCCCCCcccchhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcchhhh
Confidence            1111111000000       012346899999999999999999999998641           3456777765321   


Q ss_pred             ----------------------ccchhhhcce-eEEEecCCCHHHHHHHHHHHHHH-------cC--CCCCHHHHHHHHH
Q 021937          183 ----------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------EG--LDVTEGGLAALVR  230 (305)
Q Consensus       183 ----------------------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~~~~~~~~~~l~~  230 (305)
                                            .+.|.+.+|+ .++.|+|++.+++.+++...+.+       .|  +.+++++++.|++
T Consensus       609 ~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~~~~~~l~i~~~a~~~La~  688 (731)
T TIGR02639       609 SKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFVDELSKQLNEKNIKLELTDDAKKYLAE  688 (731)
T ss_pred             hhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEeCHHHHHHHHH
Confidence                                  2466788888 68999999999999998877653       22  4678999999998


Q ss_pred             HcC---CCHHHHHHHHHHH
Q 021937          231 LCN---GDMRKALNILQST  246 (305)
Q Consensus       231 ~~~---g~~r~~~~~l~~~  246 (305)
                      ...   -..|.+...++..
T Consensus       689 ~~~~~~~GaR~l~r~i~~~  707 (731)
T TIGR02639       689 KGYDEEFGARPLARVIQEE  707 (731)
T ss_pred             hCCCcccCchHHHHHHHHH
Confidence            642   2356666665544

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.60  E-value=2.7e-14  Score=119.58  Aligned_cols=187  Identities=19%  Similarity=0.303  Sum_probs=126.5

Q ss_pred             CccccccchHHHHHHHHHHh----------c----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC-
Q 021937           51 SLADVAAHRDIVDTIDRLTS----------E----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-  115 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~----------~----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~-  115 (305)
                      +|.++-|-+..++++...+-          .    ..+.+++++||||||||.+|++++++.     ...++.+..+.. 
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            67899999999998887753          1    233459999999999999999999997     445555555432 


Q ss_pred             -cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH-------H----HHHHHHHHHHhc----CCceEEEEec
Q 021937          116 -RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-------A----QFALRRVIEKYT----KNTRFALICN  179 (305)
Q Consensus       116 -~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-------~----~~~l~~~l~~~~----~~~~iil~~~  179 (305)
                       .+..+-...+.....     .+.+-.+.+|+|||++.+...       .    .+.|...=+...    ..+.++.+||
T Consensus       165 ~KWfgE~eKlv~AvFs-----lAsKl~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATN  239 (386)
T KOG0737|consen  165 SKWFGEAQKLVKAVFS-----LASKLQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERVLVLGATN  239 (386)
T ss_pred             hhhHHHHHHHHHHHHh-----hhhhcCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCC
Confidence             333333333333222     222344899999999987521       1    122222222221    1233444579


Q ss_pred             CCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH-HHHHHHHHHHhh
Q 021937          180 QVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDM-RKALNILQSTHM  248 (305)
Q Consensus       180 ~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~-r~~~~~l~~~~~  248 (305)
                      ++..++.++.+|+ ++++++-|+..+..+|++-+++.+++. ++-.+..+++.+.|-- +.+.++|..++.
T Consensus       240 RP~DlDeAiiRR~p~rf~V~lP~~~qR~kILkviLk~e~~e-~~vD~~~iA~~t~GySGSDLkelC~~Aa~  309 (386)
T KOG0737|consen  240 RPFDLDEAIIRRLPRRFHVGLPDAEQRRKILKVILKKEKLE-DDVDLDEIAQMTEGYSGSDLKELCRLAAL  309 (386)
T ss_pred             CCccHHHHHHHhCcceeeeCCCchhhHHHHHHHHhcccccC-cccCHHHHHHhcCCCcHHHHHHHHHHHhH
Confidence            9999999999997 889999999999999999999888764 3344788999988743 444455544443

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.60  E-value=6.3e-14  Score=130.94  Aligned_cols=202  Identities=19%  Similarity=0.203  Sum_probs=135.8

Q ss_pred             hcCCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           46 KYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        46 ~~~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      ......|.++.|.+..++.+...+..            ..+++++|+||||||||+++++++.++     ...++.+++.
T Consensus       145 ~~~~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~-----~~~f~~is~~  219 (644)
T PRK10733        145 DQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFTISGS  219 (644)
T ss_pred             hhhhCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc-----CCCEEEEehH
Confidence            33455688899988888777665531            123459999999999999999999987     4456666654


Q ss_pred             CC------cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------------HHHHHHHHHHHhc--CC
Q 021937          114 DD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYT--KN  171 (305)
Q Consensus       114 ~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------------~~~~l~~~l~~~~--~~  171 (305)
                      ..      .+...++..+.....         ..++||||||+|.+...              ..+.|+..++...  ..
T Consensus       220 ~~~~~~~g~~~~~~~~~f~~a~~---------~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~  290 (644)
T PRK10733        220 DFVEMFVGVGASRVRDMFEQAKK---------AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG  290 (644)
T ss_pred             HhHHhhhcccHHHHHHHHHHHHh---------cCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCC
Confidence            31      223334444443322         23689999999998421              2334454455433  34


Q ss_pred             ceEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHHH
Q 021937          172 TRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG----DMRKALNILQ  244 (305)
Q Consensus       172 ~~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g----~~r~~~~~l~  244 (305)
                      +.+|.+||.++.+++++.+  |+ ..+.++.|+.+++.++++.++.+..+.-+ ..+..+++.+.|    |+..+++...
T Consensus       291 vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~-~d~~~la~~t~G~sgadl~~l~~eAa  369 (644)
T PRK10733        291 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD-IDAAIIARGTPGFSGADLANLVNEAA  369 (644)
T ss_pred             eeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCc-CCHHHHHhhCCCCCHHHHHHHHHHHH
Confidence            5666778999999999986  67 77999999999999999998876543222 235668888877    6666665554


Q ss_pred             HHhh--ccCccCHHHHHhhh
Q 021937          245 STHM--ASQQITEEAVYLCT  262 (305)
Q Consensus       245 ~~~~--~~~~i~~~~v~~~~  262 (305)
                      ..+.  ....|+..+++++.
T Consensus       370 ~~a~r~~~~~i~~~d~~~a~  389 (644)
T PRK10733        370 LFAARGNKRVVSMVEFEKAK  389 (644)
T ss_pred             HHHHHcCCCcccHHHHHHHH
Confidence            3333  23458888887664

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

Probab=99.59  E-value=2.5e-13  Score=109.18  Aligned_cols=190  Identities=18%  Similarity=0.205  Sum_probs=131.4

Q ss_pred             hhcCCCCccccccchHHHHHHHHH----HhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhH
Q 021937           45 EKYRPQSLADVAAHRDIVDTIDRL----TSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (305)
Q Consensus        45 ~~~~p~~~~~~~g~~~~~~~l~~~----l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (305)
                      ....|..+++++|.+..++.|.+.    +.+.+..+++|+|++|||||++++++.+++...+  ...+++..........
T Consensus        19 ~~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G--LRlIev~k~~L~~l~~   96 (249)
T PF05673_consen   19 KHPDPIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG--LRLIEVSKEDLGDLPE   96 (249)
T ss_pred             CCCCCCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC--ceEEEECHHHhccHHH
Confidence            344566789999987777766544    4566666799999999999999999999987665  4567776655545554


Q ss_pred             HHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-HHHHHHHHHHH----HhcCCceEEEEecCCcccch---------
Q 021937          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-DAQFALRRVIE----KYTKNTRFALICNQVNKIIP---------  186 (305)
Q Consensus       121 ~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-~~~~~l~~~l~----~~~~~~~iil~~~~~~~l~~---------  186 (305)
                      +...+...   .        .+-||++||+-.=.. .....|-.+|+    ..|.++.+..|+|...-+.+         
T Consensus        97 l~~~l~~~---~--------~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~~d~~~~~  165 (249)
T PF05673_consen   97 LLDLLRDR---P--------YKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPESFSDREDIQ  165 (249)
T ss_pred             HHHHHhcC---C--------CCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccchhhhhccCCC
Confidence            44444321   1        268999999654332 33455666665    45667777777764322111         


Q ss_pred             --------------hhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHH-----HHHHHHcCCCHHHHHHHHHHH
Q 021937          187 --------------ALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGL-----AALVRLCNGDMRKALNILQST  246 (305)
Q Consensus       187 --------------~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~-----~~l~~~~~g~~r~~~~~l~~~  246 (305)
                                    +|..|| .++.|.+|+.++..+++..++.+.|+.++.+.+     +.-....+.+.|.|.+-++.+
T Consensus       166 ~~eih~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~~~Al~wa~~rg~RSGRtA~QF~~~l  245 (249)
T PF05673_consen  166 DDEIHPSDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEELRQEALQWALRRGGRSGRTARQFIDDL  245 (249)
T ss_pred             ccccCcchHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence                          334566 779999999999999999999999999985433     333344456888888777655


Q ss_pred             h
Q 021937          247 H  247 (305)
Q Consensus       247 ~  247 (305)
                      .
T Consensus       246 ~  246 (249)
T PF05673_consen  246 A  246 (249)
T ss_pred             h
Confidence            4

>PRK05574 holA DNA polymerase III subunit delta; Reviewed

Probab=99.58  E-value=1.3e-12  Score=114.12  Aligned_cols=230  Identities=14%  Similarity=0.153  Sum_probs=166.2

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCce
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASV  142 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~  142 (305)
                      .+...+..+..+.++++|+.-.=+...+..+.+.+...+ ....+..+++... ..+.    +.......++.++    +
T Consensus         7 ~~~~~~~~~~~~~~li~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~d~~~~-~~~~----l~~~~~t~~lF~~----~   77 (340)
T PRK05574          7 QLEKQLKKGLAPLYLLYGDEPLLLQEAKDAIRAAARAQGFDERNVFTFDGSET-DWDD----VLEACQSLPLFSD----R   77 (340)
T ss_pred             HHHHHHhCCCCceEEEEcCcHHHHHHHHHHHHHHHHcCCCceeeEEEeecCCC-CHHH----HHHHhhccCcccc----C
Confidence            445555555445589999986555566666666543322 3344555555432 2222    2233333333322    7


Q ss_pred             EEEEEeCCCcCCHHH----HHHHHHHHHHhcCC--ceEEEEecCCc---cc---chhhhcceeEEEecCCCHHHHHHHHH
Q 021937          143 KLVLLDEADAMTKDA----QFALRRVIEKYTKN--TRFALICNQVN---KI---IPALQSRCTRFRFAPLEPVHVTERLK  210 (305)
Q Consensus       143 ~vliiDe~~~l~~~~----~~~l~~~l~~~~~~--~~iil~~~~~~---~l---~~~l~~r~~~i~~~~~~~~~~~~~l~  210 (305)
                      .+++|++++.+....    ...+..++ .+++.  ..+++.++..+   .+   .+.+..++..+.+.+++..++..++.
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            899999999987542    23344444 33332  34444443322   22   45666778899999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc--CccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHH
Q 021937          211 HVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKR  288 (305)
Q Consensus       211 ~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  288 (305)
                      ..+...|+.+++++++.+++.++||...+.+.+++++...  +.||.++|++++......+++.+++++..++..+++..
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            9999999999999999999999999999999999988743  44999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhh
Q 021937          289 IQNLSFIIRLVLFVL  303 (305)
Q Consensus       289 l~~l~~~~~~~~~~~  303 (305)
                      ++.+...+..++.++
T Consensus       237 l~~l~~~~~~~~~il  251 (340)
T PRK05574        237 LDGLRLEGEEPIKLL  251 (340)
T ss_pred             HHHHHHCCCcHHHHH
Confidence            999999877776554

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.58  E-value=2.6e-14  Score=116.20  Aligned_cols=174  Identities=19%  Similarity=0.246  Sum_probs=122.6

Q ss_pred             CccccccchHHHHHHHHHHh----------cCC--CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC--c
Q 021937           51 SLADVAAHRDIVDTIDRLTS----------ENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--R  116 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~----------~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--~  116 (305)
                      .|+++.|-+...+.|++.+-          +.+  ...++|+||||+||+.||++++.+.     ...|+.++.++.  .
T Consensus       131 kWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA-----nSTFFSvSSSDLvSK  205 (439)
T KOG0739|consen  131 KWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA-----NSTFFSVSSSDLVSK  205 (439)
T ss_pred             chhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc-----CCceEEeehHHHHHH
Confidence            68899999999999988742          333  3349999999999999999999987     467777777653  1


Q ss_pred             ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH-----------HHHHHHHHHHHh---cCCceEEEEecCCc
Q 021937          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKY---TKNTRFALICNQVN  182 (305)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-----------~~~~l~~~l~~~---~~~~~iil~~~~~~  182 (305)
                      +...-..++.++...     .+..++.+|||||+|.+...           ....|+--++..   ...+.++.+||-+.
T Consensus       206 WmGESEkLVknLFem-----ARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw  280 (439)
T KOG0739|consen  206 WMGESEKLVKNLFEM-----ARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPW  280 (439)
T ss_pred             HhccHHHHHHHHHHH-----HHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCCCch
Confidence            222222333333222     23344799999999988521           112233334422   22334455678888


Q ss_pred             ccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 021937          183 KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (305)
Q Consensus       183 ~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g  234 (305)
                      .++.++++|| .++.++-|....+...++..+......+++..+..+++.+.|
T Consensus       281 ~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeG  333 (439)
T KOG0739|consen  281 VLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEG  333 (439)
T ss_pred             hHHHHHHHHhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCC
Confidence            9999999999 778998888888888888777666667889999999998876

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.58  E-value=1.3e-13  Score=127.07  Aligned_cols=207  Identities=18%  Similarity=0.181  Sum_probs=141.5

Q ss_pred             CCCccccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHH
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (305)
                      ...++.++|++..++.+.+.+...  ...+++|+|++||||+++|+.+......  ....++.++|..... ..+...+.
T Consensus       192 ~~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r--~~~pfv~i~c~~~~~-~~~~~~lf  268 (534)
T TIGR01817       192 SGKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPR--AKRPFVKVNCAALSE-TLLESELF  268 (534)
T ss_pred             cCccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCCC--CCCCeEEeecCCCCH-HHHHHHHc
Confidence            347889999999998888877643  2334999999999999999999987432  245788899886422 22222221


Q ss_pred             HhhhcccccC--------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC------
Q 021937          127 DFASTQSFSF--------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV------  181 (305)
Q Consensus       127 ~~~~~~~~~~--------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~------  181 (305)
                      ... ...+.+        -..+.+++|+|||++.++...|..|++++++..           .++++|++++..      
T Consensus       269 g~~-~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~l~~~~~  347 (534)
T TIGR01817       269 GHE-KGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEAVA  347 (534)
T ss_pred             CCC-CCccCCCCcCCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCCHHHHHH
Confidence            100 000110        123457899999999999999999999998632           135677776432      


Q ss_pred             -cccchhhhcce--eEEEecCCC--HHHHHHHHHHHHHH----cC--CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhc
Q 021937          182 -NKIIPALQSRC--TRFRFAPLE--PVHVTERLKHVIEA----EG--LDVTEGGLAALVRLC-NGDMRKALNILQSTHMA  249 (305)
Q Consensus       182 -~~l~~~l~~r~--~~i~~~~~~--~~~~~~~l~~~~~~----~~--~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~  249 (305)
                       ..+.+.+..|+  ..+.++|+.  .+++..++...+.+    .+  ..+++++++.+..+. +||+|.+.+.++.++..
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             23455666665  357787776  35555554444432    22  468999999999884 99999999999988764


Q ss_pred             c--CccCHHHHH
Q 021937          250 S--QQITEEAVY  259 (305)
Q Consensus       250 ~--~~i~~~~v~  259 (305)
                      .  ..|+.+++.
T Consensus       428 ~~~~~I~~~~l~  439 (534)
T TIGR01817       428 SRSGTITRSDFS  439 (534)
T ss_pred             CCCCcccHHHCc
Confidence            3  357777764

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.

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=99.57  E-value=1.6e-13  Score=111.50  Aligned_cols=120  Identities=22%  Similarity=0.305  Sum_probs=96.8

Q ss_pred             eEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC-------------CcccchhhhcceeEEEecCCCHHHHHHH
Q 021937          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ-------------VNKIIPALQSRCTRFRFAPLEPVHVTER  208 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~-------------~~~l~~~l~~r~~~i~~~~~~~~~~~~~  208 (305)
                      ++|+||||+|.++-+....|.+.++.+- ...+|+++|+             +..+++++..|..++...+++.++++++
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            5699999999999999999999998765 3455666542             3457889999999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhh----c-cCccCHHHHHhhh
Q 021937          209 LKHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHM----A-SQQITEEAVYLCT  262 (305)
Q Consensus       209 l~~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~----~-~~~i~~~~v~~~~  262 (305)
                      ++.+++.+++.++++++..+++.. ..++|.++++|.-+..    + .+.|..++|+++.
T Consensus       376 i~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~~  435 (456)
T KOG1942|consen  376 IKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVT  435 (456)
T ss_pred             HHHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHH
Confidence            999999999999999999999864 4689999998853322    2 2357777776654

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.57  E-value=9.3e-14  Score=136.95  Aligned_cols=178  Identities=13%  Similarity=0.117  Sum_probs=117.5

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC------------------------------------
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG------------------------------------  117 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~------------------------------------  117 (305)
                      +.+++|+||||||||.+|+++|.+.     ..+++.+.+++...                                    
T Consensus      1630 PKGILLiGPPGTGKTlLAKALA~es-----~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e~ 1704 (2281)
T CHL00206       1630 SRGILVIGSIGTGRSYLVKYLATNS-----YVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTM 1704 (2281)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHhc-----CCceEEEEHHHHhhcccccccccccccccccccccccccccccchhhhhh
Confidence            3459999999999999999999987     44455544432110                                    


Q ss_pred             -----------hh--HHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHH-----HHHHHHHHHHh-----cCCceE
Q 021937          118 -----------ID--VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA-----QFALRRVIEKY-----TKNTRF  174 (305)
Q Consensus       118 -----------~~--~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~-----~~~l~~~l~~~-----~~~~~i  174 (305)
                                 ..  .++..+..+         .+..|+||+|||+|.+....     ...|+..++..     ..++.|
T Consensus      1705 ~n~~~~~m~~~e~~~rIr~lFelA---------Rk~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIV 1775 (2281)
T CHL00206       1705 MNALTMDMMPKIDRFYITLQFELA---------KAMSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILV 1775 (2281)
T ss_pred             cchhhhhhhhhhhHHHHHHHHHHH---------HHCCCeEEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEE
Confidence                       00  011122222         22347999999999997532     45566666532     234567


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHH--HHHHHHHHcCC-CHHHHHHHHHHHhh
Q 021937          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG--GLAALVRLCNG-DMRKALNILQSTHM  248 (305)
Q Consensus       175 il~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~--~~~~l~~~~~g-~~r~~~~~l~~~~~  248 (305)
                      |.+||.++.++|++.+  |+ +.+.++.|+..+..+++.......++.+..+  .++.+++.+.| +.+.+.+++..++.
T Consensus      1776 IAATNRPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLvNEAal 1855 (2281)
T CHL00206       1776 IASTHIPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALTNEALS 1855 (2281)
T ss_pred             EEeCCCcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            7778999999999998  66 7789999988888887765555556655543  36788988866 34444455544443


Q ss_pred             c-----cCccCHHHHHhhhCCC
Q 021937          249 A-----SQQITEEAVYLCTGNP  265 (305)
Q Consensus       249 ~-----~~~i~~~~v~~~~~~~  265 (305)
                      .     ...|+.++++.++.+.
T Consensus      1856 iAirq~ks~Id~~~I~~Al~Rq 1877 (2281)
T CHL00206       1856 ISITQKKSIIDTNTIRSALHRQ 1877 (2281)
T ss_pred             HHHHcCCCccCHHHHHHHHHHH
Confidence            2     2358888888777554

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.57  E-value=9e-14  Score=131.78  Aligned_cols=207  Identities=20%  Similarity=0.231  Sum_probs=135.5

Q ss_pred             ccccchHHHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH
Q 021937           54 DVAAHRDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (305)
                      +..|.+.+++.+..++..      ...+.++|+||||+|||++++.++..+     ...++.++.........+...-..
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l-----~~~~~~i~~~~~~d~~~i~g~~~~  397 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT-----GRKYVRMALGGVRDEAEIRGHRRT  397 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEEcCCCCCHHHhccchhc
Confidence            488889999988877652      344568999999999999999999987     334555554433333222221111


Q ss_pred             hhhccc------ccCCCCCceEEEEEeCCCcCCHHH----HHHHHHHHHHhc---------------CCceEEEEecCCc
Q 021937          128 FASTQS------FSFGVKASVKLVLLDEADAMTKDA----QFALRRVIEKYT---------------KNTRFALICNQVN  182 (305)
Q Consensus       128 ~~~~~~------~~~~~~~~~~vliiDe~~~l~~~~----~~~l~~~l~~~~---------------~~~~iil~~~~~~  182 (305)
                      +....+      +.. ......|++|||+|++.+..    ...|+.+++...               .++.||+|+|.. 
T Consensus       398 ~~g~~~G~~~~~l~~-~~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~-  475 (784)
T PRK10787        398 YIGSMPGKLIQKMAK-VGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSM-  475 (784)
T ss_pred             cCCCCCcHHHHHHHh-cCCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCC-
Confidence            110000      000 01124589999999998764    478999887421               345566666665 


Q ss_pred             ccchhhhcceeEEEecCCCHHHHHHHHHHHHHH----------cCCCCCHHHHHHHHHHcC--CCHHHHHHHHHHHhh--
Q 021937          183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----------EGLDVTEGGLAALVRLCN--GDMRKALNILQSTHM--  248 (305)
Q Consensus       183 ~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----------~~~~~~~~~~~~l~~~~~--g~~r~~~~~l~~~~~--  248 (305)
                      .+++++++|+.++.|.+++.++..++++.++..          ..+.++++++..|++.+.  --+|.+-..++..+.  
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            599999999999999999999999998877741          124688999999987542  113433333333221  


Q ss_pred             ------cc----CccCHHHHHhhhCCCCh
Q 021937          249 ------AS----QQITEEAVYLCTGNPLP  267 (305)
Q Consensus       249 ------~~----~~i~~~~v~~~~~~~~~  267 (305)
                            ..    -.++.+++.+.++....
T Consensus       556 l~~~~~~~~~~~v~v~~~~~~~~lg~~~~  584 (784)
T PRK10787        556 VKQLLLDKSLKHIEINGDNLHDYLGVQRF  584 (784)
T ss_pred             HHHHHhcCCCceeeecHHHHHHHhCCCcc
Confidence                  11    14888888888887654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.57  E-value=1.3e-13  Score=132.82  Aligned_cols=193  Identities=19%  Similarity=0.265  Sum_probs=133.4

Q ss_pred             cccccchHHHHHHHHHHhcC--------C-CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHH
Q 021937           53 ADVAAHRDIVDTIDRLTSEN--------R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~--------~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (305)
                      ..++||+..++.+...+...        + ...++|+||+|+|||++|+.++..+.+..  ..++.++++..........
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~--~~~i~~d~s~~~~~~~~~~  642 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDE--DAMVRIDMSEYMEKHSVAR  642 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCC--CcEEEEechhhcccchHHH
Confidence            46899999999998888642        1 22489999999999999999999986543  3456666554322222222


Q ss_pred             HHHHhhhcccccC-------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc---
Q 021937          124 QIQDFASTQSFSF-------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN---  182 (305)
Q Consensus       124 ~i~~~~~~~~~~~-------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~~---  182 (305)
                      .+........+..       -...++.||+|||++.++++.++.|++++++..           .++.||++||...   
T Consensus       643 l~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~g~~~~  722 (852)
T TIGR03346       643 LIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQFI  722 (852)
T ss_pred             hcCCCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCcchHhH
Confidence            1111101000000       012346799999999999999999999998652           4556888876421   


Q ss_pred             ----------------------ccchhhhcce-eEEEecCCCHHHHHHHHHHHHH-------Hc--CCCCCHHHHHHHHH
Q 021937          183 ----------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIE-------AE--GLDVTEGGLAALVR  230 (305)
Q Consensus       183 ----------------------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~-------~~--~~~~~~~~~~~l~~  230 (305)
                                            .+.+.|..|+ .++.|.|++.+++.+++.....       ..  .+.+++++++.|++
T Consensus       723 ~~~~~~~~~~~~~~~~~~~~~~~F~pel~~Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~~~~~~l~i~~~a~~~L~~  802 (852)
T TIGR03346       723 QELAGGDDYEEMREAVMEVLRAHFRPEFLNRIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERKITLELSDAALDFLAE  802 (852)
T ss_pred             hhhcccccHHHHHHHHHHHHHhhcCHHHhcCcCeEEecCCcCHHHHHHHHHHHHHHHHHHHHHCCCeecCCHHHHHHHHH
Confidence                                  1345677787 7899999999998888766554       22  24689999999998


Q ss_pred             Hc---CCCHHHHHHHHHHHh
Q 021937          231 LC---NGDMRKALNILQSTH  247 (305)
Q Consensus       231 ~~---~g~~r~~~~~l~~~~  247 (305)
                      ..   .+++|.+.+.++...
T Consensus       803 ~~~~~~~gaR~L~~~i~~~i  822 (852)
T TIGR03346       803 AGYDPVYGARPLKRAIQREI  822 (852)
T ss_pred             hCCCCCCCchhHHHHHHHHH
Confidence            74   488999998887665

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.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.57  E-value=6.1e-14  Score=128.28  Aligned_cols=205  Identities=17%  Similarity=0.221  Sum_probs=134.7

Q ss_pred             CCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      ..+.++.|.....+.++..+..             ....+++|+||||||||.+++++++..     ...++.+..++..
T Consensus       239 v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~-----~~~fi~v~~~~l~  313 (494)
T COG0464         239 VTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALES-----RSRFISVKGSELL  313 (494)
T ss_pred             cceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhC-----CCeEEEeeCHHHh
Confidence            3567777777777766665431             223359999999999999999999976     5677777766422


Q ss_pred             --ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHH--hcCCceEEEEecCC
Q 021937          117 --GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEK--YTKNTRFALICNQV  181 (305)
Q Consensus       117 --~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~--~~~~~~iil~~~~~  181 (305)
                        ........+......+     ....++||||||+|.+..           ...+.|+..++.  ...++.+|.+||.+
T Consensus       314 sk~vGesek~ir~~F~~A-----~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p  388 (494)
T COG0464         314 SKWVGESEKNIRELFEKA-----RKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRP  388 (494)
T ss_pred             ccccchHHHHHHHHHHHH-----HcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCc
Confidence              2333333333332222     122369999999999842           344556666653  23355667788999


Q ss_pred             cccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCC-HHHHHHHHHHHhhc------c
Q 021937          182 NKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLD-VTEGGLAALVRLCNGD-MRKALNILQSTHMA------S  250 (305)
Q Consensus       182 ~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~g~-~r~~~~~l~~~~~~------~  250 (305)
                      +.+++++.+  |+ ..+.+++|+..+..++++..+...+.. ..+-.++.+++.+.|- ...+...++.++..      .
T Consensus       389 ~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ea~~~~~~~~~~  468 (494)
T COG0464         389 DDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALREARR  468 (494)
T ss_pred             cccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999  88 679999999999999999998765543 2345567777766652 33333444444331      2


Q ss_pred             CccCHHHHHhhhCC
Q 021937          251 QQITEEAVYLCTGN  264 (305)
Q Consensus       251 ~~i~~~~v~~~~~~  264 (305)
                      ..++.+++.++...
T Consensus       469 ~~~~~~~~~~a~~~  482 (494)
T COG0464         469 REVTLDDFLDALKK  482 (494)
T ss_pred             CCccHHHHHHHHHh
Confidence            24666666655544

>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=99.57  E-value=7.1e-14  Score=115.36  Aligned_cols=184  Identities=18%  Similarity=0.318  Sum_probs=108.3

Q ss_pred             cccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHH---------H
Q 021937           55 VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ---------I  125 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------i  125 (305)
                      |+|+.+.++.|.+++.++..++++|+||.|+|||++++.+.+.+...+..  .+.+..............         +
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~--~~y~~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKGYK--VVYIDFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--EEC--CCHHCCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCc--EEEEecccchhhhHHHHHHHHHHHHHHH
Confidence            57999999999999998877889999999999999999999987443321  222222221111111111         0


Q ss_pred             HH-hhhccc-cc----------C------------CCCCceEEEEEeCCCcCC------HHHHHHHHHHHHH--hcCCce
Q 021937          126 QD-FASTQS-FS----------F------------GVKASVKLVLLDEADAMT------KDAQFALRRVIEK--YTKNTR  173 (305)
Q Consensus       126 ~~-~~~~~~-~~----------~------------~~~~~~~vliiDe~~~l~------~~~~~~l~~~l~~--~~~~~~  173 (305)
                      .. .....+ ..          .            .....+.+|+|||++.+.      +.....|..+++.  ...+..
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  158 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVS  158 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEE
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCce
Confidence            00 000000 00          0            011224899999999998      3445667777776  233556


Q ss_pred             EEEEecCCc------ccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHH
Q 021937          174 FALICNQVN------KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV--TEGGLAALVRLCNGDMRKALN  241 (305)
Q Consensus       174 iil~~~~~~------~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~--~~~~~~~l~~~~~g~~r~~~~  241 (305)
                      +|+++....      .-...+..|+..+.+++++.++..+++...+... ..+  +++.++.++..++|+|+.+..
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            666654421      1233466777779999999999999999987766 544  999999999999999998753

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

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.56  E-value=3e-13  Score=116.56  Aligned_cols=199  Identities=17%  Similarity=0.171  Sum_probs=130.9

Q ss_pred             cccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcc
Q 021937           55 VAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ  132 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  132 (305)
                      ++|++..++.+.+.+..-  ...+++|+|++||||+++|+++...-..  ....|+.++|.... ...+...+.... ..
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~r--~~~pfv~vnc~~~~-~~~l~~~lfG~~-~g   76 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKR--WQGPLVKLNCAALS-ENLLDSELFGHE-AG   76 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcCc--cCCCeEEEeCCCCC-hHHHHHHHhccc-cc
Confidence            356666666666555532  2234999999999999999999876422  34578899988632 222222221100 00


Q ss_pred             ccc--------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cccch
Q 021937          133 SFS--------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKIIP  186 (305)
Q Consensus       133 ~~~--------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~l~~  186 (305)
                      .|.        .-..+.+++|||||++.++...|..|+.++++..           .++++|++++..       ..+.+
T Consensus        77 ~~~ga~~~~~G~~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l~~~~~~g~fr~  156 (329)
T TIGR02974        77 AFTGAQKRHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRA  156 (329)
T ss_pred             cccCcccccCCchhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhHHHHhhcCchHH
Confidence            011        1123457899999999999999999999998642           345777777532       23556


Q ss_pred             hhhcce--eEEEecCCCH--HHHHHHHHHHH----HHcC----CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc--C
Q 021937          187 ALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEG----LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--Q  251 (305)
Q Consensus       187 ~l~~r~--~~i~~~~~~~--~~~~~~l~~~~----~~~~----~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~--~  251 (305)
                      +|..|+  ..+.++|+..  +++..++...+    .+.+    ..+++++++.+..+. +||+|.+.+.++.++...  .
T Consensus       157 dL~~rl~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~ls~~a~~~L~~y~WPGNvrEL~n~i~~~~~~~~~~  236 (329)
T TIGR02974       157 DLLDRLAFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPGFTPQAREQLLEYHWPGNVRELKNVVERSVYRHGLE  236 (329)
T ss_pred             HHHHHhcchhcCCCchhhhhhhHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHhCCCCchHHHHHHHHHHHHHhCCCC
Confidence            777776  4577777763  45554444433    3333    358999999999876 999999999998887754  3


Q ss_pred             ccCHHH
Q 021937          252 QITEEA  257 (305)
Q Consensus       252 ~i~~~~  257 (305)
                      .++.++
T Consensus       237 ~~~~~~  242 (329)
T TIGR02974       237 EAPIDE  242 (329)
T ss_pred             ccchhh
Confidence            344443

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

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.56  E-value=2e-12  Score=114.25  Aligned_cols=236  Identities=14%  Similarity=0.129  Sum_probs=140.3

Q ss_pred             cccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHH--HHHHhhh
Q 021937           53 ADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ--QIQDFAS  130 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~i~~~~~  130 (305)
                      ..++|+++.++.+...+..+  .+++|+||||+|||++|++++......+ .+.+.......   ..++-.  .+.....
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~~~~~-~F~~~~~~ftt---p~DLfG~l~i~~~~~   93 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQNAR-AFEYLMTRFST---PEEVFGPLSIQALKD   93 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHhcccC-cceeeeeeecC---cHHhcCcHHHhhhhh
Confidence            45889999999999888776  4599999999999999999999874322 11222211111   111111  0111110


Q ss_pred             cccc---cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc---------CCceEEEEe-cCCcc---cchhhhcce-e
Q 021937          131 TQSF---SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---------KNTRFALIC-NQVNK---IIPALQSRC-T  193 (305)
Q Consensus       131 ~~~~---~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~---------~~~~iil~~-~~~~~---l~~~l~~r~-~  193 (305)
                      ...+   ..+.-....++|+||++++++..++.|+..+++..         -..++++++ |....   ..+++..|+ .
T Consensus        94 ~g~f~r~~~G~L~~A~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE~g~~leAL~DRFli  173 (498)
T PRK13531         94 EGRYQRLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPEADSSLEALYDRMLI  173 (498)
T ss_pred             cCchhhhcCCccccccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcccCCchHHhHhhEEE
Confidence            0111   11111123499999999999999999999997532         123454444 43321   334788888 4


Q ss_pred             EEEecCCC-HHHHHHHHHHHHH-----------------------HcCCCCCHHHHHHHHHHcC----------CCHHHH
Q 021937          194 RFRFAPLE-PVHVTERLKHVIE-----------------------AEGLDVTEGGLAALVRLCN----------GDMRKA  239 (305)
Q Consensus       194 ~i~~~~~~-~~~~~~~l~~~~~-----------------------~~~~~~~~~~~~~l~~~~~----------g~~r~~  239 (305)
                      .+.+++++ .++..+++.....                       -..+.+++.+.+.|++...          -++|..
T Consensus       174 ri~vp~l~~~~~e~~lL~~~~~~~~~~~~~~~vis~eel~~lq~~v~~V~v~d~v~eyI~~L~~~lr~~r~~~~~SpR~~  253 (498)
T PRK13531        174 RLWLDKVQDKANFRSMLTSQQDENDNPVPASLQITDEEYQQWQKEIGKITLPDHVFELIFQLRQQLDALPNAPYVSDRRW  253 (498)
T ss_pred             EEECCCCCchHHHHHHHHcccccccCCCcccCCCCHHHHHHHHHHhcceeCCHHHHHHHHHHHHHHhcCCCCCCcCcHHH
Confidence            58888886 4555666654211                       0134567777777665531          357776


Q ss_pred             HHHHH---HHhh--ccCccCHHHHHhhhCCC------ChhhHHHHHHHHHcccHHHHHHHHHHHHHH
Q 021937          240 LNILQ---STHM--ASQQITEEAVYLCTGNP------LPKDIEQISYWLLNESFADSFKRIQNLSFI  295 (305)
Q Consensus       240 ~~~l~---~~~~--~~~~i~~~~v~~~~~~~------~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~  295 (305)
                      +..+.   ..+.  +...++++|+. ++...      ....+...+..+......+....++.+...
T Consensus       254 ~~l~~~akA~A~l~GR~~V~p~Dv~-ll~~vL~HRl~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~  319 (498)
T PRK13531        254 KKAIRLLQASAFFSGRDAIAPIDLI-LLKDCLWHDAQSLNLLQQQLEQLMTEHAWQQQGMLTRLGAI  319 (498)
T ss_pred             HHHHHHHHHHHHHCCCCCCCHHHHH-HhHHHhccCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            66553   3333  33569999998 54322      333555566666666666666665555443

>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=99.56  E-value=4.6e-14  Score=105.86  Aligned_cols=113  Identities=30%  Similarity=0.373  Sum_probs=80.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc--ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~  154 (305)
                      ++|+||||+|||++++.+++.+     ...++.+++....  ......+.+........-..    .+.||+|||+|.+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l-----~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~----~~~vl~iDe~d~l~   71 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL-----GFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSA----KPCVLFIDEIDKLF   71 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT-----TSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTS----TSEEEEEETGGGTS
T ss_pred             CEEECcCCCCeeHHHHHHHhhc-----ccccccccccccccccccccccccccccccccccc----cceeeeeccchhcc
Confidence            6899999999999999999997     5667888776533  22222333333322211000    26999999999998


Q ss_pred             HHH-----------HHHHHHHHHHhcC---CceEEEEecCCcccchhhh-cce-eEEEec
Q 021937          155 KDA-----------QFALRRVIEKYTK---NTRFALICNQVNKIIPALQ-SRC-TRFRFA  198 (305)
Q Consensus       155 ~~~-----------~~~l~~~l~~~~~---~~~iil~~~~~~~l~~~l~-~r~-~~i~~~  198 (305)
                      ...           .+.|+..++....   +..+|++++..+.+++.+. +|| ..+.++
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            775           6778888887654   4678888899999999999 888 445553

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 ....

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=99.56  E-value=1.2e-13  Score=110.42  Aligned_cols=168  Identities=19%  Similarity=0.296  Sum_probs=117.8

Q ss_pred             CccccccchHHHHHHHHHHh-------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC---
Q 021937           51 SLADVAAHRDIVDTIDRLTS-------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD---  114 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~-------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~---  114 (305)
                      .++++-|-+..++.|.+.+-             -..+..+++|||||+|||.++++.+....     ..|..+.++.   
T Consensus       169 ~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~-----aTFLKLAgPQLVQ  243 (424)
T KOG0652|consen  169 QYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTN-----ATFLKLAGPQLVQ  243 (424)
T ss_pred             cccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhcc-----chHHHhcchHHHh
Confidence            56788888888888877653             12344599999999999999999998752     2333332221   


Q ss_pred             ---CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHHh-----cCCceEE
Q 021937          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRFA  175 (305)
Q Consensus       115 ---~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~~-----~~~~~ii  175 (305)
                         ..+...++..+.-+..         ..+.+|||||+|.+.           .+.+..++.+++..     ...+.+|
T Consensus       244 MfIGdGAkLVRDAFaLAKE---------kaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKvi  314 (424)
T KOG0652|consen  244 MFIGDGAKLVRDAFALAKE---------KAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVI  314 (424)
T ss_pred             hhhcchHHHHHHHHHHhhc---------cCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEE
Confidence               1233344444433333         336999999999884           23566667776643     3456788


Q ss_pred             EEecCCcccchhhhcce---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Q 021937          176 LICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCN  233 (305)
Q Consensus       176 l~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~  233 (305)
                      .++|+.+-++|++.+..   +.+.|+.|+.+....+++....+.++. ++-.++++++.+.
T Consensus       315 AATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~-~DvNfeELaRsTd  374 (424)
T KOG0652|consen  315 AATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVS-DDVNFEELARSTD  374 (424)
T ss_pred             eecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCC-CCCCHHHHhhccc
Confidence            89999999999998764   669999999999999999888877753 2334677887664

>PRK14700 recombination factor protein RarA; Provisional

Probab=99.55  E-value=1e-13  Score=114.41  Aligned_cols=130  Identities=15%  Similarity=0.151  Sum_probs=111.0

Q ss_pred             eEEEEe--cCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHc------CCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 021937          173 RFALIC--NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE------GLDVTEGGLAALVRLCNGDMRKALNILQ  244 (305)
Q Consensus       173 ~iil~~--~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~------~~~~~~~~~~~l~~~~~g~~r~~~~~l~  244 (305)
                      .+|.+|  |....+.+++++||+++.|++++.+++..++++.+...      .+.+++++++.|++.++||.|.++|.|+
T Consensus        10 ~LIGATTENP~f~vn~ALlSR~~v~~l~~L~~~di~~il~ral~~~~~~~~~~~~i~~~al~~ia~~a~GDaR~aLN~LE   89 (300)
T PRK14700         10 ILIGATTENPTYYLNDALVSRLFILRLKRLSLVATQKLIEKALSQDEVLAKHKFKIDDGLYNAMHNYNEGDCRKILNLLE   89 (300)
T ss_pred             EEEeecCCCccceecHhhhhhhheeeecCCCHHHHHHHHHHHHHhhhccCCcCCCcCHHHHHHHHHhcCCHHHHHHHHHH
Confidence            344444  55568899999999999999999999999999988642      3578999999999999999999999999


Q ss_pred             HHhhc-c--C--ccCHHHHHhhh----------CCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          245 STHMA-S--Q--QITEEAVYLCT----------GNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       245 ~~~~~-~--~--~i~~~~v~~~~----------~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                      .++.. .  .  .||.+.+++.+          ++..++.++.++..|+++|+++|+.|+..|+..+.+|.++
T Consensus        90 ~a~~~~~~~~~~~it~~~~~~~~~~~~~~yDk~gd~HYd~iSAf~KSiRGSDpDAAlYyLArml~~GEDp~~I  162 (300)
T PRK14700         90 RMFLISTRGDEIYLNKELFDQAVGETSRDFHREGKEFYEQLSAFHKSVRGTDPDAAIFWLSVMLDNGVDPLVI  162 (300)
T ss_pred             HHHhhccccCCCccCHHHHHHHHhHHHhcccCCcchhHHHHHHHHHHhhcCCccHHHHHHHHHHHcCCCHHHH
Confidence            86642 1  1  28999988766          5567889999999999999999999999999999888876

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.55  E-value=8.8e-14  Score=111.59  Aligned_cols=169  Identities=23%  Similarity=0.357  Sum_probs=123.0

Q ss_pred             CccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC--
Q 021937           51 SLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (305)
                      .+.++-|..+.++.+++...-             ..+..+++|||||+|||.+|++++++.     ..+|+.+-++..  
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            578899999999999888752             234459999999999999999999986     667887765541  


Q ss_pred             ----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHH-----hcCCceEE
Q 021937          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEK-----YTKNTRFA  175 (305)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~-----~~~~~~ii  175 (305)
                          .+...+++.+.-         ....+-++||+||+|.+.           .+.+..++.++..     +..+..++
T Consensus       250 kyvgegarmvrelf~m---------artkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvl  320 (435)
T KOG0729|consen  250 KYVGEGARMVRELFEM---------ARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVL  320 (435)
T ss_pred             HHhhhhHHHHHHHHHH---------hcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEE
Confidence                122222222222         223346999999999874           3566777777764     34577899


Q ss_pred             EEecCCcccchhhhcce---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCC
Q 021937          176 LICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNGD  235 (305)
Q Consensus       176 l~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~~~g~  235 (305)
                      +++|+++.+++++.+-.   +.+.|.-|+.+....+++..++...  ++.+. ++.|+++|+..
T Consensus       321 matnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksms--verdir~ellarlcpns  382 (435)
T KOG0729|consen  321 MATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSMS--VERDIRFELLARLCPNS  382 (435)
T ss_pred             eecCCCCCcCHhhcCCcccccceeccCCcccccceeEEEeccccc--cccchhHHHHHhhCCCC
Confidence            99999999999998754   5699999999988888887766544  44443 56677887643

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=99.55  E-value=7e-14  Score=131.86  Aligned_cols=203  Identities=25%  Similarity=0.412  Sum_probs=159.9

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcC------------CC--C--eEEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN------------RL--P--HLLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~------------~~--~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      ...|.++|+|.+..++.|+......+..++...            ..  .  .++++||||+|||+.+..++..+     
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            578999999999999999888887888877654            11  1  14899999999999999999998     


Q ss_pred             cccEEEeecCCCcChhHHHHHHHHhhhcccccCC---------CCCceEEEEEeCCCcCCHHH---HHHHHHHHHHhcCC
Q 021937          104 HNMILELNASDDRGIDVVRQQIQDFASTQSFSFG---------VKASVKLVLLDEADAMTKDA---QFALRRVIEKYTKN  171 (305)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~---------~~~~~~vliiDe~~~l~~~~---~~~l~~~l~~~~~~  171 (305)
                      ...+++.|....+....+.+.+..+.......+.         .+....||++||+|.+..+.   +..+..++.  ...
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            6689999999877777777777665544432221         23334599999999998744   445555555  235


Q ss_pred             ceEEEEecCCcccch-hhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc
Q 021937          172 TRFALICNQVNKIIP-ALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (305)
Q Consensus       172 ~~iil~~~~~~~l~~-~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~  249 (305)
                      ..+++++|+...... .+.+.|..++|+.|+...+...+..++..+++.++++.++.+.+.++||+|.+++.|+.+...
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            667888877655433 455556889999999999999999999999999999999999999999999999999999653

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.55  E-value=3.2e-13  Score=129.79  Aligned_cols=194  Identities=18%  Similarity=0.260  Sum_probs=129.4

Q ss_pred             ccccccchHHHHHHHHHHhcC--------CC-CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHH
Q 021937           52 LADVAAHRDIVDTIDRLTSEN--------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR  122 (305)
Q Consensus        52 ~~~~~g~~~~~~~l~~~l~~~--------~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (305)
                      ...++|++..++.+...+...        ++ ..++|+||+|+|||++|+++++.+...+  ..++.++++.........
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~--~~~i~id~se~~~~~~~~  644 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSD--DAMVRIDMSEFMEKHSVS  644 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCC--CcEEEEEhHHhhhhhhHH
Confidence            457899999999888887632        11 2489999999999999999999885433  245666654432211111


Q ss_pred             HHHHHhhhcccccC-------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC---
Q 021937          123 QQIQDFASTQSFSF-------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV---  181 (305)
Q Consensus       123 ~~i~~~~~~~~~~~-------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~---  181 (305)
                      ..+.....+..+..       -...+++||+|||++.+++..++.|++++++..           .++.+|+++|..   
T Consensus       645 ~LiG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~g~~~  724 (857)
T PRK10865        645 RLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDL  724 (857)
T ss_pred             HHhCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCCcchHH
Confidence            11110000000000       012235899999999999999999999998642           344577777642   


Q ss_pred             ----------------------cccchhhhcce-eEEEecCCCHHHHHHHHHHHHHH-------cC--CCCCHHHHHHHH
Q 021937          182 ----------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------EG--LDVTEGGLAALV  229 (305)
Q Consensus       182 ----------------------~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~~~~~~~~~~l~  229 (305)
                                            ..+.|.|.+|+ .++.|.|++.+++.+++...+..       .+  +.+++++++.|+
T Consensus       725 ~~~~~~~~~~~~~~~~~~~~~~~~f~PELlnRld~iivF~PL~~edl~~Iv~~~L~~l~~rl~~~gi~l~is~~al~~L~  804 (857)
T PRK10865        725 IQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEERGYEIHISDEALKLLS  804 (857)
T ss_pred             HHHhccccchHHHHHHHHHHHcccccHHHHHhCCeeEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCcCcCCHHHHHHHH
Confidence                                  12346788888 88999999999998887766643       13  457999999999


Q ss_pred             HHcC---CCHHHHHHHHHHHh
Q 021937          230 RLCN---GDMRKALNILQSTH  247 (305)
Q Consensus       230 ~~~~---g~~r~~~~~l~~~~  247 (305)
                      ++..   -..|.+.+.++...
T Consensus       805 ~~gy~~~~GARpL~r~I~~~i  825 (857)
T PRK10865        805 ENGYDPVYGARPLKRAIQQQI  825 (857)
T ss_pred             HcCCCccCChHHHHHHHHHHH
Confidence            8652   13666666665543

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=99.55  E-value=3.5e-14  Score=115.13  Aligned_cols=199  Identities=19%  Similarity=0.277  Sum_probs=133.7

Q ss_pred             CCCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      ...++.++-|-+..++.+++...-             ..+..+++||+||+|||.||+++++..     +..|+.+-++.
T Consensus       180 P~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqT-----SATFlRvvGse  254 (440)
T KOG0726|consen  180 PQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQT-----SATFLRVVGSE  254 (440)
T ss_pred             chhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhccc-----chhhhhhhhHH
Confidence            344788999999999999888652             234459999999999999999999975     44455544432


Q ss_pred             ------CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHh-----cCCc
Q 021937          115 ------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-----TKNT  172 (305)
Q Consensus       115 ------~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~-----~~~~  172 (305)
                            ..+...+++.+.-+....         +.++||||+|.+..           +.|..++.+++..     ..++
T Consensus       255 LiQkylGdGpklvRqlF~vA~e~a---------pSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsrgDv  325 (440)
T KOG0726|consen  255 LIQKYLGDGPKLVRELFRVAEEHA---------PSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDV  325 (440)
T ss_pred             HHHHHhccchHHHHHHHHHHHhcC---------CceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccccCCe
Confidence                  234555666655554433         69999999998852           3466677777643     3578


Q ss_pred             eEEEEecCCcccchhhhcce---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHH----HHcCCCHHHHHHHHH
Q 021937          173 RFALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALV----RLCNGDMRKALNILQ  244 (305)
Q Consensus       173 ~iil~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~----~~~~g~~r~~~~~l~  244 (305)
                      .+|++||..+.++|++.+-.   +.+.|+.|+....++++.....+..  +..++ ++.+.    ..++.|+..+....-
T Consensus       326 KvimATnrie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~Mt--l~~dVnle~li~~kddlSGAdIkAictEaG  403 (440)
T KOG0726|consen  326 KVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSRMT--LAEDVNLEELIMTKDDLSGADIKAICTEAG  403 (440)
T ss_pred             EEEEecccccccCHhhcCCCccccccccCCCchhhhceeEEEeecccc--hhccccHHHHhhcccccccccHHHHHHHHh
Confidence            99999999999999998754   5699999999888888766544333  22221 22222    345566666555544


Q ss_pred             HHhhcc--CccCHHHHHhhh
Q 021937          245 STHMAS--QQITEEAVYLCT  262 (305)
Q Consensus       245 ~~~~~~--~~i~~~~v~~~~  262 (305)
                      .++...  ..++.++++++.
T Consensus       404 llAlRerRm~vt~~DF~ka~  423 (440)
T KOG0726|consen  404 LLALRERRMKVTMEDFKKAK  423 (440)
T ss_pred             HHHHHHHHhhccHHHHHHHH
Confidence            444322  346666655443

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.55  E-value=6.1e-13  Score=116.98  Aligned_cols=205  Identities=19%  Similarity=0.247  Sum_probs=142.7

Q ss_pred             CccccccchHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHh
Q 021937           51 SLADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (305)
                      ...+++|++..++++++.+..-.  ..+++|+|++||||-.+|++|.+.-.  ....+|+.+||... ..+.+.+.+...
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            56789999999999999887532  23499999999999999999988643  33467999999873 333333323221


Q ss_pred             hhcccccCC--------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------c
Q 021937          129 ASTQSFSFG--------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------N  182 (305)
Q Consensus       129 ~~~~~~~~~--------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~  182 (305)
                      .. ..|++.        ..+.++.|||||+..++-+.|..|++.+++..           -+++||.+|+..       .
T Consensus       216 ek-GAFTGA~~~r~G~fE~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdvRiIaaT~~dL~~~v~~G  294 (464)
T COG2204         216 EK-GAFTGAITRRIGRFEQANGGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDVRIIAATNRDLEEEVAAG  294 (464)
T ss_pred             cc-cCcCCcccccCcceeEcCCceEEeeccccCCHHHHHHHHHHHHcCeeEecCCCcccceeeEEEeecCcCHHHHHHcC
Confidence            11 112222        23667899999999999999999999999532           356777777542       2


Q ss_pred             ccchhhhcceeEEE--ecCCCH--HHH----HHHHHHHHHHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc
Q 021937          183 KIIPALQSRCTRFR--FAPLEP--VHV----TERLKHVIEAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (305)
Q Consensus       183 ~l~~~l~~r~~~i~--~~~~~~--~~~----~~~l~~~~~~~~~---~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~  250 (305)
                      .+-++|.-|..++.  ++|+.+  +++    ..++++.+.+.|.   .+++++++.+..+. +||+|.+.|.++.++...
T Consensus       295 ~FReDLyyRLnV~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNVREL~N~ver~~il~  374 (464)
T COG2204         295 RFREDLYYRLNVVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEALAALLAYDWPGNVRELENVVERAVILS  374 (464)
T ss_pred             CcHHHHHhhhccceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCChHHHHHHHHHHHHHhcC
Confidence            45677777875554  444433  233    3344555555543   57899998888764 999999999999888754


Q ss_pred             C--ccCHHHHH
Q 021937          251 Q--QITEEAVY  259 (305)
Q Consensus       251 ~--~i~~~~v~  259 (305)
                      .  .|+.+++.
T Consensus       375 ~~~~i~~~~l~  385 (464)
T COG2204         375 EGPEIEVEDLP  385 (464)
T ss_pred             Cccccchhhcc
Confidence            3  47776654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.55  E-value=2.3e-13  Score=130.90  Aligned_cols=192  Identities=21%  Similarity=0.250  Sum_probs=127.0

Q ss_pred             cccccchHHHHHHHHHHhcC--------CC-CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHH
Q 021937           53 ADVAAHRDIVDTIDRLTSEN--------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~--------~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (305)
                      +.++||++.++.+...+...        ++ ..++|+||+|+|||++|+++++.+.+..  ..++.++.+.......+..
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~--~~~~~~d~s~~~~~~~~~~  586 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSE--DAMIRLDMSEYMEKHTVSK  586 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCc--cceEEEEchhccccccHHH
Confidence            56889999999998877521        12 2389999999999999999999986543  2455555443222111111


Q ss_pred             HHHHhhhcccccC-------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc---
Q 021937          124 QIQDFASTQSFSF-------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN---  182 (305)
Q Consensus       124 ~i~~~~~~~~~~~-------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~~---  182 (305)
                      .+.....+..+..       -...+.+||+|||+|++.++.++.|++++++..           .++.||+++|...   
T Consensus       587 l~g~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g~~~i  666 (821)
T CHL00095        587 LIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLGSKVI  666 (821)
T ss_pred             hcCCCCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcchHHH
Confidence            1111000000000       012346899999999999999999999999742           4667888865211   


Q ss_pred             ----------------------------------ccchhhhcce-eEEEecCCCHHHHHHHHHHHHHH-------cC--C
Q 021937          183 ----------------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------EG--L  218 (305)
Q Consensus       183 ----------------------------------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~  218 (305)
                                                        .+.|.|.+|+ .++.|.|++.+++.+++...+..       .+  +
T Consensus       667 ~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~peflnRid~ii~F~pL~~~~l~~Iv~~~l~~l~~rl~~~~i~l  746 (821)
T CHL00095        667 ETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIMLKNLFKRLNEQGIQL  746 (821)
T ss_pred             HhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhccCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEE
Confidence                                              0235678888 88999999999999888766653       23  4


Q ss_pred             CCCHHHHHHHHHHcC---CCHHHHHHHHHHH
Q 021937          219 DVTEGGLAALVRLCN---GDMRKALNILQST  246 (305)
Q Consensus       219 ~~~~~~~~~l~~~~~---g~~r~~~~~l~~~  246 (305)
                      .+++++.+.|++.+.   --.|.+...++..
T Consensus       747 ~~~~~~~~~La~~~~~~~~GAR~l~r~i~~~  777 (821)
T CHL00095        747 EVTERIKTLLIEEGYNPLYGARPLRRAIMRL  777 (821)
T ss_pred             EECHHHHHHHHHhcCCCCCChhhHHHHHHHH
Confidence            678999999998741   1255555555433

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.54  E-value=5.9e-13  Score=114.21  Aligned_cols=218  Identities=13%  Similarity=0.176  Sum_probs=136.1

Q ss_pred             hcCCC-CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCc--ccEEEeecCC--------
Q 021937           46 KYRPQ-SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILELNASD--------  114 (305)
Q Consensus        46 ~~~p~-~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~--~~~~~~~~~~--------  114 (305)
                      +-++. .|..++||++.+..|...+......+++|.|++|+|||++++.+.+.+.+....  ..|.  ..+.        
T Consensus         9 ~~~~~~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~--~~p~~p~~~~~~   86 (350)
T CHL00081          9 KERPVFPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFN--SHPSDPELMSDE   86 (350)
T ss_pred             ccCCCCCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCC--CCCCChhhhchh
Confidence            33444 689999999999999999988877789999999999999999998887532200  0010  0000        


Q ss_pred             -------------------------CcChhH------HHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHH
Q 021937          115 -------------------------DRGIDV------VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRR  163 (305)
Q Consensus       115 -------------------------~~~~~~------~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~  163 (305)
                                               ....+.      +...+.........+.-.++++++|++||++.+++..+..|++
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~~~Q~~LLe  166 (350)
T CHL00081         87 VREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDDHLVDILLD  166 (350)
T ss_pred             hhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCHHHHHHHHH
Confidence                                     000000      0111110000000001124567899999999999999999999


Q ss_pred             HHHHhc-----------CCceEEEEe--cCCc-ccchhhhcce-eEEEecCCCH-HHHHHHHHHHHH-------------
Q 021937          164 VIEKYT-----------KNTRFALIC--NQVN-KIIPALQSRC-TRFRFAPLEP-VHVTERLKHVIE-------------  214 (305)
Q Consensus       164 ~l~~~~-----------~~~~iil~~--~~~~-~l~~~l~~r~-~~i~~~~~~~-~~~~~~l~~~~~-------------  214 (305)
                      .+++..           ...++++++  |..+ .+.+.+..|+ ..+.+..++. ++..+++.+...             
T Consensus       167 am~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~LldRf~l~i~l~~~~~~~~e~~il~~~~~~~~~~~~~~~~~~  246 (350)
T CHL00081        167 SAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPELRVKIVEQRTSFDKNPQEFREKYE  246 (350)
T ss_pred             HHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHHHhCceeecCCCCChHHHHHHHHhhhccccChhhhhhhhc
Confidence            997631           123444443  3222 5788888998 5677777763 555555544211             


Q ss_pred             ----------------HcCCCCCHHHHHHHHHHcC----CCHHHHHHHHHHHhh-----ccCccCHHHHHhhhCCC
Q 021937          215 ----------------AEGLDVTEGGLAALVRLCN----GDMRKALNILQSTHM-----ASQQITEEAVYLCTGNP  265 (305)
Q Consensus       215 ----------------~~~~~~~~~~~~~l~~~~~----g~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~~~~  265 (305)
                                      -..+.++++.++++++.+.    -.+|..+.+++.+..     ....++++||+.+....
T Consensus       247 ~~~~~~~~~I~~ar~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~v  322 (350)
T CHL00081        247 ESQEELRSKIVAAQNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITLC  322 (350)
T ss_pred             cccccCHHHHHHHHHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence                            0245688888888777652    258887777754332     23569999998877443

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.54  E-value=9e-13  Score=113.14  Aligned_cols=214  Identities=14%  Similarity=0.165  Sum_probs=129.5

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC-------CCC----cccEEEe---------
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG-------AQY----HNMILEL---------  110 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~-------~~~----~~~~~~~---------  110 (305)
                      .|..++|+++.+..|.-.+-.....+++|.|++|+||||++++++..+..       +..    ...++..         
T Consensus         2 pf~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~   81 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPEMMCEEVRIRVDSQ   81 (337)
T ss_pred             CccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCccccChHHhhhhhcc
Confidence            37789999999998877776666677999999999999999999987721       000    0000000         


Q ss_pred             -------------ecCC------CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc--
Q 021937          111 -------------NASD------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT--  169 (305)
Q Consensus       111 -------------~~~~------~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~--  169 (305)
                                   +-+.      ..+...+...+..-......+.-.++.++++++||++.++...+..|++.+++..  
T Consensus        82 ~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L~~~~Q~~Ll~~l~~g~~~  161 (337)
T TIGR02030        82 EPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLLEDHLVDVLLDVAASGWNV  161 (337)
T ss_pred             cccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhCCHHHHHHHHHHHHhCCeE
Confidence                         0000      0011111111111100000011123557899999999999999999999998642  


Q ss_pred             ---------CCceEEEEe--cCCc-ccchhhhcce-eEEEecCCCH-HHHHHHHHHHHH---------------------
Q 021937          170 ---------KNTRFALIC--NQVN-KIIPALQSRC-TRFRFAPLEP-VHVTERLKHVIE---------------------  214 (305)
Q Consensus       170 ---------~~~~iil~~--~~~~-~l~~~l~~r~-~~i~~~~~~~-~~~~~~l~~~~~---------------------  214 (305)
                               ...++++++  |..+ .+.+++..|+ ..+.+.++.. ++..+++.....                     
T Consensus       162 v~r~G~~~~~~~r~iviat~np~eg~l~~~LldRf~l~i~l~~p~~~eer~eIL~~~~~~~~~~~~~~~~~~~e~~~~~~  241 (337)
T TIGR02030       162 VEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGLHAEIRTVRDVELRVEIVERRTEYDADPHAFCEKWQTEQEALQA  241 (337)
T ss_pred             EEECCEEEEcCCCEEEEeccccccCCCCHHHHhhcceEEECCCCCCHHHHHHHHHhhhhcccCchhhhhhhhhhhhcCHH
Confidence                     122344433  3222 5788899998 5677777765 565566655211                     


Q ss_pred             --------HcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHhh-----ccCccCHHHHHhhhCC
Q 021937          215 --------AEGLDVTEGGLAALVRLC---NG-DMRKALNILQSTHM-----ASQQITEEAVYLCTGN  264 (305)
Q Consensus       215 --------~~~~~~~~~~~~~l~~~~---~g-~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~~~  264 (305)
                              -..+.+++++++++++.+   +. .+|..+..+..+..     ....+++++|+.+..-
T Consensus       242 ~I~~a~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~  308 (337)
T TIGR02030       242 KIVNAQNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVL  308 (337)
T ss_pred             HHHHHHHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence                    024567888877777644   32 47877777654333     2356999999876643

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.

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=99.53  E-value=7.6e-12  Score=99.91  Aligned_cols=176  Identities=16%  Similarity=0.189  Sum_probs=132.1

Q ss_pred             HHHHHHHHhcCCCCe-EEEECCCC-CcHHHHHHHHHHHHhCCC----CcccEEEeecC-------CCcChhHHHHHHHHh
Q 021937           62 VDTIDRLTSENRLPH-LLLYGPPG-TGKTSTILAVARKLYGAQ----YHNMILELNAS-------DDRGIDVVRQQIQDF  128 (305)
Q Consensus        62 ~~~l~~~l~~~~~~~-~ll~G~~G-~GKT~l~~~l~~~~~~~~----~~~~~~~~~~~-------~~~~~~~~~~~i~~~  128 (305)
                      ++.+.+.++.++..| +++.|..+ +||..++..++..+.+.+    ....+..+...       ..-+.+.+++....+
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            457888889888888 89999998 999999999999886642    22234444332       224567777765554


Q ss_pred             hhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHH
Q 021937          129 ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTER  208 (305)
Q Consensus       129 ~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~  208 (305)
                      ...+     ..++.+|++|+++|.+...+.++|++.+|++|+++.++++++....+.+++++||+.+.|+.++.....++
T Consensus        82 ~~~p-----~~g~~KViII~~ae~mt~~AANALLKtLEEPP~~t~fILit~~~~~LLpTIrSRCq~i~~~~p~~~~~~e~  156 (263)
T PRK06581         82 SKTS-----AISGYKVAIIYSAELMNLNAANSCLKILEDAPKNSYIFLITSRAASIISTIRSRCFKINVRSSILHAYNEL  156 (263)
T ss_pred             hhCc-----ccCCcEEEEEechHHhCHHHHHHHHHhhcCCCCCeEEEEEeCChhhCchhHhhceEEEeCCCCCHHHHHHH
Confidence            3332     23348999999999999999999999999999999999999999999999999999999999999888887


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q 021937          209 LKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQS  245 (305)
Q Consensus       209 l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~  245 (305)
                      ....+.-.   .+..-++.|.+...-|......-.+.
T Consensus       157 ~~~~~~p~---~~~~~l~~i~~~~~~d~~~w~~~~~~  190 (263)
T PRK06581        157 YSQFIQPI---ADNKTLDFINRFTTKDRELWLDFIDN  190 (263)
T ss_pred             HHHhcccc---cccHHHHHHHHHhhhhHHHHHHHHHH
Confidence            76654322   34444677777655554444443333

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

Probab=99.53  E-value=2.7e-13  Score=116.77  Aligned_cols=197  Identities=21%  Similarity=0.303  Sum_probs=138.5

Q ss_pred             CccccccchHHHHHHHHHHhc----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhH-HHHHH
Q 021937           51 SLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV-VRQQI  125 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i  125 (305)
                      ....+.|++.....++.++..    .....++++|.||+|||.+...+...+.+.......++++|........ +...+
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            446788999998888888653    4555699999999999999999999887777777788888886433222 22222


Q ss_pred             HHhhhccc-----------ccC--CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-CCceEEEE--ecCC---cccch
Q 021937          126 QDFASTQS-----------FSF--GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-KNTRFALI--CNQV---NKIIP  186 (305)
Q Consensus       126 ~~~~~~~~-----------~~~--~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-~~~~iil~--~~~~---~~l~~  186 (305)
                      ..+.....           |..  ......-|+++||.|.+....+..|+.+++++. .+.+++++  +|..   +++.+
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            22211100           000  011246899999999999888889999888643 24444444  4544   45667


Q ss_pred             hhhcce----eEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHc---CCCHHHHHHHHHHHh
Q 021937          187 ALQSRC----TRFRFAPLEPVHVTERLKHVIEAEGLD-VTEGGLAALVRLC---NGDMRKALNILQSTH  247 (305)
Q Consensus       187 ~l~~r~----~~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~---~g~~r~~~~~l~~~~  247 (305)
                      .+..++    +++.|+||+.+++.+|+.+++...... +-..+++.+++.+   .||+|.|+..++.+.
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            776642    779999999999999999998877543 3344677777654   699999999998544

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.53  E-value=1.8e-13  Score=118.23  Aligned_cols=198  Identities=17%  Similarity=0.200  Sum_probs=136.5

Q ss_pred             CCccccccchHHHHHHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH
Q 021937           50 QSLADVAAHRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (305)
                      ..+..++|.+...+.+++.++...+  .++++.|++|+||+.+|+.+...- ......+++.+||+.........+.+..
T Consensus        75 ~~~~~LIG~~~~~~~~~eqik~~ap~~~~vLi~GetGtGKel~A~~iH~~s-~r~~~~PFI~~NCa~~~en~~~~eLFG~  153 (403)
T COG1221          75 EALDDLIGESPSLQELREQIKAYAPSGLPVLIIGETGTGKELFARLIHALS-ARRAEAPFIAFNCAAYSENLQEAELFGH  153 (403)
T ss_pred             hhhhhhhccCHHHHHHHHHHHhhCCCCCcEEEecCCCccHHHHHHHHHHhh-hcccCCCEEEEEHHHhCcCHHHHHHhcc
Confidence            4578899999988888888876433  239999999999999999999433 2226778999999876544433332221


Q ss_pred             hhhcccccC--------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHH-----------hcCCceEEEEecCC--cccch
Q 021937          128 FASTQSFSF--------GVKASVKLVLLDEADAMTKDAQFALRRVIEK-----------YTKNTRFALICNQV--NKIIP  186 (305)
Q Consensus       128 ~~~~~~~~~--------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~-----------~~~~~~iil~~~~~--~~l~~  186 (305)
                      ....  |.+        =..+.++.+++||++.++...|..|+.++++           .+.++++|++|+..  ..+..
T Consensus       154 ~kGa--ftGa~~~k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT~~~l~~~~~~  231 (403)
T COG1221         154 EKGA--FTGAQGGKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLEEAVLA  231 (403)
T ss_pred             ccce--eecccCCcCchheecCCCEEehhhhhhCCHhHHHHHHHHHHcCceEecCCCCCcCCCceeeeccccCHHHHHHh
Confidence            1110  111        1346678999999999999999999999997           23567777776532  33444


Q ss_pred             --hhhcce--eEEEecCCCHH--HHHH----HHHHHHHHcCCCC---CHHHHHHHHHH-cCCCHHHHHHHHHHHhhcc
Q 021937          187 --ALQSRC--TRFRFAPLEPV--HVTE----RLKHVIEAEGLDV---TEGGLAALVRL-CNGDMRKALNILQSTHMAS  250 (305)
Q Consensus       187 --~l~~r~--~~i~~~~~~~~--~~~~----~l~~~~~~~~~~~---~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~~  250 (305)
                        ++..|.  ..+++||+.+.  ++..    +++..+.+.+..+   ++++...+..+ +.||+|.+.|.++.++..+
T Consensus       232 g~dl~~rl~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L~~y~~pGNirELkN~Ve~~~~~~  309 (403)
T COG1221         232 GADLTRRLNILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLAYDWPGNIRELKNLVERAVAQA  309 (403)
T ss_pred             hcchhhhhcCceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHHh
Confidence              666643  56788877653  3333    3445555556543   33566666655 5899999999999888744

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.52  E-value=6.2e-13  Score=126.81  Aligned_cols=176  Identities=20%  Similarity=0.289  Sum_probs=121.2

Q ss_pred             CCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      ..+|+++.|.+..++.+.+.+..             ..+.+++|+||||||||++++++++.+     ...++.+++...
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            35788999999999998887642             223459999999999999999999987     344666665431


Q ss_pred             c------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHhcC--CceEEE
Q 021937          116 R------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYTK--NTRFAL  176 (305)
Q Consensus       116 ~------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~~~--~~~iil  176 (305)
                      .      ....++..+..+..         ..+.+|+|||+|.+..           ..+..|+.+++....  .+.+|.
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            1      11223333333322         1258999999988742           245667888876543  334455


Q ss_pred             EecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHH
Q 021937          177 ICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRKAL  240 (305)
Q Consensus       177 ~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~l~~~~~g~~r~~~  240 (305)
                      +++....+++.+++  |+ ..+.++.|+.++..++++....  +..+. +..++.+++.+.|-...-+
T Consensus       320 atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~--~~~l~~d~~l~~la~~t~G~~gadl  385 (733)
T TIGR01243       320 ATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTR--NMPLAEDVDLDKLAEVTHGFVGADL  385 (733)
T ss_pred             ecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhc--CCCCccccCHHHHHHhCCCCCHHHH
Confidence            67888888888876  55 6789999999999999986654  33343 3347888888887544433

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.

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

Probab=99.52  E-value=1.5e-13  Score=123.98  Aligned_cols=208  Identities=21%  Similarity=0.262  Sum_probs=137.6

Q ss_pred             ccccchHHHHHHHHHHh------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH
Q 021937           54 DVAAHRDIVDTIDRLTS------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (305)
                      +--|-+.+++++.+++.      .-+.+.++|+||||+|||++++.+|+.+     .-.|+.+.........+++..-.+
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al-----~RkfvR~sLGGvrDEAEIRGHRRT  398 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL-----GRKFVRISLGGVRDEAEIRGHRRT  398 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh-----CCCEEEEecCccccHHHhcccccc
Confidence            34566777777777664      3345669999999999999999999998     445666666554444444333222


Q ss_pred             hhhccc-----ccCCCCCceEEEEEeCCCcCCHH----HHHHHHHHHHHh-c--------------CCceEEEEecCCcc
Q 021937          128 FASTQS-----FSFGVKASVKLVLLDEADAMTKD----AQFALRRVIEKY-T--------------KNTRFALICNQVNK  183 (305)
Q Consensus       128 ~~~~~~-----~~~~~~~~~~vliiDe~~~l~~~----~~~~l~~~l~~~-~--------------~~~~iil~~~~~~~  183 (305)
                      +....+     -........-|++|||+|+++.+    -..+|+..++.- +              .++.||.|+|..+.
T Consensus       399 YIGamPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl~t  478 (782)
T COG0466         399 YIGAMPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLDT  478 (782)
T ss_pred             ccccCChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCcccc
Confidence            221111     00001122459999999999743    356788777621 1              35678888899999


Q ss_pred             cchhhhcceeEEEecCCCHHHHHHHHHHHHH-----HcC-----CCCCHHHHHHHHHHcC--CCHHHHHHHHHHHhh---
Q 021937          184 IIPALQSRCTRFRFAPLEPVHVTERLKHVIE-----AEG-----LDVTEGGLAALVRLCN--GDMRKALNILQSTHM---  248 (305)
Q Consensus       184 l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~-----~~~-----~~~~~~~~~~l~~~~~--g~~r~~~~~l~~~~~---  248 (305)
                      ++..|..|..++.+..++.+|-.++.++++-     ..|     +.++++++..|.++..  .-+|.+-..+...|.   
T Consensus       479 IP~PLlDRMEiI~lsgYt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~iI~~YTREAGVR~LeR~i~ki~RK~~  558 (782)
T COG0466         479 IPAPLLDRMEVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRYYTREAGVRNLEREIAKICRKAA  558 (782)
T ss_pred             CChHHhcceeeeeecCCChHHHHHHHHHhcchHHHHHcCCCccceeecHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHH
Confidence            9999999999999999999998888777553     233     4688999888876542  225555544443332   


Q ss_pred             -----cc----CccCHHHHHhhhCCCC
Q 021937          249 -----AS----QQITEEAVYLCTGNPL  266 (305)
Q Consensus       249 -----~~----~~i~~~~v~~~~~~~~  266 (305)
                           ..    -.++...+++.++...
T Consensus       559 ~~i~~~~~k~~~~i~~~~l~~yLG~~~  585 (782)
T COG0466         559 KKILLKKEKSIVKIDEKNLKKYLGVPV  585 (782)
T ss_pred             HHHHhcCcccceeeCHHHHHHHhCCcc
Confidence                 11    1367777777776543

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.52  E-value=1.3e-12  Score=112.78  Aligned_cols=196  Identities=18%  Similarity=0.164  Sum_probs=131.1

Q ss_pred             ccccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhh
Q 021937           52 LADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (305)
Q Consensus        52 ~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  129 (305)
                      ++.++|.+..++.+.+.+...  ...+++|+|++||||+++|+.+...-  ......++.++|.... ...+...+....
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s--~r~~~pfv~v~c~~~~-~~~~~~~lfg~~   81 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS--SRWQGPFISLNCAALN-ENLLDSELFGHE   81 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC--CccCCCeEEEeCCCCC-HHHHHHHHcccc
Confidence            567889888888777776642  22349999999999999999998653  2234578899988743 233322221111


Q ss_pred             hcc-------cccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------ccc
Q 021937          130 STQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKI  184 (305)
Q Consensus       130 ~~~-------~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~l  184 (305)
                      ...       ....-..+.+++|+|||++.++...+..|+.+++...           .++++|++++..       ..+
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       0011123457899999999999999999999998532           245677766432       245


Q ss_pred             chhhhcce--eEEEecCCCH--HHHHHHHHHH----HHHcC----CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc
Q 021937          185 IPALQSRC--TRFRFAPLEP--VHVTERLKHV----IEAEG----LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (305)
Q Consensus       185 ~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~----~~~~~----~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~  250 (305)
                      .+.+..|+  ..+.++|+..  +++..++..+    +.+.+    ..+++++++.+.++. +||+|.+.+.++.++...
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            56777776  4577777765  3444444443    33333    247999999988765 899999999999887643

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.52  E-value=7.8e-13  Score=121.01  Aligned_cols=206  Identities=18%  Similarity=0.204  Sum_probs=137.7

Q ss_pred             CCCccccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHH
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (305)
                      ...|++++|.+..++.+...+..  ....+++|+|++||||+++|+++.....  .....++.++|+... .+.+...+.
T Consensus       200 ~~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~s~--r~~~pfv~inca~~~-~~~~e~elF  276 (520)
T PRK10820        200 DSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSP--RGKKPFLALNCASIP-DDVVESELF  276 (520)
T ss_pred             cccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHhCC--CCCCCeEEeccccCC-HHHHHHHhc
Confidence            35789999998877777666653  2233499999999999999999876532  223578888988743 222222221


Q ss_pred             HhhhcccccC--------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC------
Q 021937          127 DFASTQSFSF--------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV------  181 (305)
Q Consensus       127 ~~~~~~~~~~--------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~------  181 (305)
                      .... ..+..        -..+..++|+|||++.++...|..|++++++..           .++++|++++..      
T Consensus       277 G~~~-~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~l~~l~~  355 (520)
T PRK10820        277 GHAP-GAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQ  355 (520)
T ss_pred             CCCC-CCcCCcccCCCChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCCHHHHHH
Confidence            1000 00100        012456899999999999999999999998631           234677766432      


Q ss_pred             -cccchhhhcce--eEEEecCCCH--HHHHHH----HHHHHHHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHhh
Q 021937          182 -NKIIPALQSRC--TRFRFAPLEP--VHVTER----LKHVIEAEGL---DVTEGGLAALVRL-CNGDMRKALNILQSTHM  248 (305)
Q Consensus       182 -~~l~~~l~~r~--~~i~~~~~~~--~~~~~~----l~~~~~~~~~---~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~  248 (305)
                       ..+.+.+..|+  ..+.+||+.+  +++..+    +.+.+.+.|.   .+++++++.+.++ .+||+|.+.+.++.++.
T Consensus       356 ~g~f~~dL~~rL~~~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~~~~ls~~a~~~L~~y~WPGNvreL~nvl~~a~~  435 (520)
T PRK10820        356 KGEFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRALT  435 (520)
T ss_pred             cCCccHHHHhhcCeeEEeCCCcccChhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence             23456677775  5577777765  344433    4444444443   6899999999988 79999999999988876


Q ss_pred             cc--CccCHHHH
Q 021937          249 AS--QQITEEAV  258 (305)
Q Consensus       249 ~~--~~i~~~~v  258 (305)
                      ..  ..|+.+++
T Consensus       436 ~~~~~~i~~~~~  447 (520)
T PRK10820        436 QLEGYELRPQDI  447 (520)
T ss_pred             hCCCCcccHHHc
Confidence            43  35777775

>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=101.92  Aligned_cols=140  Identities=31%  Similarity=0.397  Sum_probs=92.1

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccC
Q 021937           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF  136 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~  136 (305)
                      |++..+..+...+......+++++||+|+|||++++.+++.+...+  ..++.+++........................
T Consensus         2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~--~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (151)
T cd00009           2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPG--APFLYLNASDLLEGLVVAELFGHFLVRLLFEL   79 (151)
T ss_pred             chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCC--CCeEEEehhhhhhhhHHHHHhhhhhHhHHHHh
Confidence            6778888888888876667799999999999999999999885433  34445544432222221111110000000011


Q ss_pred             CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc------CCceEEEEecCCc--ccchhhhcce-eEEEec
Q 021937          137 GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------KNTRFALICNQVN--KIIPALQSRC-TRFRFA  198 (305)
Q Consensus       137 ~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~------~~~~iil~~~~~~--~l~~~l~~r~-~~i~~~  198 (305)
                      ....++.++++||++.+.......+...++...      ....++++++...  .+.+.+.+|+ ..+.++
T Consensus        80 ~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~~~r~~~~i~~~  150 (151)
T cd00009          80 AEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIP  150 (151)
T ss_pred             hccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcChhHHhhhccEeecC
Confidence            122336899999999998777788888888653      4667777776665  6778888887 556554

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.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.50  E-value=1.5e-12  Score=118.37  Aligned_cols=208  Identities=18%  Similarity=0.210  Sum_probs=139.6

Q ss_pred             CCccccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (305)
                      ..|++++|.+..++.+.+.+..  ....+++|+|++||||+.+|+.+.+.-.  .....++.++|..... ..+...+..
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            4678899999988888888763  2334599999999999999999987642  2345788999886432 222222211


Q ss_pred             hhhcccccCC---------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC------
Q 021937          128 FASTQSFSFG---------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV------  181 (305)
Q Consensus       128 ~~~~~~~~~~---------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~------  181 (305)
                      ... ..|.+.         ..+.++.|||||++.++...|..|++++++..           .++++|++++..      
T Consensus       286 ~~~-gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~~~l~~~v~  364 (526)
T TIGR02329       286 YEE-GAFTGARRGGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHCALTTAVQ  364 (526)
T ss_pred             Ccc-cccccccccccccchhhcCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccCCCHHHHhh
Confidence            100 011111         12457899999999999999999999998532           234677776433      


Q ss_pred             -cccchhhhcce--eEEEecCCCH--HHHHHHHHHHH----HHcCCCCCHHHHHH-------HHHH-cCCCHHHHHHHHH
Q 021937          182 -NKIIPALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEGLDVTEGGLAA-------LVRL-CNGDMRKALNILQ  244 (305)
Q Consensus       182 -~~l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~----~~~~~~~~~~~~~~-------l~~~-~~g~~r~~~~~l~  244 (305)
                       ..+.+++..|+  ..+.+||+.+  +++..++..++    ...+..++++++..       +.++ .+||+|.+.+.++
T Consensus       365 ~g~fr~dL~~rL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~~~~~L~~y~WPGNvrEL~nvie  444 (526)
T TIGR02329       365 QGRFRRDLFYRLSILRIALPPLRERPGDILPLAAEYLVQAAAALRLPDSEAAAQVLAGVADPLQRYPWPGNVRELRNLVE  444 (526)
T ss_pred             hcchhHHHHHhcCCcEEeCCCchhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHHhHHHHHHHHhCCCCchHHHHHHHHH
Confidence             13344555565  4577877765  35544444443    34466788888776       6554 4899999999999


Q ss_pred             HHhhcc-----CccCHHHHHhh
Q 021937          245 STHMAS-----QQITEEAVYLC  261 (305)
Q Consensus       245 ~~~~~~-----~~i~~~~v~~~  261 (305)
                      .++...     ..|+.+++...
T Consensus       445 r~~i~~~~~~~~~I~~~~l~~~  466 (526)
T TIGR02329       445 RLALELSAMPAGALTPDVLRAL  466 (526)
T ss_pred             HHHHhcccCCCCccCHHHhhhh
Confidence            887632     45888876543

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.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.50  E-value=1.1e-12  Score=118.05  Aligned_cols=186  Identities=18%  Similarity=0.180  Sum_probs=127.2

Q ss_pred             CccccccchHHHHHHHHHHhcC-------------CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc-
Q 021937           51 SLADVAAHRDIVDTIDRLTSEN-------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-  116 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~-------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~-  116 (305)
                      .++++-|..+.++.|++.+...             ...+++||||||||||.+|.+++...     ...++.+.++... 
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            5678889888888888887631             12349999999999999999999876     6678887766421 


Q ss_pred             -ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHH--hcCCceEEEEecCCc
Q 021937          117 -GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEK--YTKNTRFALICNQVN  182 (305)
Q Consensus       117 -~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~--~~~~~~iil~~~~~~  182 (305)
                       -+..-.+.+......+     ..++++++|+||+|.+.+           ...+.|+.-++.  .-..+.++.+|.+++
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             1112223333333322     334579999999999954           346777777773  333445555677888


Q ss_pred             ccchhhhcce---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHHHHHh
Q 021937          183 KIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG----DMRKALNILQSTH  247 (305)
Q Consensus       183 ~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g----~~r~~~~~l~~~~  247 (305)
                      -+++++.+..   ..+.++.|++.++.++++........ -++-.++.++..+.|    |+..++...+..+
T Consensus       815 liDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~-~~~vdl~~~a~~T~g~tgADlq~ll~~A~l~a  885 (952)
T KOG0735|consen  815 LIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLK-DTDVDLECLAQKTDGFTGADLQSLLYNAQLAA  885 (952)
T ss_pred             ccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCC-ccccchHHHhhhcCCCchhhHHHHHHHHHHHH
Confidence            8899998754   56899999999999999888764432 234457788887765    4554444444433

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=99.50  E-value=1.5e-12  Score=122.74  Aligned_cols=210  Identities=14%  Similarity=0.142  Sum_probs=138.5

Q ss_pred             CCccccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (305)
                      ..|+.++|.+..++.+.+.+..  ....+++|+|++||||+++|+++.+....  ....++.++|..... +.+...+..
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            3688999998888777666654  22234999999999999999999886422  235788889887432 222221111


Q ss_pred             hhhccc----ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cccc
Q 021937          128 FASTQS----FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKII  185 (305)
Q Consensus       128 ~~~~~~----~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~l~  185 (305)
                      ......    ...-..+.+++|||||++.++...|..|++++++..           .++++|++++..       ..+.
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            100000    000113457899999999999999999999998542           145667666532       2344


Q ss_pred             hhhhcce--eEEEecCCCHH--HHHHHHHHHHH----Hc--CCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc--Cc
Q 021937          186 PALQSRC--TRFRFAPLEPV--HVTERLKHVIE----AE--GLDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQ  252 (305)
Q Consensus       186 ~~l~~r~--~~i~~~~~~~~--~~~~~l~~~~~----~~--~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~--~~  252 (305)
                      +.+..|+  ..+.+||+...  ++..++...+.    +.  .+.+++++++.|.++. +||+|.+.+.++.++...  ..
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            5555565  44667777653  44444444433    22  2468999999999887 999999999999877643  34


Q ss_pred             cCHHHHHhhh
Q 021937          253 ITEEAVYLCT  262 (305)
Q Consensus       253 i~~~~v~~~~  262 (305)
                      |+.+++...+
T Consensus       559 i~~~~lp~~~  568 (638)
T PRK11388        559 IRLSDLPEHL  568 (638)
T ss_pred             ecHHHCchhh
Confidence            7777765433

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.49  E-value=1.4e-12  Score=118.36  Aligned_cols=208  Identities=16%  Similarity=0.213  Sum_probs=136.1

Q ss_pred             CCccccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHh------CCCCcccEEEeecCCCcChhHH
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLY------GAQYHNMILELNASDDRGIDVV  121 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~  121 (305)
                      ..|++++|.+..++.+.+.+..  ....+++|+|++||||+.+|+.+.+.+.      .......|+.++|..... ..+
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            3578899999999888888764  2334599999999999999999998721      122355799999987432 222


Q ss_pred             HHHHHHhhhcccccCC---------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC
Q 021937          122 RQQIQDFASTQSFSFG---------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV  181 (305)
Q Consensus       122 ~~~i~~~~~~~~~~~~---------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~  181 (305)
                      ...+..... ..|.+.         ..+.++.|||||++.++...|..|++++++..           .++++|++++..
T Consensus       295 eseLFG~~~-gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~r~G~~~~~~~dvRiIaat~~~  373 (538)
T PRK15424        295 EAELFGYEE-GAFTGSRRGGRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCD  373 (538)
T ss_pred             HHHhcCCcc-ccccCccccccCCchhccCCCEEEEcChHhCCHHHHHHHHhhhhcCeEEecCCCceeccceEEEEecCCC
Confidence            222211110 011111         13557899999999999999999999998632           244677776533


Q ss_pred             c-------ccchhhhcce--eEEEecCCCH--HHHHHHHHHHHH----HcCCCCCHHHHH-------HHHHH-cCCCHHH
Q 021937          182 N-------KIIPALQSRC--TRFRFAPLEP--VHVTERLKHVIE----AEGLDVTEGGLA-------ALVRL-CNGDMRK  238 (305)
Q Consensus       182 ~-------~l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~~----~~~~~~~~~~~~-------~l~~~-~~g~~r~  238 (305)
                      -       .+.+++..|+  ..+.+||+.+  +++..++...+.    ..+..++++++.       .+..+ ++||+|.
T Consensus       374 L~~~v~~g~Fr~dL~yrL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~a~~~L~~y~WPGNvRE  453 (538)
T PRK15424        374 LEEDVRQGRFRRDLFYRLSILRLQLPPLRERVADILPLAESFLKQSLAALSAPFSAALRQGLQQCETLLLHYDWPGNVRE  453 (538)
T ss_pred             HHHHHhcccchHHHHHHhcCCeecCCChhhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHhhHHHHHHHHhCCCCchHHH
Confidence            1       2334555565  4567777664  455555554444    356677777663       33333 4899999


Q ss_pred             HHHHHHHHhhcc-----CccCHHHHH
Q 021937          239 ALNILQSTHMAS-----QQITEEAVY  259 (305)
Q Consensus       239 ~~~~l~~~~~~~-----~~i~~~~v~  259 (305)
                      +.+.++.++...     ..++.+++.
T Consensus       454 L~nvier~~i~~~~~~~~~i~~~~l~  479 (538)
T PRK15424        454 LRNLMERLALFLSVEPTPDLTPQFLQ  479 (538)
T ss_pred             HHHHHHHHHHhcCCCCcCccCHHHhh
Confidence            999999877632     246666554

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.49  E-value=1.1e-12  Score=115.70  Aligned_cols=173  Identities=20%  Similarity=0.270  Sum_probs=107.4

Q ss_pred             ccccchHHHHHHHHHHh-------cC---------CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC
Q 021937           54 DVAAHRDIVDTIDRLTS-------EN---------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~-------~~---------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (305)
                      .++||+..++.+...+.       ..         ...+++|+||||||||++|+.+++.+     ...++.+++.....
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            48999999997755541       10         13469999999999999999999987     34555555543211


Q ss_pred             h----hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------------HHHHHHHHHHHhc----C-----
Q 021937          118 I----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYT----K-----  170 (305)
Q Consensus       118 ~----~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------------~~~~l~~~l~~~~----~-----  170 (305)
                      .    ......+........+. .....++||+|||+|.+...              .|+.|+++++...    .     
T Consensus       147 ~gyvG~d~e~~l~~l~~~~~~~-~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~gg~~  225 (412)
T PRK05342        147 AGYVGEDVENILLKLLQAADYD-VEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRK  225 (412)
T ss_pred             CCcccchHHHHHHHHHHhcccc-HHHcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCCCCcC
Confidence            1    11222222221111110 11234789999999999753              7899999998421    0     


Q ss_pred             ----CceEEEEecC------------------------------C--------c--------------ccchhhhcce-e
Q 021937          171 ----NTRFALICNQ------------------------------V--------N--------------KIIPALQSRC-T  193 (305)
Q Consensus       171 ----~~~iil~~~~------------------------------~--------~--------------~l~~~l~~r~-~  193 (305)
                          +..+|.|+|-                              .        .              .+.|.|..|+ .
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                1111222110                              0        0              1356677777 6


Q ss_pred             EEEecCCCHHHHHHHHHH----HH-------HHcCC--CCCHHHHHHHHHHc
Q 021937          194 RFRFAPLEPVHVTERLKH----VI-------EAEGL--DVTEGGLAALVRLC  232 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~----~~-------~~~~~--~~~~~~~~~l~~~~  232 (305)
                      ++.|.+++.+++.+++..    ..       ...++  .++++++++|++.+
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            689999999999988862    22       22344  57999999999875

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

Probab=99.48  E-value=8e-13  Score=118.29  Aligned_cols=217  Identities=19%  Similarity=0.247  Sum_probs=152.0

Q ss_pred             cccccchHHHHHHHHHHh-------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC-----
Q 021937           53 ADVAAHRDIVDTIDRLTS-------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-----  114 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~-------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-----  114 (305)
                      ..+.|....+..++..+.             -..+..+++|||||+|||.++++++++.     ...++.++++.     
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            456666666665555543             1234459999999999999999999997     45566666653     


Q ss_pred             -CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH----------HHHHHHHHHHHHhc--CCceEEEEecCC
Q 021937          115 -DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK----------DAQFALRRVIEKYT--KNTRFALICNQV  181 (305)
Q Consensus       115 -~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~----------~~~~~l~~~l~~~~--~~~~iil~~~~~  181 (305)
                       ......++..+........        +.+++|||++.+.+          .....|+.+++...  .++.++.+++++
T Consensus       259 ~gEte~~LR~~f~~a~k~~~--------psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~atnrp  330 (693)
T KOG0730|consen  259 PGETESNLRKAFAEALKFQV--------PSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKVIVLAATNRP  330 (693)
T ss_pred             ccchHHHHHHHHHHHhccCC--------CeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcCcCcEEEEEecCCc
Confidence             2334455666665544332        69999999999864          24567888998776  456666677999


Q ss_pred             cccchhhhc-ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHH-HHHHHhhccCccCHHHH
Q 021937          182 NKIIPALQS-RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALN-ILQSTHMASQQITEEAV  258 (305)
Q Consensus       182 ~~l~~~l~~-r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~-~l~~~~~~~~~i~~~~v  258 (305)
                      ..+++.+++ |+ ..+.+.-|+..+..++++...+..+.. ++..+..++..+.|-...-+. ++..++..+..-+.+++
T Consensus       331 ~sld~alRRgRfd~ev~IgiP~~~~RldIl~~l~k~~~~~-~~~~l~~iA~~thGyvGaDL~~l~~ea~~~~~r~~~~~~  409 (693)
T KOG0730|consen  331 DSLDPALRRGRFDREVEIGIPGSDGRLDILRVLTKKMNLL-SDVDLEDIAVSTHGYVGADLAALCREASLQATRRTLEIF  409 (693)
T ss_pred             cccChhhhcCCCcceeeecCCCchhHHHHHHHHHHhcCCc-chhhHHHHHHHccchhHHHHHHHHHHHHHHHhhhhHHHH
Confidence            999999996 77 678999999999999999999888865 667788999999887654443 33444433322266677


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFA  283 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~  283 (305)
                      ..+........+...+-.+..-+++
T Consensus       410 ~~A~~~i~psa~Re~~ve~p~v~W~  434 (693)
T KOG0730|consen  410 QEALMGIRPSALREILVEMPNVSWD  434 (693)
T ss_pred             HHHHhcCCchhhhheeccCCCCChh
Confidence            7777666666666555444444433

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.48  E-value=6.1e-13  Score=115.32  Aligned_cols=189  Identities=17%  Similarity=0.211  Sum_probs=127.6

Q ss_pred             cCCCCccccccchHHHHHHHHHHh------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTS------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      .++..|+++.|.....+.+.....            ......+++.||||+|||.+++++|.+.     ...++.+.++.
T Consensus       147 ~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~-----~atff~iSass  221 (428)
T KOG0740|consen  147 LRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATES-----GATFFNISASS  221 (428)
T ss_pred             CCcccccCCcchhhHHHHhhhhhhhcccchHhhhccccccchhheecCCCCchHHHHHHHHhhh-----cceEeeccHHH
Confidence            345677888887777776666543            1223349999999999999999999997     55677766654


Q ss_pred             Cc--Chh---HHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH------------HHHHHHHHHHH---hcCCceE
Q 021937          115 DR--GID---VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD------------AQFALRRVIEK---YTKNTRF  174 (305)
Q Consensus       115 ~~--~~~---~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~------------~~~~l~~~l~~---~~~~~~i  174 (305)
                      ..  ...   .+...+...+...+        +.|+||||+|.+...            ..++|.+..-.   ...++.+
T Consensus       222 LtsK~~Ge~eK~vralf~vAr~~q--------PsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~~drvlv  293 (428)
T KOG0740|consen  222 LTSKYVGESEKLVRALFKVARSLQ--------PSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRVLV  293 (428)
T ss_pred             hhhhccChHHHHHHHHHHHHHhcC--------CeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCCCCeEEE
Confidence            32  111   22223333333322        799999999998422            12344444332   1234556


Q ss_pred             EEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHhh
Q 021937          175 ALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTHM  248 (305)
Q Consensus       175 il~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~-~r~~~~~l~~~~~  248 (305)
                      +.+||.+..++.++++|+ .++.++.|+.+....++.+.+...+..+.+..++.|++.+.|- -..+.++|..++.
T Consensus       294 igaTN~P~e~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Tegysgsdi~~l~kea~~  369 (428)
T KOG0740|consen  294 IGATNRPWELDEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEGYSGSDITALCKEAAM  369 (428)
T ss_pred             EecCCCchHHHHHHHHHhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCcccccHHHHHHHhhc
Confidence            667799999999999998 5677999999999999999998887778888899999988652 2233344444443

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.48  E-value=1.2e-12  Score=118.21  Aligned_cols=198  Identities=22%  Similarity=0.265  Sum_probs=134.5

Q ss_pred             CCccccccchHHHHHHHHHHh-----------cCCCC-eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC--
Q 021937           50 QSLADVAAHRDIVDTIDRLTS-----------ENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~-----------~~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (305)
                      ..|.++.|.++.++.+.+.+.           +++.| +++++||||+|||.+|++++.+.     ..+++.+++++.  
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            478999999999988877764           12333 49999999999999999999987     666777766652  


Q ss_pred             ----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------------HHHHHHHHHHHhcC--CceEE
Q 021937          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYTK--NTRFA  175 (305)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------------~~~~l~~~l~~~~~--~~~ii  175 (305)
                          .+...+++.+.++....         +++|+|||+|.....              ..+.|+--++....  .+.++
T Consensus       222 mfVGvGAsRVRdLF~qAkk~a---------P~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gvivi  292 (596)
T COG0465         222 MFVGVGASRVRDLFEQAKKNA---------PCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVI  292 (596)
T ss_pred             hhcCCCcHHHHHHHHHhhccC---------CCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEE
Confidence                35667778877775554         599999999988532              34455555554443  33444


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHH-HHHHHHHHhh---
Q 021937          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRK-ALNILQSTHM---  248 (305)
Q Consensus       176 l~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~-~~~~l~~~~~---  248 (305)
                      ..||+++-+++++.+  |+ +.+.++.|+...+.++++-++......- +-.+..|++.++|-... +.|.+..++.   
T Consensus       293 aaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~-~Vdl~~iAr~tpGfsGAdL~nl~NEAal~aa  371 (596)
T COG0465         293 AATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAE-DVDLKKIARGTPGFSGADLANLLNEAALLAA  371 (596)
T ss_pred             ecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCC-cCCHHHHhhhCCCcccchHhhhHHHHHHHHH
Confidence            557888888899876  44 7789999999999999997766544431 12244488888764332 2233332222   


Q ss_pred             --ccCccCHHHHHhhh
Q 021937          249 --ASQQITEEAVYLCT  262 (305)
Q Consensus       249 --~~~~i~~~~v~~~~  262 (305)
                        ....|+..++.++.
T Consensus       372 r~n~~~i~~~~i~ea~  387 (596)
T COG0465         372 RRNKKEITMRDIEEAI  387 (596)
T ss_pred             HhcCeeEeccchHHHH
Confidence              22346666655443

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.46  E-value=7.8e-12  Score=114.44  Aligned_cols=196  Identities=16%  Similarity=0.158  Sum_probs=132.8

Q ss_pred             CccccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHh
Q 021937           51 SLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (305)
                      .+.+++|++..++.+.+.+...  ...+++|+|++||||+++|+++......  ....++.++|..... ..+...+...
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            5678999999988888877653  2334999999999999999999987532  244788888886432 2222221111


Q ss_pred             hhccccc--------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------c
Q 021937          129 ASTQSFS--------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------N  182 (305)
Q Consensus       129 ~~~~~~~--------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~  182 (305)
                      .. ..|.        .-..+.+++|||||++.++...|..|++++++..           .++++|++++..       .
T Consensus       262 ~~-g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~~~~  340 (509)
T PRK05022        262 VK-GAFTGAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREEVRAG  340 (509)
T ss_pred             cc-cccCCCcccCCcchhhcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCCCHHHHHHcC
Confidence            00 0011        1123557899999999999999999999998532           255788777543       2


Q ss_pred             ccchhhhcce--eEEEecCCCH--HHHHHHHH----HHHHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc
Q 021937          183 KIIPALQSRC--TRFRFAPLEP--VHVTERLK----HVIEAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (305)
Q Consensus       183 ~l~~~l~~r~--~~i~~~~~~~--~~~~~~l~----~~~~~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~  250 (305)
                      .+.+.+..|+  ..+.+||+..  +++..++.    +.+.+.+   ..+++++++.+..+. +||+|.+.+.++.++..+
T Consensus       341 ~f~~dL~~rl~~~~i~lPpLreR~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvrEL~~~i~ra~~~~  420 (509)
T PRK05022        341 RFRADLYHRLSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQAALLAYDWPGNVRELEHVISRAALLA  420 (509)
T ss_pred             CccHHHHhcccccEeeCCCchhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHhc
Confidence            3556666665  4467777764  34444333    3333333   468999999988865 899999999999887643

>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]

Probab=99.45  E-value=2.8e-11  Score=104.98  Aligned_cols=230  Identities=16%  Similarity=0.213  Sum_probs=164.4

Q ss_pred             HHHHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceE
Q 021937           65 IDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVK  143 (305)
Q Consensus        65 l~~~l~~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~  143 (305)
                      +...+... ..+.+++||+.--=....+..+.....+.+....+.......    ......+........|..     +.
T Consensus         6 ~~~~l~~~~~~~v~ll~G~d~~l~~e~~~~i~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~s~~lF~~-----~~   76 (334)
T COG1466           6 LAKHLKKKNLMPVYLLYGEDEGLLEEAADAILKRALADGFDENYSFFDDSE----LDWADLLSELESPSLFGE-----KR   76 (334)
T ss_pred             HHHHHhcCCCccEEEEecCChhHHHHHHHHHHHHHhccchhhHHhhccccc----CCHHHHHHHhhccccccC-----Ce
Confidence            34444443 456689999996666666666666654222222222222111    112222323222222333     48


Q ss_pred             EEEEeCCCcCC-HHHHHHHHHHHHHhc-CCceEEEEecCCcc---cchhhhcc--eeEEEecCCCHHHHHHHHHHHHHHc
Q 021937          144 LVLLDEADAMT-KDAQFALRRVIEKYT-KNTRFALICNQVNK---IIPALQSR--CTRFRFAPLEPVHVTERLKHVIEAE  216 (305)
Q Consensus       144 vliiDe~~~l~-~~~~~~l~~~l~~~~-~~~~iil~~~~~~~---l~~~l~~r--~~~i~~~~~~~~~~~~~l~~~~~~~  216 (305)
                      +++|....... .+....+.......| ....+++.++..+.   ..+.+..-  ...+.+.+++..++.+|+...+.+.
T Consensus        77 ~v~l~~~~~~~~~~~~~~l~~~~~~~p~~~~~l~~~~~kl~~~~~~~k~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~  156 (334)
T COG1466          77 LVVLKNAEKKPNKDKNLALLELAALLPSTDLLLLVESNKLDKAKKLTKWLKKLAKAVVVECKPLDEAELPQWIKKRAKEL  156 (334)
T ss_pred             eEEEECCCCCcCchhHHHHHHHHcCCCCCCEEEEEecCCcchHHHHHHHHHHhccCceEecCCCCHHHHHHHHHHHHHHc
Confidence            89999888876 455556666666666 44455544544332   22222222  4578999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccC--ccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHH
Q 021937          217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ--QITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSF  294 (305)
Q Consensus       217 ~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~--~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~  294 (305)
                      |+.++.++++.++...+||.+.+.+.+++++....  .|+.++|+.++......+.+++++++..++..+|+..++.+..
T Consensus       157 ~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~~~~f~l~dail~g~~~~a~~~l~~L~~  236 (334)
T COG1466         157 GLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAEFNIFDLADALLKGDVKKALRLLRDLLL  236 (334)
T ss_pred             CCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhccccCCHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999988553  5999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q 021937          295 IIRLVLFVL  303 (305)
Q Consensus       295 ~~~~~~~~~  303 (305)
                      ++..|+.++
T Consensus       237 ~ge~p~~il  245 (334)
T COG1466         237 EGEEPLKLL  245 (334)
T ss_pred             cCCcHHHHH
Confidence            888777654

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.44  E-value=9.3e-12  Score=109.76  Aligned_cols=207  Identities=18%  Similarity=0.211  Sum_probs=139.6

Q ss_pred             CCCccccccchHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHH
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (305)
                      +-+|++++|.+..+..+.+.++...  ...++|.|++||||..+|+.+.+.-.  .....|+.+||+.. ...-+.+.+.
T Consensus       241 ~y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S~--R~~~PFIaiNCaAi-Pe~LlESELF  317 (560)
T COG3829         241 KYTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIHNLSP--RANGPFIAINCAAI-PETLLESELF  317 (560)
T ss_pred             ccchhhhccCCHHHHHHHHHHHhhcCCCCcEEEecCCCccHHHHHHHHHhcCc--ccCCCeEEEecccC-CHHHHHHHHh
Confidence            3478999999888888877776532  33499999999999999999988743  33557999999863 2222333222


Q ss_pred             HhhhcccccCCCC---------CceEEEEEeCCCcCCHHHHHHHHHHHHHh-----------cCCceEEEEecCCc----
Q 021937          127 DFASTQSFSFGVK---------ASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVN----  182 (305)
Q Consensus       127 ~~~~~~~~~~~~~---------~~~~vliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~iil~~~~~~----  182 (305)
                      .+ ....|++..+         ++++.||+||+..++...|..|++.+++.           +.++++|.+||..-    
T Consensus       318 Gy-e~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVRIIAATN~nL~~~i  396 (560)
T COG3829         318 GY-EKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVRIIAATNRNLEKMI  396 (560)
T ss_pred             Cc-CCccccccccCCCCcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCceeeEEEEEeccCcCHHHHH
Confidence            21 1122443322         56789999999999999999999999863           24567888886532    


Q ss_pred             ---ccchhhhcceeE--EEecCCCH--HHHHHH----HHHHHHHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHh
Q 021937          183 ---KIIPALQSRCTR--FRFAPLEP--VHVTER----LKHVIEAEGL---DVTEGGLAALVRL-CNGDMRKALNILQSTH  247 (305)
Q Consensus       183 ---~l~~~l~~r~~~--i~~~~~~~--~~~~~~----l~~~~~~~~~---~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~  247 (305)
                         .+-.+|.-|..+  +++||+-+  +++..+    +.+...+.+.   .++++++..+.++ ++||+|.+-|.++.+.
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               344556666644  55666543  333333    3333333333   3789999988886 4999999999998887


Q ss_pred             hc---cCccCHHHHH
Q 021937          248 MA---SQQITEEAVY  259 (305)
Q Consensus       248 ~~---~~~i~~~~v~  259 (305)
                      ..   ...|+.+++-
T Consensus       477 ~~~~~~~~I~~~~lp  491 (560)
T COG3829         477 NLVESDGLIDADDLP  491 (560)
T ss_pred             hccCCcceeehhhcc
Confidence            52   2235555543

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.44  E-value=2e-11  Score=103.19  Aligned_cols=178  Identities=19%  Similarity=0.148  Sum_probs=110.9

Q ss_pred             cCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHH--
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ--  124 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  124 (305)
                      +.|..-..++-.+.....+...+..+  .+++|.|+||||||++++.+++.+     ...++.+++.......++...  
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            44554456777777777777777554  359999999999999999999998     344555555443222211110  


Q ss_pred             --HHHhhhcccccCC----CCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-------------c-CCceEEEEecCCc--
Q 021937          125 --IQDFASTQSFSFG----VKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------T-KNTRFALICNQVN--  182 (305)
Q Consensus       125 --i~~~~~~~~~~~~----~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-------------~-~~~~iil~~~~~~--  182 (305)
                        +..-.....+..+    ....+.++++||++...++.+..|..+++..             + +..+++.+.|...  
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              0000000011111    0133578999999999999999999998831             1 2344566666532  


Q ss_pred             ----------ccchhhhccee-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 021937          183 ----------KIIPALQSRCT-RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL  231 (305)
Q Consensus       183 ----------~l~~~l~~r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~  231 (305)
                                .++.+..+|+. ++.+..|+.++-.+++...........+++.++.+++.
T Consensus       192 d~~G~y~Gt~~l~~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~~~~~~~~~~~i~~~mV~l  251 (327)
T TIGR01650       192 DTTGLYHGTQQINQAQMDRWSIVTTLNYLEHDNEAAIVLAKAKGFDDTEGKDIINAMVRV  251 (327)
T ss_pred             CCCcceeeeecCCHHHHhheeeEeeCCCCCHHHHHHHHHhhccCCCccchHHHHHHHHHH
Confidence                      45789999995 46899999998888887654221111134455555543

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.

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=99.43  E-value=1.9e-12  Score=116.68  Aligned_cols=189  Identities=19%  Similarity=0.297  Sum_probs=123.0

Q ss_pred             ccccchHHHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH
Q 021937           54 DVAAHRDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (305)
                      +--|.+.+++++.+++.-      -.++.++|+||||+|||++++.+|+.+.     -.|+.++...-....+++..-.+
T Consensus       412 DHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALn-----RkFfRfSvGG~tDvAeIkGHRRT  486 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALN-----RKFFRFSVGGMTDVAEIKGHRRT  486 (906)
T ss_pred             cccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhC-----CceEEEeccccccHHhhccccee
Confidence            455677888888887753      2344589999999999999999999993     34555554433333333222111


Q ss_pred             hhhccc-----ccCCCCCceEEEEEeCCCcCCH----HHHHHHHHHHHHh------------c---CCceEEEEecCCcc
Q 021937          128 FASTQS-----FSFGVKASVKLVLLDEADAMTK----DAQFALRRVIEKY------------T---KNTRFALICNQVNK  183 (305)
Q Consensus       128 ~~~~~~-----~~~~~~~~~~vliiDe~~~l~~----~~~~~l~~~l~~~------------~---~~~~iil~~~~~~~  183 (305)
                      +....+     ......-..-+++|||+|++..    +-..+|+.+++.-            |   .++.||+++|..+.
T Consensus       487 YVGAMPGkiIq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN~idt  566 (906)
T KOG2004|consen  487 YVGAMPGKIIQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTANVIDT  566 (906)
T ss_pred             eeccCChHHHHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEEecccccc
Confidence            111000     0000011135999999999963    2346777777621            1   35678888899999


Q ss_pred             cchhhhcceeEEEecCCCHHHHHHHHHHHHHH-----c-----CCCCCHHHHHHHHH-HcC-CCHHHHHHHHHHHh
Q 021937          184 IIPALQSRCTRFRFAPLEPVHVTERLKHVIEA-----E-----GLDVTEGGLAALVR-LCN-GDMRKALNILQSTH  247 (305)
Q Consensus       184 l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~-----~-----~~~~~~~~~~~l~~-~~~-g~~r~~~~~l~~~~  247 (305)
                      +++.|+.|..++.+..+..+|-.++..+++-.     .     .++++++++..+.+ +|. .-+|.+...+++.+
T Consensus       567 IP~pLlDRMEvIelsGYv~eEKv~IA~~yLip~a~~~~gl~~e~v~is~~al~~lI~~YcrEaGVRnLqk~iekI~  642 (906)
T KOG2004|consen  567 IPPPLLDRMEVIELSGYVAEEKVKIAERYLIPQALKDCGLKPEQVKISDDALLALIERYCREAGVRNLQKQIEKIC  642 (906)
T ss_pred             CChhhhhhhheeeccCccHHHHHHHHHHhhhhHHHHHcCCCHHhcCccHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            99999999999999999999988888776642     2     34678887766554 442 33666666655444

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

Probab=99.42  E-value=2.4e-11  Score=100.90  Aligned_cols=204  Identities=16%  Similarity=0.179  Sum_probs=132.9

Q ss_pred             hHHHHHHHHHHh---cCCCCeEEEECCCCCcHHHHHHHHHHHHhCC----CCcccEEEeecCCCcChhHHHHHHHHhhhc
Q 021937           59 RDIVDTIDRLTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNASDDRGIDVVRQQIQDFAST  131 (305)
Q Consensus        59 ~~~~~~l~~~l~---~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (305)
                      .++++.|...+.   ..++|+++|+|++|.|||++++.+.+.....    .....++.+..+...+...+...+-.....
T Consensus        43 ~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lga  122 (302)
T PF05621_consen   43 KEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGA  122 (302)
T ss_pred             HHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCc
Confidence            344455555555   3567779999999999999999999865321    123356666666655555555555444332


Q ss_pred             ccccCC-------------CCCceEEEEEeCCCcCC---HHHHHHHHHHHHHhcC--CceEEEEecC----Ccccchhhh
Q 021937          132 QSFSFG-------------VKASVKLVLLDEADAMT---KDAQFALRRVIEKYTK--NTRFALICNQ----VNKIIPALQ  189 (305)
Q Consensus       132 ~~~~~~-------------~~~~~~vliiDe~~~l~---~~~~~~l~~~l~~~~~--~~~iil~~~~----~~~l~~~l~  189 (305)
                      +.-...             ...+..+|+|||+|.+.   ...+..+++.+.....  +..+|++++.    .-.-++++.
T Consensus       123 P~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa  202 (302)
T PF05621_consen  123 PYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLA  202 (302)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHH
Confidence            211100             12457899999999974   3446667777765543  3445555432    123478999


Q ss_pred             cceeEEEecCCCHH-HHHHHHHHHHHHcCC----CC-CHHHHHHHHHHcCCCHHHHHHHHHHHhhc-----cCccCHHHH
Q 021937          190 SRCTRFRFAPLEPV-HVTERLKHVIEAEGL----DV-TEGGLAALVRLCNGDMRKALNILQSTHMA-----SQQITEEAV  258 (305)
Q Consensus       190 ~r~~~i~~~~~~~~-~~~~~l~~~~~~~~~----~~-~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-----~~~i~~~~v  258 (305)
                      +||..+.++++..+ +...++...-.....    .+ +.+....|...++|.+..+..++..++..     .+.||.+.+
T Consensus       203 ~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~ll~~aA~~AI~sG~E~It~~~l  282 (302)
T PF05621_consen  203 SRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRLLNAAAIAAIRSGEERITREIL  282 (302)
T ss_pred             hccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHHHHHHHHHHHhcCCceecHHHH
Confidence            99999999998864 455555444332211    23 45677899999999999999999877763     356898888


Q ss_pred             Hhhh
Q 021937          259 YLCT  262 (305)
Q Consensus       259 ~~~~  262 (305)
                      ...-
T Consensus       283 ~~~~  286 (302)
T PF05621_consen  283 DKID  286 (302)
T ss_pred             hhCC
Confidence            7654

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=99.42  E-value=3.3e-11  Score=95.50  Aligned_cols=190  Identities=19%  Similarity=0.234  Sum_probs=132.3

Q ss_pred             hcCCCCccccccchHHHHHHH----HHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHH
Q 021937           46 KYRPQSLADVAAHRDIVDTID----RLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (305)
Q Consensus        46 ~~~p~~~~~~~g~~~~~~~l~----~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (305)
                      .+.|-.+..++|-+...+.|.    +.+.+.+..+++|||..|+|||++++++.+++...+..  .++++..+......+
T Consensus        53 ~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glr--LVEV~k~dl~~Lp~l  130 (287)
T COG2607          53 DPDPIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLR--LVEVDKEDLATLPDL  130 (287)
T ss_pred             CCCCcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCe--EEEEcHHHHhhHHHH
Confidence            345567788999777666654    44556666779999999999999999999999766554  788877665555555


Q ss_pred             HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-HHHHHHHHHHH----HhcCCceEEEEecCCcccch----------
Q 021937          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-DAQFALRRVIE----KYTKNTRFALICNQVNKIIP----------  186 (305)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-~~~~~l~~~l~----~~~~~~~iil~~~~~~~l~~----------  186 (305)
                      ...+.....           +-|||+||+-.=.. .....|-..++    ..|.++.|..++|+..-++.          
T Consensus       131 ~~~Lr~~~~-----------kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~~~~  199 (287)
T COG2607         131 VELLRARPE-----------KFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHLLPEDMKDNEGSTG  199 (287)
T ss_pred             HHHHhcCCc-----------eEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCcccccHhhhhCCCccc
Confidence            444443322           68999999765543 34455555555    45667777777765432221          


Q ss_pred             ------------hhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHH-----HHHHcCCCHHHHHHHHHHHhh
Q 021937          187 ------------ALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAA-----LVRLCNGDMRKALNILQSTHM  248 (305)
Q Consensus       187 ------------~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-----l~~~~~g~~r~~~~~l~~~~~  248 (305)
                                  ++..|| .++.|.|++.++..+++..+++..++.++++.+..     -....+.+-|.|.+-++.++.
T Consensus       200 eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l~~~~e~l~~eAl~WAt~rg~RSGR~A~QF~~~~~g  279 (287)
T COG2607         200 EIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGLDISDEELHAEALQWATTRGGRSGRVAWQFIRDLAG  279 (287)
T ss_pred             ccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcCCCccHhHHHHHHHHHh
Confidence                        233455 67999999999999999999999999987655433     223345677888877776654

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.42  E-value=2.3e-12  Score=109.34  Aligned_cols=153  Identities=22%  Similarity=0.302  Sum_probs=107.5

Q ss_pred             CccccccchHHHHHHHHHHhc--------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC-----
Q 021937           51 SLADVAAHRDIVDTIDRLTSE--------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-----  117 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-----  117 (305)
                      .|++++-++.....++++...        ....++++|||||+|||.+++.++..-     ...+-.+++.+...     
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            488999999998888887642        234459999999999999999999875     34444455544322     


Q ss_pred             hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC---------HHHHHHHHHHH---HHhcCCceEEEEecCCcccc
Q 021937          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT---------KDAQFALRRVI---EKYTKNTRFALICNQVNKII  185 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~---------~~~~~~l~~~l---~~~~~~~~iil~~~~~~~l~  185 (305)
                      ...+.+.+ ++..       ...++.++||||+|.+.         ..+...|-.++   .+.+.+.++++++|.+..++
T Consensus       428 VTkiH~lF-DWak-------kS~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTGdqSrdivLvlAtNrpgdlD  499 (630)
T KOG0742|consen  428 VTKIHKLF-DWAK-------KSRRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDLD  499 (630)
T ss_pred             HHHHHHHH-HHHh-------hcccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhcccccceEEEeccCCccchh
Confidence            22222222 2222       12235789999998763         22333333322   34455677888899999999


Q ss_pred             hhhhcce-eEEEecCCCHHHHHHHHHHHHHHc
Q 021937          186 PALQSRC-TRFRFAPLEPVHVTERLKHVIEAE  216 (305)
Q Consensus       186 ~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~  216 (305)
                      .++-.|+ .+++|+-|-.++..+++..++.++
T Consensus       500 sAV~DRide~veFpLPGeEERfkll~lYlnky  531 (630)
T KOG0742|consen  500 SAVNDRIDEVVEFPLPGEEERFKLLNLYLNKY  531 (630)
T ss_pred             HHHHhhhhheeecCCCChHHHHHHHHHHHHHH
Confidence            9999998 789999999999999998888764

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.40  E-value=2.6e-11  Score=113.40  Aligned_cols=213  Identities=14%  Similarity=0.162  Sum_probs=129.4

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh-----------CCC-----------------
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-----------GAQ-----------------  102 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-----------~~~-----------------  102 (305)
                      .|..++||+..+..|...+......+++|+|++|+|||++++.+++.+.           |..                 
T Consensus         2 pf~~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~~~~~~~~~~~   81 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWCEECRRKYRPS   81 (633)
T ss_pred             CcchhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccChhhhhccccc
Confidence            3678999999999888888776666799999999999999999998872           100                 


Q ss_pred             --CcccEEEeecCCCc----ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-------
Q 021937          103 --YHNMILELNASDDR----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------  169 (305)
Q Consensus       103 --~~~~~~~~~~~~~~----~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-------  169 (305)
                        ....|+.+......    +..++...+...........-..+..++++|||++.++...++.|+..+++..       
T Consensus        82 ~~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l~~~~q~~Ll~~le~g~~~v~r~g  161 (633)
T TIGR02442        82 EQRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAEAHRGILYIDEVNLLDDHLVDVLLDAAAMGVNRVEREG  161 (633)
T ss_pred             ccCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceeecCCCeEEeChhhhCCHHHHHHHHHHHhcCCEEEEECC
Confidence              01233333222110    11111111111000000111123456899999999999999999999998642       


Q ss_pred             ------CCceEEEEecCC-cccchhhhcce-eEEEecCCC-HHHHHHHHHHHHH--------------------------
Q 021937          170 ------KNTRFALICNQV-NKIIPALQSRC-TRFRFAPLE-PVHVTERLKHVIE--------------------------  214 (305)
Q Consensus       170 ------~~~~iil~~~~~-~~l~~~l~~r~-~~i~~~~~~-~~~~~~~l~~~~~--------------------------  214 (305)
                            .+..+|.++|.. ..+.+.+..|+ ..+.+.++. .++..+++.....                          
T Consensus       162 ~~~~~~~~~~lIat~np~eg~l~~~L~dR~~l~i~v~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~a  241 (633)
T TIGR02442       162 LSVSHPARFVLIGTMNPEEGDLRPQLLDRFGLCVDVAAPRDPEERVEIIRRRLAFDADPEAFAARWAAEQEELRNRIARA  241 (633)
T ss_pred             ceeeecCCeEEEEecCCCCCCCCHHHHhhcceEEEccCCCchHHHHHHHHHHHhhccCcHHHHHHhhhhHHHHHHHHHHH
Confidence                  234445444533 35778899998 446666554 3443344332110                          


Q ss_pred             ---HcCCCCCHHHHHHHHHHcC--C--CHHHHHHHHHHHh---h--ccCccCHHHHHhhhC
Q 021937          215 ---AEGLDVTEGGLAALVRLCN--G--DMRKALNILQSTH---M--ASQQITEEAVYLCTG  263 (305)
Q Consensus       215 ---~~~~~~~~~~~~~l~~~~~--g--~~r~~~~~l~~~~---~--~~~~i~~~~v~~~~~  263 (305)
                         ...+.++++.++.++..+.  |  .+|..+.+++.+.   .  ....++.++|++++.
T Consensus       242 r~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~  302 (633)
T TIGR02442       242 RSLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAE  302 (633)
T ss_pred             HHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence               0135678888888777652  1  3666666664332   2  335699999977653

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.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.39  E-value=1.8e-11  Score=116.15  Aligned_cols=197  Identities=16%  Similarity=0.219  Sum_probs=129.2

Q ss_pred             CCccccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH
Q 021937           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (305)
                      ..|.+++|++..++.+.+.+...  ...+++|+|++|||||++|+++.......  ...++.++|.... ...+...+..
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~--~~~~v~i~c~~~~-~~~~~~~lfg  449 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRN--NRRMVKMNCAAMP-AGLLESDLFG  449 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCC--CCCeEEEecccCC-hhHhhhhhcC
Confidence            35778999998888877666632  22359999999999999999998865322  4478888887632 1222221111


Q ss_pred             hhhcccccC--------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------
Q 021937          128 FASTQSFSF--------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------  181 (305)
Q Consensus       128 ~~~~~~~~~--------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------  181 (305)
                      ... ..+.+        -..+.+++|+|||++.++.+.+..|++++++..           .++++|++++..       
T Consensus       450 ~~~-~~~~g~~~~~~g~le~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~~~  528 (686)
T PRK15429        450 HER-GAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVAD  528 (686)
T ss_pred             ccc-ccccccccchhhHHHhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCCHHHHHHc
Confidence            000 00000        012346899999999999999999999998642           345777777542       


Q ss_pred             cccchhhhcce--eEEEecCCCH--HHHHHHHHH----HHHHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhc
Q 021937          182 NKIIPALQSRC--TRFRFAPLEP--VHVTERLKH----VIEAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMA  249 (305)
Q Consensus       182 ~~l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~----~~~~~~~---~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~  249 (305)
                      ..+...+..|+  ..+.+||+..  +++..++..    .+.+.+.   .+++++++.+..+. +||+|.+.+.++.++..
T Consensus       529 ~~f~~~L~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~~i~~a~~~  608 (686)
T PRK15429        529 REFRSDLYYRLNVFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLL  608 (686)
T ss_pred             CcccHHHHhccCeeEEeCCChhhhHhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCCcHHHHHHHHHHHHHh
Confidence            12344555564  4467777654  344434433    3333343   47899999988764 89999999999988864


Q ss_pred             c
Q 021937          250 S  250 (305)
Q Consensus       250 ~  250 (305)
                      .
T Consensus       609 ~  609 (686)
T PRK15429        609 T  609 (686)
T ss_pred             C
Confidence            3

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.38  E-value=2.6e-11  Score=106.46  Aligned_cols=189  Identities=19%  Similarity=0.232  Sum_probs=113.9

Q ss_pred             cccccchHHHHHHHHHHh-------c---CC--------CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           53 ADVAAHRDIVDTIDRLTS-------E---NR--------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~-------~---~~--------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      +-++||++.++.+...+.       .   ..        ..+++|+||||+|||++|+.+++.+     ...+..+++..
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            347899999998765541       1   11        2469999999999999999999887     33444444332


Q ss_pred             CcC----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--------------HHHHHHHHHHHHhc-------
Q 021937          115 DRG----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT-------  169 (305)
Q Consensus       115 ~~~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~l~~~l~~~~-------  169 (305)
                      ...    -......+........+. -....+++|+|||+|.+.+              ..++.|+++++...       
T Consensus       152 L~~~gyvG~d~e~~L~~~~~~~~~~-l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~  230 (413)
T TIGR00382       152 LTEAGYVGEDVENILLKLLQAADYD-VEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQG  230 (413)
T ss_pred             ccccccccccHHHHHHHHHHhCccc-HHhcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCC
Confidence            111    011222222222211110 0123357999999999986              57899999996321       


Q ss_pred             ------CCceEEEEecCC---------------------------c-----------------------ccchhhhcce-
Q 021937          170 ------KNTRFALICNQV---------------------------N-----------------------KIIPALQSRC-  192 (305)
Q Consensus       170 ------~~~~iil~~~~~---------------------------~-----------------------~l~~~l~~r~-  192 (305)
                            .+..+|.|+|-.                           .                       .+.|.|..|+ 
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                  112334343220                           0                       1346677777 


Q ss_pred             eEEEecCCCHHHHHHHHHHH----HHH-------cCC--CCCHHHHHHHHHHcC---CCHHHHHHHHHHHh
Q 021937          193 TRFRFAPLEPVHVTERLKHV----IEA-------EGL--DVTEGGLAALVRLCN---GDMRKALNILQSTH  247 (305)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~----~~~-------~~~--~~~~~~~~~l~~~~~---g~~r~~~~~l~~~~  247 (305)
                      .++.|.|++.+++.+++...    .++       .++  .++++++++|++.+.   --.|.+...++...
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            56889999999998887652    221       133  578999999998752   22555555554443

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.

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=99.37  E-value=1.8e-11  Score=100.38  Aligned_cols=170  Identities=21%  Similarity=0.274  Sum_probs=113.1

Q ss_pred             CccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC--
Q 021937           51 SLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (305)
                      +|+++-|--..+..+++.+.-             ..+..++||||||+|||.++++++..+     ...++.+..+..  
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            788888888888888777541             123348999999999999999999987     566666655432  


Q ss_pred             c----ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHHh-----cCCceEE
Q 021937          116 R----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRFA  175 (305)
Q Consensus       116 ~----~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~~-----~~~~~ii  175 (305)
                      .    ....+++.+..+....         +++|++||+|...           .+.+..|.++++..     ...+++|
T Consensus       205 kyiGEsaRlIRemf~yA~~~~---------pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~I  275 (388)
T KOG0651|consen  205 KYIGESARLIRDMFRYAREVI---------PCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTI  275 (388)
T ss_pred             hhcccHHHHHHHHHHHHhhhC---------ceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEE
Confidence            1    2223344444333322         5999999999874           23466777777742     3578999


Q ss_pred             EEecCCcccchhhhcce---eEEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCC
Q 021937          176 LICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEG--LDVTEGGLAALVRLCNG  234 (305)
Q Consensus       176 l~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~~~~l~~~~~g  234 (305)
                      +++|+++.++++|.+-.   ..+..+.|.......+++-..+...  ..++.+++-.+....+|
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            99999999999998743   4567776766666665544433221  14565555555554444

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.36  E-value=1e-10  Score=95.67  Aligned_cols=120  Identities=13%  Similarity=0.213  Sum_probs=94.7

Q ss_pred             eEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec------------CCcccchhhhcceeEEEecCCCHHHHHHHH
Q 021937          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN------------QVNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~------------~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (305)
                      ++|+||||+|.++-+...+|-+.+++-- .+.+++++|            ++..++-++..|..++...|++.+++.+++
T Consensus       289 pGVLFIDEvHMLDIEcFsFlNrAlE~d~-~PiiimaTNrgit~iRGTn~~SphGiP~D~lDR~lII~t~py~~~d~~~IL  367 (454)
T KOG2680|consen  289 PGVLFIDEVHMLDIECFSFLNRALENDM-APIIIMATNRGITRIRGTNYRSPHGIPIDLLDRMLIISTQPYTEEDIKKIL  367 (454)
T ss_pred             cceEEEeeehhhhhHHHHHHHHHhhhcc-CcEEEEEcCCceEEeecCCCCCCCCCcHHHhhhhheeecccCcHHHHHHHH
Confidence            6799999999999999999999998654 234444443            334678899999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhc-----cCccCHHHHHhhh
Q 021937          210 KHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHMA-----SQQITEEAVYLCT  262 (305)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~-----~~~i~~~~v~~~~  262 (305)
                      ..+|..+.+.+++++++.+.... .-.+|.+++++..+...     +..+..++|+.+.
T Consensus       368 ~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~y  426 (454)
T KOG2680|consen  368 RIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIERVY  426 (454)
T ss_pred             HhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHHH
Confidence            99999999999999999988765 46799999998655442     2335555555443

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.36  E-value=7.7e-11  Score=106.76  Aligned_cols=205  Identities=19%  Similarity=0.188  Sum_probs=134.3

Q ss_pred             CccccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHh
Q 021937           51 SLADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (305)
                      .+..++|....++.+...+..  ....+++++|++|+||+++|+.+......  ....++.++|.... ...+...+...
T Consensus       137 ~~~~lig~s~~~~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~--~~~~~v~v~c~~~~-~~~~~~~lfg~  213 (445)
T TIGR02915       137 ALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKEVLARALHQLSDR--KDKRFVAINCAAIP-ENLLESELFGY  213 (445)
T ss_pred             cccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhCCc--CCCCeEEEECCCCC-hHHHHHHhcCC
Confidence            455688888777777777653  22344899999999999999999876422  24468888887642 22222222111


Q ss_pred             hhcccccC--------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------c
Q 021937          129 ASTQSFSF--------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------N  182 (305)
Q Consensus       129 ~~~~~~~~--------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~  182 (305)
                      .. ..+.+        -..+.+++|+|||++.++...|..|++++++..           .++++|++++..       .
T Consensus       214 ~~-~~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~  292 (445)
T TIGR02915       214 EK-GAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEG  292 (445)
T ss_pred             CC-CCcCCCccCCCCceeECCCCEEEEechhhCCHHHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCCHHHHHHcC
Confidence            00 00111        123557899999999999999999999998642           245777777543       2


Q ss_pred             ccchhhhcce--eEEEecCCCH--HHHHHH----HHHHHHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc
Q 021937          183 KIIPALQSRC--TRFRFAPLEP--VHVTER----LKHVIEAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (305)
Q Consensus       183 ~l~~~l~~r~--~~i~~~~~~~--~~~~~~----l~~~~~~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~  250 (305)
                      .+.+.+..|+  ..+.+||+..  +++..+    +.+...+.+   ..+++++++.+.++. +||+|.+.+.++.++..+
T Consensus       293 ~~~~~L~~~l~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~i~~a~~~~  372 (445)
T TIGR02915       293 TFREDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAHAWPGNVRELENKVKRAVIMA  372 (445)
T ss_pred             CccHHHHHHhccceecCCCchhchhhHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHHHHhC
Confidence            3455566665  4466766654  233333    333333333   358999999998876 899999999999888644


Q ss_pred             --CccCHHHHH
Q 021937          251 --QQITEEAVY  259 (305)
Q Consensus       251 --~~i~~~~v~  259 (305)
                        ..|+.+++.
T Consensus       373 ~~~~i~~~~l~  383 (445)
T TIGR02915       373 EGNQITAEDLG  383 (445)
T ss_pred             CCCcccHHHcC
Confidence              347777653

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).

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=99.35  E-value=1.2e-10  Score=97.52  Aligned_cols=207  Identities=18%  Similarity=0.182  Sum_probs=134.7

Q ss_pred             CCccccccchHHHHHHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH
Q 021937           50 QSLADVAAHRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (305)
                      ..|+.+++.+..++.+......-.+  ..++|.|.+||||..+|++....  .+.....|+.+||+.......-.+.+..
T Consensus       201 ~~F~~~v~~S~~mk~~v~qA~k~AmlDAPLLI~GeTGTGKdLlAkaCH~~--S~R~~~pFlalNCA~lPe~~aEsElFG~  278 (511)
T COG3283         201 SGFEQIVAVSPKMKHVVEQAQKLAMLDAPLLITGETGTGKDLLAKACHLA--SPRHSKPFLALNCASLPEDAAESELFGH  278 (511)
T ss_pred             cchHHHhhccHHHHHHHHHHHHhhccCCCeEEecCCCchHHHHHHHHhhc--CcccCCCeeEeecCCCchhHhHHHHhcC
Confidence            4688999999888888777765322  23999999999999999988665  3344667999999874322222222222


Q ss_pred             hhhccc-ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cccchhh
Q 021937          128 FASTQS-FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKIIPAL  188 (305)
Q Consensus       128 ~~~~~~-~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~l~~~l  188 (305)
                      ...... ...-..+.++.+++||+..+++..|..|++++++..           .++++|++|...       ..+-.++
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            211000 000123557899999999999999999999998643           356777776322       2344556


Q ss_pred             hcceeE--EEecCCCHH--H----HHHHHHHHHHHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHhhcc--CccC
Q 021937          189 QSRCTR--FRFAPLEPV--H----VTERLKHVIEAEGL---DVTEGGLAALVRL-CNGDMRKALNILQSTHMAS--QQIT  254 (305)
Q Consensus       189 ~~r~~~--i~~~~~~~~--~----~~~~l~~~~~~~~~---~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~~--~~i~  254 (305)
                      .-|..+  ++++|+.+.  +    ..-++++.+.+.++   +++.+.+..+.++ +.||+|++.|.+..++..-  ...+
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            666644  444444321  1    23345666666665   5788888888875 4899999999997766532  3355


Q ss_pred             HHHH
Q 021937          255 EEAV  258 (305)
Q Consensus       255 ~~~v  258 (305)
                      .+++
T Consensus       439 i~~i  442 (511)
T COG3283         439 IEDI  442 (511)
T ss_pred             hhhc
Confidence            5554

>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=99.35  E-value=5.9e-11  Score=101.21  Aligned_cols=185  Identities=16%  Similarity=0.195  Sum_probs=107.5

Q ss_pred             chHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHh-CCCCcccEEEeecCCCcChhH-HHHHHHHhhhccc
Q 021937           58 HRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDDRGIDV-VRQQIQDFASTQS  133 (305)
Q Consensus        58 ~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~  133 (305)
                      ++..+++|.+.+..  .....+.|+|++|+|||++|..+++... ...+. .++.++......... ....+..+.....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~-~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFD-GVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCT-EEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccc-ccccccccccccccccccccccccccccc
Confidence            35677888888887  4444589999999999999999998733 22232 223333333222233 3333333222211


Q ss_pred             -c-c------------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecC
Q 021937          134 -F-S------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP  199 (305)
Q Consensus       134 -~-~------------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~  199 (305)
                       . .            .....++.+|||||++...  ....+...+.....+..+|+||... .+..........+++++
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             1 0            0012448999999987654  4444555555455577888888664 23333333367899999


Q ss_pred             CCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q 021937          200 LEPVHVTERLKHVIEAEG---LDVTEGGLAALVRLCNGDMRKALNILQST  246 (305)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~---~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  246 (305)
                      ++.++..+++...+....   ..-.++....|++.|+|.|-.+.-....+
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   12234567899999999887776665444

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.

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=99.35  E-value=2.9e-11  Score=114.47  Aligned_cols=190  Identities=17%  Similarity=0.166  Sum_probs=136.8

Q ss_pred             CCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC-
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-  115 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~-  115 (305)
                      ..|+++.|-..++.+|++..-.             .++..++++||||+|||..|++++..+...+....++.-.+++. 
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            4688899999999988887541             23444999999999999999999999876655555555544432 


Q ss_pred             -cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHhcCCc--eEEEEecCC
Q 021937          116 -RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYTKNT--RFALICNQV  181 (305)
Q Consensus       116 -~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~~~~~--~iil~~~~~  181 (305)
                       .+.......+..+...+     .+..+.+|++||+|.+.+           .....|+.+++.....+  ++|.+||++
T Consensus       342 skwvgEaERqlrllFeeA-----~k~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigATnRp  416 (1080)
T KOG0732|consen  342 SKWVGEAERQLRLLFEEA-----QKTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATNRP  416 (1080)
T ss_pred             ccccCcHHHHHHHHHHHH-----hccCceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcccCCc
Confidence             22223223333222221     233379999999998753           12345788888766554  444556899


Q ss_pred             cccchhhhcc--e-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 021937          182 NKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (305)
Q Consensus       182 ~~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  244 (305)
                      +.+++++++.  | ..+.|+.|+.+...+++...-.+..-.++......+++.+.|-.++-+..|.
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  4 6789999999999999988777777788999999999999887777766653

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.34  E-value=6.3e-11  Score=103.32  Aligned_cols=196  Identities=16%  Similarity=0.194  Sum_probs=132.2

Q ss_pred             CccccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHh
Q 021937           51 SLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (305)
                      .+.+++|++..+.++.+.+.--  ....++|.|++||||-..|++|.+.-  +.....++.+||+.. ....+.+.+..+
T Consensus       221 ~~~~iIG~S~am~~ll~~i~~VA~Sd~tVLi~GETGtGKElvAraIH~~S--~R~~kPfV~~NCAAl-PesLlESELFGH  297 (550)
T COG3604         221 EVGGIIGRSPAMRQLLKEIEVVAKSDSTVLIRGETGTGKELVARAIHQLS--PRRDKPFVKLNCAAL-PESLLESELFGH  297 (550)
T ss_pred             ccccceecCHHHHHHHHHHHHHhcCCCeEEEecCCCccHHHHHHHHHhhC--cccCCCceeeecccc-chHHHHHHHhcc
Confidence            4568999999998888877642  23449999999999999999998764  333557899999863 222222222221


Q ss_pred             hhcccccCC--------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------c
Q 021937          129 ASTQSFSFG--------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------N  182 (305)
Q Consensus       129 ~~~~~~~~~--------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~  182 (305)
                      -. ..|++.        .-+.++.+|+||+..++-..|..|++.+++..           -++++|.+||.-       .
T Consensus       298 eK-GAFTGA~~~r~GrFElAdGGTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVDVRiIAATNRDL~~~V~~G  376 (550)
T COG3604         298 EK-GAFTGAINTRRGRFELADGGTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVDVRVIAATNRDLEEMVRDG  376 (550)
T ss_pred             cc-cccccchhccCcceeecCCCeEechhhccCCHHHHHHHHHHHhhcceeecCCCceeEEEEEEEeccchhHHHHHHcC
Confidence            11 112222        12557899999999999999999999998642           356788888653       2


Q ss_pred             ccchhhhcceeE--EEecCCCH--HH---HHH-HHHHHHHHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc
Q 021937          183 KIIPALQSRCTR--FRFAPLEP--VH---VTE-RLKHVIEAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (305)
Q Consensus       183 ~l~~~l~~r~~~--i~~~~~~~--~~---~~~-~l~~~~~~~~~---~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~  250 (305)
                      ++-.++.-|..+  +.+||+-+  ++   +.. ++++...+.|.   .++.++++.+.++. +||+|.+.++++.++..+
T Consensus       377 ~FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L~~y~wPGNVRELen~veRavlla  456 (550)
T COG3604         377 EFRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELLSSYEWPGNVRELENVVERAVLLA  456 (550)
T ss_pred             cchhhhhhcccccccCCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHcCCCCCcHHHHHHHHHHHHHHh
Confidence            345566667644  44555433  22   222 33333334443   68999999988864 899999999998887633

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.32  E-value=7.6e-11  Score=109.48  Aligned_cols=191  Identities=17%  Similarity=0.220  Sum_probs=136.1

Q ss_pred             cCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCc-----ccEEEeecCC-------
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH-----NMILELNASD-------  114 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~-----~~~~~~~~~~-------  114 (305)
                      -+-..++.++|+++.+.++.+.+.....++-+|.|+||+|||.++..+|.++-....+     ..++.++-..       
T Consensus       164 Ar~gklDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGaky  243 (786)
T COG0542         164 AREGKLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKY  243 (786)
T ss_pred             HhcCCCCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhccccc
Confidence            3556789999999999999999999888888999999999999999999998654322     2233333321       


Q ss_pred             -CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH---------HHHHHHHHHHHhcCCceEEEEec-----
Q 021937          115 -DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD---------AQFALRRVIEKYTKNTRFALICN-----  179 (305)
Q Consensus       115 -~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~---------~~~~l~~~l~~~~~~~~iil~~~-----  179 (305)
                       ....+.++..+.....         .++.++||||+|.+-..         ..+.|-..+...  ....|.+|+     
T Consensus       244 RGeFEeRlk~vl~ev~~---------~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARG--eL~~IGATT~~EYR  312 (786)
T COG0542         244 RGEFEERLKAVLKEVEK---------SKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARG--ELRCIGATTLDEYR  312 (786)
T ss_pred             cCcHHHHHHHHHHHHhc---------CCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcC--CeEEEEeccHHHHH
Confidence             1122333333333322         12589999999998421         223333334333  345555553     


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHc----CCCCCHHHHHHHHHHcC------CCHHHHHHHHHHHhh
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE----GLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~----~~~~~~~~~~~l~~~~~------g~~r~~~~~l~~~~~  248 (305)
                      ..-.-+++|.+||+.+.+..|+.++...+++....++    ++.++++++...+.++.      .-|..|+.+++.++.
T Consensus       313 k~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         313 KYIEKDAALERRFQKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDKAIDLLDEAGA  391 (786)
T ss_pred             HHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHHHHHHhhcccCCCCchHHHHHHHHHH
Confidence            2334578999999999999999999999988776654    77899999998888774      357899999987775

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.31  E-value=7.2e-11  Score=102.46  Aligned_cols=109  Identities=21%  Similarity=0.355  Sum_probs=77.8

Q ss_pred             CceEEEEEeCCCcCCH------------HHHHHHHHHHHHhc----------CCceEEEEe----cCCcccchhhhcce-
Q 021937          140 ASVKLVLLDEADAMTK------------DAQFALRRVIEKYT----------KNTRFALIC----NQVNKIIPALQSRC-  192 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~------------~~~~~l~~~l~~~~----------~~~~iil~~----~~~~~l~~~l~~r~-  192 (305)
                      ...++|||||+|++..            ..|+.|+++++...          .+..||+++    ..+..+.|.|..|+ 
T Consensus       246 e~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~GR~P  325 (441)
T TIGR00390       246 EQSGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQGRFP  325 (441)
T ss_pred             HcCCEEEEEchhhhcccCCCCCCCCCccchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccc
Confidence            4678999999999963            25788999998532          223344433    34567889999998 


Q ss_pred             eEEEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc--------CCCHHHHHHHHHHHhh
Q 021937          193 TRFRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLC--------NGDMRKALNILQSTHM  248 (305)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~~~~l~~~~--------~g~~r~~~~~l~~~~~  248 (305)
                      .++.+.+++.+++..+|..           .+..+|+  .++++++.+|++.+        +--.|.+...++.+..
T Consensus       326 i~v~L~~L~~edL~rILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtilE~~l~  402 (441)
T TIGR00390       326 IRVELQALTTDDFERILTEPKNSLIKQYKALMKTEGVNIEFSDEAIKRIAELAYNVNEKTENIGARRLHTVLERLLE  402 (441)
T ss_pred             eEEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEeHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Confidence            6789999999999888721           2233454  57899999999865        3347788877776654

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.

>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=99.30  E-value=3.4e-12  Score=96.68  Aligned_cols=112  Identities=25%  Similarity=0.323  Sum_probs=72.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccC----CCCCceEEEEEeCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF----GVKASVKLVLLDEAD  151 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~----~~~~~~~vliiDe~~  151 (305)
                      +++|+||||+|||++++.+++.+     ...+..+++.......++............+..    ..-.++.+++|||++
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~-----~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin   75 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALL-----GRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEIN   75 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH-----TCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCG
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh-----hcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcc
Confidence            48999999999999999999998     445666666654444443221111001111110    111357899999999


Q ss_pred             cCCHHHHHHHHHHHHHhc-------------C------CceEEEEecCCc----ccchhhhcce
Q 021937          152 AMTKDAQFALRRVIEKYT-------------K------NTRFALICNQVN----KIIPALQSRC  192 (305)
Q Consensus       152 ~l~~~~~~~l~~~l~~~~-------------~------~~~iil~~~~~~----~l~~~l~~r~  192 (305)
                      ...++.+..|..++++..             .      +..+|.++|...    .+.+++++||
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            999999999999998421             1      256777777666    6788888885

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.

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.30  E-value=1.1e-10  Score=106.39  Aligned_cols=205  Identities=21%  Similarity=0.242  Sum_probs=134.7

Q ss_pred             CccccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHh
Q 021937           51 SLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (305)
                      .+.+++|....+..+...+...  ....++++|++|+|||++|+.+......  ....++.++|... ....+...+...
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~--~~~~~i~i~c~~~-~~~~~~~~lfg~  212 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSPR--AKAPFIALNMAAI-PKDLIESELFGH  212 (469)
T ss_pred             ccccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcCCC--CCCCeEeeeCCCC-CHHHHHHHhcCC
Confidence            3567888877777766665432  2234999999999999999999886422  3457888888764 222222222111


Q ss_pred             hhccccc--------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------c
Q 021937          129 ASTQSFS--------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------N  182 (305)
Q Consensus       129 ~~~~~~~--------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~  182 (305)
                      ... .+.        .-....++.++|||++.++...+..|++++++..           .++++|++++..       .
T Consensus       213 ~~g-~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~  291 (469)
T PRK10923        213 EKG-AFTGANTIRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVQEG  291 (469)
T ss_pred             CCC-CCCCCCcCCCCCeeECCCCEEEEeccccCCHHHHHHHHHHHhcCcEEeCCCCCeEEeeEEEEEeCCCCHHHHHHcC
Confidence            000 010        0123446789999999999999999999998642           234777777532       2


Q ss_pred             ccchhhhcce--eEEEecCCCH--HHHHHHHHHHH----HHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc
Q 021937          183 KIIPALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (305)
Q Consensus       183 ~l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~----~~~~~---~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~  250 (305)
                      .+.+.+..|+  ..+.++|+..  +++..++...+    .+.+.   .++++++..+.++. +||+|.+.+.++.++...
T Consensus       292 ~~~~~L~~~l~~~~i~~PpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~i~~~~~~~  371 (469)
T PRK10923        292 KFREDLFHRLNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQLENTCRWLTVMA  371 (469)
T ss_pred             CchHHHHHHhcceeecCCCcccchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhC
Confidence            3556777776  4567777654  34444444443    33332   47899999988765 899999999998887643


Q ss_pred             --CccCHHHHH
Q 021937          251 --QQITEEAVY  259 (305)
Q Consensus       251 --~~i~~~~v~  259 (305)
                        ..|+.+++.
T Consensus       372 ~~~~i~~~~l~  382 (469)
T PRK10923        372 AGQEVLIQDLP  382 (469)
T ss_pred             CCCcccHHHCc
Confidence              357777764

>PRK08485 DNA polymerase III subunit delta'; Validated

Probab=99.30  E-value=4.8e-11  Score=92.75  Aligned_cols=131  Identities=19%  Similarity=0.228  Sum_probs=107.0

Q ss_pred             EEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccch
Q 021937          107 ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIP  186 (305)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~  186 (305)
                      .+.+-..+....+.+++.+........        ...++|+++|.+.....++|++.++++|.++.|+++++....+.+
T Consensus        28 ~~~~f~~~~i~Vd~iReii~~~~~~~~--------~~k~iI~~a~~l~~~A~NaLLK~LEEPp~~~~fiL~t~~~~~llp   99 (206)
T PRK08485         28 NLRFFIKEEFKIEDAKEVIAEAYIAES--------EEKIIVIAAPSYGIEAQNALLKILEEPPKNICFIIVAKSKNLLLP   99 (206)
T ss_pred             ceEEECCCCCCHHHHHHHHHHHhhCCC--------CcEEEEEchHhhCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCch
Confidence            333333445677888887777544321        123468899999999999999999999999999999999999999


Q ss_pred             hhhcceeE-------------EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q 021937          187 ALQSRCTR-------------FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQST  246 (305)
Q Consensus       187 ~l~~r~~~-------------i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  246 (305)
                      ++++||+.             +.+.+++..++.+++.. ..+++.....++.+.|++...|.+|.++...++.
T Consensus       100 TI~SRc~~~~~~~~~~~~~l~l~l~~l~~~~i~~~L~~-~~ke~~~~~~ea~~lIa~la~~s~r~~l~l~~q~  171 (206)
T PRK08485        100 TIRSRLIIEKRKQKKPVKPLDLDLKKLDLKDIYEFLKE-LEKENKLSKEELKELIESLLKECVKYKIPLNEEE  171 (206)
T ss_pred             HHHhhheeccccccccccccccccCCCCHHHHHHHHHH-HHHcccccHHHHHHHHHHHHHHHHHHHcCccHHH
Confidence            99999975             77999999999999998 6777877788889999999999999887776444

>PHA02244 ATPase-like protein

Probab=99.29  E-value=1.2e-10  Score=99.55  Aligned_cols=131  Identities=23%  Similarity=0.210  Sum_probs=83.9

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH--hhhcccccCCCCCc
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD--FASTQSFSFGVKAS  141 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~--~~~~~~~~~~~~~~  141 (305)
                      .+..++..+.  +++|+||+|||||++|++++..+     ...++.++....  ...+...+..  .....++.. ....
T Consensus       111 ri~r~l~~~~--PVLL~GppGtGKTtLA~aLA~~l-----g~pfv~In~l~d--~~~L~G~i~~~g~~~dgpLl~-A~~~  180 (383)
T PHA02244        111 DIAKIVNANI--PVFLKGGAGSGKNHIAEQIAEAL-----DLDFYFMNAIMD--EFELKGFIDANGKFHETPFYE-AFKK  180 (383)
T ss_pred             HHHHHHhcCC--CEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEecChH--HHhhcccccccccccchHHHH-Hhhc
Confidence            4445555443  48999999999999999999987     334555542210  0000000000  000000000 0133


Q ss_pred             eEEEEEeCCCcCCHHHHHHHHHHHHHh-----------cCCceEEEEecCC-----------cccchhhhcceeEEEecC
Q 021937          142 VKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQV-----------NKIIPALQSRCTRFRFAP  199 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~iil~~~~~-----------~~l~~~l~~r~~~i~~~~  199 (305)
                      +.+++|||++.+.++.+..|..+++..           .++.++|+++|..           ..+.+++.+||..+.|..
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            689999999999999999999998632           2467788888752           457889999999999988


Q ss_pred             CCHHH
Q 021937          200 LEPVH  204 (305)
Q Consensus       200 ~~~~~  204 (305)
                      |++.|
T Consensus       261 p~~~E  265 (383)
T PHA02244        261 DEKIE  265 (383)
T ss_pred             CcHHH
Confidence            87433

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.29  E-value=1.1e-10  Score=101.42  Aligned_cols=109  Identities=20%  Similarity=0.336  Sum_probs=77.5

Q ss_pred             CceEEEEEeCCCcCCH------------HHHHHHHHHHHHhc----------CCceEEEEe----cCCcccchhhhcce-
Q 021937          140 ASVKLVLLDEADAMTK------------DAQFALRRVIEKYT----------KNTRFALIC----NQVNKIIPALQSRC-  192 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~------------~~~~~l~~~l~~~~----------~~~~iil~~----~~~~~l~~~l~~r~-  192 (305)
                      ...++|||||+|++..            ..|..|+++++...          .+..||+++    ..+..+.|.|..|+ 
T Consensus       248 e~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~GR~P  327 (443)
T PRK05201        248 EQNGIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVSKPSDLIPELQGRFP  327 (443)
T ss_pred             HcCCEEEEEcchhhcccCCCCCCCCCccchhcccccccccceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccc
Confidence            3578999999999963            25788999998522          223344333    34567889999998 


Q ss_pred             eEEEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc--------CCCHHHHHHHHHHHhh
Q 021937          193 TRFRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLC--------NGDMRKALNILQSTHM  248 (305)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~~~~l~~~~--------~g~~r~~~~~l~~~~~  248 (305)
                      .++.+.+++.+++..+|..           .+..+|+  .+++++++.||+.+        +--.|.+...++.+..
T Consensus       328 i~v~L~~L~~~dL~~ILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtI~E~~L~  404 (443)
T PRK05201        328 IRVELDALTEEDFVRILTEPKASLIKQYQALLATEGVTLEFTDDAIRRIAEIAYQVNEKTENIGARRLHTVMEKLLE  404 (443)
T ss_pred             eEEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Confidence            6789999999999888732           2223354  57899999999865        2347788887776654

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.28  E-value=6.3e-11  Score=97.81  Aligned_cols=157  Identities=25%  Similarity=0.346  Sum_probs=104.7

Q ss_pred             ccccccchHHHHHHHHHHhc-------C-------CCCeEEEECCCCCcHHHHHHHHHHHHh----CCCCcccEEEeecC
Q 021937           52 LADVAAHRDIVDTIDRLTSE-------N-------RLPHLLLYGPPGTGKTSTILAVARKLY----GAQYHNMILELNAS  113 (305)
Q Consensus        52 ~~~~~g~~~~~~~l~~~l~~-------~-------~~~~~ll~G~~G~GKT~l~~~l~~~~~----~~~~~~~~~~~~~~  113 (305)
                      |+.++.....+++|..+...       +       ....++++||||+|||+|.+++++.+.    ...+....+++++.
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            35566666677777766532       1       112389999999999999999999884    23455667788775


Q ss_pred             CCc---------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH---------------HHHHHHHHHHHHhc
Q 021937          114 DDR---------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------------DAQFALRRVIEKYT  169 (305)
Q Consensus       114 ~~~---------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~---------------~~~~~l~~~l~~~~  169 (305)
                      ...         ....+-+.++++...       +..--.++|||++.+..               ...++++.-++...
T Consensus       221 sLFSKWFsESgKlV~kmF~kI~ELv~d-------~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK  293 (423)
T KOG0744|consen  221 SLFSKWFSESGKLVAKMFQKIQELVED-------RGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLK  293 (423)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHhC-------CCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhc
Confidence            421         122222333333322       12245689999998842               24677888888765


Q ss_pred             C--CceEEEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHH
Q 021937          170 K--NTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA  215 (305)
Q Consensus       170 ~--~~~iil~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~  215 (305)
                      .  ++.++.++|-.+.++.++..|. -+..+.+|+...+.++++.-...
T Consensus       294 ~~~NvliL~TSNl~~siD~AfVDRADi~~yVG~Pt~~ai~~IlkscieE  342 (423)
T KOG0744|consen  294 RYPNVLILATSNLTDSIDVAFVDRADIVFYVGPPTAEAIYEILKSCIEE  342 (423)
T ss_pred             cCCCEEEEeccchHHHHHHHhhhHhhheeecCCccHHHHHHHHHHHHHH
Confidence            3  4444445577788999999998 56788999999999988776543

>PRK15115 response regulator GlrR; Provisional

Probab=99.28  E-value=1.1e-09  Score=99.24  Aligned_cols=205  Identities=15%  Similarity=0.196  Sum_probs=128.2

Q ss_pred             ccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhc
Q 021937           54 DVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (305)
                      .++|....+..+...+..  .....++++|++|+|||++|+.+.+....  ....++.++|.... ...+...+......
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s~r--~~~~f~~i~c~~~~-~~~~~~~lfg~~~~  211 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPR--ASKPFIAINCGALP-EQLLESELFGHARG  211 (444)
T ss_pred             cccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhcCC--CCCCeEEEeCCCCC-HHHHHHHhcCCCcC
Confidence            355655555444443332  22345899999999999999999886432  24568888887642 22222222111100


Q ss_pred             cccc--------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cccc
Q 021937          132 QSFS--------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKII  185 (305)
Q Consensus       132 ~~~~--------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~l~  185 (305)
                       .+.        .......++|+|||++.++...|..|+.+++...           .++++|++++..       ..+.
T Consensus       212 -~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~l~~~~~~~~f~  290 (444)
T PRK15115        212 -AFTGAVSNREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKAMARGEFR  290 (444)
T ss_pred             -CCCCCccCCCCcEEECCCCEEEEEccccCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCCHHHHHHcCCcc
Confidence             011        1123446899999999999999999999998642           145677666532       1233


Q ss_pred             hhhhcce--eEEEecCCCH--HHHHHHHHHHH----HHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc--C
Q 021937          186 PALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--Q  251 (305)
Q Consensus       186 ~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~----~~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~--~  251 (305)
                      +.+..|+  ..+.++|+..  +++..++...+    ...+   ..+++++++.+..+. +||+|.+.+.++.++..+  .
T Consensus       291 ~~l~~~l~~~~i~lPpLr~R~eDi~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~WpgNvreL~~~i~~~~~~~~~~  370 (444)
T PRK15115        291 EDLYYRLNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVALTSSP  370 (444)
T ss_pred             HHHHHhhceeeecCCChHhccccHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCC
Confidence            4555554  3456666654  34443333333    3233   248999999999987 999999999999877643  3


Q ss_pred             ccCHHHHHhhh
Q 021937          252 QITEEAVYLCT  262 (305)
Q Consensus       252 ~i~~~~v~~~~  262 (305)
                      .|+.+++...+
T Consensus       371 ~i~~~~l~~~~  381 (444)
T PRK15115        371 VISDALVEQAL  381 (444)
T ss_pred             ccChhhhhhhh
Confidence            58877775433

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.27  E-value=4.8e-10  Score=104.05  Aligned_cols=126  Identities=17%  Similarity=0.180  Sum_probs=85.3

Q ss_pred             CceEEEEEeCCCcCCHHHHHHHHHHHHHhc---------------------CCceEEEEecCC--cccchhhhccee---
Q 021937          140 ASVKLVLLDEADAMTKDAQFALRRVIEKYT---------------------KNTRFALICNQV--NKIIPALQSRCT---  193 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~~~~~l~~~l~~~~---------------------~~~~iil~~~~~--~~l~~~l~~r~~---  193 (305)
                      +++++|+|||++.++...|..|++++++..                     .+.++|++++..  ..+.+++.+|+.   
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            556899999999999999999999997431                     234566666543  467889999875   


Q ss_pred             E-EEecC---CCHHH---HHHHHHHHHHHcC--CCCCHHHHHHHHHHc----------CCCHHHHHHHHHHHhh-----c
Q 021937          194 R-FRFAP---LEPVH---VTERLKHVIEAEG--LDVTEGGLAALVRLC----------NGDMRKALNILQSTHM-----A  249 (305)
Q Consensus       194 ~-i~~~~---~~~~~---~~~~l~~~~~~~~--~~~~~~~~~~l~~~~----------~g~~r~~~~~l~~~~~-----~  249 (305)
                      + +.|+.   .+.+.   +..++.+.+.+.|  ..++++++.++.++.          ..+.|.+.++++.+..     .
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 34432   23333   3455555555553  258899998887543          2458888888876633     2


Q ss_pred             cCccCHHHHHhhhCCC
Q 021937          250 SQQITEEAVYLCTGNP  265 (305)
Q Consensus       250 ~~~i~~~~v~~~~~~~  265 (305)
                      ...|+.++|++++...
T Consensus       376 ~~~I~~ehV~~Ai~~~  391 (608)
T TIGR00764       376 KVYVTAEHVLKAKKLA  391 (608)
T ss_pred             CceecHHHHHHHHHHH
Confidence            2458888888776544

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.26  E-value=2.1e-10  Score=99.48  Aligned_cols=143  Identities=23%  Similarity=0.198  Sum_probs=95.5

Q ss_pred             ccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHh-----
Q 021937           54 DVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF-----  128 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~-----  128 (305)
                      .++|.++.+..+...+..+.  +++|.||||+|||++|+.+++.+     ...++.+.+.......++.....-.     
T Consensus        25 ~~~g~~~~~~~~l~a~~~~~--~vll~G~PG~gKT~la~~lA~~l-----~~~~~~i~~t~~l~p~d~~G~~~~~~~~~~   97 (329)
T COG0714          25 VVVGDEEVIELALLALLAGG--HVLLEGPPGVGKTLLARALARAL-----GLPFVRIQCTPDLLPSDLLGTYAYAALLLE   97 (329)
T ss_pred             eeeccHHHHHHHHHHHHcCC--CEEEECCCCccHHHHHHHHHHHh-----CCCeEEEecCCCCCHHHhcCchhHhhhhcc
Confidence            37888888887777776664  59999999999999999999998     4567777776554443332211111     


Q ss_pred             hhcccccCCC--CCceEEEEEeCCCcCCHHHHHHHHHHHHHh-------c-----CCceEEEEec-----CCcccchhhh
Q 021937          129 ASTQSFSFGV--KASVKLVLLDEADAMTKDAQFALRRVIEKY-------T-----KNTRFALICN-----QVNKIIPALQ  189 (305)
Q Consensus       129 ~~~~~~~~~~--~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-------~-----~~~~iil~~~-----~~~~l~~~l~  189 (305)
                      .....+..+.  ..-..++++||+++..+..++.|+..+++.       .     ....++.+.|     ....+++++.
T Consensus        98 ~~~~~~~~gpl~~~~~~ill~DEInra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l~eA~l  177 (329)
T COG0714          98 PGEFRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPEALL  177 (329)
T ss_pred             CCeEEEecCCcccccceEEEEeccccCCHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCCCHHHH
Confidence            1111111110  000159999999999999999999999962       1     1223333446     3456789999


Q ss_pred             cce-eEEEecCCCHH
Q 021937          190 SRC-TRFRFAPLEPV  203 (305)
Q Consensus       190 ~r~-~~i~~~~~~~~  203 (305)
                      +|| ..+.++.|...
T Consensus       178 dRf~~~~~v~yp~~~  192 (329)
T COG0714         178 DRFLLRIYVDYPDSE  192 (329)
T ss_pred             hhEEEEEecCCCCch
Confidence            999 77888888333

>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=99.25  E-value=1.7e-11  Score=96.73  Aligned_cols=114  Identities=23%  Similarity=0.227  Sum_probs=68.7

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec----------------CC
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA----------------SD  114 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~----------------~~  114 (305)
                      .|++++||+..+..|.-.+.++  ++++++||||+|||++|+.+...+..-.. ....++..                ..
T Consensus         1 Df~dI~GQe~aKrAL~iAAaG~--h~lLl~GppGtGKTmlA~~l~~lLP~l~~-~e~le~~~i~s~~~~~~~~~~~~~~P   77 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAAAGG--HHLLLIGPPGTGKTMLARRLPSLLPPLTE-EEALEVSKIYSVAGLGPDEGLIRQRP   77 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHHCC----EEEES-CCCTHHHHHHHHHHCS--CCE-ECCESS--S-TT---S---EEEE---
T ss_pred             ChhhhcCcHHHHHHHHHHHcCC--CCeEEECCCCCCHHHHHHHHHHhCCCCch-HHHhhhccccccccCCCCCceecCCC
Confidence            3789999999999999988875  57999999999999999999976521110 00000000                00


Q ss_pred             Cc---ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh
Q 021937          115 DR---GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (305)
Q Consensus       115 ~~---~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~  168 (305)
                      ..   ........+... .......-..++++|||+||+..+.+...+.|++.+++.
T Consensus        78 fr~phhs~s~~~liGgg-~~~~PGeislAh~GVLflDE~~ef~~~vld~Lr~ple~g  133 (206)
T PF01078_consen   78 FRAPHHSASEAALIGGG-RPPRPGEISLAHRGVLFLDELNEFDRSVLDALRQPLEDG  133 (206)
T ss_dssp             EEEE-TT--HHHHHEEG-GGEEE-CGGGGTTSEEEECETTTS-HHHHHHHHHHHHHS
T ss_pred             cccCCCCcCHHHHhCCC-cCCCcCHHHHhcCCEEEechhhhcCHHHHHHHHHHHHCC
Confidence            00   000111111110 111112224567899999999999999999999999964

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.

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.25  E-value=6.2e-10  Score=101.39  Aligned_cols=204  Identities=20%  Similarity=0.217  Sum_probs=133.5

Q ss_pred             cccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhh
Q 021937           53 ADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  130 (305)
                      ..++|.......+...+..  .....+++.|++|+||+++++++......  ....++.++|... ..+.+...+.... 
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~~~~--~~~~~~~~~c~~~-~~~~~~~~lfg~~-  209 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSPR--ANGPFIALNMAAI-PKDLIESELFGHE-  209 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHhCCC--CCCCeEEEeCCCC-CHHHHHHHhcCCC-
Confidence            3466766666655555543  22234899999999999999999886422  2457888888764 2222222221100 


Q ss_pred             cccccC--------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------ccc
Q 021937          131 TQSFSF--------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKI  184 (305)
Q Consensus       131 ~~~~~~--------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~l  184 (305)
                      ...+.+        -..+.+++|+|||++.++...+..|++++++..           .++++|++++..       ..+
T Consensus       210 ~~~~~~~~~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~f  289 (463)
T TIGR01818       210 KGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVRQGKF  289 (463)
T ss_pred             CCCCCCcccCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHHHHcCCc
Confidence            000110        123446889999999999999999999998542           245677776432       234


Q ss_pred             chhhhcce--eEEEecCCC--HHHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc--
Q 021937          185 IPALQSRC--TRFRFAPLE--PVHVTERLKHVIE----AEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--  250 (305)
Q Consensus       185 ~~~l~~r~--~~i~~~~~~--~~~~~~~l~~~~~----~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~--  250 (305)
                      .+.+..|+  ..++++|+.  .+++..++...+.    ..+   ..+++++++.|.++. +||+|.+.+.++.++..+  
T Consensus       290 ~~~L~~rl~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~~~~~~~~~~~  369 (463)
T TIGR01818       290 REDLFHRLNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNVRQLENLCRWLTVMASG  369 (463)
T ss_pred             HHHHHHHhCcceecCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCC
Confidence            45666665  467888877  4566655554433    333   358999999999875 899999999999888754  


Q ss_pred             CccCHHHHHh
Q 021937          251 QQITEEAVYL  260 (305)
Q Consensus       251 ~~i~~~~v~~  260 (305)
                      ..|+.+++..
T Consensus       370 ~~i~~~~l~~  379 (463)
T TIGR01818       370 DEVLVSDLPA  379 (463)
T ss_pred             CcccHHhchH
Confidence            3477777653

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.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.25  E-value=5.1e-10  Score=101.25  Aligned_cols=192  Identities=17%  Similarity=0.206  Sum_probs=125.5

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc--ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCC
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEAD  151 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~  151 (305)
                      .++++|.||+|+|||.|++++++++. ......+..++|+...  ..+.+...+.......-     ...+.||++||+|
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~-----~~~PSiIvLDdld  504 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEAL-----WYAPSIIVLDDLD  504 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHHHHHHHH-----hhCCcEEEEcchh
Confidence            44599999999999999999999986 3444455556776543  34444444444433221     1226999999999


Q ss_pred             cCCHH----------H----HHHHHHHHHHhc---CCceEEEEecCCcccchhhhcc--e-eEEEecCCCHHHHHHHHHH
Q 021937          152 AMTKD----------A----QFALRRVIEKYT---KNTRFALICNQVNKIIPALQSR--C-TRFRFAPLEPVHVTERLKH  211 (305)
Q Consensus       152 ~l~~~----------~----~~~l~~~l~~~~---~~~~iil~~~~~~~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~  211 (305)
                      .+...          .    ...+.+.+..+.   ....+|.++.....+.+.+.+.  | .++++++|...++.+++..
T Consensus       505 ~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~  584 (952)
T KOG0735|consen  505 CLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEILTT  584 (952)
T ss_pred             hhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCCcchhHHHHHHHH
Confidence            98530          1    223334444332   2334555667777777777654  4 4589999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHcCCC-HH-------HHHHHH--HHHhhccCccCHHHHHhhhCCCChhhHH
Q 021937          212 VIEAEGLDVTEGGLAALVRLCNGD-MR-------KALNIL--QSTHMASQQITEEAVYLCTGNPLPKDIE  271 (305)
Q Consensus       212 ~~~~~~~~~~~~~~~~l~~~~~g~-~r-------~~~~~l--~~~~~~~~~i~~~~v~~~~~~~~~~~~~  271 (305)
                      .+++.......+.++.++..++|- ++       +++...  +..+...+-.+.+++.+.+.......+.
T Consensus       585 ~~s~~~~~~~~~dLd~ls~~TEGy~~~DL~ifVeRai~~a~leris~~~klltke~f~ksL~~F~P~aLR  654 (952)
T KOG0735|consen  585 IFSKNLSDITMDDLDFLSVKTEGYLATDLVIFVERAIHEAFLERISNGPKLLTKELFEKSLKDFVPLALR  654 (952)
T ss_pred             HHHhhhhhhhhHHHHHHHHhcCCccchhHHHHHHHHHHHHHHHHhccCcccchHHHHHHHHHhcChHHhh
Confidence            998887777778888899999883 22       222221  2333333457888888877666555443

>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=99.24  E-value=1.1e-10  Score=90.66  Aligned_cols=122  Identities=16%  Similarity=0.214  Sum_probs=77.6

Q ss_pred             cccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcc
Q 021937           55 VAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ  132 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  132 (305)
                      ++|.+..++.+.+.+..  ....+++|+|++||||+.+|+++.+.-  ......|+.++|... ..+.+...+..... .
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s--~r~~~pfi~vnc~~~-~~~~~e~~LFG~~~-~   76 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS--PRKNGPFISVNCAAL-PEELLESELFGHEK-G   76 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS--TTTTS-EEEEETTTS--HHHHHHHHHEBCS-S
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh--hcccCCeEEEehhhh-hcchhhhhhhcccc-c
Confidence            46777777777666654  223459999999999999999998843  223567999999874 23333222221110 0


Q ss_pred             cccCC--------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-----------cCCceEEEEecC
Q 021937          133 SFSFG--------VKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQ  180 (305)
Q Consensus       133 ~~~~~--------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~iil~~~~  180 (305)
                      .+.+.        ..+..++|+|||++.|+...|..|++++++.           +.++++|++|+.
T Consensus        77 ~~~~~~~~~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~  143 (168)
T PF00158_consen   77 AFTGARSDKKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSK  143 (168)
T ss_dssp             SSTTTSSEBEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS
T ss_pred             cccccccccCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCc
Confidence            11111        2355789999999999999999999999963           235677777764

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 ....

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.22  E-value=7.9e-10  Score=102.45  Aligned_cols=188  Identities=16%  Similarity=0.139  Sum_probs=113.6

Q ss_pred             cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC--CCcChh--HHHHHHHHhhhcccccC--CCCCceEE
Q 021937           71 ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS--DDRGID--VVRQQIQDFASTQSFSF--GVKASVKL  144 (305)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~--~~~~~~--~~~~~i~~~~~~~~~~~--~~~~~~~v  144 (305)
                      .....+++|.|++|+|||++++.+++.+..   ...|+.+...  ...-..  .+...+...  ...+..  -..++.++
T Consensus        13 ~p~~g~vLl~G~~GtgKs~lar~l~~~~~~---~~pfv~i~~~~t~d~L~G~idl~~~~~~g--~~~~~~G~L~~A~~Gv   87 (589)
T TIGR02031        13 DPSLGGVAIRARAGTGKTALARALAEILPP---IMPFVELPLGVTEDRLIGGIDVEESLAGG--QRVTQPGLLDEAPRGV   87 (589)
T ss_pred             CCCcceEEEEcCCCcHHHHHHHHHHHhCCc---CCCeEecCcccchhhcccchhhhhhhhcC--cccCCCCCeeeCCCCc
Confidence            334567999999999999999999997632   2235554431  110011  111111100  001111  12355689


Q ss_pred             EEEeCCCcCCHHHHHHHHHHHHHhc-------------CCceEEEEecCCc---ccchhhhcce-eEEEecC-CCHHHHH
Q 021937          145 VLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFALICNQVN---KIIPALQSRC-TRFRFAP-LEPVHVT  206 (305)
Q Consensus       145 liiDe~~~l~~~~~~~l~~~l~~~~-------------~~~~iil~~~~~~---~l~~~l~~r~-~~i~~~~-~~~~~~~  206 (305)
                      ++|||++.+++..+..|+..+++..             ....+|.++|...   .+.+.+..|+ ..+.+.. ++.++..
T Consensus        88 L~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~LldRf~l~v~~~~~~~~~er~  167 (589)
T TIGR02031        88 LYVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLDRLALHVSLEDVASQDLRV  167 (589)
T ss_pred             EeccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHHhccCeeecCCCCCHHHHH
Confidence            9999999999999999999998642             3345565555443   5788899997 3344433 3445555


Q ss_pred             HHHHHHH---------------------H--HcCCCCCHHHHHHHHHHc---C-CCHHHHHHHHHHHhh-----ccCccC
Q 021937          207 ERLKHVI---------------------E--AEGLDVTEGGLAALVRLC---N-GDMRKALNILQSTHM-----ASQQIT  254 (305)
Q Consensus       207 ~~l~~~~---------------------~--~~~~~~~~~~~~~l~~~~---~-g~~r~~~~~l~~~~~-----~~~~i~  254 (305)
                      +++....                     .  ...+.++++.++.|++.+   + ..+|..+..++.+..     ....++
T Consensus       168 eil~~~~~~~~~~~~~~~~~~~~~i~~ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~  247 (589)
T TIGR02031       168 EIVRRERCNEVFRMNDELELLRGQIEAARELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVT  247 (589)
T ss_pred             HHHHHHHHhhhhhcchhhHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCC
Confidence            5554432                     1  124578888888887765   2 236776666643332     335699


Q ss_pred             HHHHHhhhC
Q 021937          255 EEAVYLCTG  263 (305)
Q Consensus       255 ~~~v~~~~~  263 (305)
                      .++|+.++.
T Consensus       248 ~~Dv~~a~~  256 (589)
T TIGR02031       248 EEDLKLAVE  256 (589)
T ss_pred             HHHHHHHHH
Confidence            999987763

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.

>PRK12377 putative replication protein; Provisional

Probab=99.22  E-value=6.9e-11  Score=97.26  Aligned_cols=132  Identities=21%  Similarity=0.330  Sum_probs=77.8

Q ss_pred             hhcCCCCccccc----cchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           45 EKYRPQSLADVA----AHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        45 ~~~~p~~~~~~~----g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      ..+...+|+++.    |+...+.....++..  ....+++|+||+|+|||+++.++++.+...+....++.+.  +  -.
T Consensus        66 ~~~~~~tFdnf~~~~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~--~--l~  141 (248)
T PRK12377         66 PLHRKCSFANYQVQNDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVP--D--VM  141 (248)
T ss_pred             cccccCCcCCcccCChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHH--H--HH
Confidence            344455677775    334455555555443  2235699999999999999999999997766554444332  1  11


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCC--CcCCHHHHHHHHHHHHHhcC-CceEEEEecCC
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEA--DAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~--~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~  181 (305)
                      ..+............+ ...-....||+|||+  +..++..+..|+.+++.... ....|++||..
T Consensus       142 ~~l~~~~~~~~~~~~~-l~~l~~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl~  206 (248)
T PRK12377        142 SRLHESYDNGQSGEKF-LQELCKVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNLN  206 (248)
T ss_pred             HHHHHHHhccchHHHH-HHHhcCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCCC
Confidence            1111111000000000 000123689999999  55567778899999997654 46677888754

>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=99.22  E-value=3.3e-11  Score=93.86  Aligned_cols=102  Identities=25%  Similarity=0.283  Sum_probs=68.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~  150 (305)
                      ..++|.||+|+|||.+++++++.+.. +....++.++.+....    ...+...+.........     ....||++||+
T Consensus         4 ~~~ll~GpsGvGKT~la~~la~~l~~-~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~-----~~~gVVllDEi   77 (171)
T PF07724_consen    4 SNFLLAGPSGVGKTELAKALAELLFV-GSERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGA-----EEGGVVLLDEI   77 (171)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHT--SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHH-----HHHTEEEEETG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhcc-CCccchHHHhhhcccccchHHhhhhhhhhcccceeec-----cchhhhhhHHH
Confidence            35899999999999999999999952 1234677777766544    22222222222111111     11359999999


Q ss_pred             CcCCH-----------HHHHHHHHHHHHhc-----------CCceEEEEecCCc
Q 021937          151 DAMTK-----------DAQFALRRVIEKYT-----------KNTRFALICNQVN  182 (305)
Q Consensus       151 ~~l~~-----------~~~~~l~~~l~~~~-----------~~~~iil~~~~~~  182 (305)
                      |+..+           ..++.|++++++..           .+..||+++|-..
T Consensus        78 dKa~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~  131 (171)
T PF07724_consen   78 DKAHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGA  131 (171)
T ss_dssp             GGCSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSST
T ss_pred             hhccccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccccc
Confidence            99999           99999999999642           3556777776443

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 ....

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.22  E-value=9.3e-10  Score=100.12  Aligned_cols=203  Identities=17%  Similarity=0.217  Sum_probs=127.5

Q ss_pred             cccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhh
Q 021937           53 ADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  130 (305)
                      ..++|.......+...+...  ....++++|++|+||+++++.+.....  .....++.++|.... ...+...+.... 
T Consensus       143 ~~ii~~S~~~~~~~~~~~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~--~~~~~~~~i~c~~~~-~~~~~~~lfg~~-  218 (457)
T PRK11361        143 GHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSR--RAKGPFIKVNCAALP-ESLLESELFGHE-  218 (457)
T ss_pred             cceecccHHHhHHHHHHHHHcCCCcEEEEEcCCCccHHHHHHHHHHhCC--CCCCCeEEEECCCCC-HHHHHHHhcCCC-
Confidence            45667666555555554432  223499999999999999999987542  234568888887642 222222211100 


Q ss_pred             ccccc--------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------ccc
Q 021937          131 TQSFS--------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKI  184 (305)
Q Consensus       131 ~~~~~--------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~l  184 (305)
                      ...+.        .-..+.+++|+|||++.++...+..|+.++++..           .++++|++++..       ..+
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            00011        1123456899999999999999999999998532           235777777533       134


Q ss_pred             chhhhcce--eEEEecCCCH--HHHHHH----HHHHHHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc--
Q 021937          185 IPALQSRC--TRFRFAPLEP--VHVTER----LKHVIEAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--  250 (305)
Q Consensus       185 ~~~l~~r~--~~i~~~~~~~--~~~~~~----l~~~~~~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~--  250 (305)
                      .+.+..|+  ..+.++|+..  +++..+    +.+...+.+   ..+++++++.+..+. +||+|.+.+.++.++...  
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            45555555  3456666653  333333    333333323   358999999988865 899999999998887644  


Q ss_pred             CccCHHHHH
Q 021937          251 QQITEEAVY  259 (305)
Q Consensus       251 ~~i~~~~v~  259 (305)
                      ..|+.+++.
T Consensus       379 ~~i~~~~l~  387 (457)
T PRK11361        379 PIIFSEDLP  387 (457)
T ss_pred             CcccHHHCh
Confidence            347777764

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

Probab=99.19  E-value=2.9e-10  Score=99.86  Aligned_cols=150  Identities=19%  Similarity=0.225  Sum_probs=94.5

Q ss_pred             ccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC--cccEEEeecCCC------------cC
Q 021937           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY--HNMILELNASDD------------RG  117 (305)
Q Consensus        52 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~--~~~~~~~~~~~~------------~~  117 (305)
                      ++++++.+..++.+...+..+  .+++|+||||+|||++|+.++..+.....  ....+.+.....            .+
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            456777888888888888764  46999999999999999999998743221  122233321110            00


Q ss_pred             ----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHH-HHHHHHHHHH----------------------hcC
Q 021937          118 ----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA-QFALRRVIEK----------------------YTK  170 (305)
Q Consensus       118 ----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~-~~~l~~~l~~----------------------~~~  170 (305)
                          ...+.+.+..+..       ...++.++||||+++...+. ...++.+++.                      .|.
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                0011122222211       11236899999999998554 5666666652                      134


Q ss_pred             CceEEEEecCCc----ccchhhhcceeEEEecC-CCHHHHHHHHH
Q 021937          171 NTRFALICNQVN----KIIPALQSRCTRFRFAP-LEPVHVTERLK  210 (305)
Q Consensus       171 ~~~iil~~~~~~----~l~~~l~~r~~~i~~~~-~~~~~~~~~l~  210 (305)
                      +..||.++|..+    .++.++++||..+.+.| ++...+.+++.
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            556677776554    57889999999988887 45555666553

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=99.19  E-value=1.2e-09  Score=101.25  Aligned_cols=124  Identities=16%  Similarity=0.201  Sum_probs=81.6

Q ss_pred             CCceEEEEEeCCCcCCHHHHHHHHHHHHHhc---------------------CCceEEEEecCC--cccchhhhccee--
Q 021937          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYT---------------------KNTRFALICNQV--NKIIPALQSRCT--  193 (305)
Q Consensus       139 ~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~---------------------~~~~iil~~~~~--~~l~~~l~~r~~--  193 (305)
                      ++++++|+|||++.+++..|..|+++++...                     .+.++|++++..  ..++++|..|+.  
T Consensus       224 kAnGGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~g~~e~~~~~~~~~~~ip~dvrvI~a~~~~ll~~~dpdL~~rfk~~  303 (637)
T PRK13765        224 KAHKGVLFIDEINTLDLESQQSLLTAMQEKKFPITGQSERSSGAMVRTEPVPCDFIMVAAGNLDALENMHPALRSRIKGY  303 (637)
T ss_pred             ECCCcEEEEeChHhCCHHHHHHHHHHHHhCCEEecccccccccccCCCcceeeeeEEEEecCcCHHHhhhHHHHHHhccC
Confidence            3567899999999999999999999996432                     134677777653  346788888874  


Q ss_pred             --EEEecC---CCHHHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHc---CCC-------HHHHHHHHHHHhhc----
Q 021937          194 --RFRFAP---LEPVHVTERLKHVIEAE-----GLDVTEGGLAALVRLC---NGD-------MRKALNILQSTHMA----  249 (305)
Q Consensus       194 --~i~~~~---~~~~~~~~~l~~~~~~~-----~~~~~~~~~~~l~~~~---~g~-------~r~~~~~l~~~~~~----  249 (305)
                        .+.|..   -+.+....++...++..     -..++++++..|.++.   .|+       .|.+.++++.+...    
T Consensus       304 ~v~v~f~~~~~d~~e~~~~~~~~iaqe~~~~G~l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~  383 (637)
T PRK13765        304 GYEVYMRDTMEDTPENRRKLVRFVAQEVKRDGKIPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSE  383 (637)
T ss_pred             eEEEEcccccCCCHHHHHHHHHHHHHHhhhccCCCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhh
Confidence              355543   22455555555444332     2368999998888754   233       67777777665432    


Q ss_pred             -cCccCHHHHHhhh
Q 021937          250 -SQQITEEAVYLCT  262 (305)
Q Consensus       250 -~~~i~~~~v~~~~  262 (305)
                       .+.++.++|.++.
T Consensus       384 ~~~~i~~~~v~~a~  397 (637)
T PRK13765        384 GAELTTAEHVLEAK  397 (637)
T ss_pred             ccceecHHHHHHHH
Confidence             2347777776665

>smart00350 MCM minichromosome maintenance proteins

Probab=99.18  E-value=5.3e-10  Score=102.26  Aligned_cols=155  Identities=22%  Similarity=0.202  Sum_probs=92.6

Q ss_pred             ccccchHHHHHHHHHHhcCCC------------CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC--hh
Q 021937           54 DVAAHRDIVDTIDRLTSENRL------------PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--ID  119 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~~~------------~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--~~  119 (305)
                      .+.|++..+..+.-.+-++..            .|++|+|+||+|||++++.+++....    ..+.........+  ..
T Consensus       204 ~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r----~~~~~~~~~~~~~l~~~  279 (509)
T smart00350      204 SIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPR----AVYTTGKGSSAVGLTAA  279 (509)
T ss_pred             cccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCc----ceEcCCCCCCcCCcccc
Confidence            566777777766666655421            26999999999999999999987521    1122110011000  00


Q ss_pred             HHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-------------CCceEEEEecCCc----
Q 021937          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFALICNQVN----  182 (305)
Q Consensus       120 ~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-------------~~~~iil~~~~~~----  182 (305)
                      ..+...... .....+.-..+..++++|||++.+....+..|+..+++..             ....+|.++|...    
T Consensus       280 ~~~~~~~g~-~~~~~G~l~~A~~Gil~iDEi~~l~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~g~y~  358 (509)
T smart00350      280 VTRDPETRE-FTLEGGALVLADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIGGRYD  358 (509)
T ss_pred             ceEccCcce-EEecCccEEecCCCEEEEechhhCCHHHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCCcccC
Confidence            000000000 0000001123456899999999999999999999998532             4556777776432    


Q ss_pred             ---------ccchhhhcce-eE-EEecCCCHHHHHHHHHHHH
Q 021937          183 ---------KIIPALQSRC-TR-FRFAPLEPVHVTERLKHVI  213 (305)
Q Consensus       183 ---------~l~~~l~~r~-~~-i~~~~~~~~~~~~~l~~~~  213 (305)
                               .+++++.+|| .. +....++.+.-.++..+.+
T Consensus       359 ~~~~~~~n~~l~~~lLsRFdLi~~~~d~~~~~~d~~i~~~i~  400 (509)
T smart00350      359 PKLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVV  400 (509)
T ss_pred             CCcChhhccCCChHHhCceeeEEEecCCCChHHHHHHHHHHH
Confidence                     5788999999 33 3445666666556655543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.15  E-value=1.6e-08  Score=99.65  Aligned_cols=188  Identities=15%  Similarity=0.185  Sum_probs=119.1

Q ss_pred             CCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHH
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (305)
                      .|.....++-++...+.|...   ...+..+|+||+|.||||++..++...   + ...++.++..+..........+..
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            355567788888887777532   344558999999999999999988653   2 344555554443221111111111


Q ss_pred             hhhccc------------c--c------------CCCCCceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecC
Q 021937          128 FASTQS------------F--S------------FGVKASVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       128 ~~~~~~------------~--~------------~~~~~~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +.....            .  .            ......+.+|+|||+|.+.... ...+..++...+.+..+|+++..
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            0  0            0011457899999999998554 44677777777878888888755


Q ss_pred             Cccc-chhhhcceeEEEec----CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q 021937          181 VNKI-IPALQSRCTRFRFA----PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQS  245 (305)
Q Consensus       181 ~~~l-~~~l~~r~~~i~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~  245 (305)
                      ...+ ...+.-+...+.+.    +++.+|..+++....   |..++++.+..|++.|+|+|-.+.-....
T Consensus       162 ~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~---~~~~~~~~~~~l~~~t~Gwp~~l~l~~~~  228 (903)
T PRK04841        162 LPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRL---SSPIEAAESSRLCDDVEGWATALQLIALS  228 (903)
T ss_pred             CCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhcc---CCCCCHHHHHHHHHHhCChHHHHHHHHHH
Confidence            3322 22333233334444    889999999886543   67789999999999999999776544433

>PRK08116 hypothetical protein; Validated

Probab=99.14  E-value=1e-09  Score=91.93  Aligned_cols=152  Identities=16%  Similarity=0.190  Sum_probs=85.1

Q ss_pred             hcCCCCccccccch---HHHHHHHHHHhc---C--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC
Q 021937           46 KYRPQSLADVAAHR---DIVDTIDRLTSE---N--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (305)
Q Consensus        46 ~~~p~~~~~~~g~~---~~~~~l~~~l~~---~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (305)
                      ++...+|+++...+   ..+.....++..   .  ....++|+|++|+|||+|+.++++.+...+..  ++.++....  
T Consensus        78 ~~~~~tFdnf~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~--v~~~~~~~l--  153 (268)
T PRK08116         78 KFRNSTFENFLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGVP--VIFVNFPQL--  153 (268)
T ss_pred             HHHhcchhcccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCe--EEEEEHHHH--
Confidence            44445677665432   234444444442   1  22349999999999999999999998765443  333332110  


Q ss_pred             hhHHHHHHHHhhhcc--cccCCCCCceEEEEEeCC--CcCCHHHHHHHHHHHHHhc-CCceEEEEecCCcc-----cchh
Q 021937          118 IDVVRQQIQDFASTQ--SFSFGVKASVKLVLLDEA--DAMTKDAQFALRRVIEKYT-KNTRFALICNQVNK-----IIPA  187 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~--~~~~~~~~~~~vliiDe~--~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~~~-----l~~~  187 (305)
                      ...+...+.......  .+.. .-....+|+|||+  +......+..|+.+++... ....+|++||....     +...
T Consensus       154 l~~i~~~~~~~~~~~~~~~~~-~l~~~dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~~~eL~~~~~~r  232 (268)
T PRK08116        154 LNRIKSTYKSSGKEDENEIIR-SLVNADLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLSLEELKNQYGKR  232 (268)
T ss_pred             HHHHHHHHhccccccHHHHHH-HhcCCCEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHhHH
Confidence            111111110000000  0000 0012579999999  5556667888999998643 45678888875532     3445


Q ss_pred             hhcc----eeEEEecCCCH
Q 021937          188 LQSR----CTRFRFAPLEP  202 (305)
Q Consensus       188 l~~r----~~~i~~~~~~~  202 (305)
                      +.+|    +..+.+..++.
T Consensus       233 i~sRl~e~~~~v~~~g~d~  251 (268)
T PRK08116        233 IYDRILEMCTPVENEGKSY  251 (268)
T ss_pred             HHHHHHHcCEEEEeeCcCh
Confidence            6666    56677766664

>PF13173 AAA_14: AAA domain

Probab=99.12  E-value=9.7e-10  Score=81.83  Aligned_cols=120  Identities=24%  Similarity=0.349  Sum_probs=75.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHH-HHHHHhhhcccccCCCCCceEEEEEeCCCcC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR-QQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l  153 (305)
                      +.++|+||.|+||||+++.+++.+.   ....++.++..+........ +....+...  .    ..+..+|+|||++.+
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~--~----~~~~~~i~iDEiq~~   73 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPDLLEYFLEL--I----KPGKKYIFIDEIQYL   73 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhhhHHHHHHh--h----ccCCcEEEEehhhhh
Confidence            4589999999999999999998874   12345555544422211100 011111111  0    013689999999999


Q ss_pred             CHHHHHHHHHHHHHhcCCceEEEEecCCcc----cchhhhcceeEEEecCCCHHHH
Q 021937          154 TKDAQFALRRVIEKYTKNTRFALICNQVNK----IIPALQSRCTRFRFAPLEPVHV  205 (305)
Q Consensus       154 ~~~~~~~l~~~l~~~~~~~~iil~~~~~~~----l~~~l~~r~~~i~~~~~~~~~~  205 (305)
                      . +-...+-.+.+.. .+..++++++....    ....+..|...+++.|++.+|.
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            7 3344444455544 46788888754433    3456777888899999998774

>PRK08181 transposase; Validated

Probab=99.11  E-value=6.2e-10  Score=92.78  Aligned_cols=105  Identities=20%  Similarity=0.280  Sum_probs=65.0

Q ss_pred             HHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccccc--CCCCCceEE
Q 021937           67 RLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS--FGVKASVKL  144 (305)
Q Consensus        67 ~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--~~~~~~~~v  144 (305)
                      .++..  ..+++|+||+|+|||+++.++++.+...++...++..        ..+...+..........  ...-.+..+
T Consensus       101 ~~~~~--~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~--------~~L~~~l~~a~~~~~~~~~l~~l~~~dL  170 (269)
T PRK08181        101 SWLAK--GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT--------TDLVQKLQVARRELQLESAIAKLDKFDL  170 (269)
T ss_pred             HHHhc--CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeH--------HHHHHHHHHHHhCCcHHHHHHHHhcCCE
Confidence            45553  3469999999999999999999988666655444432        11222121111000000  000012589


Q ss_pred             EEEeCCCcCC--HHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          145 VLLDEADAMT--KDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       145 liiDe~~~l~--~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      |+|||++...  ......|+++++....+..+|+++|..
T Consensus       171 LIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        171 LILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             EEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            9999998775  345678999998765556788888654

>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=99.10  E-value=9.9e-10  Score=79.57  Aligned_cols=111  Identities=26%  Similarity=0.267  Sum_probs=56.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHH-HH-hhhcccccCCCCCceEEEEEeCCCcC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI-QD-FASTQSFSFGVKASVKLVLLDEADAM  153 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i-~~-~~~~~~~~~~~~~~~~vliiDe~~~l  153 (305)
                      |++|+|+||+|||++|+++++.+     ...+..+.........++...- .+ ......+..+ .--..++++||+++.
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~-----~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~G-Pif~~ill~DEiNra   74 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSL-----GLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPG-PIFTNILLADEINRA   74 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHT-----T--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE--TT-SSEEEEETGGGS
T ss_pred             CEeeECCCccHHHHHHHHHHHHc-----CCceeEEEecCCCCcccceeeeeeccCCCeeEeecC-hhhhceeeecccccC
Confidence            68999999999999999999997     3445555544322222221100 00 0000000000 011359999999999


Q ss_pred             CHHHHHHHHHHHHHhc----------CCceEEEEe-cCCc-----ccchhhhcce
Q 021937          154 TKDAQFALRRVIEKYT----------KNTRFALIC-NQVN-----KIIPALQSRC  192 (305)
Q Consensus       154 ~~~~~~~l~~~l~~~~----------~~~~iil~~-~~~~-----~l~~~l~~r~  192 (305)
                      ++..|.+|++.+++..          ++..++++| |..+     .+++++.+||
T Consensus        75 ppktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~DRF  129 (131)
T PF07726_consen   75 PPKTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLDRF  129 (131)
T ss_dssp             -HHHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHTTS
T ss_pred             CHHHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhccc
Confidence            9999999999999742          222344444 5433     4667777775

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.

>PRK07952 DNA replication protein DnaC; Validated

Probab=99.10  E-value=6.3e-10  Score=91.37  Aligned_cols=129  Identities=16%  Similarity=0.259  Sum_probs=77.8

Q ss_pred             hhhcCCCCcccccc----chHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC
Q 021937           44 VEKYRPQSLADVAA----HRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (305)
Q Consensus        44 ~~~~~p~~~~~~~g----~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (305)
                      +..+.+.+|+++..    +...+..+..++....  ..+++|+|++|+|||+++.++++.+...+....++.+  .    
T Consensus        63 ~~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~--~----  136 (244)
T PRK07952         63 RPLHQNCSFENYRVECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITV--A----  136 (244)
T ss_pred             CccccCCccccccCCCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEH--H----
Confidence            45566677887763    3445666666665422  2469999999999999999999998766554433322  1    


Q ss_pred             hhHHHHHHHHhhhcc--c---ccCCCCCceEEEEEeCCCcCCHH--HHHHHHHHHHHhc-CCceEEEEecCC
Q 021937          118 IDVVRQQIQDFASTQ--S---FSFGVKASVKLVLLDEADAMTKD--AQFALRRVIEKYT-KNTRFALICNQV  181 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~--~---~~~~~~~~~~vliiDe~~~l~~~--~~~~l~~~l~~~~-~~~~iil~~~~~  181 (305)
                        .+...+.......  .   +.. .-....+|+|||++.....  ....|+.+++... ....+|++||..
T Consensus       137 --~l~~~l~~~~~~~~~~~~~~l~-~l~~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl~  205 (244)
T PRK07952        137 --DIMSAMKDTFSNSETSEEQLLN-DLSNVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNSN  205 (244)
T ss_pred             --HHHHHHHHHHhhccccHHHHHH-HhccCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCCC
Confidence              1111111110000  0   000 0123689999999876533  4557888888644 366777888754

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=99.09  E-value=4.5e-10  Score=84.83  Aligned_cols=125  Identities=18%  Similarity=0.249  Sum_probs=78.9

Q ss_pred             ccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccc
Q 021937           56 AAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS  133 (305)
Q Consensus        56 ~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  133 (305)
                      +|....++.+++.+..  ....+++|+|++|+||+++|+.+...-..  ....++.+++....     .+.+...     
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            4666666766666654  22344999999999999999999886422  22234444444321     1222221     


Q ss_pred             ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-cCCceEEEEecCC-c------ccchhhhcce--eEEEecC
Q 021937          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-TKNTRFALICNQV-N------KIIPALQSRC--TRFRFAP  199 (305)
Q Consensus       134 ~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-~~~~~iil~~~~~-~------~l~~~l~~r~--~~i~~~~  199 (305)
                             ..+.++|+|++.++.+.+..|.++++.. ..+.++|+++... .      .+.+.+..++  ..+.+||
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                   2589999999999999999999999865 4577888887432 2      3456666665  4566655

>TIGR00368 Mg chelatase-related protein

Probab=99.09  E-value=3.9e-09  Score=95.51  Aligned_cols=151  Identities=20%  Similarity=0.197  Sum_probs=93.1

Q ss_pred             CCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc-C-----------
Q 021937           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-G-----------  117 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~-~-----------  117 (305)
                      ..|.++.|+...++.+...+.++  .+++|.||+|+|||++++.+...+.... ....++....... +           
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa~~g--~~vlliG~pGsGKTtlar~l~~llp~~~-~~~~le~~~i~s~~g~~~~~~~~~~~  265 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAAAGG--HNLLLFGPPGSGKTMLASRLQGILPPLT-NEEAIETARIWSLVGKLIDRKQIKQR  265 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhccCC--CEEEEEecCCCCHHHHHHHHhcccCCCC-CcEEEeccccccchhhhccccccccC
Confidence            37899999999988888777554  5699999999999999999987652211 1111111110000 0           


Q ss_pred             -hh------HHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-------------cCCceEEEE
Q 021937          118 -ID------VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALI  177 (305)
Q Consensus       118 -~~------~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~iil~  177 (305)
                       ..      .....+... .......-..++++++||||++.+++..++.|++.++..             +.+..+|.+
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 PFRSPHHSASKPALVGGG-PIPLPGEISLAHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAA  344 (499)
T ss_pred             CccccccccchhhhhCCc-cccchhhhhccCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEe
Confidence             00      000000000 000000112355789999999999999999999999864             245667777


Q ss_pred             ecCC-----------------------cccchhhhcce-eEEEecCCCHHH
Q 021937          178 CNQV-----------------------NKIIPALQSRC-TRFRFAPLEPVH  204 (305)
Q Consensus       178 ~~~~-----------------------~~l~~~l~~r~-~~i~~~~~~~~~  204 (305)
                      +|..                       .++...+.+|+ ..+.+++++..+
T Consensus       345 ~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllDR~dl~~~~~~~~~~~  395 (499)
T TIGR00368       345 MNPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLDRIDLSVEVPLLPPEK  395 (499)
T ss_pred             cCCcccCcCCCCcccccCCHHHHHHHhhhccHhHHhhCCEEEEEcCCCHHH
Confidence            6542                       14667778888 557777775543

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.08  E-value=1e-08  Score=92.83  Aligned_cols=203  Identities=15%  Similarity=0.162  Sum_probs=125.3

Q ss_pred             cccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcc
Q 021937           55 VAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ  132 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  132 (305)
                      ++|.......+...+..  .....++++|.+|+||+++++.+.....  .....++.++|.... ...+...+.......
T Consensus       141 lig~s~~~~~~~~~i~~~~~~~~~vli~ge~g~gk~~~a~~ih~~s~--~~~~~~i~~~c~~~~-~~~~~~~lfg~~~~~  217 (441)
T PRK10365        141 MVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKELVARAIHASSA--RSEKPLVTLNCAALN-ESLLESELFGHEKGA  217 (441)
T ss_pred             eEecCHHHHHHHHHHhhccCCCCeEEEEecCCCCHHHHHHHHHHcCC--CCCCCeeeeeCCCCC-HHHHHHHhcCCCCCC
Confidence            44544444444333322  2223489999999999999999987642  234578888888642 233333221111000


Q ss_pred             -------cccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------ccchh
Q 021937          133 -------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KIIPA  187 (305)
Q Consensus       133 -------~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~~-------~l~~~  187 (305)
                             ....-..+.+++|+|||++.++...+..|+.+++...           .++++|++++...       .+.+.
T Consensus       218 ~~~~~~~~~g~~~~a~~gtl~ldei~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~~~~~~~~~~~~~~  297 (441)
T PRK10365        218 FTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQD  297 (441)
T ss_pred             cCCCCcCCCCceeECCCCEEEEeccccCCHHHHHHHHHHHccCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCchHH
Confidence                   0011133457899999999999999999999998642           1345666664321       23445


Q ss_pred             hhccee--EEEecCCCH--HHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc--Ccc
Q 021937          188 LQSRCT--RFRFAPLEP--VHVTERLKHVIE----AEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQI  253 (305)
Q Consensus       188 l~~r~~--~i~~~~~~~--~~~~~~l~~~~~----~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~--~~i  253 (305)
                      +..++.  .+.++|+..  +++..++...+.    +.+   ..+++++++.+..+. +||+|.+.+.++.++...  ..|
T Consensus       298 l~~~l~~~~i~~ppLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgN~reL~~~~~~~~~~~~~~~i  377 (441)
T PRK10365        298 LYYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEYI  377 (441)
T ss_pred             HHHHhccceecCCChhhcchhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCCcc
Confidence            555553  455555543  244444443333    223   248999999999877 999999999999877643  357


Q ss_pred             CHHHHHh
Q 021937          254 TEEAVYL  260 (305)
Q Consensus       254 ~~~~v~~  260 (305)
                      +.+++..
T Consensus       378 ~~~~l~~  384 (441)
T PRK10365        378 SERELPL  384 (441)
T ss_pred             chHhCch
Confidence            7777653

>PF05729 NACHT: NACHT domain

Probab=99.07  E-value=2.9e-09  Score=82.90  Aligned_cols=139  Identities=14%  Similarity=0.188  Sum_probs=82.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcc----cEEEeecCCCcCh---hHHHHHHHHhhhccccc-------CCCCCc
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHN----MILELNASDDRGI---DVVRQQIQDFASTQSFS-------FGVKAS  141 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~----~~~~~~~~~~~~~---~~~~~~i~~~~~~~~~~-------~~~~~~  141 (305)
                      .++|+|++|+|||++++.++..+.......    .++.+........   ..+.+.+..........       .....+
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   81 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNK   81 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCC
Confidence            378999999999999999999886554322    2223333222111   12333332221111000       012345


Q ss_pred             eEEEEEeCCCcCCHHHH--------HHHHHHHHH-hcCCceEEEEecCCcc-cchhhhcceeEEEecCCCHHHHHHHHHH
Q 021937          142 VKLVLLDEADAMTKDAQ--------FALRRVIEK-YTKNTRFALICNQVNK-IIPALQSRCTRFRFAPLEPVHVTERLKH  211 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~~--------~~l~~~l~~-~~~~~~iil~~~~~~~-l~~~l~~r~~~i~~~~~~~~~~~~~l~~  211 (305)
                      ..+++||.+|.+.....        ..|..++.. .+.+.+++++++.... -..........+.+.+++.+++.+++.+
T Consensus        82 ~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  161 (166)
T PF05729_consen   82 RVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLRK  161 (166)
T ss_pred             ceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHHH
Confidence            78999999999876332        245555554 4557888888765432 1222222236789999999999999988


Q ss_pred             HHH
Q 021937          212 VIE  214 (305)
Q Consensus       212 ~~~  214 (305)
                      +++
T Consensus       162 ~f~  164 (166)
T PF05729_consen  162 YFS  164 (166)
T ss_pred             Hhh
Confidence            764

>PRK06526 transposase; Provisional

Probab=99.07  E-value=4.7e-10  Score=93.02  Aligned_cols=122  Identities=13%  Similarity=0.164  Sum_probs=72.6

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccccc--CCCCCceEEEEEeCCC
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS--FGVKASVKLVLLDEAD  151 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--~~~~~~~~vliiDe~~  151 (305)
                      ..+++|+||+|+|||+++.+++.++...++...+....        .+...+..........  ...-.+..+|||||++
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            35699999999999999999999886655554332211        1111111110000000  0001235899999999


Q ss_pred             cCC--HHHHHHHHHHHHHhcCCceEEEEecCCcc--------------cchhhhcceeEEEecCCCHH
Q 021937          152 AMT--KDAQFALRRVIEKYTKNTRFALICNQVNK--------------IIPALQSRCTRFRFAPLEPV  203 (305)
Q Consensus       152 ~l~--~~~~~~l~~~l~~~~~~~~iil~~~~~~~--------------l~~~l~~r~~~i~~~~~~~~  203 (305)
                      ...  ....+.|+.+++....+..+|+++|....              +.+.+...+.++.|...+..
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            875  56677899999865545678888865432              12333334566777665544

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=99.05  E-value=5.6e-09  Score=85.69  Aligned_cols=175  Identities=18%  Similarity=0.239  Sum_probs=111.5

Q ss_pred             ccccchHHHHHHHHHHh----cCCC--Ce-EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee-----cCCCcChhHH
Q 021937           54 DVAAHRDIVDTIDRLTS----ENRL--PH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN-----ASDDRGIDVV  121 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~----~~~~--~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~-----~~~~~~~~~~  121 (305)
                      .+.||.-+.+.+.+.++    ...+  |. +-++|++||||+..++.+++.+...+....++..-     .+....++..
T Consensus        83 ~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~Y  162 (344)
T KOG2170|consen   83 ALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIEDY  162 (344)
T ss_pred             HhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHHH
Confidence            36676666665555544    3322  22 67999999999999999999998877666655433     3333334444


Q ss_pred             HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-------CCceEEEEecCCcccch--------
Q 021937          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------KNTRFALICNQVNKIIP--------  186 (305)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-------~~~~iil~~~~~~~l~~--------  186 (305)
                      +..+........    ..+.+.+.|+||+|+|.+...+.|-..++.++       .+..+|+.+|.......        
T Consensus       163 k~eL~~~v~~~v----~~C~rslFIFDE~DKmp~gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~gg~eI~~~aL~~~~  238 (344)
T KOG2170|consen  163 KEELKNRVRGTV----QACQRSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNAGGSEIARIALENAR  238 (344)
T ss_pred             HHHHHHHHHHHH----HhcCCceEEechhhhcCHhHHHHHhhhhccccccccccccceEEEEEcCCcchHHHHHHHHHHH
Confidence            444433322211    24557999999999999999888888888543       35678888753321111        


Q ss_pred             ---------------hhh-------------cc------e-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 021937          187 ---------------ALQ-------------SR------C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL  231 (305)
Q Consensus       187 ---------------~l~-------------~r------~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~  231 (305)
                                     .+.             ++      . ..+.|-|++...+...++....+.|.-.+.+.++.+++.
T Consensus       239 ~g~~re~~~l~~~E~~L~~~~~n~~~~Gl~~S~li~~~lid~fIPFLPLek~hV~~C~r~el~~rg~~~d~~~~erva~~  318 (344)
T KOG2170|consen  239 NGKPREQLRLKSFEPALMQSAFNEKAGGLVHSRLISNNLIDHFIPFLPLEKRHVRSCIRAELRKRGLAPDQDFVERVANS  318 (344)
T ss_pred             cCCCcccchhhhhhHHHHHhhhccccccccccccchhhHHhhccCcCcccHHHHHHHHHHHHHhcccccchHHHHHHHHh
Confidence                           110             00      0 236677777777777777777777776677777777664


Q ss_pred             c
Q 021937          232 C  232 (305)
Q Consensus       232 ~  232 (305)
                      .
T Consensus       319 l  319 (344)
T KOG2170|consen  319 L  319 (344)
T ss_pred             h
Confidence            3

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.04  E-value=1e-08  Score=84.85  Aligned_cols=167  Identities=22%  Similarity=0.337  Sum_probs=100.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~  150 (305)
                      +++++.||+|+|||.||+.+|+.+     ..+|...++.....    -+++...+..+.+...+.- .++.+++|+|||+
T Consensus        98 SNILLiGPTGsGKTlLAqTLAk~L-----nVPFaiADATtLTEAGYVGEDVENillkLlqaadydV-~rAerGIIyIDEI  171 (408)
T COG1219          98 SNILLIGPTGSGKTLLAQTLAKIL-----NVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDV-ERAERGIIYIDEI  171 (408)
T ss_pred             ccEEEECCCCCcHHHHHHHHHHHh-----CCCeeeccccchhhccccchhHHHHHHHHHHHcccCH-HHHhCCeEEEech
Confidence            459999999999999999999998     44444444433211    1233333333333332221 3445789999999


Q ss_pred             CcCCH--------------HHHHHHHHHHHHh----cC---------------CceEEEEec------------------
Q 021937          151 DAMTK--------------DAQFALRRVIEKY----TK---------------NTRFALICN------------------  179 (305)
Q Consensus       151 ~~l~~--------------~~~~~l~~~l~~~----~~---------------~~~iil~~~------------------  179 (305)
                      |++..              ..|++|+++++..    |+               ...++|++-                  
T Consensus       172 DKIarkSeN~SITRDVSGEGVQQALLKiiEGTvasVPPqGGRKHP~Qe~iqvDT~NILFIcgGAF~GlekiI~~R~~~~~  251 (408)
T COG1219         172 DKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKHPQQEFIQVDTSNILFICGGAFAGLEKIIKKRLGKKG  251 (408)
T ss_pred             hhhhccCCCCCcccccCchHHHHHHHHHHcCceeccCCCCCCCCCccceEEEcccceeEEeccccccHHHHHHHhccCCc
Confidence            99953              3589999999942    10               112333320                  


Q ss_pred             ------C----------------------Ccccchhhhcce-eEEEecCCCHHHHHHHHHH-----------HHHHcCC-
Q 021937          180 ------Q----------------------VNKIIPALQSRC-TRFRFAPLEPVHVTERLKH-----------VIEAEGL-  218 (305)
Q Consensus       180 ------~----------------------~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~-----------~~~~~~~-  218 (305)
                            .                      ...+.|.+..|+ .+..+.+++.+.+.+++..           .+...++ 
T Consensus       252 iGF~a~~~~~~~~~~~~~~l~~vepeDLvkFGLIPEfIGRlPvia~L~~Lde~aLv~ILtePkNAlvKQYq~Lf~~d~V~  331 (408)
T COG1219         252 IGFGAEVKSKSKKKEEGELLKQVEPEDLVKFGLIPEFIGRLPVIATLEELDEDALVQILTEPKNALVKQYQKLFEMDGVE  331 (408)
T ss_pred             ccccccccchhhhhhHHHHHHhcChHHHHHcCCcHHHhcccceeeehhhcCHHHHHHHHhcccHHHHHHHHHHhcccCce
Confidence                  0                      012345666666 4567889999998877743           1222233 


Q ss_pred             -CCCHHHHHHHHHHc---CCCHHHHHHHHHHHh
Q 021937          219 -DVTEGGLAALVRLC---NGDMRKALNILQSTH  247 (305)
Q Consensus       219 -~~~~~~~~~l~~~~---~g~~r~~~~~l~~~~  247 (305)
                       .++++++..|++.+   .--.|-+...++.+.
T Consensus       332 L~F~~~AL~~IA~~A~~rkTGARGLRsI~E~~l  364 (408)
T COG1219         332 LEFTEEALKAIAKKAIERKTGARGLRSIIEELL  364 (408)
T ss_pred             EEEcHHHHHHHHHHHHHhccchhHHHHHHHHHH
Confidence             57899999998765   122454555554443

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

Probab=99.03  E-value=5e-08  Score=78.61  Aligned_cols=185  Identities=18%  Similarity=0.239  Sum_probs=117.0

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccccc--
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS--  135 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--  135 (305)
                      +.+.+..+...+..+. ..+.++|+.|+|||.+.+++...+...  ....+.++.........+...+.++...+...  
T Consensus        36 h~e~l~~l~~~i~d~q-g~~~vtGevGsGKTv~~Ral~~s~~~d--~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~  112 (269)
T COG3267          36 HNEALLMLHAAIADGQ-GILAVTGEVGSGKTVLRRALLASLNED--QVAVVVIDKPTLSDATLLEAIVADLESQPKVNVN  112 (269)
T ss_pred             hhHHHHHHHHHHhcCC-ceEEEEecCCCchhHHHHHHHHhcCCC--ceEEEEecCcchhHHHHHHHHHHHhccCccchhH
Confidence            4455556666665553 247899999999999999777766432  23334444444322222222222222211000  


Q ss_pred             -------------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHH---HhcCCceEEEEecCC-c-----ccchhhhccee
Q 021937          136 -------------FGVKASVKLVLLDEADAMTKDAQFALRRVIE---KYTKNTRFALICNQV-N-----KIIPALQSRCT  193 (305)
Q Consensus       136 -------------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~---~~~~~~~iil~~~~~-~-----~l~~~l~~r~~  193 (305)
                                   .....++-++++||+|.+..+..+.|..+.+   +......+++++... .     .....+..|+.
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                         0011334799999999999888777666655   333334455555221 1     12345566786


Q ss_pred             E-EEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHHH
Q 021937          194 R-FRFAPLEPVHVTERLKHVIEAEGL---DVTEGGLAALVRLCNGDMRKALNILQS  245 (305)
Q Consensus       194 ~-i~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~g~~r~~~~~l~~  245 (305)
                      . +.++|++.++...+++.+++..+.   -++++++..++..+.|-||.+-+.+..
T Consensus       193 ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         193 IRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             EEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            6 999999999999999999987754   368899999999999977766666543

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.01  E-value=1.9e-08  Score=83.90  Aligned_cols=133  Identities=22%  Similarity=0.334  Sum_probs=87.7

Q ss_pred             CceEEEEEeCCCcCCHH------------HHHHHHHHHHHhcC--------CceEEEEe------cCCcccchhhhcce-
Q 021937          140 ASVKLVLLDEADAMTKD------------AQFALRRVIEKYTK--------NTRFALIC------NQVNKIIPALQSRC-  192 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~------------~~~~l~~~l~~~~~--------~~~iil~~------~~~~~l~~~l~~r~-  192 (305)
                      ...++|||||+|++...            .|.-|+.+++...-        .-.++|++      ..++.+.|.|..|+ 
T Consensus       249 E~~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQGRfP  328 (444)
T COG1220         249 EQNGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQGRFP  328 (444)
T ss_pred             HhcCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhcCCCc
Confidence            34559999999998432            35568888874321        11233333      56778999999998 


Q ss_pred             eEEEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc---C-----CCHHHHHHHHHHHhh---
Q 021937          193 TRFRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLC---N-----GDMRKALNILQSTHM---  248 (305)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~~~~l~~~~---~-----g~~r~~~~~l~~~~~---  248 (305)
                      -.+.+.+++.+++..++..           .+..+++  .++++++..|++.+   +     =-.|++...++.+..   
T Consensus       329 IRVEL~~Lt~~Df~rILtep~~sLikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhTvlErlLediS  408 (444)
T COG1220         329 IRVELDALTKEDFERILTEPKASLIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERLLEDIS  408 (444)
T ss_pred             eEEEcccCCHHHHHHHHcCcchHHHHHHHHHHhhcCeeEEecHHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhC
Confidence            6699999999998877632           2233444  57999999999765   1     237888888766553   


Q ss_pred             -cc-------CccCHHHHHhhhCCC-ChhhHHH
Q 021937          249 -AS-------QQITEEAVYLCTGNP-LPKDIEQ  272 (305)
Q Consensus       249 -~~-------~~i~~~~v~~~~~~~-~~~~~~~  272 (305)
                       .+       -.|+.+.|++.++.. .+.+++.
T Consensus       409 FeA~d~~g~~v~Id~~yV~~~l~~l~~n~DLsr  441 (444)
T COG1220         409 FEAPDMSGQKVTIDAEYVEEKLGDLVANEDLSR  441 (444)
T ss_pred             ccCCcCCCCeEEEcHHHHHHHHHHHhcccchhh
Confidence             11       128888888777432 3334443

>PF14516 AAA_35: AAA-like domain

Probab=99.01  E-value=3e-07  Score=79.70  Aligned_cols=231  Identities=13%  Similarity=0.171  Sum_probs=136.2

Q ss_pred             cccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc---ChhHHHH-HHHHhhh
Q 021937           55 VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---GIDVVRQ-QIQDFAS  130 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~-~i~~~~~  130 (305)
                      ++.++.+-+.+.+.+... +..+.|.||..+|||+++..+.+.+...++...++.+......   ..+.... .......
T Consensus        13 Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~   91 (331)
T PF14516_consen   13 YIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISR   91 (331)
T ss_pred             ccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHH
Confidence            566776666666666552 2458999999999999999999999877776666666554321   2222111 1111111


Q ss_pred             ccccc-------------------------CCCCCceEEEEEeCCCcCCH--HHHHHHHHHHHH----hc-----CCceE
Q 021937          131 TQSFS-------------------------FGVKASVKLVLLDEADAMTK--DAQFALRRVIEK----YT-----KNTRF  174 (305)
Q Consensus       131 ~~~~~-------------------------~~~~~~~~vliiDe~~~l~~--~~~~~l~~~l~~----~~-----~~~~i  174 (305)
                      .....                         .....++-||+|||+|.+..  .....|+..+..    ..     .+..+
T Consensus        92 ~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L~l  171 (331)
T PF14516_consen   92 QLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKLRL  171 (331)
T ss_pred             HcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceEEE
Confidence            11000                         01125678999999999875  333445555442    11     23445


Q ss_pred             EEEecCCcccchhhh----cceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc
Q 021937          175 ALICNQVNKIIPALQ----SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS  250 (305)
Q Consensus       175 il~~~~~~~l~~~l~----~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~  250 (305)
                      +++............    +-+..+.+++++.+|+..+++.+    +..++...++.|...++|.|--....|..++.  
T Consensus       172 i~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~----~~~~~~~~~~~l~~~tgGhP~Lv~~~~~~l~~--  245 (331)
T PF14516_consen  172 ILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRY----GLEFSQEQLEQLMDWTGGHPYLVQKACYLLVE--  245 (331)
T ss_pred             EEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhh----hccCCHHHHHHHHHHHCCCHHHHHHHHHHHHH--
Confidence            555432222222211    22456899999999998877655    67788888999999999999777777776665  


Q ss_pred             CccCHHHHH-hhhCC--CChhhHHHHHHHHHcccHHHHHHHHHHHHH
Q 021937          251 QQITEEAVY-LCTGN--PLPKDIEQISYWLLNESFADSFKRIQNLSF  294 (305)
Q Consensus       251 ~~i~~~~v~-~~~~~--~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~  294 (305)
                      +.++.+.+- ++...  .....+..+...+. .+ .+....++.+..
T Consensus       246 ~~~~~~~l~~~a~~~~~~~~~hL~~l~~~L~-~~-~~L~~~~~~il~  290 (331)
T PF14516_consen  246 EQITLEQLLEEAITDNGIYNDHLDRLLDRLQ-QN-PELLEAYQQILF  290 (331)
T ss_pred             ccCcHHHHHHHHHHhcccHHHHHHHHHHHHc-cC-HHHHHHHHHHHh
Confidence            344444332 22211  22335555555552 22 355555555544

>PRK06921 hypothetical protein; Provisional

Probab=99.00  E-value=3.5e-09  Score=88.59  Aligned_cols=100  Identities=15%  Similarity=0.194  Sum_probs=60.0

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCC-CCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCc
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA  152 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~  152 (305)
                      ..+++|+|++|+|||+|+.++++.+... +....++.  ...  ....+...+........    .-....+|+|||++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~--~~~--l~~~l~~~~~~~~~~~~----~~~~~dlLiIDDl~~  188 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP--FVE--GFGDLKDDFDLLEAKLN----RMKKVEVLFIDDLFK  188 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE--HHH--HHHHHHHHHHHHHHHHH----HhcCCCEEEEecccc
Confidence            4569999999999999999999998655 44433333  211  11122221111110000    001258999999944


Q ss_pred             -------CCHHHHHHHHHHHHHhcC-CceEEEEecCC
Q 021937          153 -------MTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (305)
Q Consensus       153 -------l~~~~~~~l~~~l~~~~~-~~~iil~~~~~  181 (305)
                             ...-....|+.+++.... ...+|+++|..
T Consensus       189 ~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~~  225 (266)
T PRK06921        189 PVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSELT  225 (266)
T ss_pred             ccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence                   344456778999986543 45677787654

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=99.00  E-value=2.6e-08  Score=85.95  Aligned_cols=163  Identities=12%  Similarity=0.063  Sum_probs=102.2

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe--------------------
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL--------------------  110 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~--------------------  110 (305)
                      .|..++|++.+...|.-..-.-....++|.|+.|+||||++++++..+.....-. -..+                    
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            3577899999988877665555556699999999999999999999873211000 0000                    


Q ss_pred             --------------ecCCCcChh------HHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh--
Q 021937          111 --------------NASDDRGID------VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY--  168 (305)
Q Consensus       111 --------------~~~~~~~~~------~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~--  168 (305)
                                    +.+.....+      ++...+..-.....++.-.+++++|++|||+..|....+..|++.+...  
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                          111101111      1111222211111222335688999999999999999999999999864  


Q ss_pred             -----------cCCceEEEEecCC-cccchhhhcce-eEEEecCCC-HHHHHHHHHHHHH
Q 021937          169 -----------TKNTRFALICNQV-NKIIPALQSRC-TRFRFAPLE-PVHVTERLKHVIE  214 (305)
Q Consensus       169 -----------~~~~~iil~~~~~-~~l~~~l~~r~-~~i~~~~~~-~~~~~~~l~~~~~  214 (305)
                                 +.+..+|.++|.. ..+-+.|+.|| ..+...++. .++..+++.+...
T Consensus       174 ~vereGisi~hpa~fvligTmNPEeGeLrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r~~~  233 (423)
T COG1239         174 DVEREGISIRHPARFLLIGTMNPEEGELRPQLLDRFGLEVDTHYPLDLEERVEIIRRRLA  233 (423)
T ss_pred             eeeeCceeeccCccEEEEeecCccccccchhhHhhhcceeeccCCCCHHHHHHHHHHHHH
Confidence                       2334444455543 36889999997 555555554 4666666666554

>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=98.99  E-value=6.6e-08  Score=78.94  Aligned_cols=125  Identities=20%  Similarity=0.299  Sum_probs=85.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD  156 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~  156 (305)
                      -.++||+|+|||.+++.+++.+     ...++.+++....+...+.+.+..+...          +..+++||+++++.+
T Consensus        35 ~~~~GpagtGKtetik~La~~l-----G~~~~vfnc~~~~~~~~l~ril~G~~~~----------GaW~cfdefnrl~~~   99 (231)
T PF12774_consen   35 GALSGPAGTGKTETIKDLARAL-----GRFVVVFNCSEQMDYQSLSRILKGLAQS----------GAWLCFDEFNRLSEE   99 (231)
T ss_dssp             EEEESSTTSSHHHHHHHHHHCT-----T--EEEEETTSSS-HHHHHHHHHHHHHH----------T-EEEEETCCCSSHH
T ss_pred             CCCcCCCCCCchhHHHHHHHHh-----CCeEEEecccccccHHHHHHHHHHHhhc----------CchhhhhhhhhhhHH
Confidence            5789999999999999999987     6688899999988888888888777664          579999999999988


Q ss_pred             HHHHHHHHHHH-------h-------------cCCceEEEEec----CCcccchhhhcceeEEEecCCCHHHHHHHHHHH
Q 021937          157 AQFALRRVIEK-------Y-------------TKNTRFALICN----QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHV  212 (305)
Q Consensus       157 ~~~~l~~~l~~-------~-------------~~~~~iil~~~----~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~  212 (305)
                      ....+.+.+..       .             .++..+.++.|    ....+++.++.-++.+.+..|+...+.+++   
T Consensus       100 vLS~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~lFRpvam~~PD~~~I~ei~---  176 (231)
T PF12774_consen  100 VLSVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPENLKALFRPVAMMVPDLSLIAEIL---  176 (231)
T ss_dssp             HHHHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-HHHCTTEEEEE--S--HHHHHHHH---
T ss_pred             HHHHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCHhHHHHhheeEEeCCCHHHHHHHH---
Confidence            76655444432       1             12344555554    235788999999999999999887776655   


Q ss_pred             HHHcCCC
Q 021937          213 IEAEGLD  219 (305)
Q Consensus       213 ~~~~~~~  219 (305)
                      +...|+.
T Consensus       177 L~s~GF~  183 (231)
T PF12774_consen  177 LLSQGFK  183 (231)
T ss_dssp             HHCCCTS
T ss_pred             HHHcCch
Confidence            4455654

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.98  E-value=2.5e-08  Score=85.54  Aligned_cols=92  Identities=11%  Similarity=0.021  Sum_probs=62.9

Q ss_pred             CCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cccchhhhcceeEEEecCC
Q 021937          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKIIPALQSRCTRFRFAPL  200 (305)
Q Consensus       139 ~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~l~~~l~~r~~~i~~~~~  200 (305)
                      +++++++-++|+.+...+.+..|+.++++..           .+..||.++|..       .+..+++.+||..+.++.+
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            4677899999999999999999999998632           123345555544       2567899999988888766


Q ss_pred             CH-HHHHHHHHHHHHHc---CCCCCHHHHHHHHH
Q 021937          201 EP-VHVTERLKHVIEAE---GLDVTEGGLAALVR  230 (305)
Q Consensus       201 ~~-~~~~~~l~~~~~~~---~~~~~~~~~~~l~~  230 (305)
                      .. ++-.++.++.+...   +..+.+..++.++.
T Consensus       314 l~~~~E~~Iy~k~~~~s~~~~~~~aP~~le~aa~  347 (361)
T smart00763      314 LRVSEEAQIYEKLLRNSDLTEAHIAPHTLEMAAL  347 (361)
T ss_pred             CCHHHHHHHHHHHhccCcCcccccCchHHHHHHH
Confidence            54 55566666665533   34455555544443

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.97  E-value=1.6e-09  Score=85.18  Aligned_cols=98  Identities=22%  Similarity=0.334  Sum_probs=59.3

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC-----CCcChhHHHHHHHHhhhcccccCCCCCceEEEEE
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS-----DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLL  147 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vlii  147 (305)
                      ...+++|+||+|+|||+++.++++++...++...++....-     .........+.+..+           .+..+|||
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l-----------~~~dlLil  114 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRL-----------KRVDLLIL  114 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHH-----------HTSSCEEE
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCcc-----------ccccEecc
Confidence            34569999999999999999999988776665555543210     000001111122222           12579999


Q ss_pred             eCCCcCC--HHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          148 DEADAMT--KDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       148 De~~~l~--~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      ||+....  ....+.|+++++....+...|++||..
T Consensus       115 DDlG~~~~~~~~~~~l~~ii~~R~~~~~tIiTSN~~  150 (178)
T PF01695_consen  115 DDLGYEPLSEWEAELLFEIIDERYERKPTIITSNLS  150 (178)
T ss_dssp             ETCTSS---HHHHHCTHHHHHHHHHT-EEEEEESS-
T ss_pred             cccceeeecccccccchhhhhHhhcccCeEeeCCCc
Confidence            9987654  445677899998655456778888754

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=98.97  E-value=2.8e-08  Score=85.51  Aligned_cols=170  Identities=25%  Similarity=0.345  Sum_probs=108.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~  150 (305)
                      .++++.||+|+|||.+++.+|+.+     ..++.-.+|.....    -+++...+..+...+.+.- .++..++++|||+
T Consensus       227 SNvLllGPtGsGKTllaqTLAr~l-----dVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nV-ekAQqGIVflDEv  300 (564)
T KOG0745|consen  227 SNVLLLGPTGSGKTLLAQTLARVL-----DVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNV-EKAQQGIVFLDEV  300 (564)
T ss_pred             ccEEEECCCCCchhHHHHHHHHHh-----CCCeEEecccchhhcccccccHHHHHHHHHHHccCCH-HHHhcCeEEEehh
Confidence            459999999999999999999998     55566556554221    1233444444443333221 3445789999999


Q ss_pred             CcCC--------------HHHHHHHHHHHHHh----c--------C-------CceEEEEec------------------
Q 021937          151 DAMT--------------KDAQFALRRVIEKY----T--------K-------NTRFALICN------------------  179 (305)
Q Consensus       151 ~~l~--------------~~~~~~l~~~l~~~----~--------~-------~~~iil~~~------------------  179 (305)
                      |++.              +..|+.|+++++..    +        .       ...|++++.                  
T Consensus       301 DKi~~~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ldk~I~rR~~d~s  380 (564)
T KOG0745|consen  301 DKITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKIISRRLDDKS  380 (564)
T ss_pred             hhhcccCccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEEecccccchHHHHHHhhcchh
Confidence            9985              23588999999831    1        0       112333320                  


Q ss_pred             -----C----------C-------------------------cccchhhhcce-eEEEecCCCHHHHHHHHHH-------
Q 021937          180 -----Q----------V-------------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKH-------  211 (305)
Q Consensus       180 -----~----------~-------------------------~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~-------  211 (305)
                           .          .                         .-+.|.+.-|+ .++.|.+++.+++..++..       
T Consensus       381 lGFg~~s~~~vr~~~~~~s~~~~~~~~~~~lL~~~~~~DLisfGmIPEfVGRfPVlVplh~L~~~~Lv~VLtEPknaL~~  460 (564)
T KOG0745|consen  381 LGFGAPSSKGVRANMATKSGVENDAEKRDELLEKVESGDLISFGMIPEFVGRFPVLVPLHSLDEDQLVRVLTEPKNALGK  460 (564)
T ss_pred             cccCCCCCccchhhcccccCcchhHHHHHHHHhhccccchhhhcCcHHHhcccceEeeccccCHHHHHHHHhcchhhHHH
Confidence                 0          0                         01245666676 5588999999998877643       


Q ss_pred             ----HHHHcCC--CCCHHHHHHHHHHc---CCCHHHHHHHHHHHhhcc
Q 021937          212 ----VIEAEGL--DVTEGGLAALVRLC---NGDMRKALNILQSTHMAS  250 (305)
Q Consensus       212 ----~~~~~~~--~~~~~~~~~l~~~~---~g~~r~~~~~l~~~~~~~  250 (305)
                          .+...++  .+++++++.|++.+   +--.|.+..+++++...+
T Consensus       461 Qyk~lf~~~nV~L~fTe~Al~~IAq~Al~r~TGARgLRsIlE~~Llea  508 (564)
T KOG0745|consen  461 QYKKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILESLLLEA  508 (564)
T ss_pred             HHHHHhccCCeeEEecHHHHHHHHHHHHhhccchHHHHHHHHHHHhhh
Confidence                1112233  57899999999876   334777777887777643

>PLN03210 Resistant to P

Probab=98.96  E-value=2.3e-08  Score=100.33  Aligned_cols=191  Identities=12%  Similarity=0.087  Sum_probs=110.8

Q ss_pred             CCCccccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe---ecCC--C-----c
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL---NASD--D-----R  116 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~---~~~~--~-----~  116 (305)
                      +..+++++|.+..++.+..++.-.  ....+.|+|++|+||||+|+++++.+........++.-   ....  .     .
T Consensus       180 ~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~  259 (1153)
T PLN03210        180 SNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPD  259 (1153)
T ss_pred             CcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhccccccc
Confidence            346788999999999999887633  33348899999999999999999887543222122210   0000  0     0


Q ss_pred             C----hhHHHHHHHHhhhccc--------ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021937          117 G----IDVVRQQIQDFASTQS--------FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (305)
Q Consensus       117 ~----~~~~~~~i~~~~~~~~--------~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l  184 (305)
                      .    .....+.+........        .......++.+|++||++..  .+.+.+....+......+||++|.+...+
T Consensus       260 ~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIiTTrd~~vl  337 (1153)
T PLN03210        260 DYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIVITKDKHFL  337 (1153)
T ss_pred             ccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEEEeCcHHHH
Confidence            0    0001111111111110        00112345779999998753  34445544333334456788888764332


Q ss_pred             chhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHHHHH
Q 021937          185 IPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT--EGGLAALVRLCNGDMRKALNIL  243 (305)
Q Consensus       185 ~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~~~l~~~~~g~~r~~~~~l  243 (305)
                      ...  .-..++.++.++.++..+++...+.+....-+  .+....++++|+|-|-.+.-+-
T Consensus       338 ~~~--~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlg  396 (1153)
T PLN03210        338 RAH--GIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLG  396 (1153)
T ss_pred             Hhc--CCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHH
Confidence            111  01256888899999999999888764432211  2346678899999776554433

syringae 6; Provisional

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.95  E-value=1.2e-07  Score=88.21  Aligned_cols=186  Identities=17%  Similarity=0.204  Sum_probs=122.0

Q ss_pred             cCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHH
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (305)
                      .+|....+.+-++.....|.+..   ....++|+-|+|.||||++-.++. ...++...-++.++..+......+...+.
T Consensus        13 ~~P~~~~~~v~R~rL~~~L~~~~---~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlslde~dndp~rF~~yLi~   88 (894)
T COG2909          13 VRPVRPDNYVVRPRLLDRLRRAN---DYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSLDESDNDPARFLSYLIA   88 (894)
T ss_pred             CCCCCcccccccHHHHHHHhcCC---CceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeecCCccCCHHHHHHHHHH
Confidence            35556677777776665554332   334489999999999999999987 44556666677777666543333333332


Q ss_pred             Hhhhccc-cc-------------------------CCCCCceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEec
Q 021937          127 DFASTQS-FS-------------------------FGVKASVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       127 ~~~~~~~-~~-------------------------~~~~~~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      ......+ ..                         -..-.++..++|||.|.++... ...+..+++..|.+..++++|.
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            2221111 00                         0122447899999999998655 5567778888899999999986


Q ss_pred             CCcc-cchhhhcceeEEEec----CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHH
Q 021937          180 QVNK-IIPALQSRCTRFRFA----PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKA  239 (305)
Q Consensus       180 ~~~~-l~~~l~~r~~~i~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~  239 (305)
                      .... ....++-|...+.+.    .++.+|..+++....   +..++...++.|.+.+.|-+-.+
T Consensus       169 ~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~---~l~Ld~~~~~~L~~~teGW~~al  230 (894)
T COG2909         169 SRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRG---SLPLDAADLKALYDRTEGWAAAL  230 (894)
T ss_pred             cCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcC---CCCCChHHHHHHHhhcccHHHHH
Confidence            5443 234444443333222    357888888887652   47899999999999999965443

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.95  E-value=3.6e-08  Score=93.38  Aligned_cols=144  Identities=17%  Similarity=0.187  Sum_probs=84.6

Q ss_pred             ccccchHHHHHHHHHHhcCC---------------------CCeEEEECCCCCcHHHHHHHHHHHHhCCCC--cccEEEe
Q 021937           54 DVAAHRDIVDTIDRLTSENR---------------------LPHLLLYGPPGTGKTSTILAVARKLYGAQY--HNMILEL  110 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~~---------------------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~--~~~~~~~  110 (305)
                      .+.|++.++..+.-.+-++.                     ..+++|+|+||+|||.+++.+++......+  ...+..+
T Consensus       451 ~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~v  530 (915)
T PTZ00111        451 SIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSV  530 (915)
T ss_pred             eEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccc
Confidence            56788888876665554332                     116999999999999999999885321110  0111111


Q ss_pred             ecCCCcChhHHHHHHHHhhhccc--ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-------------CCceEE
Q 021937          111 NASDDRGIDVVRQQIQDFASTQS--FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFA  175 (305)
Q Consensus       111 ~~~~~~~~~~~~~~i~~~~~~~~--~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-------------~~~~ii  175 (305)
                      .+...    ..  ..........  .+.-..+.+++++|||++.++...+..|++++++..             ..+.+|
T Consensus       531 gLTa~----~~--~~d~~tG~~~le~GaLvlAdgGtL~IDEidkms~~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rVI  604 (915)
T PTZ00111        531 GLTAS----IK--FNESDNGRAMIQPGAVVLANGGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKAETAIL  604 (915)
T ss_pred             cccch----hh--hcccccCcccccCCcEEEcCCCeEEecchhhCCHHHHHHHHHHHhCCEEEEecCCcceecCCCeEEE
Confidence            11110    00  0000000000  001123456899999999999999999999998542             456677


Q ss_pred             EEecCC-------------cccchhhhcceeE--EEecCCCHH
Q 021937          176 LICNQV-------------NKIIPALQSRCTR--FRFAPLEPV  203 (305)
Q Consensus       176 l~~~~~-------------~~l~~~l~~r~~~--i~~~~~~~~  203 (305)
                      .++|..             -.+++++.+||..  +.++.++.+
T Consensus       605 AAaNP~~gryd~~~s~~eni~Lp~~LLSRFDLIf~l~D~~d~~  647 (915)
T PTZ00111        605 ASCNPINSRYNKNKAVIENINISPSLFTRFDLIYLVLDHIDQD  647 (915)
T ss_pred             EEcCCcccccCcccCcccccCCChHHhhhhcEEEEecCCCChH
Confidence            777542             2467889999832  334445443

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

Probab=98.95  E-value=2.5e-09  Score=93.94  Aligned_cols=167  Identities=22%  Similarity=0.291  Sum_probs=105.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC------CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~  150 (305)
                      ++||||||||||.+|+.+..-++......    +|++.      ....+.++.++.++..... ..+..+.-.+||+||+
T Consensus       259 iLLyGPPGTGKTLiARqIGkMLNArePKI----VNGPeIL~KYVGeSE~NvR~LFaDAEeE~r-~~g~~SgLHIIIFDEi  333 (744)
T KOG0741|consen  259 ILLYGPPGTGKTLIARQIGKMLNAREPKI----VNGPEILNKYVGESEENVRKLFADAEEEQR-RLGANSGLHIIIFDEI  333 (744)
T ss_pred             EEEECCCCCChhHHHHHHHHHhcCCCCcc----cCcHHHHHHhhcccHHHHHHHHHhHHHHHH-hhCccCCceEEEehhh
Confidence            89999999999999999999986654322    23322      2344556666665543322 1233445689999999


Q ss_pred             CcCCH-------------HHHHHHHHHHHHh--cCCceEEEEecCCcccchhhhcce---eEEEecCCCHHHHHHHHHHH
Q 021937          151 DAMTK-------------DAQFALRRVIEKY--TKNTRFALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHV  212 (305)
Q Consensus       151 ~~l~~-------------~~~~~l~~~l~~~--~~~~~iil~~~~~~~l~~~l~~r~---~~i~~~~~~~~~~~~~l~~~  212 (305)
                      |.+.+             ...+.|+.-++..  -.+..+|..||+.+-+++++.+-.   ...++.-|++.-+.++++..
T Consensus       334 DAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqLNNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IH  413 (744)
T KOG0741|consen  334 DAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIH  413 (744)
T ss_pred             HHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhhhcEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhh
Confidence            98853             2456677666632  236677778899999999998754   34677778888777776655


Q ss_pred             HHHc--CCCCCHH-HHHHHHHHc----CCCHHHHHHHHHHHhh
Q 021937          213 IEAE--GLDVTEG-GLAALVRLC----NGDMRKALNILQSTHM  248 (305)
Q Consensus       213 ~~~~--~~~~~~~-~~~~l~~~~----~g~~r~~~~~l~~~~~  248 (305)
                      ..+.  +-.++.+ .++.|+..+    +.-+.-++...++.+.
T Consensus       414 T~rMre~~~l~~dVdl~elA~lTKNfSGAEleglVksA~S~A~  456 (744)
T KOG0741|consen  414 TKRMRENNKLSADVDLKELAALTKNFSGAELEGLVKSAQSFAM  456 (744)
T ss_pred             hhhhhhcCCCCCCcCHHHHHHHhcCCchhHHHHHHHHHHHHHH
Confidence            5432  2233332 356666655    2334444444444443

>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2

Probab=98.94  E-value=1.4e-08  Score=79.66  Aligned_cols=162  Identities=17%  Similarity=0.238  Sum_probs=105.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCC-cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCC----C
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA----D  151 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~----~  151 (305)
                      ++++|..-.-+...++.+.+.+...+. ...+..++....    ...+ +.......++.++    +.+|+|.++    +
T Consensus         1 Yll~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~----~~~~-l~~~~~s~slF~~----~klvii~~~~~l~~   71 (172)
T PF06144_consen    1 YLLYGEDSFLIEEYIKKIRKALIKKDFDDFNVIVFDGSED----DIDE-LLEELQSPSLFGD----KKLVIIKNAPFLKD   71 (172)
T ss_dssp             EEEEES-HHHHHHHHHHHHHHHHTTTEEEEEEEE-STTS-----HHH--HTTTSTTTTSSSS----EEEEEEE-----TT
T ss_pred             CEEEeCcHHHHHHHHHHHHHHhhcCCCccceEEEEccccC----cHHH-HHHHHhcCCccCC----CeEEEEecCccccc
Confidence            578888877777777777777443332 223333333321    1112 3333344443333    899999998    4


Q ss_pred             cCCHHHHHHHHHHHHHhcCCceEEEEec-CCc---ccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHH
Q 021937          152 AMTKDAQFALRRVIEKYTKNTRFALICN-QVN---KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAA  227 (305)
Q Consensus       152 ~l~~~~~~~l~~~l~~~~~~~~iil~~~-~~~---~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  227 (305)
                      .........|..++..++.++.+++.+. ..+   .+.+.+...+.++.+.++...++..|+...+.+.|..+++++++.
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            4566778889999998888888888877 333   345666777889999999999999999999999999999999999


Q ss_pred             HHHHcCCCHHHHHHHHHHHh
Q 021937          228 LVRLCNGDMRKALNILQSTH  247 (305)
Q Consensus       228 l~~~~~g~~r~~~~~l~~~~  247 (305)
                      +++..++|++.+.+.+++++
T Consensus       152 L~~~~~~d~~~l~~EleKL~  171 (172)
T PF06144_consen  152 LIERVGNDLSLLQNELEKLS  171 (172)
T ss_dssp             HHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHhChHHHHHHHHHHHhc
Confidence            99999999999999999876

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.

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=98.93  E-value=1.3e-07  Score=86.87  Aligned_cols=167  Identities=21%  Similarity=0.293  Sum_probs=107.4

Q ss_pred             ccchHHHHHHHHHHhcC---------CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc--ChhHHHHH
Q 021937           56 AAHRDIVDTIDRLTSEN---------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQQ  124 (305)
Q Consensus        56 ~g~~~~~~~l~~~l~~~---------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~  124 (305)
                      .+++..+..+...+.-.         ..+.++++|+||||||+++++++.++     ...+++++|....  ........
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            34555555666665532         22348999999999999999999998     6677777775421  11111111


Q ss_pred             HHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------HHHHHHHHHH-H-h---cCCceEEEEecCCcccchhhhcc
Q 021937          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIE-K-Y---TKNTRFALICNQVNKIIPALQSR  191 (305)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------~~~~l~~~l~-~-~---~~~~~iil~~~~~~~l~~~l~~r  191 (305)
                      +...     |.....+.+.||++-++|.+.-+        ....+...+. + .   .+.+.++.+++..+.+++.+++-
T Consensus       479 l~~~-----f~~a~~~~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~lp~~i~~~  553 (953)
T KOG0736|consen  479 LQAI-----FSRARRCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLPADIQSL  553 (953)
T ss_pred             HHHH-----HHHHhhcCceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEeccccccCCHHHHHh
Confidence            2211     11223345789999988877522        1233333333 1 1   12445666678888899999888


Q ss_pred             e-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC
Q 021937          192 C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNG  234 (305)
Q Consensus       192 ~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g  234 (305)
                      + ..+.++.++++++.++++-+.....  ++++ ....+++.++|
T Consensus       554 f~~ei~~~~lse~qRl~iLq~y~~~~~--~n~~v~~k~~a~~t~g  596 (953)
T KOG0736|consen  554 FLHEIEVPALSEEQRLEILQWYLNHLP--LNQDVNLKQLARKTSG  596 (953)
T ss_pred             hhhhccCCCCCHHHHHHHHHHHHhccc--cchHHHHHHHHHhcCC
Confidence            7 7799999999999999999887554  4433 34567777765

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.93  E-value=5.3e-09  Score=89.15  Aligned_cols=129  Identities=18%  Similarity=0.195  Sum_probs=72.6

Q ss_pred             cCCCCcccccc----chHHHHHHHHHHhcC----CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           47 YRPQSLADVAA----HRDIVDTIDRLTSEN----RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        47 ~~p~~~~~~~g----~~~~~~~l~~~l~~~----~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      +...+|+++..    +.........++...    ...+++|+||+|+|||+++.++++++...++...++.+..    -.
T Consensus       121 ~~~atf~~~~~~~~~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~----l~  196 (306)
T PRK08939        121 LLQASLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPE----FI  196 (306)
T ss_pred             HhcCcHHHhcCCChHHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHH----HH
Confidence            33456666653    333444445555432    3456999999999999999999999977666655555421    11


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC--HHHHHHH-HHHHHHh-cCCceEEEEecCC
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFAL-RRVIEKY-TKNTRFALICNQV  181 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~--~~~~~~l-~~~l~~~-~~~~~iil~~~~~  181 (305)
                      ..+...+..-......  ..-.+..||+|||+..-.  .-....+ ..+++.. ......+++||..
T Consensus       197 ~~lk~~~~~~~~~~~l--~~l~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl~  261 (306)
T PRK08939        197 RELKNSISDGSVKEKI--DAVKEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNFD  261 (306)
T ss_pred             HHHHHHHhcCcHHHHH--HHhcCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCCC
Confidence            1111111100000000  001126899999987654  3334334 4455644 4567788888764

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.92  E-value=2.1e-08  Score=86.17  Aligned_cols=133  Identities=18%  Similarity=0.279  Sum_probs=75.8

Q ss_pred             HHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccc--cc-
Q 021937           61 IVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS--FS-  135 (305)
Q Consensus        61 ~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~--~~-  135 (305)
                      +++....++..  ....+++|+||+|+|||+|+.++++++...+..+.++.  ...      +...+........  .. 
T Consensus       168 ~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t--~~~------l~~~l~~~~~~~~~~~~~  239 (329)
T PRK06835        168 ILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT--ADE------LIEILREIRFNNDKELEE  239 (329)
T ss_pred             HHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE--HHH------HHHHHHHHHhccchhHHH
Confidence            33444445553  12256999999999999999999999976665443333  221      1111111000000  00 


Q ss_pred             -CCCCCceEEEEEeCCCcC--CHHHHHHHHHHHHHhcC-CceEEEEecCCcc-----cchhhhcc----eeEEEecCCC
Q 021937          136 -FGVKASVKLVLLDEADAM--TKDAQFALRRVIEKYTK-NTRFALICNQVNK-----IIPALQSR----CTRFRFAPLE  201 (305)
Q Consensus       136 -~~~~~~~~vliiDe~~~l--~~~~~~~l~~~l~~~~~-~~~iil~~~~~~~-----l~~~l~~r----~~~i~~~~~~  201 (305)
                       ...-....+|||||++..  .......|+.+++.... ...+|++||....     +.+.+.+|    +.++.|...+
T Consensus       240 ~~~~l~~~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl~~~el~~~~~eri~SRL~~~~~~i~~~G~d  318 (329)
T PRK06835        240 VYDLLINCDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNLSLEELLKTYSERISSRLLGNFTLLKFYGED  318 (329)
T ss_pred             HHHHhccCCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHhHHHHHHHHcCCEEEEecCcC
Confidence             000012589999999655  45667889999986543 4567788875432     23445555    3456665443

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

Probab=98.91  E-value=3.8e-09  Score=78.99  Aligned_cols=104  Identities=27%  Similarity=0.371  Sum_probs=63.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCC---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCC-------------C
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG-------------V  138 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~-------------~  138 (305)
                      ..++++||+|+|||++++.+++.+....   ....++.++++.......+.+.+............             .
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~   84 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALD   84 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHH
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHH
Confidence            3489999999999999999999874210   03345555555444444444444443333221100             1


Q ss_pred             CCceEEEEEeCCCcC-CHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          139 KASVKLVLLDEADAM-TKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       139 ~~~~~vliiDe~~~l-~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      ..+..+|+|||+|.+ ..+..+.|..+.+  ..+..++++++.
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            122369999999999 7666677766666  446677777754

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.91  E-value=3.7e-08  Score=74.20  Aligned_cols=95  Identities=26%  Similarity=0.288  Sum_probs=56.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC--------------------hhHHHHHHHHhhhcccc
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--------------------IDVVRQQIQDFASTQSF  134 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~i~~~~~~~~~  134 (305)
                      .+++|+||+|+|||++++.++..+.....  .++.++......                    .......+..+ ..   
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~---   76 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGG--GVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALA-RK---   76 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCC--CEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHH-Hh---
Confidence            46899999999999999999999855431  244444332111                    11111111111 11   


Q ss_pred             cCCCCCceEEEEEeCCCcCCHHHHHHHHH--------HHHHhcCCceEEEEecC
Q 021937          135 SFGVKASVKLVLLDEADAMTKDAQFALRR--------VIEKYTKNTRFALICNQ  180 (305)
Q Consensus       135 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~--------~l~~~~~~~~iil~~~~  180 (305)
                           .++.+|++||++.+..........        ..........++++++.
T Consensus        77 -----~~~~viiiDei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  125 (148)
T smart00382       77 -----LKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTND  125 (148)
T ss_pred             -----cCCCEEEEECCcccCCHHHHHHHHhhhhhHHHHHHHhcCCCEEEEEeCC
Confidence                 114899999999998665544332        22334446667777774

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.

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.90  E-value=5.9e-08  Score=87.62  Aligned_cols=149  Identities=21%  Similarity=0.184  Sum_probs=89.4

Q ss_pred             CCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC----------------
Q 021937           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS----------------  113 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~----------------  113 (305)
                      ..|..+.|+...++.+.-.+..+  .++++.||+|+|||++++.+...+..... ...++...-                
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--HNLLLIGPPGTGKTMLASRINGLLPDLSN-EEALESAAILSLVNAESVQKQWRQR  264 (506)
T ss_pred             cCeEEEECcHHHHhhhheeccCC--cEEEEECCCCCcHHHHHHHHhccCCCCCC-cEEEecchhhhhhccccccCCcCCC
Confidence            37888899988888765555443  56999999999999999999876532111 111111100                


Q ss_pred             CCcCh---hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-------------cCCceEEEE
Q 021937          114 DDRGI---DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALI  177 (305)
Q Consensus       114 ~~~~~---~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~iil~  177 (305)
                      .....   ......+..- .......-..++++++|+||++.+....++.|++.+++.             +.+..+|.+
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 PFRSPHHSASLTAMVGGG-AIPGPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAA  343 (506)
T ss_pred             CccCCCccchHHHHhCCC-ceehhhHhhhccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEe
Confidence            00000   0000011000 000011113456789999999999999999999999753             334566666


Q ss_pred             ecCCc---------------------ccchhhhcce-eEEEecCCCH
Q 021937          178 CNQVN---------------------KIIPALQSRC-TRFRFAPLEP  202 (305)
Q Consensus       178 ~~~~~---------------------~l~~~l~~r~-~~i~~~~~~~  202 (305)
                      +|...                     ++...+.+|| ..+.+++++.
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            65432                     3556788888 4477777643

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.89  E-value=1e-07  Score=87.94  Aligned_cols=187  Identities=15%  Similarity=0.139  Sum_probs=116.5

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC----cChhHHHHHHHHhhhcccccCCCCCceEEEEEe
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLD  148 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiD  148 (305)
                      ....++|.|+.|+|||++++.+...+..   ...|+.+.....    .+--++...+..-........-..++++|||||
T Consensus        24 ~~gGv~i~g~~G~~ks~~~r~l~~llp~---~~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~~pGlla~Ah~GvL~lD  100 (584)
T PRK13406         24 GLGGVVLRARAGPVRDRWLAALRALLPA---GTPLRRLPPGIADDRLLGGLDLAATLRAGRPVAQRGLLAEADGGVLVLA  100 (584)
T ss_pred             ccceEEEEcCCCcHHHHHHHHHHHhcCC---CCCcccCCCCCcHHHccCCchHHhHhhcCCcCCCCCceeeccCCEEEec
Confidence            4456999999999999999999988732   123433322211    122223333332221111222245667999999


Q ss_pred             CCCcCCHHHHHHHHHHHHHhcC-----------CceEEEEecCC-----cccchhhhcce-eEEEecCCCHHHHH-----
Q 021937          149 EADAMTKDAQFALRRVIEKYTK-----------NTRFALICNQV-----NKIIPALQSRC-TRFRFAPLEPVHVT-----  206 (305)
Q Consensus       149 e~~~l~~~~~~~l~~~l~~~~~-----------~~~iil~~~~~-----~~l~~~l~~r~-~~i~~~~~~~~~~~-----  206 (305)
                      |+..+.+..++.|++.+++...           ...|++++...     ..+.+.+..|| ..+.+..++..+..     
T Consensus       101 e~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLDRf~l~v~v~~~~~~~~~~~~~~  180 (584)
T PRK13406        101 MAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALADRLAFHLDLDGLALRDAREIPID  180 (584)
T ss_pred             CcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHhheEEEEEcCCCChHHhcccCCC
Confidence            9999999999999999996421           12344443222     34788899998 66788877755432     


Q ss_pred             --HHHHHHHHHcCCCCCHHHHHHHHHHcC--C--CHHHHHHHHHHHhh-----ccCccCHHHHHhhh
Q 021937          207 --ERLKHVIEAEGLDVTEGGLAALVRLCN--G--DMRKALNILQSTHM-----ASQQITEEAVYLCT  262 (305)
Q Consensus       207 --~~l~~~~~~~~~~~~~~~~~~l~~~~~--g--~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~  262 (305)
                        .+...+..-.++.++++.++++++.+.  |  ..|..+..++.+..     ....++.++|.+++
T Consensus       181 ~~~I~~AR~rl~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa  247 (584)
T PRK13406        181 ADDIAAARARLPAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAA  247 (584)
T ss_pred             HHHHHHHHHHHccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence              222222222478899999888877552  2  56766666643332     33569999998776

>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=98.89  E-value=7.9e-09  Score=86.70  Aligned_cols=139  Identities=18%  Similarity=0.244  Sum_probs=81.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccc--ccCCCCCceEEEEEeCCCc
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS--FSFGVKASVKLVLLDEADA  152 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~--~~~~~~~~~~vliiDe~~~  152 (305)
                      .+++|+||+|||||.+++.+.+.+...  ......++.+.......+...++.......  ..++...++.|++|||++.
T Consensus        34 ~pvLl~G~~GtGKT~li~~~l~~l~~~--~~~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~~~gP~~~k~lv~fiDDlN~  111 (272)
T PF12775_consen   34 RPVLLVGPSGTGKTSLIQNFLSSLDSD--KYLVITINFSAQTTSNQLQKIIESKLEKRRGRVYGPPGGKKLVLFIDDLNM  111 (272)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHCSTTC--CEEEEEEES-TTHHHHHHHHCCCTTECECTTEEEEEESSSEEEEEEETTT-
T ss_pred             CcEEEECCCCCchhHHHHhhhccCCcc--ccceeEeeccCCCCHHHHHHHHhhcEEcCCCCCCCCCCCcEEEEEecccCC
Confidence            359999999999999999988765332  222344555443333333333322211111  1123446678999999986


Q ss_pred             CCHH------HHHHHHHHHHHhc------------CCceEEEEecCC---cccchhhhcceeEEEecCCCHHHHHHHHHH
Q 021937          153 MTKD------AQFALRRVIEKYT------------KNTRFALICNQV---NKIIPALQSRCTRFRFAPLEPVHVTERLKH  211 (305)
Q Consensus       153 l~~~------~~~~l~~~l~~~~------------~~~~iil~~~~~---~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~  211 (305)
                      -..+      ..+.|.++++...            .++.++.+++..   ..+.+++.+.+.++.++.|+.+.+..+...
T Consensus       112 p~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r~f~i~~~~~p~~~sl~~If~~  191 (272)
T PF12775_consen  112 PQPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLRHFNILNIPYPSDESLNTIFSS  191 (272)
T ss_dssp             S---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHTTEEEEE----TCCHHHHHHHH
T ss_pred             CCCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhhheEEEEecCCChHHHHHHHHH
Confidence            6533      3566777777421            244555555432   247888999999999999999998888877


Q ss_pred             HHHH
Q 021937          212 VIEA  215 (305)
Q Consensus       212 ~~~~  215 (305)
                      .+..
T Consensus       192 il~~  195 (272)
T PF12775_consen  192 ILQS  195 (272)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            7654

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.89  E-value=1.1e-08  Score=89.44  Aligned_cols=116  Identities=19%  Similarity=0.146  Sum_probs=70.2

Q ss_pred             CCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----------------Cc-ccEEEee
Q 021937           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----------------YH-NMILELN  111 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----------------~~-~~~~~~~  111 (305)
                      ..|.+++||+..+..+.-...++  ++++++||||||||.++..+...+-.-.                 .. ..++..-
T Consensus       176 ~D~~DV~GQ~~AKrAleiAAAGg--HnLl~~GpPGtGKTmla~Rl~~lLPpls~~E~lE~s~I~s~~g~~~~~~~~~~~r  253 (490)
T COG0606         176 PDFKDVKGQEQAKRALEIAAAGG--HNLLLVGPPGTGKTMLASRLPGLLPPLSIPEALEVSAIHSLAGDLHEGCPLKIHR  253 (490)
T ss_pred             cchhhhcCcHHHHHHHHHHHhcC--CcEEEecCCCCchHHhhhhhcccCCCCChHHHHHHHHHhhhcccccccCccceeC
Confidence            37899999999999999888877  4699999999999999999876541100                 00 0000000


Q ss_pred             cCCC-cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh
Q 021937          112 ASDD-RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (305)
Q Consensus       112 ~~~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~  168 (305)
                      .... .-.......+... .......-..++.+|+||||+-.+.....+.|..-+|+.
T Consensus       254 PFr~PHHsaS~~aLvGGG-~~p~PGeIsLAH~GVLFLDElpef~~~iLe~LR~PLE~g  310 (490)
T COG0606         254 PFRAPHHSASLAALVGGG-GVPRPGEISLAHNGVLFLDELPEFKRSILEALREPLENG  310 (490)
T ss_pred             CccCCCccchHHHHhCCC-CCCCCCceeeecCCEEEeeccchhhHHHHHHHhCccccC
Confidence            0000 0000011111111 111111113467889999999999988888888877753

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.84  E-value=1.4e-08  Score=84.42  Aligned_cols=119  Identities=18%  Similarity=0.297  Sum_probs=67.6

Q ss_pred             hHHHHHHHHHHhc-CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCC
Q 021937           59 RDIVDTIDRLTSE-NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG  137 (305)
Q Consensus        59 ~~~~~~l~~~l~~-~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  137 (305)
                      ...+..+...... ....+++|+||||+|||+++.++++++...+..+.++.+.  +  ....+.+..........+ ..
T Consensus        89 ~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~--e--l~~~Lk~~~~~~~~~~~l-~~  163 (254)
T COG1484          89 KKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAP--D--LLSKLKAAFDEGRLEEKL-LR  163 (254)
T ss_pred             HHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHH--H--HHHHHHHHHhcCchHHHH-HH
Confidence            3444444443322 2445699999999999999999999997555555555432  1  111222211110000000 00


Q ss_pred             CCCceEEEEEeCCCcCC--HHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          138 VKASVKLVLLDEADAMT--KDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~--~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .-.+..||||||+....  ......++++|.........++++|...
T Consensus       164 ~l~~~dlLIiDDlG~~~~~~~~~~~~~q~I~~r~~~~~~~~tsN~~~  210 (254)
T COG1484         164 ELKKVDLLIIDDIGYEPFSQEEADLLFQLISRRYESRSLIITSNLSF  210 (254)
T ss_pred             HhhcCCEEEEecccCccCCHHHHHHHHHHHHHHHhhccceeecCCCh
Confidence            01336899999988754  4456778887776544444477776543

>PRK09183 transposase/IS protein; Provisional

Probab=98.83  E-value=2.8e-08  Score=82.97  Aligned_cols=100  Identities=19%  Similarity=0.227  Sum_probs=59.3

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccc---cCCCCCceEEEEEeCC
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF---SFGVKASVKLVLLDEA  150 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~---~~~~~~~~~vliiDe~  150 (305)
                      ..+++|+||+|+|||+++.+++......++...++.  ..      .+...+.........   .........+++|||+
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~--~~------~l~~~l~~a~~~~~~~~~~~~~~~~~dlLiiDdl  173 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT--AA------DLLLQLSTAQRQGRYKTTLQRGVMAPRLLIIDEI  173 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe--HH------HHHHHHHHHHHCCcHHHHHHHHhcCCCEEEEccc
Confidence            346999999999999999999888655554443332  11      111111110000000   0000112579999999


Q ss_pred             CcC--CHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          151 DAM--TKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       151 ~~l--~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      +..  .....+.|+++++....+..+|+++|..
T Consensus       174 g~~~~~~~~~~~lf~li~~r~~~~s~iiTsn~~  206 (259)
T PRK09183        174 GYLPFSQEEANLFFQVIAKRYEKGSMILTSNLP  206 (259)
T ss_pred             ccCCCChHHHHHHHHHHHHHHhcCcEEEecCCC
Confidence            875  4556668999998655455678887654

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

Probab=98.81  E-value=1.1e-08  Score=81.11  Aligned_cols=48  Identities=25%  Similarity=0.392  Sum_probs=33.9

Q ss_pred             ccccchHHHHHHHHHHh---cCCCCeEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           54 DVAAHRDIVDTIDRLTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~---~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      +|+|+++.++++...+.   .+.++.++|+|++|+|||++++.+...+...
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            47899999999999993   2344559999999999999999999888654

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

Probab=98.76  E-value=3.8e-07  Score=80.53  Aligned_cols=154  Identities=16%  Similarity=0.292  Sum_probs=94.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc-C------hhHHHHHHHHhhhcccccCCCCCceEEEEEe
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-G------IDVVRQQIQDFASTQSFSFGVKASVKLVLLD  148 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~-~------~~~~~~~i~~~~~~~~~~~~~~~~~~vliiD  148 (305)
                      .++|.||||+|||+||..++..-     .++|+.+-.++.. +      ...+...+.++         .+++-.+|++|
T Consensus       540 SvLl~Gp~~sGKTaLAA~iA~~S-----~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DA---------YkS~lsiivvD  605 (744)
T KOG0741|consen  540 SVLLEGPPGSGKTALAAKIALSS-----DFPFVKIISPEDMIGLSESAKCAHIKKIFEDA---------YKSPLSIIVVD  605 (744)
T ss_pred             EEEEecCCCCChHHHHHHHHhhc-----CCCeEEEeChHHccCccHHHHHHHHHHHHHHh---------hcCcceEEEEc
Confidence            38999999999999999999864     5677777665421 1      11223333333         33446899999


Q ss_pred             CCCcCC----------HHHHHHHHHHHHHhcCC--ceEEEEecCCcccchhh--hcce-eEEEecCCCH-HHHHHHHHHH
Q 021937          149 EADAMT----------KDAQFALRRVIEKYTKN--TRFALICNQVNKIIPAL--QSRC-TRFRFAPLEP-VHVTERLKHV  212 (305)
Q Consensus       149 e~~~l~----------~~~~~~l~~~l~~~~~~--~~iil~~~~~~~l~~~l--~~r~-~~i~~~~~~~-~~~~~~l~~~  212 (305)
                      |++++.          .-..+.|+-++.+.|++  ..+|++|++.......+  ..-| ..++++.++. ++..+++...
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          23456677777766655  34555555443333322  2223 5578888776 6777766553


Q ss_pred             HHHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHHHhh
Q 021937          213 IEAEGLDVTEGGLAALVRLCNG-----DMRKALNILQSTHM  248 (305)
Q Consensus       213 ~~~~~~~~~~~~~~~l~~~~~g-----~~r~~~~~l~~~~~  248 (305)
                          +. ++++..+.+++.-.+     -+.+++.+++.+..
T Consensus       686 ----n~-fsd~~~~~~~~~~~~~~~~vgIKklL~lie~a~q  721 (744)
T KOG0741|consen  686 ----NI-FSDDEVRAIAEQLLSKKVNVGIKKLLMLIEMARQ  721 (744)
T ss_pred             ----cC-CCcchhHHHHHHHhccccchhHHHHHHHHHHHhc
Confidence                43 555556655554433     25666666666554

>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=98.76  E-value=2.2e-06  Score=74.41  Aligned_cols=77  Identities=16%  Similarity=0.214  Sum_probs=53.4

Q ss_pred             CceEEEEEeCCCcCCHHHHHHHHHHHHHhc--CCceEEEEecCCc---------------ccchhhhcce--eEEEecCC
Q 021937          140 ASVKLVLLDEADAMTKDAQFALRRVIEKYT--KNTRFALICNQVN---------------KIIPALQSRC--TRFRFAPL  200 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~~~~~l~~~l~~~~--~~~~iil~~~~~~---------------~l~~~l~~r~--~~i~~~~~  200 (305)
                      .++.||+|||+|++.++....+++.+...-  +++.+|++.+...               ........++  ..+.+|++
T Consensus       171 ~~~iViiIDdLDR~~~~~i~~~l~~ik~~~~~~~i~~Il~~D~~~l~~ai~~~~~~~~~~~~~~~yLeKiiq~~~~lP~~  250 (325)
T PF07693_consen  171 KKRIVIIIDDLDRCSPEEIVELLEAIKLLLDFPNIIFILAFDPEILEKAIEKNYGEGFDEIDGREYLEKIIQVPFSLPPP  250 (325)
T ss_pred             CceEEEEEcchhcCCcHHHHHHHHHHHHhcCCCCeEEEEEecHHHHHHHHHhhcCcccccccHHHHHHhhcCeEEEeCCC
Confidence            557899999999999988888888777543  3667777764210               1122333343  45899999


Q ss_pred             CHHHHHHHHHHHHHHc
Q 021937          201 EPVHVTERLKHVIEAE  216 (305)
Q Consensus       201 ~~~~~~~~l~~~~~~~  216 (305)
                      +..++..++...+...
T Consensus       251 ~~~~~~~~~~~~~~~~  266 (325)
T PF07693_consen  251 SPSDLERYLNELLESL  266 (325)
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999988888775543

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 [].

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=98.75  E-value=7.9e-07  Score=80.44  Aligned_cols=169  Identities=20%  Similarity=0.254  Sum_probs=111.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccccc---------CCCCCceEEEEE
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS---------FGVKASVKLVLL  147 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~---------~~~~~~~~vlii  147 (305)
                      +++.|.+|+||-.+++++...-.   ....++.+||.... ...+.+.+..+.... |.         .......+.+|+
T Consensus       339 vll~GEtGtGKe~laraiH~~s~---~~gpfvAvNCaAip-~~liesELFGy~~Ga-fTga~~kG~~g~~~~A~gGtlFl  413 (606)
T COG3284         339 VLLQGETGTGKEVLARAIHQNSE---AAGPFVAVNCAAIP-EALIESELFGYVAGA-FTGARRKGYKGKLEQADGGTLFL  413 (606)
T ss_pred             eEecCCcchhHHHHHHHHHhccc---ccCCeEEEEeccch-HHhhhHHHhccCccc-cccchhccccccceecCCCccHH
Confidence            99999999999999999988753   45578888887632 112222222111110 11         113456789999


Q ss_pred             eCCCcCCHHHHHHHHHHHHHhc----------CCceEEEEecCC-------cccchhhhcce--eEEEecCCCHH-HHHH
Q 021937          148 DEADAMTKDAQFALRRVIEKYT----------KNTRFALICNQV-------NKIIPALQSRC--TRFRFAPLEPV-HVTE  207 (305)
Q Consensus       148 De~~~l~~~~~~~l~~~l~~~~----------~~~~iil~~~~~-------~~l~~~l~~r~--~~i~~~~~~~~-~~~~  207 (305)
                      ||+..++-..|..|++.+++..          -+.++|.+|+..       ..+-+++.-|.  .++.+||+... +...
T Consensus       414 deIgd~p~~~Qs~LLrVl~e~~v~p~g~~~~~vdirvi~ath~dl~~lv~~g~fredLyyrL~~~~i~lP~lr~R~d~~~  493 (606)
T COG3284         414 DEIGDMPLALQSRLLRVLQEGVVTPLGGTRIKVDIRVIAATHRDLAQLVEQGRFREDLYYRLNAFVITLPPLRERSDRIP  493 (606)
T ss_pred             HHhhhchHHHHHHHHHHHhhCceeccCCcceeEEEEEEeccCcCHHHHHHcCCchHHHHHHhcCeeeccCchhcccccHH
Confidence            9999999999999999999642          123455444321       23455666665  45667666543 2333


Q ss_pred             HHHHHHHHc---CCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHhhcc
Q 021937          208 RLKHVIEAE---GLDVTEGGLAALVRL-CNGDMRKALNILQSTHMAS  250 (305)
Q Consensus       208 ~l~~~~~~~---~~~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~~  250 (305)
                      .+.++..++   ...+++++++.+..+ .+||+|.+.+.++.++...
T Consensus       494 ~l~~~~~~~~~~~~~l~~~~~~~l~~~~WPGNirel~~v~~~~~~l~  540 (606)
T COG3284         494 LLDRILKRENDWRLQLDDDALARLLAYRWPGNIRELDNVIERLAALS  540 (606)
T ss_pred             HHHHHHHHccCCCccCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHcC
Confidence            344444444   467899998887764 5999999999999888744

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.73  E-value=1.4e-07  Score=89.29  Aligned_cols=116  Identities=22%  Similarity=0.348  Sum_probs=81.3

Q ss_pred             cccccchHHHHHHHHHHhcC-----C--CC-eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC---------
Q 021937           53 ADVAAHRDIVDTIDRLTSEN-----R--LP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD---------  115 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~-----~--~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~---------  115 (305)
                      +.++||.+.+..+-..+...     +  +. .++|.||.|+|||.+|++++..+...  ...++.++.+..         
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgs--e~~~IriDmse~~evskligs  639 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGS--EENFIRLDMSEFQEVSKLIGS  639 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCC--ccceEEechhhhhhhhhccCC
Confidence            46889999999888887632     1  12 28999999999999999999998543  334555555431         


Q ss_pred             ----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEec
Q 021937          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICN  179 (305)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~  179 (305)
                          .+....-+ +....        .+.++.||+|||++......++.|++++++..           .++.||+|+|
T Consensus       640 p~gyvG~e~gg~-Lteav--------rrrP~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMTsn  709 (898)
T KOG1051|consen  640 PPGYVGKEEGGQ-LTEAV--------KRRPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTSN  709 (898)
T ss_pred             CcccccchhHHH-HHHHH--------hcCCceEEEEechhhcCHHHHHHHHHHHhcCccccCCCcEeeccceEEEEecc
Confidence                11111111 11111        23447999999999999999999999999753           4667777764

>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=98.70  E-value=2.7e-06  Score=74.19  Aligned_cols=74  Identities=9%  Similarity=0.166  Sum_probs=48.1

Q ss_pred             eEEEEEeCCCcCCHHHHHHHHHHHH-H---h--cCCceEEEEecCCc---ccchhhhcc-eeEEEecCCCHHHHHHHHHH
Q 021937          142 VKLVLLDEADAMTKDAQFALRRVIE-K---Y--TKNTRFALICNQVN---KIIPALQSR-CTRFRFAPLEPVHVTERLKH  211 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~~~~l~~~l~-~---~--~~~~~iil~~~~~~---~l~~~l~~r-~~~i~~~~~~~~~~~~~l~~  211 (305)
                      +-||+||.+..-... .+.+++.+. +   .  ..--.+|++|++..   .+.+++-+| +..+.+...+.+..+.++..
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            569999998765533 344444332 1   1  22345667665442   355666666 47789999999999999988


Q ss_pred             HHHHc
Q 021937          212 VIEAE  216 (305)
Q Consensus       212 ~~~~~  216 (305)
                      .+...
T Consensus       228 ~L~~~  232 (431)
T PF10443_consen  228 QLDED  232 (431)
T ss_pred             Hhccc
Confidence            87653

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 [].

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.69  E-value=5.2e-07  Score=74.24  Aligned_cols=234  Identities=18%  Similarity=0.188  Sum_probs=132.2

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh-CCCCcccEEEeecCCCcChhHHHHHHHHhhhccc------
Q 021937           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDDRGIDVVRQQIQDFASTQS------  133 (305)
Q Consensus        61 ~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~------  133 (305)
                      .++++.+.....+. .+++.||+|.||+.+++.+...-. .......|+++||+...+...+...+........      
T Consensus       196 mieqierva~rsr~-p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r  274 (531)
T COG4650         196 MIEQIERVAIRSRA-PILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESR  274 (531)
T ss_pred             HHHHHHHHHhhccC-CeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhh
Confidence            33444444444433 399999999999999999876432 2335678999999987776666655544322111      


Q ss_pred             ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEe-cC------CcccchhhhcceeEE
Q 021937          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALIC-NQ------VNKIIPALQSRCTRF  195 (305)
Q Consensus       134 ~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~-~~------~~~l~~~l~~r~~~i  195 (305)
                      ...-..+.++.+++||+..+..+.+..|++.+++..           .+..+|.-+ .+      ...+-+.+..|...+
T Consensus       275 ~gllrsadggmlfldeigelgadeqamllkaieekrf~pfgsdr~v~sdfqliagtvrdlrq~vaeg~fredl~arinlw  354 (531)
T COG4650         275 EGLLRSADGGMLFLDEIGELGADEQAMLLKAIEEKRFYPFGSDRQVSSDFQLIAGTVRDLRQLVAEGKFREDLYARINLW  354 (531)
T ss_pred             hhhhccCCCceEehHhhhhcCccHHHHHHHHHHhhccCCCCCccccccchHHhhhhHHHHHHHHhccchHHHHHHhhhee
Confidence            011133567899999999999999999999998632           111122111 00      012334555555444


Q ss_pred             EecCCCHHHHHH--------HHHHHHHHcC--CCCCHHHHHHHHHH-------cCCCHHHHHHHHHHHhhc--cCccCHH
Q 021937          196 RFAPLEPVHVTE--------RLKHVIEAEG--LDVTEGGLAALVRL-------CNGDMRKALNILQSTHMA--SQQITEE  256 (305)
Q Consensus       196 ~~~~~~~~~~~~--------~l~~~~~~~~--~~~~~~~~~~l~~~-------~~g~~r~~~~~l~~~~~~--~~~i~~~  256 (305)
                      .|.-|-..+..+        -+.+.+...|  +.+..++...-...       ..||.|.+-..+...+..  .+.|+.+
T Consensus       355 tf~lpgl~qr~ediepnldyelerha~~~g~~vrfntearra~l~fa~spqa~w~gnfrelsasvtrmatlad~grit~~  434 (531)
T COG4650         355 TFTLPGLRQRQEDIEPNLDYELERHASLTGDSVRFNTEARRAWLAFATSPQATWRGNFRELSASVTRMATLADSGRITLD  434 (531)
T ss_pred             eeeccccccCccccCCCccHHHHHHHHhhCceeeeehHHHHHHHHhccCcchhhcccHHHHhHHHHHHHHHhcCCceeHH
Confidence            544443322211        1233333333  34455544332222       358999988877665543  4678888


Q ss_pred             HHHhhhCCCCh---hhHHHHHHHHHcccHHHHHHHHHHHHHHH
Q 021937          257 AVYLCTGNPLP---KDIEQISYWLLNESFADSFKRIQNLSFII  296 (305)
Q Consensus       257 ~v~~~~~~~~~---~~~~~l~~~~~~~~~~~~~~~l~~l~~~~  296 (305)
                      .|+.-+.+..+   +.--.-...+++ +..+|+..++.|+.+.
T Consensus       435 ~ve~ei~rlr~~w~~~~p~~l~~llg-~~a~aldlfdrmqle~  476 (531)
T COG4650         435 VVEDEINRLRYNWQESRPSALTALLG-AEAEALDLFDRMQLEH  476 (531)
T ss_pred             HHHHHHHHHHHHhhhcCchhhhhccc-cchhhhhhHHHHHHHH
Confidence            88755432211   111112233333 3467888888887763

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.68  E-value=5.7e-07  Score=67.39  Aligned_cols=27  Identities=37%  Similarity=0.673  Sum_probs=24.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      .+.++|+||+||||++..+++.+...+
T Consensus         7 ki~ITG~PGvGKtTl~~ki~e~L~~~g   33 (179)
T COG1618           7 KIFITGRPGVGKTTLVLKIAEKLREKG   33 (179)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHhcC
Confidence            389999999999999999999987654

>PHA00729 NTP-binding motif containing protein

Probab=98.61  E-value=3.1e-07  Score=74.01  Aligned_cols=121  Identities=19%  Similarity=0.245  Sum_probs=65.3

Q ss_pred             HhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcc--cEEEeecC---CCcChhHHHHHHHHhhhcccccCCCCCceE
Q 021937           69 TSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHN--MILELNAS---DDRGIDVVRQQIQDFASTQSFSFGVKASVK  143 (305)
Q Consensus        69 l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~--~~~~~~~~---~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~  143 (305)
                      +..+...+++|+|+||+||||+|.++++.+.......  ........   .....+.+...+......       ..+..
T Consensus        12 l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~~~~~fid~~~Ll~~L~~a~~~-------~~~~d   84 (226)
T PHA00729         12 YNNNGFVSAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYVQNSYFFELPDALEKIQDAIDN-------DYRIP   84 (226)
T ss_pred             HhcCCeEEEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcCCcEEEEEHHHHHHHHHHHHhc-------CCCCC
Confidence            3444455799999999999999999999863100000  00000000   001223333334332211       11236


Q ss_pred             EEEEeCCCcCCHH-HHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHH
Q 021937          144 LVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKH  211 (305)
Q Consensus       144 vliiDe~~~l~~~-~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~  211 (305)
                      +++|||+..-... .++      .+   .      ......+.+.+++|+..+.|.+++.+++.+.++.
T Consensus        85 lLIIDd~G~~~~~~~wh------~~---~------~~~yf~L~~aLrSR~~l~il~~ls~edL~~~Lr~  138 (226)
T PHA00729         85 LIIFDDAGIWLSKYVWY------ED---Y------MKTFYKIYALIRTRVSAVIFTTPSPEDLAFYLRE  138 (226)
T ss_pred             EEEEeCCchhhcccchh------hh---c------cchHHHHHHHHHhhCcEEEEecCCHHHHHHHHHh
Confidence            8999995433211 000      00   0      0111245677778888899999998888887766

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.58  E-value=5.9e-07  Score=71.90  Aligned_cols=114  Identities=19%  Similarity=0.274  Sum_probs=64.1

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHH-------Hhhhcccc
Q 021937           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ-------DFASTQSF  134 (305)
Q Consensus        62 ~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~-------~~~~~~~~  134 (305)
                      .+.+...+.+. ....++.|++|+|||+++..+...+...+.  .++.+.. .......+.+...       .+......
T Consensus         7 ~~a~~~~l~~~-~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~--~v~~~ap-T~~Aa~~L~~~~~~~a~Ti~~~l~~~~~   82 (196)
T PF13604_consen    7 REAVRAILTSG-DRVSVLQGPAGTGKTTLLKALAEALEAAGK--RVIGLAP-TNKAAKELREKTGIEAQTIHSFLYRIPN   82 (196)
T ss_dssp             HHHHHHHHHCT-CSEEEEEESTTSTHHHHHHHHHHHHHHTT----EEEEES-SHHHHHHHHHHHTS-EEEHHHHTTEECC
T ss_pred             HHHHHHHHhcC-CeEEEEEECCCCCHHHHHHHHHHHHHhCCC--eEEEECC-cHHHHHHHHHhhCcchhhHHHHHhcCCc
Confidence            34444444443 245789999999999999999988866543  3333332 2222333333321       11111111


Q ss_pred             c----CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          135 S----FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       135 ~----~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .    .....+..+|||||+..++......|+..+..  .+.++|++++..
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            0    00123457999999999998877777776665  267888888754

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=98.57  E-value=1.5e-06  Score=72.91  Aligned_cols=160  Identities=14%  Similarity=0.172  Sum_probs=92.5

Q ss_pred             ccccchHHHHHH----HHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhh
Q 021937           54 DVAAHRDIVDTI----DRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (305)
Q Consensus        54 ~~~g~~~~~~~l----~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  129 (305)
                      .+.|.....+.+    ++.+..+....+++.||.|+|||.++..........+-....+.+|+.-....-.+.....++.
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            456655444444    4445567777899999999999999888877744445555566666654321111222221111


Q ss_pred             hc--------cccc------------CCCCCc-eEEEEEeCCCcCCHHH-HHHHHHHHHHh---cCCceEEEEecCCc--
Q 021937          130 ST--------QSFS------------FGVKAS-VKLVLLDEADAMTKDA-QFALRRVIEKY---TKNTRFALICNQVN--  182 (305)
Q Consensus       130 ~~--------~~~~------------~~~~~~-~~vliiDe~~~l~~~~-~~~l~~~l~~~---~~~~~iil~~~~~~--  182 (305)
                      ..        .++.            +....+ +-+.|+||+|...+.. |-.|+++++-.   .....++.+|.+.+  
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            10        1111            112222 3456667899886544 55677777732   23345555555543  


Q ss_pred             -ccchhhhcce--eEEE-ecCCCHHHHHHHHHHHH
Q 021937          183 -KIIPALQSRC--TRFR-FAPLEPVHVTERLKHVI  213 (305)
Q Consensus       183 -~l~~~l~~r~--~~i~-~~~~~~~~~~~~l~~~~  213 (305)
                       .+.+..++||  +++. +++.+.++...+++..+
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             5678888998  3344 45556778877777765

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=98.57  E-value=1.6e-06  Score=78.79  Aligned_cols=143  Identities=19%  Similarity=0.186  Sum_probs=82.9

Q ss_pred             ccccchHHHHHHHHHHhcCC---------C---CeEEEECCCCCcHHHHHHHHHHHHhCC----CCcccEEEeecCCCcC
Q 021937           54 DVAAHRDIVDTIDRLTSENR---------L---PHLLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNASDDRG  117 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~~---------~---~~~ll~G~~G~GKT~l~~~l~~~~~~~----~~~~~~~~~~~~~~~~  117 (305)
                      ++.|++..++.|.-.+-++.         .   -+++|+|.||+|||.+++.+++.....    |.....+.++..-...
T Consensus       430 sIye~edvKkglLLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVtrd  509 (804)
T KOG0478|consen  430 SIYELEDVKKGLLLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVTKD  509 (804)
T ss_pred             hhhcccchhhhHHHHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEEec
Confidence            45566666665544443321         1   249999999999999999999876321    1111111111100000


Q ss_pred             hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-------------cCCceEEEEecCC---
Q 021937          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQV---  181 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~iil~~~~~---  181 (305)
                      . .-++.+.+.      +.-.-+..++-.|||+|+++...+..|++.++..             ++.+.++.++|..   
T Consensus       510 ~-dtkqlVLes------GALVLSD~GiCCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaANP~~sk  582 (804)
T KOG0478|consen  510 P-DTRQLVLES------GALVLSDNGICCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAANPIRSK  582 (804)
T ss_pred             C-ccceeeeec------CcEEEcCCceEEchhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeeeecccccc
Confidence            0 000111000      0001233689999999999999999999999853             3455666666522   


Q ss_pred             ----------cccchhhhcceeE--EEecCCCHH
Q 021937          182 ----------NKIIPALQSRCTR--FRFAPLEPV  203 (305)
Q Consensus       182 ----------~~l~~~l~~r~~~--i~~~~~~~~  203 (305)
                                -.++++|.+||..  +-+.++++.
T Consensus       583 ynp~k~i~eNI~LpptLLSRFDLIylllD~~DE~  616 (804)
T KOG0478|consen  583 YNPNKSIIENINLPPTLLSRFDLIFLLLDKPDER  616 (804)
T ss_pred             CCCCCchhhccCCChhhhhhhcEEEEEecCcchh
Confidence                      1468999999944  456666655

>PHA02774 E1; Provisional

Probab=98.51  E-value=2.9e-06  Score=76.88  Aligned_cols=138  Identities=22%  Similarity=0.265  Sum_probs=84.8

Q ss_pred             HHHHHHHHHHhcCCC-CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCC
Q 021937           60 DIVDTIDRLTSENRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (305)
Q Consensus        60 ~~~~~l~~~l~~~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  138 (305)
                      ..+..|+.++.+.+. ..++|+||||+|||+++..+++.+.  +  ..+..+|......       +..           
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~--G--~vi~fvN~~s~Fw-------Lqp-----------  476 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK--G--KVISFVNSKSHFW-------LQP-----------  476 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC--C--CEEEEEECccccc-------cch-----------
Confidence            456677788766543 3499999999999999999999983  1  1222234321111       111           


Q ss_pred             CCceEEEEEeCCCcCC-HHHHHHHHHHHHHhc-------------CCceEEEEecCCc---ccchhhhcceeEEEecC--
Q 021937          139 KASVKLVLLDEADAMT-KDAQFALRRVIEKYT-------------KNTRFALICNQVN---KIIPALQSRCTRFRFAP--  199 (305)
Q Consensus       139 ~~~~~vliiDe~~~l~-~~~~~~l~~~l~~~~-------------~~~~iil~~~~~~---~l~~~l~~r~~~i~~~~--  199 (305)
                      -....++++||+-.-. .-....|..+++..+             ..+++|+++|...   .-...|.+|...+.|+.  
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            1124799999993221 112335666666432             2356788886432   23457778887776654  


Q ss_pred             -----------CCHHHHHHHHHHHHHHcCCC
Q 021937          200 -----------LEPVHVTERLKHVIEAEGLD  219 (305)
Q Consensus       200 -----------~~~~~~~~~l~~~~~~~~~~  219 (305)
                                 ++....+.++++...+..+.
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                       35567888888888776653

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

Probab=98.50  E-value=4e-05  Score=68.12  Aligned_cols=133  Identities=14%  Similarity=0.169  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC-cChhHHHHHHHHhhhcccccCCC
Q 021937           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-RGIDVVRQQIQDFASTQSFSFGV  138 (305)
Q Consensus        60 ~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~i~~~~~~~~~~~~~  138 (305)
                      .....+.+.+..... .++++||.+|||||+++.+.......     .+.++..+. .....+.+...........    
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            444555555555543 68999999999999998887775322     333333321 1112222223322222111    


Q ss_pred             CCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCC----cccchhhhcceeEEEecCCCHHHHHH
Q 021937          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV----NKIIPALQSRCTRFRFAPLEPVHVTE  207 (305)
Q Consensus       139 ~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~----~~l~~~l~~r~~~i~~~~~~~~~~~~  207 (305)
                        +...+++||+|....  +...++.+-+.... .+++++...    ......+..|...+.+.|++-.|...
T Consensus        94 --~~~yifLDEIq~v~~--W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373          94 --EKSYIFLDEIQNVPD--WERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             --CCceEEEecccCchh--HHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence              357999999999874  43334433333223 566665433    24456777788889999999998865

>PRK10536 hypothetical protein; Provisional

Probab=98.48  E-value=5.2e-06  Score=68.10  Aligned_cols=121  Identities=14%  Similarity=0.082  Sum_probs=70.3

Q ss_pred             cccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh-CCCCcccEEEeecCCCc---------------
Q 021937           53 ADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDDR---------------  116 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~---------------  116 (305)
                      ..+.+.......+..++...  ..+++.||+|||||+++.+++.... ...  +..+.+..+...               
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~--~~kIiI~RP~v~~ge~LGfLPG~~~eK  130 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKD--VDRIIVTRPVLQADEDLGFLPGDIAEK  130 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCC--eeEEEEeCCCCCchhhhCcCCCCHHHH
Confidence            34455556666666666553  4689999999999999999998532 322  222222222210               


Q ss_pred             ---ChhHHHHHHHHhhh-----------c-----c--cccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEE
Q 021937          117 ---GIDVVRQQIQDFAS-----------T-----Q--SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFA  175 (305)
Q Consensus       117 ---~~~~~~~~i~~~~~-----------~-----~--~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~ii  175 (305)
                         ....+.+.+.....           .     .  .+..+..-...+|||||++.++......++   -....++.+|
T Consensus       131 ~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~l---tR~g~~sk~v  207 (262)
T PRK10536        131 FAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFL---TRLGENVTVI  207 (262)
T ss_pred             HHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHH---hhcCCCCEEE
Confidence               00111222221100           0     0  122344455689999999999986655555   4445688888


Q ss_pred             EEecC
Q 021937          176 LICNQ  180 (305)
Q Consensus       176 l~~~~  180 (305)
                      ++++.
T Consensus       208 ~~GD~  212 (262)
T PRK10536        208 VNGDI  212 (262)
T ss_pred             EeCCh
Confidence            88853

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=98.48  E-value=1.3e-06  Score=80.98  Aligned_cols=109  Identities=24%  Similarity=0.290  Sum_probs=65.2

Q ss_pred             ccccchHHHHHHHHHHhcCC------------CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC--hh
Q 021937           54 DVAAHRDIVDTIDRLTSENR------------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--ID  119 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~~------------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--~~  119 (305)
                      .+.|++.+++.+.-.+-++.            --|++|.|.||+|||.+.+.+.+...    ...+..-.++...+  ..
T Consensus       287 sIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aP----r~vytsgkgss~~GLTAa  362 (682)
T COG1241         287 SIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAP----RGVYTSGKGSSAAGLTAA  362 (682)
T ss_pred             cccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCC----ceEEEccccccccCceeE
Confidence            56677777776655554321            13599999999999999999998752    11122212211111  11


Q ss_pred             HHHHHH-HHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh
Q 021937          120 VVRQQI-QDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (305)
Q Consensus       120 ~~~~~i-~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~  168 (305)
                      ..+... .++.  ...+.-.-+.++|.+|||+|+++.....++...++..
T Consensus       363 v~rd~~tge~~--LeaGALVlAD~Gv~cIDEfdKm~~~dr~aihEaMEQQ  410 (682)
T COG1241         363 VVRDKVTGEWV--LEAGALVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQ  410 (682)
T ss_pred             EEEccCCCeEE--EeCCEEEEecCCEEEEEeccCCChHHHHHHHHHHHhc
Confidence            111111 0000  0011112244789999999999999999999999964

>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]

Probab=98.41  E-value=7e-06  Score=72.36  Aligned_cols=202  Identities=21%  Similarity=0.244  Sum_probs=118.5

Q ss_pred             ccccchHHHHHHHHHHhcCCC------------CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHH
Q 021937           54 DVAAHRDIVDTIDRLTSENRL------------PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~~~------------~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (305)
                      ++.|+..+++.|.-++-++..            -+++|.|.||+.||.|.+.+.+...    ...+.+-.+++  +....
T Consensus       343 EIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlap----RgvYTTGrGSS--GVGLT  416 (721)
T KOG0482|consen  343 EIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAP----RGVYTTGRGSS--GVGLT  416 (721)
T ss_pred             hhccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCc----ccceecCCCCC--ccccc
Confidence            688999999999888765421            1389999999999999999987642    11122111111  11111


Q ss_pred             HHHHHHhhhc-ccccCC--CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-------------CCceEEEEecCC----
Q 021937          122 RQQIQDFAST-QSFSFG--VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFALICNQV----  181 (305)
Q Consensus       122 ~~~i~~~~~~-~~~~~~--~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-------------~~~~iil~~~~~----  181 (305)
                      ...+.+-... ....++  .-+..+|-.|||+|++......++...++...             +.+.++.++|..    
T Consensus       417 AAVmkDpvTgEM~LEGGALVLAD~GICCIDEfDKM~e~DRtAIHEVMEQQTISIaKAGI~TtLNAR~sILaAANPayGRY  496 (721)
T KOG0482|consen  417 AAVMKDPVTGEMVLEGGALVLADGGICCIDEFDKMDESDRTAIHEVMEQQTISIAKAGINTTLNARTSILAAANPAYGRY  496 (721)
T ss_pred             hhhhcCCCCCeeEeccceEEEccCceEeehhhhhhhhhhhHHHHHHHHhhhhhhhhhccccchhhhHHhhhhcCcccccc
Confidence            1111111000 000000  11335788999999999888888888887532             233444444321    


Q ss_pred             ---------cccchhhhcceeE-------------------------------EEecCCCHHHHHHHHHHHHHHcCCCCC
Q 021937          182 ---------NKIIPALQSRCTR-------------------------------FRFAPLEPVHVTERLKHVIEAEGLDVT  221 (305)
Q Consensus       182 ---------~~l~~~l~~r~~~-------------------------------i~~~~~~~~~~~~~l~~~~~~~~~~~~  221 (305)
                               -.++.+|.+||..                               ..|.|++..-++.+|.. +++.+..++
T Consensus       497 nprrs~e~NI~LPaALLSRFDll~Li~D~pdrd~D~~LA~HiTyVH~H~~qp~~~fepl~~~~mR~yI~~-ak~~~P~vp  575 (721)
T KOG0482|consen  497 NPRRSPEQNINLPAALLSRFDLLWLIQDRPDRDNDLRLAQHITYVHQHEEQPPLDFEPLDPNLMRRYISL-AKRKNPVVP  575 (721)
T ss_pred             CcccChhHhcCCcHHHHHhhhhhhhhccCCcccchHHHHHHhHhhhccCCCCCccCCCCCHHHHHHHHHH-HhhcCCCCC
Confidence                     1456777777521                               34666666666666643 555566677


Q ss_pred             HHHHHHHHHHc--------------CCCHHHHHHHHHHHhhc-----cCccCHHHHHhhh
Q 021937          222 EGGLAALVRLC--------------NGDMRKALNILQSTHMA-----SQQITEEAVYLCT  262 (305)
Q Consensus       222 ~~~~~~l~~~~--------------~g~~r~~~~~l~~~~~~-----~~~i~~~~v~~~~  262 (305)
                      ++..+.|....              .-.+|.++.++......     +..+..++|.+++
T Consensus       576 ~~l~dyi~~AYv~~Rrea~~~~~~t~ttpRtLL~IlRls~AlarLRls~~V~~~DV~EAL  635 (721)
T KOG0482|consen  576 EALADYITGAYVELRREARSSKDFTYTTPRTLLGILRLSTALARLRLSDSVEEDDVNEAL  635 (721)
T ss_pred             HHHHHHHHHHHHHHHHHhhccCCCcccCHHHHHHHHHHHHHHHHhhhccccchhhHHHHH
Confidence            77766665321              24688888877543332     3457777777666

>PRK04296 thymidine kinase; Provisional

Probab=98.40  E-value=3.3e-06  Score=67.24  Aligned_cols=94  Identities=16%  Similarity=0.246  Sum_probs=52.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE--eecCCC-------cCh-------hHHHHHHHHhhhcccccCCCCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE--LNASDD-------RGI-------DVVRQQIQDFASTQSFSFGVKA  140 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~--~~~~~~-------~~~-------~~~~~~i~~~~~~~~~~~~~~~  140 (305)
                      .+++||+|+||||++..++.+....+....++.  ++....       .+.       ....+.+..+..       ...
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            689999999999999999988765554433331  011100       000       001111111111       122


Q ss_pred             ceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      +..+|+|||++.+..++...+.+.+..  ....+++++.
T Consensus        78 ~~dvviIDEaq~l~~~~v~~l~~~l~~--~g~~vi~tgl  114 (190)
T PRK04296         78 KIDCVLIDEAQFLDKEQVVQLAEVLDD--LGIPVICYGL  114 (190)
T ss_pred             CCCEEEEEccccCCHHHHHHHHHHHHH--cCCeEEEEec
Confidence            368999999999987655555555443  3556666653

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

Probab=98.38  E-value=2.8e-05  Score=66.46  Aligned_cols=197  Identities=18%  Similarity=0.173  Sum_probs=106.0

Q ss_pred             cccccchHHHHHHHHHHhcCCC--Ce-EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChh----------
Q 021937           53 ADVAAHRDIVDTIDRLTSENRL--PH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID----------  119 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~~~--~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------  119 (305)
                      .++.+++..+..|..++.....  |. +.|+|-+|+|||.+++.+.+..+.     ..+.+++.+--...          
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 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKILNKS   80 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHHHHHh
Confidence            3567888899999998876543  33 699999999999999999998732     22222222111111          


Q ss_pred             ---------------HHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH---HHHHHHHHHHHhcC-CceEEEEecC
Q 021937          120 ---------------VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD---AQFALRRVIEKYTK-NTRFALICNQ  180 (305)
Q Consensus       120 ---------------~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~---~~~~l~~~l~~~~~-~~~iil~~~~  180 (305)
                                     .+...+..+.+...  .......-+|++|.+|.+..-   ..+.|+++-+-.+. ...++++...
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                           11111111111000  011234678999999988632   23344444333332 3344444433


Q ss_pred             Ccccchh-hhc-ceeEEEecCCCHHHHHHHHHHHHH-HcCCCCCHH----HHHHHHHHcCCCHHHHHHHHHHHhh-c---
Q 021937          181 VNKIIPA-LQS-RCTRFRFAPLEPVHVTERLKHVIE-AEGLDVTEG----GLAALVRLCNGDMRKALNILQSTHM-A---  249 (305)
Q Consensus       181 ~~~l~~~-l~~-r~~~i~~~~~~~~~~~~~l~~~~~-~~~~~~~~~----~~~~l~~~~~g~~r~~~~~l~~~~~-~---  249 (305)
                      ....-.. ... -...++|+.++.+++..++.+--. +....+-..    +++.+...|. |++.+...+..+.. .   
T Consensus       159 ~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~~wpky~ep  237 (438)
T KOG2543|consen  159 CEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPGKRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISLAWPKYCEP  237 (438)
T ss_pred             cHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCccccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHHhhccc
Confidence            2221110 111 125689999999999998865322 111111112    2233445554 99888888865543 2   


Q ss_pred             --cCccCHHH
Q 021937          250 --SQQITEEA  257 (305)
Q Consensus       250 --~~~i~~~~  257 (305)
                        .+.|++.+
T Consensus       238 i~~~~i~~~d  247 (438)
T KOG2543|consen  238 ITKGKIDPTD  247 (438)
T ss_pred             cccCCCChhH
Confidence              24455555

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.38  E-value=3.4e-05  Score=74.92  Aligned_cols=191  Identities=12%  Similarity=0.141  Sum_probs=118.0

Q ss_pred             cccchHHHHHHHHHHhc---CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC---CCcChhHHHHHHHHh
Q 021937           55 VAAHRDIVDTIDRLTSE---NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS---DDRGIDVVRQQIQDF  128 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~~---~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~~~  128 (305)
                      ++|++..++.|...+..   +....+++.|.+|.|||.+++.+.+.+.+..  ..++...+.   .......+.+.+.++
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~--~~~i~~~f~q~~~~ipl~~lvq~~r~l   79 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQR--GYFIKGKFDQFERNIPLSPLVQAFRDL   79 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccc--eeeeHhhcccccCCCchHHHHHHHHHH
Confidence            57888888888777764   3333489999999999999999999886541  112211111   111222222222222


Q ss_pred             hhccc-----------------------------------cc---------------------------CCCCCceEEEE
Q 021937          129 ASTQS-----------------------------------FS---------------------------FGVKASVKLVL  146 (305)
Q Consensus       129 ~~~~~-----------------------------------~~---------------------------~~~~~~~~vli  146 (305)
                      .+...                                   .+                           ...+.++-|+|
T Consensus        80 ~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~  159 (849)
T COG3899          80 MGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIV  159 (849)
T ss_pred             HHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEE
Confidence            11100                                   00                           00225588999


Q ss_pred             EeCCCcCCHHHHHHHHHHHHHhc--C--CceEEEEecCCcccchhhhc--ceeEEEecCCCHHHHHHHHHHHHHHcCCCC
Q 021937          147 LDEADAMTKDAQFALRRVIEKYT--K--NTRFALICNQVNKIIPALQS--RCTRFRFAPLEPVHVTERLKHVIEAEGLDV  220 (305)
Q Consensus       147 iDe~~~l~~~~~~~l~~~l~~~~--~--~~~iil~~~~~~~l~~~l~~--r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~  220 (305)
                      +||+|..+..+.+.|-.+++...  .  ...+..+.+....+.....+  +...+.+.|++..+...++...+... ...
T Consensus       160 leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~-~~~  238 (849)
T COG3899         160 LEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCT-KLL  238 (849)
T ss_pred             EecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCc-ccc
Confidence            99999999998888888887654  0  01111111221222222222  24779999999999999998887542 245


Q ss_pred             CHHHHHHHHHHcCCCHHHHHHHHHHHhh
Q 021937          221 TEGGLAALVRLCNGDMRKALNILQSTHM  248 (305)
Q Consensus       221 ~~~~~~~l~~~~~g~~r~~~~~l~~~~~  248 (305)
                      ..+..+.+.+.+.|+|=-+...++.+..
T Consensus       239 ~~p~~~~i~~kt~GnPfFi~e~lk~l~~  266 (849)
T COG3899         239 PAPLLELIFEKTKGNPFFIEEFLKALYE  266 (849)
T ss_pred             cchHHHHHHHHhcCCCccHHHHHHHHHh
Confidence            6778899999999998777766665554

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=98.38  E-value=2.9e-06  Score=76.59  Aligned_cols=110  Identities=23%  Similarity=0.214  Sum_probs=63.2

Q ss_pred             cccccchHHHHHHHHHHhcC------------CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC--h
Q 021937           53 ADVAAHRDIVDTIDRLTSEN------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--I  118 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--~  118 (305)
                      ..+-|++.++..+.-.+-++            .-.+++++|.||+|||.++++......    ...++.-+.+...+  .
T Consensus       345 PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsP----R~vYtsGkaSSaAGLTa  420 (764)
T KOG0480|consen  345 PSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSP----RSVYTSGKASSAAGLTA  420 (764)
T ss_pred             ccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCC----cceEecCcccccccceE
Confidence            45667887777665555432            123599999999999999999987641    11111111111111  0


Q ss_pred             hHHHHHH-HHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh
Q 021937          119 DVVRQQI-QDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (305)
Q Consensus       119 ~~~~~~i-~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~  168 (305)
                      ...+..- .++.-.  .+.-.-+..+|-.|||+|++....+.+++..++..
T Consensus       421 aVvkD~esgdf~iE--AGALmLADnGICCIDEFDKMd~~dqvAihEAMEQQ  469 (764)
T KOG0480|consen  421 AVVKDEESGDFTIE--AGALMLADNGICCIDEFDKMDVKDQVAIHEAMEQQ  469 (764)
T ss_pred             EEEecCCCCceeee--cCcEEEccCceEEechhcccChHhHHHHHHHHHhh
Confidence            0000000 000000  00011234689999999999998899999999964

>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=98.37  E-value=5.5e-07  Score=69.98  Aligned_cols=62  Identities=16%  Similarity=0.284  Sum_probs=33.6

Q ss_pred             ceEEEEEeCCCcC---CHHHHHHHHHHHHHhcCCceEEEEecC--Ccccchhhhcc--eeEEEecCCCHHHH
Q 021937          141 SVKLVLLDEADAM---TKDAQFALRRVIEKYTKNTRFALICNQ--VNKIIPALQSR--CTRFRFAPLEPVHV  205 (305)
Q Consensus       141 ~~~vliiDe~~~l---~~~~~~~l~~~l~~~~~~~~iil~~~~--~~~l~~~l~~r--~~~i~~~~~~~~~~  205 (305)
                      ...+++|||+..+   .+.-.+.+..+++   .+..++.+...  ...+.+.+.+|  +.++.+.+-..+.+
T Consensus        95 ~~~liviDEIG~mEl~~~~F~~~v~~~l~---s~~~vi~vv~~~~~~~~l~~i~~~~~~~i~~vt~~NRd~l  163 (168)
T PF03266_consen   95 SSDLIVIDEIGKMELKSPGFREAVEKLLD---SNKPVIGVVHKRSDNPFLEEIKRRPDVKIFEVTEENRDAL  163 (168)
T ss_dssp             CCHEEEE---STTCCC-CHHHHHHHHHHC---TTSEEEEE--SS--SCCHHHHHTTTTSEEEE--TTTCCCH
T ss_pred             CCCEEEEeccchhhhcCHHHHHHHHHHHc---CCCcEEEEEecCCCcHHHHHHHhCCCcEEEEeChhHHhhH
Confidence            4679999998776   3445666777777   23445444433  34577888887  57777765554433

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.

>PRK04132 replication factor C small subunit; Provisional

Probab=98.36  E-value=3.3e-07  Score=87.30  Aligned_cols=50  Identities=46%  Similarity=0.935  Sum_probs=47.4

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHH
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTS   89 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~   89 (305)
                      +.||.++|+|++|++++|++.+++.|..++..+..+|++|+||||+||+.
T Consensus         6 ~~~~~~k~RP~~f~dIiGqe~i~~~Lk~~i~~~~i~h~l~~g~~g~~~cl   55 (846)
T PRK04132          6 EKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKCL   55 (846)
T ss_pred             cccHHHhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEECCCCCCccc
Confidence            46899999999999999999999999999999999999999999999964

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=98.32  E-value=1e-06  Score=63.22  Aligned_cols=72  Identities=22%  Similarity=0.416  Sum_probs=44.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCC---CcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l  153 (305)
                      ++|+|+||+|||++++.+++.+....   ....+...+...     .   ....+      .     +..++++||+...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~-----~---~w~gY------~-----~q~vvi~DD~~~~   61 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGD-----K---FWDGY------Q-----GQPVVIIDDFGQD   61 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCcc-----c---hhhcc------C-----CCcEEEEeecCcc
Confidence            47999999999999999998885321   111222212111     1   11111      1     1479999999888


Q ss_pred             CHH----HHHHHHHHHHH
Q 021937          154 TKD----AQFALRRVIEK  167 (305)
Q Consensus       154 ~~~----~~~~l~~~l~~  167 (305)
                      ...    ....+.+++..
T Consensus        62 ~~~~~~~~~~~l~~l~s~   79 (107)
T PF00910_consen   62 NDGYNYSDESELIRLISS   79 (107)
T ss_pred             ccccchHHHHHHHHHHhc
Confidence            754    45567777664

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

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.30  E-value=1.4e-05  Score=77.50  Aligned_cols=184  Identities=13%  Similarity=0.063  Sum_probs=106.7

Q ss_pred             ccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh-CCCCcccEEEeecCCCcChhHHHHHHHHhhhccc-
Q 021937           56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDDRGIDVVRQQIQDFASTQS-  133 (305)
Q Consensus        56 ~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~-  133 (305)
                      +|++..++.+.+.+.......+-++|..|+||||+++.+.+... -.+....++-+..+.......+.+.+..-..... 
T Consensus       161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~  240 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDE  240 (889)
T ss_pred             ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCc
Confidence            99999999999999888777789999999999999999999875 2111111222222222222233222222111100 


Q ss_pred             -------------ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-c---CCceEEEEecCCcccchhhhcceeEEE
Q 021937          134 -------------FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-T---KNTRFALICNQVNKIIPALQSRCTRFR  196 (305)
Q Consensus       134 -------------~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-~---~~~~iil~~~~~~~l~~~l~~r~~~i~  196 (305)
                                   ...-.+.++-+|++||++.=..      ++.+..+ |   ...++++||....--.... .....++
T Consensus       241 ~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~d------w~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m-~~~~~~~  313 (889)
T KOG4658|consen  241 EWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVD------WDKIGVPFPSRENGSKVVLTTRSEEVCGRAM-GVDYPIE  313 (889)
T ss_pred             ccchhhHHHHHHHHHHHhccCceEEEEeccccccc------HHhcCCCCCCccCCeEEEEEeccHhhhhccc-cCCcccc
Confidence                         0011235678999999875432      3333321 2   2367778876643221111 2234566


Q ss_pred             ecCCCHHHHHHHHHHHHHHcCCC--C-CHHHHHHHHHHcCCCHHHHHHHHHHH
Q 021937          197 FAPLEPVHVTERLKHVIEAEGLD--V-TEGGLAALVRLCNGDMRKALNILQST  246 (305)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~--~-~~~~~~~l~~~~~g~~r~~~~~l~~~  246 (305)
                      ..-++.++.=+.+...+......  . -++....+++.|+|-|-++.-+-..+
T Consensus       314 v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~m  366 (889)
T KOG4658|consen  314 VECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLL  366 (889)
T ss_pred             ccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHh
Confidence            66778888777777766433211  1 25677888999998665444433333

>PTZ00202 tuzin; Provisional

Probab=98.29  E-value=6.5e-05  Score=66.06  Aligned_cols=51  Identities=16%  Similarity=0.176  Sum_probs=42.6

Q ss_pred             CCCCccccccchHHHHHHHHHHhcCC---CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSENR---LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~~~---~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .|.....|+|++..+.+|...+.+..   +..++|+|++|+|||++++.+...+
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            46667889999999999999997532   2247899999999999999999776

>PHA02624 large T antigen; Provisional

Probab=98.28  E-value=6.2e-06  Score=75.08  Aligned_cols=118  Identities=17%  Similarity=0.187  Sum_probs=70.1

Q ss_pred             HHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCC
Q 021937           61 IVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVK  139 (305)
Q Consensus        61 ~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~  139 (305)
                      ....++.++.+-+... ++|+||+|+|||+++.++++.+     ....+.++++.....    -.+.-+           
T Consensus       417 ~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L-----~G~vlsVNsPt~ks~----FwL~pl-----------  476 (647)
T PHA02624        417 IYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC-----GGKSLNVNCPPDKLN----FELGCA-----------  476 (647)
T ss_pred             HHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc-----CCeEEEeeCCcchhH----HHhhhh-----------
Confidence            3344555555544333 8999999999999999999998     334555665542211    111111           


Q ss_pred             CceEEEEEeCCCcCCH-----------HHHHHHHHHHHHh-c-------------CCceEEEEecCCcccchhhhcce-e
Q 021937          140 ASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-T-------------KNTRFALICNQVNKIIPALQSRC-T  193 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~-~-------------~~~~iil~~~~~~~l~~~l~~r~-~  193 (305)
                      ....+++|||+-.-.-           +....|.+.++.. +             .-.+.|+|+|. ..++.++.-|+ .
T Consensus       477 ~D~~~~l~dD~t~~~~~~~~Lp~G~~~dNl~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~Ne-y~iP~T~~~Rf~~  555 (647)
T PHA02624        477 IDQFMVVFEDVKGQPADNKDLPSGQGMNNLDNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTMNE-YLIPQTVKARFAK  555 (647)
T ss_pred             hhceEEEeeeccccccccccCCcccccchhhHHHhhcCCCCccccchhccCchhccCCCeEEeecC-cccchhHHHHHHH
Confidence            1147899999843221           1235677777744 2             11234455554 46888998897 5


Q ss_pred             EEEecC
Q 021937          194 RFRFAP  199 (305)
Q Consensus       194 ~i~~~~  199 (305)
                      ++.|.+
T Consensus       556 ~~~F~~  561 (647)
T PHA02624        556 VLDFKP  561 (647)
T ss_pred             hccccc
Confidence            566644

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

Probab=98.27  E-value=1.8e-05  Score=61.28  Aligned_cols=57  Identities=14%  Similarity=0.291  Sum_probs=41.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEE
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFR  196 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~  196 (305)
                      .++.+++-|| -.+++++....+++++++.+....-++++++...+..++..|+..+.
T Consensus       154 ~~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv~~~~~rvl~l~  211 (223)
T COG2884         154 NQPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMRHRVLALE  211 (223)
T ss_pred             cCCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHHHhccCcEEEEe
Confidence            5678999999 57788888889999999887655555555555556666666654443

>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=98.27  E-value=4e-05  Score=64.09  Aligned_cols=167  Identities=19%  Similarity=0.262  Sum_probs=93.1

Q ss_pred             ccccchHHHHHHHHHHh--cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhc
Q 021937           54 DVAAHRDIVDTIDRLTS--ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~--~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (305)
                      +++--++.++.+.+...  +.+..|++|.|.+|+||+++++..+.-.     ...++.+.....-+..+.++.++.+...
T Consensus         9 ~lVlf~~ai~hi~ri~RvL~~~~Gh~LLvG~~GsGr~sl~rLaa~i~-----~~~~~~i~~~~~y~~~~f~~dLk~~~~~   83 (268)
T PF12780_consen    9 NLVLFDEAIEHIARISRVLSQPRGHALLVGVGGSGRQSLARLAAFIC-----GYEVFQIEITKGYSIKDFKEDLKKALQK   83 (268)
T ss_dssp             -----HHHHHHHHHHHHHHCSTTEEEEEECTTTSCHHHHHHHHHHHT-----TEEEE-TTTSTTTHHHHHHHHHHHHHHH
T ss_pred             ceeeHHHHHHHHHHHHHHHcCCCCCeEEecCCCccHHHHHHHHHHHh-----ccceEEEEeeCCcCHHHHHHHHHHHHHH
Confidence            34455566665544432  2344679999999999999999777654     4456666555544455555566555444


Q ss_pred             ccccCCCCCceEEEEEeCCCcCCHHH---------------------HHH--------------------HHH-HHHHhc
Q 021937          132 QSFSFGVKASVKLVLLDEADAMTKDA---------------------QFA--------------------LRR-VIEKYT  169 (305)
Q Consensus       132 ~~~~~~~~~~~~vliiDe~~~l~~~~---------------------~~~--------------------l~~-~l~~~~  169 (305)
                      ...    +.++.+++++|.+.....-                     .+.                    +++ +++...
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            332    2347889999876653211                     011                    111 122334


Q ss_pred             CCceEEEEecCCc-------ccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 021937          170 KNTRFALICNQVN-------KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR  230 (305)
Q Consensus       170 ~~~~iil~~~~~~-------~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~  230 (305)
                      .+..++++.+...       ...|++.++|.+.-+.+++.+.+..+-...+..... ++++..+.++.
T Consensus       160 ~nLHivl~~sp~~~~~r~~~~~fPaL~~~ctIdW~~~W~~eaL~~Va~~~l~~~~~-~~~~~~~~l~~  226 (268)
T PF12780_consen  160 KNLHIVLCMSPVGPNFRDRCRSFPALVNCCTIDWFDPWPEEALLSVANKFLSDIEL-LSEELKKSLAE  226 (268)
T ss_dssp             CCEEEEEEESTTTTCCCHHHHHHCCHHHHSEEEEEES--HHHHHHHHHHHCCHHHT-SS--HHHHHHH
T ss_pred             hheeEEEEECCCCchHHHHHHhCcchhcccEEEeCCcCCHHHHHHHHHHHHHhhcc-cchhHHHHHHH
Confidence            5667777764332       235677788888899999999988877766544321 34444444444

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=98.26  E-value=5e-06  Score=60.29  Aligned_cols=60  Identities=18%  Similarity=0.201  Sum_probs=43.0

Q ss_pred             cccccchHHHHHHHHHHh----cCCC--Ce-EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           53 ADVAAHRDIVDTIDRLTS----ENRL--PH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~----~~~~--~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      ..+.||.-+.+.+.+.+.    ...+  |. +.++|++|||||.+++.+|+.+...+....++..-.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~   91 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFI   91 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeec
Confidence            467888766665555544    3222  22 569999999999999999999988777776666533

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

>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=98.25  E-value=5.9e-06  Score=72.07  Aligned_cols=121  Identities=19%  Similarity=0.217  Sum_probs=65.2

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhCCC-CcccEEEeecCCCcChhHHHHHHHHhhhcc-c---ccCCCCCceEEEEE
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQ-S---FSFGVKASVKLVLL  147 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~-~---~~~~~~~~~~vlii  147 (305)
                      .+.+++|||+.|+|||.|+..+.+.+.... ....|..       ....+.+.+....... +   ..........||++
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~-------Fm~~vh~~l~~~~~~~~~l~~va~~l~~~~~lLcf  133 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHE-------FMLDVHSRLHQLRGQDDPLPQVADELAKESRLLCF  133 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCccccccccccH-------HHHHHHHHHHHHhCCCccHHHHHHHHHhcCCEEEE
Confidence            345699999999999999999998874311 1111111       0111111222111000 0   00001122569999


Q ss_pred             eCCCcCCHHHHHHHHHHHHHhcCC-ceEEEEecCCc-c-------------cchhhhcceeEEEecCC
Q 021937          148 DEADAMTKDAQFALRRVIEKYTKN-TRFALICNQVN-K-------------IIPALQSRCTRFRFAPL  200 (305)
Q Consensus       148 De~~~l~~~~~~~l~~~l~~~~~~-~~iil~~~~~~-~-------------l~~~l~~r~~~i~~~~~  200 (305)
                      ||++--+....-.|-.+++..-.. +++|.|+|... .             ..+.+.++|.++.+...
T Consensus       134 DEF~V~DiaDAmil~rLf~~l~~~gvvlVaTSN~~P~~Ly~~gl~r~~Flp~I~~l~~~~~vv~ld~~  201 (362)
T PF03969_consen  134 DEFQVTDIADAMILKRLFEALFKRGVVLVATSNRPPEDLYKNGLQRERFLPFIDLLKRRCDVVELDGG  201 (362)
T ss_pred             eeeeccchhHHHHHHHHHHHHHHCCCEEEecCCCChHHHcCCcccHHHHHHHHHHHHhceEEEEecCC
Confidence            999887765555555666655444 45555555432 1             13455667777776655

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

>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=7.3e-05  Score=64.18  Aligned_cols=48  Identities=19%  Similarity=0.075  Sum_probs=37.6

Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Q 021937          194 RFRFAPLEPVHVTERLKHVIEAEGL---DVTEGGLAALVRLCNGDMRKALN  241 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~g~~r~~~~  241 (305)
                      .+++++++.+|...++..+....-+   ..++...+.+.-.++||++.+..
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            7899999999999999888765433   24556677777788999998753

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).

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.19  E-value=0.00011  Score=73.50  Aligned_cols=153  Identities=22%  Similarity=0.359  Sum_probs=101.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhc----ccccCC----CCCceEEEEE
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST----QSFSFG----VKASVKLVLL  147 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~----~~~~~~----~~~~~~vlii  147 (305)
                      .++|-||+.+|||+++..+++..     .-.++.+|.....   ++.+.+.++...    ..|..+    .-.++-.|++
T Consensus       890 P~LiQGpTSSGKTSMI~yla~~t-----ghkfVRINNHEHT---dlqeYiGTyvTdd~G~lsFkEGvLVeAlR~GyWIVL  961 (4600)
T COG5271         890 PLLIQGPTSSGKTSMILYLARET-----GHKFVRINNHEHT---DLQEYIGTYVTDDDGSLSFKEGVLVEALRRGYWIVL  961 (4600)
T ss_pred             cEEEecCCCCCcchHHHHHHHHh-----CccEEEecCcccc---hHHHHhhceeecCCCceeeehhHHHHHHhcCcEEEe
Confidence            39999999999999999999986     3356666654432   222222222111    111111    0122468999


Q ss_pred             eCCCcCCHHHHHHHHHHHHHhc------------CCceE-EEEecCC-------cccchhhhcceeEEEecCCCHHHHHH
Q 021937          148 DEADAMTKDAQFALRRVIEKYT------------KNTRF-ALICNQV-------NKIIPALQSRCTRFRFAPLEPVHVTE  207 (305)
Q Consensus       148 De~~~l~~~~~~~l~~~l~~~~------------~~~~i-il~~~~~-------~~l~~~l~~r~~~i~~~~~~~~~~~~  207 (305)
                      ||....+.+..++|-+++++..            ++..| +++|..+       ..+..++++||..++|...+.+++..
T Consensus       962 DELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK~LSrAFRNRFlE~hFddipedEle~ 1041 (4600)
T COG5271         962 DELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRKGLSRAFRNRFLEMHFDDIPEDELEE 1041 (4600)
T ss_pred             eccccCcHHHHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchHHHHHHHHhhhHhhhcccCcHHHHHH
Confidence            9999999999999999998632            22333 3344332       24678999999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHH
Q 021937          208 RLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALN  241 (305)
Q Consensus       208 ~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~  241 (305)
                      ++..+     +++.+.....|++...| ..|+-.+
T Consensus      1042 ILh~r-----c~iapSyakKiVeVyr~Ls~rRs~~ 1071 (4600)
T COG5271        1042 ILHGR-----CEIAPSYAKKIVEVYRGLSSRRSIN 1071 (4600)
T ss_pred             HHhcc-----CccCHHHHHHHHHHHHHhhhhhhHH
Confidence            99764     56777777777775543 3444443

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=98.19  E-value=3.2e-05  Score=67.17  Aligned_cols=117  Identities=15%  Similarity=0.223  Sum_probs=64.2

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHh--CCCCcccEEEeecCCCcChhHHHHHHHHhhhccc-cc---------CCCCCc
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLY--GAQYHNMILELNASDDRGIDVVRQQIQDFASTQS-FS---------FGVKAS  141 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~-~~---------~~~~~~  141 (305)
                      ...+.|.||+|+||||++..+|..+.  ......-++..++.+....+.++..- .....+- ..         -..-..
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya-~im~vp~~vv~~~~el~~ai~~l~~  281 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYA-DIMGVPLEVVYSPKELAEAIEALRD  281 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHH-HHhCCceEEecCHHHHHHHHHHhhc
Confidence            34489999999999998888887775  44556667777766543333322211 1100000 00         000123


Q ss_pred             eEEEEEeCCCcCC--HHHHHHHHHHHHHh-cCCceEEEEecCCcccchhhhcc
Q 021937          142 VKLVLLDEADAMT--KDAQFALRRVIEKY-TKNTRFALICNQVNKIIPALQSR  191 (305)
Q Consensus       142 ~~vliiDe~~~l~--~~~~~~l~~~l~~~-~~~~~iil~~~~~~~l~~~l~~r  191 (305)
                      +++|++|=+.+-.  ......|-.+++.. +..+.+++.++....-...+..+
T Consensus       282 ~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~  334 (407)
T COG1419         282 CDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQ  334 (407)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHH
Confidence            5899999876654  33445566666543 33455566555544444444444

>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=98.18  E-value=7.5e-06  Score=65.30  Aligned_cols=103  Identities=18%  Similarity=0.341  Sum_probs=49.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCC-CcccEEEeecCC-Cc---------------ChhHHHHHHHHhhh-------
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASD-DR---------------GIDVVRQQIQDFAS-------  130 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~-~~---------------~~~~~~~~i~~~~~-------  130 (305)
                      +.+++.||+|||||.++-+.+.+....+ +...++.-.... ..               ....+.+.+.....       
T Consensus        20 ~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~p~~d~l~~~~~~~~~~~~   99 (205)
T PF02562_consen   20 DLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLRPIYDALEELFGKEKLEEL   99 (205)
T ss_dssp             SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTTHHHHHHHTTTS-TTCHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHHHHHHHHHHHhChHhHHHH
Confidence            4589999999999999999887664332 222222211111 00               11112222221100       


Q ss_pred             ---------cccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          131 ---------TQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       131 ---------~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                               ...+..+..-...+||+||++.+.+.....+   +-+...++++|++++.
T Consensus       100 ~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~i---lTR~g~~skii~~GD~  155 (205)
T PF02562_consen  100 IQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMI---LTRIGEGSKIIITGDP  155 (205)
T ss_dssp             HHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHH---HTTB-TT-EEEEEE--
T ss_pred             hhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHH---HcccCCCcEEEEecCc
Confidence                     0113344445568999999999997765554   4445567889988854

; GO: 0005524 ATP binding; PDB: 3B85_A.

>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=98.16  E-value=2.3e-05  Score=62.55  Aligned_cols=93  Identities=20%  Similarity=0.295  Sum_probs=56.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCC----------------CC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG----------------VK  139 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~----------------~~  139 (305)
                      .++|.||+|+||||++..++..+...+....++..+..+....+.++...+... ...+...                ..
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~-vp~~~~~~~~~~~~~~~~~l~~~~~   81 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILG-VPFYVARTESDPAEIAREALEKFRK   81 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHT-EEEEESSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhc-cccchhhcchhhHHHHHHHHHHHhh
Confidence            378999999999999999999887667777777777666444444433322221 1100000                01


Q ss_pred             CceEEEEEeCCCcCCH--HHHHHHHHHHHHhc
Q 021937          140 ASVKLVLLDEADAMTK--DAQFALRRVIEKYT  169 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~  169 (305)
                      .+..+|+||=..+...  +....+.++++...
T Consensus        82 ~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~  113 (196)
T PF00448_consen   82 KGYDLVLIDTAGRSPRDEELLEELKKLLEALN  113 (196)
T ss_dssp             TTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHS
T ss_pred             cCCCEEEEecCCcchhhHHHHHHHHHHhhhcC
Confidence            2357999998877663  34556666666553

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 ....

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.14  E-value=2.9e-05  Score=59.98  Aligned_cols=25  Identities=36%  Similarity=0.713  Sum_probs=22.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      ++|+|++|+|||+++..++......
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~   26 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATK   26 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhc
Confidence            6899999999999999999987543

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.

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=98.14  E-value=4.5e-06  Score=73.25  Aligned_cols=89  Identities=26%  Similarity=0.317  Sum_probs=53.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH--hCCCCcccEEEeecCCCcChhHHHHHHHHhh----------hcccc------cCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL--YGAQYHNMILELNASDDRGIDVVRQQIQDFA----------STQSF------SFG  137 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~----------~~~~~------~~~  137 (305)
                      .+++.|.||||||.++..++..+  ...+....++..+.+-   ...++..+....          ....+      ...
T Consensus         3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l---~~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~   79 (352)
T PF09848_consen    3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPL---RNKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDK   79 (352)
T ss_pred             EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchH---HHHHHHHHhhhcccchhhhhhhhhHHHHhhcccccc
Confidence            47899999999999999999998  4444444444444332   222222222211          00001      112


Q ss_pred             CCCceEEEEEeCCCcCCHH--------HHHHHHHHHHH
Q 021937          138 VKASVKLVLLDEADAMTKD--------AQFALRRVIEK  167 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~~~--------~~~~l~~~l~~  167 (305)
                      ......+||+||+|++...        ..+.|..+++.
T Consensus        80 ~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~  117 (352)
T PF09848_consen   80 EKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKR  117 (352)
T ss_pred             cCCcCCEEEEehhHhhhhccccccccccHHHHHHHHhc
Confidence            3355799999999999873        23556666665

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>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=98.13  E-value=0.00032  Score=57.38  Aligned_cols=132  Identities=14%  Similarity=0.219  Sum_probs=72.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc---------------ChhHHHHH-------HHHhhhccc
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---------------GIDVVRQQ-------IQDFASTQS  133 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~-------i~~~~~~~~  133 (305)
                      .+++.|++|+|||+++..+...+... + ..++-+......               ..+.+...       +....... 
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~-f-~~I~l~t~~~n~~~~~~i~p~~i~~~~~~e~le~~l~~~k~~I~k~~~k~-   91 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHK-F-DHIFLITPEYNNEYYKYIWPDHIFKVFDKEELEYILIRQKEKIEKYIKKS-   91 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhccc-C-CEEEEEecCCchhhhhhcchhhccccccHHHHHHHHHHHHHHHHHHhhhh-
Confidence            38999999999999999998876322 1 111111111111               01111111       11111100 


Q ss_pred             ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-CCceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHH
Q 021937          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-KNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHV  212 (305)
Q Consensus       134 ~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~  212 (305)
                       ......+..+||+||+..- .-..+.+..++.... -+..+++++.....+++.++.-...+-+-..+..++..++...
T Consensus        92 -~~~k~~~~~LiIlDD~~~~-~~k~~~l~~~~~~gRH~~is~i~l~Q~~~~lp~~iR~n~~y~i~~~~s~~dl~~i~~~~  169 (241)
T PF04665_consen   92 -PQKKNNPRFLIILDDLGDK-KLKSKILRQFFNNGRHYNISIIFLSQSYFHLPPNIRSNIDYFIIFNNSKRDLENIYRNM  169 (241)
T ss_pred             -cccCCCCCeEEEEeCCCCc-hhhhHHHHHHHhcccccceEEEEEeeecccCCHHHhhcceEEEEecCcHHHHHHHHHhc
Confidence             1111244789999998642 112334556655332 2466777888888899998777754443346777765555443

This is thought to be an ATPase involved in viral DNA packaging [].

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=98.11  E-value=3.8e-05  Score=61.94  Aligned_cols=53  Identities=21%  Similarity=0.327  Sum_probs=40.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc---CCceEEEEecCCcccchhhhcce
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT---KNTRFALICNQVNKIIPALQSRC  192 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~---~~~~iil~~~~~~~l~~~l~~r~  192 (305)
                      ..+.++|+|| ++.++....+.|++.+++..   ....++++|...+.+++-+..+.
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            5678999999 78888888888888887653   34568888888877777665543

>PRK14974 cell division protein FtsY; Provisional

Probab=98.11  E-value=4.3e-05  Score=65.95  Aligned_cols=98  Identities=18%  Similarity=0.283  Sum_probs=52.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccccc----------------CCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS----------------FGVK  139 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----------------~~~~  139 (305)
                      .++|+|++|+||||++..++..+...+....++..+.........+....... ....+.                ....
T Consensus       142 vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~l-gv~v~~~~~g~dp~~v~~~ai~~~~~  220 (336)
T PRK14974        142 VIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERL-GVKVIKHKYGADPAAVAYDAIEHAKA  220 (336)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHc-CCceecccCCCCHHHHHHHHHHHHHh
Confidence            38899999999999999999988665544333332222111112222111111 000000                0011


Q ss_pred             CceEEEEEeCCCcCC--HHHHHHHHHHHHHhcCCceE
Q 021937          140 ASVKLVLLDEADAMT--KDAQFALRRVIEKYTKNTRF  174 (305)
Q Consensus       140 ~~~~vliiDe~~~l~--~~~~~~l~~~l~~~~~~~~i  174 (305)
                      .+..+|+||.+..+.  ......|..+.+...+...+
T Consensus       221 ~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~i  257 (336)
T PRK14974        221 RGIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVI  257 (336)
T ss_pred             CCCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEE
Confidence            235799999999885  34456666665544334333

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.10  E-value=4.8e-05  Score=75.91  Aligned_cols=152  Identities=21%  Similarity=0.255  Sum_probs=94.9

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhc----------cc
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST----------QS  133 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~----------~~  133 (305)
                      ++.+.+.-++  .++|.|.||+|||+++.++|+..     +...+.+|.+.....   -..+....-.          ++
T Consensus      1535 rVlRAmqv~k--pilLEGsPGVGKTSlItaLAr~t-----G~kliRINLSeQTdL---~DLfGsd~Pve~~Gef~w~dap 1604 (4600)
T COG5271        1535 RVLRAMQVGK--PILLEGSPGVGKTSLITALARKT-----GKKLIRINLSEQTDL---CDLFGSDLPVEEGGEFRWMDAP 1604 (4600)
T ss_pred             HHHHHHhcCC--ceeecCCCCccHHHHHHHHHHHh-----cCceEEeeccccchH---HHHhCCCCCcccCceeEecccH
Confidence            3344444343  39999999999999999999987     445566665543211   1111110000          00


Q ss_pred             ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc--------------CCceEEEEec------CCcccchhhhccee
Q 021937          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT--------------KNTRFALICN------QVNKIIPALQSRCT  193 (305)
Q Consensus       134 ~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~--------------~~~~iil~~~------~~~~l~~~l~~r~~  193 (305)
                      |.. .-.++..+++||+...+....+.|-.+++...              ++.++..+-|      ....+++.+.+||.
T Consensus      1605 fL~-amr~G~WVlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~nRFs 1683 (4600)
T COG5271        1605 FLH-AMRDGGWVLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGGGRKGLPKSFLNRFS 1683 (4600)
T ss_pred             HHH-HhhcCCEEEeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCCCcccCCHHHhhhhh
Confidence            000 11336789999999999888888888887432              2233333322      22458999999999


Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 021937          194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR  230 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~  230 (305)
                      ++.+..++.+++..+.....    ..+.++....+.+
T Consensus      1684 vV~~d~lt~dDi~~Ia~~~y----p~v~~d~~~kiik 1716 (4600)
T COG5271        1684 VVKMDGLTTDDITHIANKMY----PQVNEDWRLKIIK 1716 (4600)
T ss_pred             eEEecccccchHHHHHHhhC----CccChHHHHHHHH
Confidence            99999999999988776542    3455554444433

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.09  E-value=1e-05  Score=62.77  Aligned_cols=106  Identities=17%  Similarity=0.194  Sum_probs=57.4

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC--h-hHHHHHHHH---h----hhcccccCCCCCceE
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--I-DVVRQQIQD---F----ASTQSFSFGVKASVK  143 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~i~~---~----~~~~~~~~~~~~~~~  143 (305)
                      ...+.|.||+|+||||+++.++........   -+.++......  . ...+..+.-   +    .+...+....-.++.
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G---~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~laral~~~p~  102 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGLYKPDSG---EILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVEIARALARNAR  102 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCCe---EEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHHHHHHHhcCCC
Confidence            345899999999999999999876532111   12222211110  0 000000000   0    000000011123478


Q ss_pred             EEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          144 LVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       144 vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      ++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       103 illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  143 (163)
T cd03216         103 LLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLD  143 (163)
T ss_pred             EEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            999999 467888888889998876643 445666665543

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.

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=98.08  E-value=1.3e-05  Score=72.31  Aligned_cols=134  Identities=18%  Similarity=0.200  Sum_probs=73.5

Q ss_pred             ccccchHHHHHHHHHHhcCC------------CCeEEEECCCCCcHHHHHHHHHHHHhC----CCCcccEEEeecCCCcC
Q 021937           54 DVAAHRDIVDTIDRLTSENR------------LPHLLLYGPPGTGKTSTILAVARKLYG----AQYHNMILELNASDDRG  117 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~~------------~~~~ll~G~~G~GKT~l~~~l~~~~~~----~~~~~~~~~~~~~~~~~  117 (305)
                      .+.|+..++..+.-.+-++.            --+++|+|.||+|||.+++.+++.-..    .|.+...+.+++.-...
T Consensus       450 sIyGh~~VK~AvAlaLfGGv~kn~~~khkvRGDinvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~Kd  529 (854)
T KOG0477|consen  450 SIYGHEDVKRAVALALFGGVPKNPGGKHKVRGDINVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRKD  529 (854)
T ss_pred             hhhchHHHHHHHHHHHhcCCccCCCCCceeccceeEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEeeC
Confidence            45577777777666655431            124999999999999999988875321    11122222221111100


Q ss_pred             hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-------------cCCceEEEEecCC---
Q 021937          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQV---  181 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~iil~~~~~---  181 (305)
                      + ..+    ++...  .+.-.-+.++|-+|||+|++.......+...++..             .+.+.+|.++|..   
T Consensus       530 P-vtr----EWTLE--aGALVLADkGvClIDEFDKMndqDRtSIHEAMEQQSISISKAGIVtsLqArctvIAAanPigGR  602 (854)
T KOG0477|consen  530 P-VTR----EWTLE--AGALVLADKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARCTVIAAANPIGGR  602 (854)
T ss_pred             C-ccc----eeeec--cCeEEEccCceEEeehhhhhcccccchHHHHHHhcchhhhhhhHHHHHHhhhhhheecCCCCCc
Confidence            0 000    00000  00001234689999999999877666677766643             2344566665431   


Q ss_pred             ----------cccchhhhcceeE
Q 021937          182 ----------NKIIPALQSRCTR  194 (305)
Q Consensus       182 ----------~~l~~~l~~r~~~  194 (305)
                                -.+...+.+||.+
T Consensus       603 Y~~s~tFaqNV~ltePIlSRFDi  625 (854)
T KOG0477|consen  603 YNPSLTFAQNVDLTEPILSRFDI  625 (854)
T ss_pred             cCCccchhhccccccchhhhcce
Confidence                      1455677788644

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=98.06  E-value=0.0011  Score=58.58  Aligned_cols=57  Identities=14%  Similarity=0.235  Sum_probs=41.8

Q ss_pred             cccchHHHHHHHHHHh---cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           55 VAAHRDIVDTIDRLTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~---~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      -+|++..++.+.+.+.   .+....-++.|.-|+|||++++.+.......++-...+.++
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            4688888887776665   45444478999999999999999998876665544444333

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=98.06  E-value=5.6e-05  Score=72.48  Aligned_cols=115  Identities=13%  Similarity=0.232  Sum_probs=65.0

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHH-------HHHhhhc
Q 021937           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ-------IQDFAST  131 (305)
Q Consensus        59 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------i~~~~~~  131 (305)
                      +.-.+.+...+.+.  ..++|.|++||||||+++++...+...++..  ..+ .+.......+.+.       +..+...
T Consensus       355 ~~Q~~Av~~i~~s~--~~~il~G~aGTGKTtll~~i~~~~~~~g~~V--~~~-ApTg~Aa~~L~~~~g~~a~Ti~~~~~~  429 (744)
T TIGR02768       355 EEQYEAVRHVTGSG--DIAVVVGRAGTGKSTMLKAAREAWEAAGYRV--IGA-ALSGKAAEGLQAESGIESRTLASLEYA  429 (744)
T ss_pred             HHHHHHHHHHhcCC--CEEEEEecCCCCHHHHHHHHHHHHHhCCCeE--EEE-eCcHHHHHHHHhccCCceeeHHHHHhh
Confidence            44444555544432  3579999999999999999988876555432  222 2221111111110       1111000


Q ss_pred             ccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          132 QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       132 ~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      .......-.+..+|||||+..++......|+.....  ...++|++++.
T Consensus       430 ~~~~~~~~~~~~llIvDEasMv~~~~~~~Ll~~~~~--~~~kliLVGD~  476 (744)
T TIGR02768       430 WANGRDLLSDKDVLVIDEAGMVGSRQMARVLKEAEE--AGAKVVLVGDP  476 (744)
T ss_pred             hccCcccCCCCcEEEEECcccCCHHHHHHHHHHHHh--cCCEEEEECCh
Confidence            000011123468999999999998777766665443  36778888743

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.

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=98.05  E-value=2.7e-05  Score=72.39  Aligned_cols=103  Identities=19%  Similarity=0.291  Sum_probs=61.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCc--ccEEEeecCCCcChhHHHHHHHHhh-----------------------
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILELNASDDRGIDVVRQQIQDFA-----------------------  129 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~i~~~~-----------------------  129 (305)
                      +..+|+|+|||||||++..+...+......  ..-+.+..+.......+.+.+....                       
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            348999999999999999998876432211  1224444444444444444332211                       


Q ss_pred             -hccc----cc--CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          130 -STQS----FS--FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       130 -~~~~----~~--~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                       ...+    +.  .....+..+|||||+-.++......|+   +..+...++|++++.
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             0000    00  011224579999999999976555544   445667889999854

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.

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=98.05  E-value=4.1e-05  Score=71.38  Aligned_cols=102  Identities=18%  Similarity=0.253  Sum_probs=62.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCC-CcccEEEeecCCCcChhHHHHHHHHh------------------------hh
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDF------------------------AS  130 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~------------------------~~  130 (305)
                      ..+|+|+|||||||++..+...+.... .....+.+..+.......+.+.+...                        ..
T Consensus       169 ~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrlLg  248 (615)
T PRK10875        169 ISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRLLG  248 (615)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHHhC
Confidence            489999999999999999988764321 12234555555544444444444321                        11


Q ss_pred             ccc----cc--CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          131 TQS----FS--FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       131 ~~~----~~--~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      ..+    +.  ....-+..+|||||+-.++-.....|++   ..+++.++|++++.
T Consensus       249 ~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~---al~~~~rlIlvGD~  301 (615)
T PRK10875        249 AQPGSQRLRYHAGNPLHLDVLVVDEASMVDLPMMARLID---ALPPHARVIFLGDR  301 (615)
T ss_pred             cCCCccchhhccccCCCCCeEEEChHhcccHHHHHHHHH---hcccCCEEEEecch
Confidence            100    00  0111234799999999998665555444   55678899999864

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

Probab=98.04  E-value=1.5e-05  Score=65.96  Aligned_cols=30  Identities=23%  Similarity=0.393  Sum_probs=25.3

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           72 NRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      +.+..++|.||+|+||||+++.+++.+...
T Consensus        14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~   43 (249)
T cd01128          14 GKGQRGLIVAPPKAGKTTLLQSIANAITKN   43 (249)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccccc
Confidence            344569999999999999999999987554

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.

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

Probab=98.02  E-value=6.9e-05  Score=59.35  Aligned_cols=52  Identities=15%  Similarity=0.210  Sum_probs=35.7

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSR  191 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r  191 (305)
                      -++.++++||. -.|+++.....+..+.+......-.++.++...+......|
T Consensus       153 M~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivVTHEM~FAr~Vadr  205 (240)
T COG1126         153 MDPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIVTHEMGFAREVADR  205 (240)
T ss_pred             CCCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEEechhHHHHHhhhe
Confidence            55789999996 45678888889998887765554444444444555555555

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.01  E-value=5.4e-05  Score=66.60  Aligned_cols=90  Identities=21%  Similarity=0.273  Sum_probs=53.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhC----CCCcccEEEeecCCCcChhHHHHHHHHhhhccc--ccC-----------C
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYG----AQYHNMILELNASDDRGIDVVRQQIQDFASTQS--FSF-----------G  137 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~--~~~-----------~  137 (305)
                      ..++++||+|+||||++..++..+..    .+....++..++........    +..+.....  +..           .
T Consensus       175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQ----L~~~a~~lgvpv~~~~~~~~l~~~L~  250 (388)
T PRK12723        175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQ----IQTYGDIMGIPVKAIESFKDLKEEIT  250 (388)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHH----HHHHhhcCCcceEeeCcHHHHHHHHH
Confidence            34899999999999999999987752    34455566665543222222    222222111  000           0


Q ss_pred             CCCceEEEEEeCCCcCCHH--HHHHHHHHHHHh
Q 021937          138 VKASVKLVLLDEADAMTKD--AQFALRRVIEKY  168 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~~~--~~~~l~~~l~~~  168 (305)
                      ...+..+|+||.+.+...+  ....+..+++..
T Consensus       251 ~~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~  283 (388)
T PRK12723        251 QSKDFDLVLVDTIGKSPKDFMKLAEMKELLNAC  283 (388)
T ss_pred             HhCCCCEEEEcCCCCCccCHHHHHHHHHHHHhc
Confidence            1245789999999988744  335566666644

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=98.00  E-value=8.1e-05  Score=62.36  Aligned_cols=34  Identities=35%  Similarity=0.511  Sum_probs=27.1

Q ss_pred             HHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           66 DRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        66 ~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ......+...++++.||+|+||||+++.++..+.
T Consensus       103 ~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       103 PYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             HHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC
Confidence            3333445456799999999999999999998874

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.

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=97.98  E-value=8.4e-07  Score=76.87  Aligned_cols=144  Identities=24%  Similarity=0.243  Sum_probs=69.7

Q ss_pred             ccccchHHHHHHHHHHhcC------------CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh--h
Q 021937           54 DVAAHRDIVDTIDRLTSEN------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI--D  119 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~--~  119 (305)
                      .+.|++.++..+.-.+-++            ..-|++|.|.||+|||.+.+.+.+..    ....+..-......+.  .
T Consensus        25 ~i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~----pr~v~~~g~~~s~~gLta~  100 (331)
T PF00493_consen   25 SIYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLA----PRSVYTSGKGSSAAGLTAS  100 (331)
T ss_dssp             TTTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-----SSEEEEECCGSTCCCCCEE
T ss_pred             cCcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhC----CceEEECCCCcccCCccce
Confidence            4567777766554333222            12259999999999999999876543    1111111111111110  0


Q ss_pred             HHHHHH-HHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-------------cCCceEEEEecCCc---
Q 021937          120 VVRQQI-QDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQVN---  182 (305)
Q Consensus       120 ~~~~~i-~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~iil~~~~~~---  182 (305)
                      ..+... ..+.-.  .+.-..+.++|++|||++.+..+....|+..++..             +.++.++.++|...   
T Consensus       101 ~~~d~~~~~~~le--aGalvlad~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~kagi~~~l~ar~svlaa~NP~~g~~  178 (331)
T PF00493_consen  101 VSRDPVTGEWVLE--AGALVLADGGICCIDEFDKMKEDDRDALHEAMEQQTISIAKAGIVTTLNARCSVLAAANPKFGRY  178 (331)
T ss_dssp             ECCCGGTSSECEE--E-HHHHCTTSEEEECTTTT--CHHHHHHHHHHHCSCEEECTSSSEEEEE---EEEEEE--TT--S
T ss_pred             eccccccceeEEe--CCchhcccCceeeecccccccchHHHHHHHHHHcCeeccchhhhcccccchhhhHHHHhhhhhhc
Confidence            000000 000000  00001234689999999999999999999999963             23455666665332   


Q ss_pred             ----------ccchhhhcceeEE-E-ecCCCHH
Q 021937          183 ----------KIIPALQSRCTRF-R-FAPLEPV  203 (305)
Q Consensus       183 ----------~l~~~l~~r~~~i-~-~~~~~~~  203 (305)
                                .+++.+.+||..+ . ..+++.+
T Consensus       179 ~~~~~~~~ni~l~~~LLSRFDLif~l~D~~d~~  211 (331)
T PF00493_consen  179 DPNKSLSENINLPPPLLSRFDLIFLLRDKPDEE  211 (331)
T ss_dssp             -TTS-CGCCT-S-CCCHCC-SEEECC--TTT-H
T ss_pred             chhhhhHHhcccchhhHhhcCEEEEeccccccc
Confidence                      3677889998443 3 3445533

; 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.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.98  E-value=5.4e-05  Score=57.86  Aligned_cols=102  Identities=16%  Similarity=0.161  Sum_probs=65.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC-CcChh--------------------------HH----HHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGID--------------------------VV----RQQ  124 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~--------------------------~~----~~~  124 (305)
                      .+.+|+++|.||||+|..++-+....+....++.+--.. ..+..                          .-    ...
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            367888889999999999999887777777666654432 01100                          00    001


Q ss_pred             HHHhhhcccccCCCCCceEEEEEeCCCcCCH---HHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTK---DAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~---~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      +.......     .....++|||||+-....   -..+.++++++..|.+.-+|+|++...
T Consensus        84 ~~~a~~~~-----~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          84 WAFAKEAI-----ASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHH-----hcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            11110100     123478999999765532   135678889999988999999997743

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.

>PRK13695 putative NTPase; Provisional

Probab=97.97  E-value=0.00027  Score=55.43  Aligned_cols=69  Identities=12%  Similarity=0.222  Sum_probs=41.4

Q ss_pred             ceEEEEEeCCCcCC---HHHHHHHHHHHHHhcCCceEEEEecCCc--ccchhhhcc--eeEEEecCCCHHHHHHHHHHH
Q 021937          141 SVKLVLLDEADAMT---KDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQSR--CTRFRFAPLEPVHVTERLKHV  212 (305)
Q Consensus       141 ~~~vliiDe~~~l~---~~~~~~l~~~l~~~~~~~~iil~~~~~~--~l~~~l~~r--~~~i~~~~~~~~~~~~~l~~~  212 (305)
                      ++.++++||+..+.   ....+.+..+++   ....++++++...  ...+.+..+  +.++++.+-+.+++...+.++
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            46899999975543   233444555553   2456666666532  345556555  467888777777766665544

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.97  E-value=0.00013  Score=65.23  Aligned_cols=38  Identities=24%  Similarity=0.332  Sum_probs=30.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      .++++|++|+||||++..++..+...++...++..++.
T Consensus        97 vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~  134 (437)
T PRK00771         97 TIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTY  134 (437)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCC
Confidence            38899999999999999999998776665555555443

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.96  E-value=0.00017  Score=56.62  Aligned_cols=100  Identities=16%  Similarity=0.176  Sum_probs=55.6

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccE----EEeecCCC-cChhHHHHHHHHhhhcccccCCCCCceEEEEEe
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMI----LELNASDD-RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLD  148 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~----~~~~~~~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiD  148 (305)
                      ...+.|.||.|+||||+++.++.......-...+    +.+..... ..... ++.+.-+..       ...++.++++|
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq-~qrv~lara-------l~~~p~lllLD   96 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGE-LQRVAIAAA-------LLRNATFYLFD   96 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHH-HHHHHHHHH-------HhcCCCEEEEE
Confidence            3458899999999999999998865322111111    00000000 01111 111111100       11236899999


Q ss_pred             CC-CcCCHHHHHHHHHHHHHhcCC--ceEEEEecCC
Q 021937          149 EA-DAMTKDAQFALRRVIEKYTKN--TRFALICNQV  181 (305)
Q Consensus       149 e~-~~l~~~~~~~l~~~l~~~~~~--~~iil~~~~~  181 (305)
                      |- ..++......+.+++.+....  ..+++++.+.
T Consensus        97 EPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~  132 (177)
T cd03222          97 EPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDL  132 (177)
T ss_pred             CCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCH
Confidence            94 567888888888888765322  4566666554

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=97.96  E-value=8.6e-05  Score=58.27  Aligned_cols=34  Identities=32%  Similarity=0.545  Sum_probs=28.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEE
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (305)
                      +.++++|+||+||||+++.+++.+.+..+.....
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~vi~l   35 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIHL   35 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhhhhcccc
Confidence            5589999999999999999999998766544433

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=97.96  E-value=0.00012  Score=69.92  Aligned_cols=101  Identities=20%  Similarity=0.220  Sum_probs=59.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHH-------HHHhhhcccc---c--CCCCCceE
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ-------IQDFASTQSF---S--FGVKASVK  143 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------i~~~~~~~~~---~--~~~~~~~~  143 (305)
                      .++|+|+|||||||+++++.+.+...+... .+.+..+.......+.+.       +..+.....-   .  ........
T Consensus       340 ~~iitGgpGTGKTt~l~~i~~~~~~~~~~~-~v~l~ApTg~AA~~L~e~~g~~a~Tih~lL~~~~~~~~~~~~~~~~~~~  418 (720)
T TIGR01448       340 VVILTGGPGTGKTTITRAIIELAEELGGLL-PVGLAAPTGRAAKRLGEVTGLTASTIHRLLGYGPDTFRHNHLEDPIDCD  418 (720)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCCc-eEEEEeCchHHHHHHHHhcCCccccHHHHhhccCCccchhhhhccccCC
Confidence            589999999999999999998876543111 222333332222222221       1111111100   0  00113468


Q ss_pred             EEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          144 LVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       144 vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +|||||+..++......|+.   ..+...++|++++.
T Consensus       419 llIvDEaSMvd~~~~~~Ll~---~~~~~~rlilvGD~  452 (720)
T TIGR01448       419 LLIVDESSMMDTWLALSLLA---ALPDHARLLLVGDT  452 (720)
T ss_pred             EEEEeccccCCHHHHHHHHH---hCCCCCEEEEECcc
Confidence            99999999999776655554   44567889998854

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.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.95  E-value=6.3e-05  Score=66.24  Aligned_cols=43  Identities=28%  Similarity=0.407  Sum_probs=34.1

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      |..+.+.+.+.+....+..+++.|++|||||++++++.+.+..
T Consensus         6 Q~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen    6 QRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             HHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            4555666666666666667999999999999999999998854

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.95  E-value=0.00016  Score=54.86  Aligned_cols=95  Identities=18%  Similarity=0.246  Sum_probs=55.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC------CCcChhHHHHHHHHhhhcccccCCCCCceEEEEEe
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLD  148 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiD  148 (305)
                      ..+.|.|++|+||||+++.++....... .  -+.++..      ........ +.+.-+ .      ....++.++++|
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~~~~-G--~i~~~~~~~i~~~~~lS~G~~-~rv~la-r------al~~~p~illlD   95 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGELEPDE-G--IVTWGSTVKIGYFEQLSGGEK-MRLALA-K------LLLENPNLLLLD   95 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCCCCCc-e--EEEECCeEEEEEEccCCHHHH-HHHHHH-H------HHhcCCCEEEEe
Confidence            4588999999999999999988653211 1  0111110      00111111 111110 0      011236899999


Q ss_pred             C-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          149 E-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       149 e-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      | ...++......+.+++.+.  +..+++++.+..
T Consensus        96 EP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~  128 (144)
T cd03221          96 EPTNHLDLESIEALEEALKEY--PGTVILVSHDRY  128 (144)
T ss_pred             CCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHH
Confidence            9 4678888888899988876  345666665543

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.

>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]

Probab=97.95  E-value=0.00013  Score=64.59  Aligned_cols=108  Identities=25%  Similarity=0.300  Sum_probs=62.3

Q ss_pred             ccccchHHHHHHHHHHhcCC------------CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHH
Q 021937           54 DVAAHRDIVDTIDRLTSENR------------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~~------------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (305)
                      .+.|+..+++.+.=++-++.            --+++|.|.||+.|+.+++.+-+..      ...++.++ ......-+
T Consensus       332 SIfG~~DiKkAiaClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvs------PIaVYTSG-KGSSAAGL  404 (729)
T KOG0481|consen  332 SIFGHEDIKKAIACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVS------PIAVYTSG-KGSSAAGL  404 (729)
T ss_pred             hhcCchhHHHHHHHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcC------ceEEEecC-CCcccccc
Confidence            45688888887766664431            1138999999999999999887642      12222221 11111111


Q ss_pred             HHHHHHhhhccccc--CC--CCCceEEEEEeCCCcCCHHHHHHHHHHHHHh
Q 021937          122 RQQIQDFASTQSFS--FG--VKASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (305)
Q Consensus       122 ~~~i~~~~~~~~~~--~~--~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~  168 (305)
                      ...+..-.....|.  ++  .-+.++|++|||+|++..+..-++...++..
T Consensus       405 TASV~RD~~tReFylEGGAMVLADgGVvCIDEFDKMre~DRVAIHEAMEQQ  455 (729)
T KOG0481|consen  405 TASVIRDPSTREFYLEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQ  455 (729)
T ss_pred             eeeEEecCCcceEEEecceEEEecCCEEEeehhhccCchhhhHHHHHHHhh
Confidence            11110000100000  00  1244689999999999998888888888753

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.95  E-value=6.7e-05  Score=65.84  Aligned_cols=88  Identities=18%  Similarity=0.233  Sum_probs=50.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH-HhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK-LYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l  153 (305)
                      -++++.||+|||||+++.++... ....+           ...+...+-..+..  ...    +.-.+.++|+|||+..+
T Consensus       210 ~Nli~lGp~GTGKThla~~l~~~~a~~sG-----------~f~T~a~Lf~~L~~--~~l----g~v~~~DlLI~DEvgyl  272 (449)
T TIGR02688       210 YNLIELGPKGTGKSYIYNNLSPYVILISG-----------GTITVAKLFYNIST--RQI----GLVGRWDVVAFDEVATL  272 (449)
T ss_pred             CcEEEECCCCCCHHHHHHHHhHHHHHHcC-----------CcCcHHHHHHHHHH--HHH----hhhccCCEEEEEcCCCC
Confidence            45999999999999999998877 22122           11122222222221  000    01123689999999996


Q ss_pred             CHH----HHHHHHHHHHHh---------cCCceEEEEec
Q 021937          154 TKD----AQFALRRVIEKY---------TKNTRFALICN  179 (305)
Q Consensus       154 ~~~----~~~~l~~~l~~~---------~~~~~iil~~~  179 (305)
                      .-.    ..+.+-..++..         ..+..+++++|
T Consensus       273 p~~~~~~~v~imK~yMesg~fsRG~~~~~a~as~vfvGN  311 (449)
T TIGR02688       273 KFAKPKELIGILKNYMESGSFTRGDETKSSDASFVFLGN  311 (449)
T ss_pred             cCCchHHHHHHHHHHHHhCceeccceeeeeeeEEEEEcc
Confidence            533    344555555532         13445666654

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.

>PRK08118 topology modulation protein; Reviewed

Probab=97.94  E-value=0.00016  Score=56.32  Aligned_cols=24  Identities=29%  Similarity=0.564  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.++++||+|+||||+++.+++.+
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999999999987

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.93  E-value=2.3e-05  Score=68.09  Aligned_cols=31  Identities=23%  Similarity=0.357  Sum_probs=26.0

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           72 NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      +++...+|.||+|+||||+++.+++.+....
T Consensus       167 GkGQR~lIvgppGvGKTTLaK~Ian~I~~nh  197 (416)
T PRK09376        167 GKGQRGLIVAPPKAGKTVLLQNIANSITTNH  197 (416)
T ss_pred             ccCceEEEeCCCCCChhHHHHHHHHHHHhhc
Confidence            4455689999999999999999999886543

>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=97.92  E-value=6e-05  Score=59.83  Aligned_cols=34  Identities=32%  Similarity=0.361  Sum_probs=25.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      ++++||||+|||+++..++......+....++.+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~   35 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL   35 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence            6899999999999999988876555544444443

A related protein is found in archaea.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.91  E-value=0.00017  Score=62.88  Aligned_cols=39  Identities=28%  Similarity=0.446  Sum_probs=30.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      ..+.|.||+|+||||++..++..+...+....++..+..
T Consensus       242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~  280 (436)
T PRK11889        242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHS  280 (436)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCc
Confidence            348999999999999999999988766655555554433

>COG1485 Predicted ATPase [General function prediction only]

Probab=97.91  E-value=0.00014  Score=61.77  Aligned_cols=98  Identities=19%  Similarity=0.223  Sum_probs=55.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccccc----CCCCCceEEEEEeCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS----FGVKASVKLVLLDEA  150 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~~~~~~~~vliiDe~  150 (305)
                      .++++||+-|.|||.|+..+...+.....  .-+.++    .....+.+.+..+.....+.    ........||++||+
T Consensus        66 ~GlYl~GgVGrGKT~LMD~Fy~~lp~~~k--~R~HFh----~FM~~vH~~l~~l~g~~dpl~~iA~~~~~~~~vLCfDEF  139 (367)
T COG1485          66 RGLYLWGGVGRGKTMLMDLFYESLPGERK--RRLHFH----RFMARVHQRLHTLQGQTDPLPPIADELAAETRVLCFDEF  139 (367)
T ss_pred             ceEEEECCCCccHHHHHHHHHhhCCcccc--ccccHH----HHHHHHHHHHHHHcCCCCccHHHHHHHHhcCCEEEeeee
Confidence            44999999999999999999988733210  000000    01112222222222111000    011233689999999


Q ss_pred             CcCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021937          151 DAMTKDAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       151 ~~l~~~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                      +--+....-.|-.+++..-++.+++++|
T Consensus       140 ~VtDI~DAMiL~rL~~~Lf~~GV~lvaT  167 (367)
T COG1485         140 EVTDIADAMILGRLLEALFARGVVLVAT  167 (367)
T ss_pred             eecChHHHHHHHHHHHHHHHCCcEEEEe
Confidence            8877666666777777665555555554

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=97.91  E-value=0.00013  Score=71.24  Aligned_cols=114  Identities=13%  Similarity=0.164  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHH-------HHHHHhhhcc
Q 021937           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR-------QQIQDFASTQ  132 (305)
Q Consensus        60 ~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~i~~~~~~~  132 (305)
                      .-.+.+...+.+.  ..++|.|.+||||||+++.+...+...++.  ++.+. +.......+.       ..+..+....
T Consensus       350 eQr~Av~~il~s~--~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~--V~~~A-pTGkAA~~L~e~tGi~a~TI~sll~~~  424 (988)
T PRK13889        350 EQADALAHVTDGR--DLGVVVGYAGTGKSAMLGVAREAWEAAGYE--VRGAA-LSGIAAENLEGGSGIASRTIASLEHGW  424 (988)
T ss_pred             HHHHHHHHHhcCC--CeEEEEeCCCCCHHHHHHHHHHHHHHcCCe--EEEec-CcHHHHHHHhhccCcchhhHHHHHhhh
Confidence            3334444444433  247899999999999999888777555443  22222 2111111111       1111111100


Q ss_pred             cccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          133 SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       133 ~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      ......-.+..||||||+..++......|+.....  ...++|++++.
T Consensus       425 ~~~~~~l~~~~vlIVDEASMv~~~~m~~LL~~a~~--~garvVLVGD~  470 (988)
T PRK13889        425 GQGRDLLTSRDVLVIDEAGMVGTRQLERVLSHAAD--AGAKVVLVGDP  470 (988)
T ss_pred             cccccccccCcEEEEECcccCCHHHHHHHHHhhhh--CCCEEEEECCH
Confidence            00011123457999999999998877777765553  36788888753

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

Probab=97.91  E-value=0.00013  Score=59.24  Aligned_cols=23  Identities=43%  Similarity=0.814  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||+||||||+.+.+-+.+
T Consensus        29 f~vliGpSGsGKTTtLkMINrLi   51 (309)
T COG1125          29 FLVLIGPSGSGKTTTLKMINRLI   51 (309)
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            38999999999999999997765

>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=97.90  E-value=0.0001  Score=58.06  Aligned_cols=44  Identities=25%  Similarity=0.322  Sum_probs=35.6

Q ss_pred             cchHHHHHHHHHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           57 AHRDIVDTIDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .|.+.+..+.+.+... ..+++++.+|+|+|||.++..++..+..
T Consensus         7 ~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~   51 (184)
T PF04851_consen    7 YQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR   51 (184)
T ss_dssp             HHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc
Confidence            4677788888888776 5677999999999999999987776643

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 ....

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.88  E-value=0.00026  Score=58.38  Aligned_cols=46  Identities=17%  Similarity=0.148  Sum_probs=30.4

Q ss_pred             HHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           64 TIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        64 ~l~~~l~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      .|...+.++-+.  .++++|+||+|||+++..++......+....++.
T Consensus        13 ~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         13 ELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             HHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            445555555333  3899999999999999999776534444433333

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.88  E-value=0.00028  Score=53.70  Aligned_cols=24  Identities=29%  Similarity=0.560  Sum_probs=21.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+.|+||+|||||++.+.++...
T Consensus        30 e~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          30 EFIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             ceEEEeCCCCccHHHHHHHHHhcc
Confidence            348999999999999999999876

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.87  E-value=0.00033  Score=62.78  Aligned_cols=87  Identities=21%  Similarity=0.302  Sum_probs=48.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHh--CCCCcccEEEeecCCCcChhHHHHHHHHhhhcc--ccc---C--------CCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLY--GAQYHNMILELNASDDRGIDVVRQQIQDFASTQ--SFS---F--------GVKA  140 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~--~~~---~--------~~~~  140 (305)
                      .++|.||+|+||||++..++..+.  ..+....++..+.......+.    +..+....  ++.   .        ....
T Consensus       223 ~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eq----L~~~a~~~~vp~~~~~~~~~l~~~l~~~~  298 (424)
T PRK05703        223 VVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQ----LKTYAKIMGIPVEVVYDPKELAKALEQLR  298 (424)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHH----HHHHHHHhCCceEccCCHHhHHHHHHHhC
Confidence            488999999999999999988775  334455555544322111111    11111100  000   0        0112


Q ss_pred             ceEEEEEeCCCcCC--HHHHHHHHHHHH
Q 021937          141 SVKLVLLDEADAMT--KDAQFALRRVIE  166 (305)
Q Consensus       141 ~~~vliiDe~~~l~--~~~~~~l~~~l~  166 (305)
                      +..+|+||......  ......|..+++
T Consensus       299 ~~DlVlIDt~G~~~~d~~~~~~L~~ll~  326 (424)
T PRK05703        299 DCDVILIDTAGRSQRDKRLIEELKALIE  326 (424)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHHHh
Confidence            36899999887654  334556777776

>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=0.00014  Score=57.37  Aligned_cols=105  Identities=18%  Similarity=0.271  Sum_probs=59.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC--cChhHHHHHH-------HH-----hhhccc--ccC--
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--RGIDVVRQQI-------QD-----FASTQS--FSF--  136 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~i-------~~-----~~~~~~--~~~--  136 (305)
                      ..+.|.||+|+||||+++.++........   -+.++....  .........+       ..     ......  +..  
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~~~~~~G---~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~  102 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGLLKPSSG---EILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGGE  102 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCc---EEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHH
Confidence            45899999999999999999886532111   122222111  0111111111       10     000000  110  


Q ss_pred             --------CCCCceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          137 --------GVKASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       137 --------~~~~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                              ..-.++.++++|| ...++......+.+++.+...  ...+|+++.+..
T Consensus       103 ~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~  159 (180)
T cd03214         103 RQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLN  159 (180)
T ss_pred             HHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence                    1125678999999 467888888899998887644  345666665544

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.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=97.85  E-value=0.00017  Score=57.71  Aligned_cols=52  Identities=13%  Similarity=0.244  Sum_probs=35.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCcccchhhhcc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVNKIIPALQSR  191 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~~l~~~l~~r  191 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+.......+..|
T Consensus       128 ~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~~~~~d~  181 (194)
T cd03213         128 SNPSLLFLDEPTSGLDSSSALQVMSLLRRLADTGRTIICSIHQPSSEIFELFDK  181 (194)
T ss_pred             cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEecCchHHHHHhcCE
Confidence            4578999999 566788888899998887643 455666666654223333344

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.

>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=97.85  E-value=2e-05  Score=57.86  Aligned_cols=22  Identities=36%  Similarity=0.853  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++|.|+||+||||+++.+++.+
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            6899999999999999999987

...

>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=97.84  E-value=0.00025  Score=54.63  Aligned_cols=105  Identities=17%  Similarity=0.295  Sum_probs=56.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC--hhHHHHHHHH---h----hhcccccCCCCCceEEE
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--IDVVRQQIQD---F----ASTQSFSFGVKASVKLV  145 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~~---~----~~~~~~~~~~~~~~~vl  145 (305)
                      ..+.|.|+.|+||||+++.++..+...   .--+.++......  .......+.-   +    .....+.......+.++
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~~~---~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~~r~~l~~~l~~~~~i~  102 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLKPT---SGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQRQRVALARALLLNPDLL  102 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCC---ccEEEECCEEcccCCHHHHHhceEEEeeCCHHHHHHHHHHHHHhcCCCEE
Confidence            458999999999999999998865321   1112222211000  0000000000   0    00000000011236899


Q ss_pred             EEeCC-CcCCHHHHHHHHHHHHHhcCC-ceEEEEecCCc
Q 021937          146 LLDEA-DAMTKDAQFALRRVIEKYTKN-TRFALICNQVN  182 (305)
Q Consensus       146 iiDe~-~~l~~~~~~~l~~~l~~~~~~-~~iil~~~~~~  182 (305)
                      ++||. ..++......+.+++.+.... ..+++++....
T Consensus       103 ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~  141 (157)
T cd00267         103 LLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPE  141 (157)
T ss_pred             EEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            99995 467788888888888865433 45666665543

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.

>TIGR00767 rho transcription termination factor Rho

Probab=97.84  E-value=6.7e-05  Score=65.57  Aligned_cols=30  Identities=23%  Similarity=0.364  Sum_probs=25.5

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           72 NRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      +.+..++|+||+|+|||++++.+++.+...
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n  195 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAITRN  195 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhccc
Confidence            445569999999999999999999987554

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

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.84  E-value=0.00022  Score=55.76  Aligned_cols=45  Identities=16%  Similarity=0.353  Sum_probs=33.6

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l  184 (305)
                      .++.++++|| ...++......+.+++.+......+++++.+...+
T Consensus       113 ~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~  158 (171)
T cd03228         113 RDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTI  158 (171)
T ss_pred             cCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHH
Confidence            3478999999 56788888889999998775555667777665433

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.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.82  E-value=2.9e-05  Score=70.57  Aligned_cols=51  Identities=18%  Similarity=0.261  Sum_probs=42.0

Q ss_pred             CCccccccchHHHHHHHHHHh----c--CCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           50 QSLADVAAHRDIVDTIDRLTS----E--NRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~----~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ..|+++.|.++.++++...+.    +  .+.+.++|.||||+|||++++.+++.+..
T Consensus        73 ~fF~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~  129 (644)
T PRK15455         73 PAFEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMER  129 (644)
T ss_pred             cchhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHh
Confidence            457889999999998888772    2  33445899999999999999999998854

>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=97.82  E-value=7.5e-05  Score=58.56  Aligned_cols=43  Identities=14%  Similarity=0.320  Sum_probs=31.4

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCC-ceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKN-TRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~-~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+...+ ..+++++.+..
T Consensus       112 ~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~  156 (173)
T cd03230         112 HDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILE  156 (173)
T ss_pred             cCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHH
Confidence            4578999999 5667888888999999876533 45666665543

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.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=97.82  E-value=0.00016  Score=69.18  Aligned_cols=160  Identities=13%  Similarity=0.153  Sum_probs=99.1

Q ss_pred             ccccccc-hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCc-------ccEEEee--cCCCcChhHH
Q 021937           52 LADVAAH-RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH-------NMILELN--ASDDRGIDVV  121 (305)
Q Consensus        52 ~~~~~g~-~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~-------~~~~~~~--~~~~~~~~~~  121 (305)
                      ++.++|+ ++.++.+.+.+......+-+|.|.||+|||.++..+++.+.....+       ..++.+.  .+......++
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            5677887 7778888888877766778999999999999999999998543221       1222222  1122333445


Q ss_pred             HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHH----HHHHHHHHhcC--CceEEEEec-----CCcccchhhhc
Q 021937          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQF----ALRRVIEKYTK--NTRFALICN-----QVNKIIPALQS  190 (305)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~----~l~~~l~~~~~--~~~iil~~~-----~~~~l~~~l~~  190 (305)
                      ...+........-.    .++-|+++||+|.+.....+    ...+++...-.  ...+|.+++     ....-+|++.+
T Consensus       265 E~rlk~l~k~v~~~----~~gvILfigelh~lvg~g~~~~~~d~~nlLkp~L~rg~l~~IGatT~e~Y~k~iekdPalEr  340 (898)
T KOG1051|consen  265 EERLKELLKEVESG----GGGVILFLGELHWLVGSGSNYGAIDAANLLKPLLARGGLWCIGATTLETYRKCIEKDPALER  340 (898)
T ss_pred             HHHHHHHHHHHhcC----CCcEEEEecceeeeecCCCcchHHHHHHhhHHHHhcCCeEEEecccHHHHHHHHhhCcchhh
Confidence            55555554322111    23689999999998643211    12222221111  244454443     11234789999


Q ss_pred             ceeEEEecCCCHHHHHHHHHHHHHH
Q 021937          191 RCTRFRFAPLEPVHVTERLKHVIEA  215 (305)
Q Consensus       191 r~~~i~~~~~~~~~~~~~l~~~~~~  215 (305)
                      |++.+.++-|+.++...++.....+
T Consensus       341 rw~l~~v~~pS~~~~~~iL~~l~~~  365 (898)
T KOG1051|consen  341 RWQLVLVPIPSVENLSLILPGLSER  365 (898)
T ss_pred             CcceeEeccCcccchhhhhhhhhhh
Confidence            9988888889888777777665554

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.81  E-value=0.00016  Score=56.95  Aligned_cols=45  Identities=22%  Similarity=0.276  Sum_probs=34.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l  184 (305)
                      .++.++++|| ...++......+.+++.+......+++++.+...+
T Consensus       115 ~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~  160 (178)
T cd03247         115 QDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGI  160 (178)
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHH
Confidence            5578999999 56788888889999988765455677777665543

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.

>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=97.81  E-value=7.7e-05  Score=58.52  Aligned_cols=43  Identities=16%  Similarity=0.309  Sum_probs=31.9

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       113 ~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~  157 (173)
T cd03246         113 GNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPE  157 (173)
T ss_pred             cCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            4578999999 567888888888888876543 456667776654

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

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.79  E-value=0.00011  Score=54.79  Aligned_cols=25  Identities=36%  Similarity=0.502  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      +++++||+|+|||+.+..++.....
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~   26 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLD   26 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHh
Confidence            4899999999999999888887754

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

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

Probab=97.79  E-value=0.00025  Score=57.57  Aligned_cols=25  Identities=24%  Similarity=0.426  Sum_probs=21.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..+.|.||+||||||+.+.++-...
T Consensus        30 EfvsilGpSGcGKSTLLriiAGL~~   54 (248)
T COG1116          30 EFVAILGPSGCGKSTLLRLIAGLEK   54 (248)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3488999999999999999998653

>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=97.78  E-value=0.00028  Score=54.87  Aligned_cols=105  Identities=22%  Similarity=0.214  Sum_probs=58.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcc------cEEEeecCCCcChhHHHHHHHHhhhcccccC----------CC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHN------MILELNASDDRGIDVVRQQIQDFASTQSFSF----------GV  138 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~----------~~  138 (305)
                      ..+.|.||.|+||||+++.++.......-..      .+..+..........+.+.+... ....+..          ..
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~-~~~~LS~G~~~rv~laral  106 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYP-WDDVLSGGEQQRLAFARLL  106 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEECCCCccccccHHHHhhcc-CCCCCCHHHHHHHHHHHHH
Confidence            3489999999999999999988753211100      01111110001111222222110 0011111          11


Q ss_pred             CCceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          139 KASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       139 ~~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      -.++.++++|| ...++......+.+++.+.  ...+++++.+..
T Consensus       107 ~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~  149 (166)
T cd03223         107 LHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPS  149 (166)
T ss_pred             HcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChh
Confidence            24578999999 4567888888899988876  355666776643

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

>PF13245 AAA_19: Part of AAA domain

Probab=97.76  E-value=0.00012  Score=48.72  Aligned_cols=25  Identities=48%  Similarity=0.834  Sum_probs=17.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +.+++.||||+|||+++...+..+.
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            4477799999999965555555443

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=97.76  E-value=9.2e-05  Score=63.80  Aligned_cols=135  Identities=20%  Similarity=0.266  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe-ecCCCcChhHHHHHHHHhhhcccccCC
Q 021937           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL-NASDDRGIDVVRQQIQDFASTQSFSFG  137 (305)
Q Consensus        60 ~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~~~~~~~~~~~~  137 (305)
                      ..+..++.++++-+..+ ++|+|||+||||.+...+.+.+     ...++.+ |..+.-...                  
T Consensus       247 ~Fl~~lk~~Lkg~PKKnClvi~GPPdTGKS~F~~SLi~Fl-----~GkViSf~Ns~ShFWLq------------------  303 (432)
T PF00519_consen  247 SFLIALKQFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFL-----KGKVISFVNSKSHFWLQ------------------  303 (432)
T ss_dssp             HHHHHHHHHHHTBTTSSEEEEESSCCCSHHHHHHHHHHHH-----TSEEE-GGGTTSCGGGG------------------
T ss_pred             HHHHHHHHHHhCCCcccEEEEECCCCCchhHHHHHHHHHh-----CCEEEEecCCCCccccc------------------
Confidence            45567788887755555 8999999999999999999988     3334432 222211111                  


Q ss_pred             CCCceEEEEEeCCCcCCHHHH-HHHHHHHHHhc-------------CCceEEEEecCC---cccchhhhcceeEEEecCC
Q 021937          138 VKASVKLVLLDEADAMTKDAQ-FALRRVIEKYT-------------KNTRFALICNQV---NKIIPALQSRCTRFRFAPL  200 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~~~~~-~~l~~~l~~~~-------------~~~~iil~~~~~---~~l~~~l~~r~~~i~~~~~  200 (305)
                      .-....+-+|||+-.-.=+-. ..+.+.++..+             +-.++++++|-.   +.-..-|.+|.+.+.|+.+
T Consensus       304 PL~d~Ki~llDDAT~~cW~Y~D~ylRNaLDGN~vsiD~KHkap~Qik~PPLlITsN~dv~~~~~~~YLhSRi~~f~F~n~  383 (432)
T PF00519_consen  304 PLADAKIALLDDATYPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKKDDRWKYLHSRITCFEFPNP  383 (432)
T ss_dssp             GGCT-SSEEEEEE-HHHHHHHHHHTHHHHCTSEEEEEESSSEEEEEE---EEEEESS-TTTSCCCHHHCTTEEEEE--S-
T ss_pred             chhcCcEEEEcCCcccHHHHHHHHHHhccCCCeeeeeccCCCceEeecCceEEecCCCCCcchhhhhhhheEEEEEcCCc
Confidence            111247889998754332222 23556666432             123466666532   2335677899888777653


Q ss_pred             -------------CHHHHHHHHHHHHHHcC
Q 021937          201 -------------EPVHVTERLKHVIEAEG  217 (305)
Q Consensus       201 -------------~~~~~~~~l~~~~~~~~  217 (305)
                                   +......++.+...+..
T Consensus       384 ~P~d~~G~P~y~ltd~~WksFF~rlw~~Ld  413 (432)
T PF00519_consen  384 FPLDENGNPVYELTDANWKSFFRRLWSQLD  413 (432)
T ss_dssp             S-BSTTSSBSS---HHHHHHHHHHHTCCCT
T ss_pred             cccCCCCCeeEEeccChHHHHHHHHHHhcC
Confidence                         34556666666554333

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.76  E-value=0.00023  Score=58.49  Aligned_cols=30  Identities=23%  Similarity=0.267  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcc
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~  105 (305)
                      .+++.|++|+|||+++..++.....++...
T Consensus        26 ~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~   55 (230)
T PRK08533         26 LILIEGDESTGKSILSQRLAYGFLQNGYSV   55 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCcE
Confidence            389999999999999866666554444333

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.76  E-value=0.00047  Score=53.38  Aligned_cols=102  Identities=15%  Similarity=0.169  Sum_probs=63.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC-CcChhHH-----------------------------HHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGIDVV-----------------------------RQQI  125 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~-----------------------------~~~i  125 (305)
                      .+.+++++|.||||+|..++-+....+....++.+--.. ..+....                             .+.+
T Consensus         7 li~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~   86 (173)
T TIGR00708         7 IIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKAAW   86 (173)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHHHH
Confidence            478888899999999999999887777766555543322 1111100                             0111


Q ss_pred             HHhhhcccccCCCCCceEEEEEeCCCcCCHH---HHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          126 QDFASTQSFSFGVKASVKLVLLDEADAMTKD---AQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~---~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      ..+....     .....++||+||+-....-   ..+.+.++++..|++.-+|+|++..+
T Consensus        87 ~~a~~~l-----~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p  141 (173)
T TIGR00708        87 QHAKEML-----ADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCP  141 (173)
T ss_pred             HHHHHHH-----hcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCC
Confidence            1111100     1234789999997633211   13467888888888999999997653

Alternate name: corrinoid adenosyltransferase.

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.75  E-value=0.00014  Score=63.16  Aligned_cols=31  Identities=23%  Similarity=0.348  Sum_probs=26.5

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           72 NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      +++...+|+||+|+|||++++.+++.+....
T Consensus       131 GkGQR~LIvG~pGtGKTTLl~~la~~i~~~~  161 (380)
T PRK12608        131 GKGQRGLIVAPPRAGKTVLLQQIAAAVAANH  161 (380)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            5556799999999999999999999886543

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.75  E-value=0.00026  Score=57.28  Aligned_cols=58  Identities=12%  Similarity=0.138  Sum_probs=38.9

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc-CCceEEEEecCCcccchhhhcceeEEEecCCCH
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT-KNTRFALICNQVNKIIPALQSRCTRFRFAPLEP  202 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~  202 (305)
                      .++.++++|| ...++......+.+++.+.. ....+++++.+...+..   .  .++.+.+|+.
T Consensus       144 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~~~~---~--~~~~~~~~~~  203 (207)
T PRK13539        144 SNRPIWILDEPTAALDAAAVALFAELIRAHLAQGGIVIAATHIPLGLPG---A--RELDLGPFAA  203 (207)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCchhhcc---C--cEEeecCccC
Confidence            5678999999 56788888888888887643 34567777776655443   2  3345555443

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.73  E-value=0.00011  Score=58.22  Aligned_cols=42  Identities=19%  Similarity=0.377  Sum_probs=30.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+.
T Consensus       121 ~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~  164 (182)
T cd03215         121 RDPRVLILDEPTRGVDVGAKAEIYRLIRELADAGKAVLLISSEL  164 (182)
T ss_pred             cCCCEEEECCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCH
Confidence            4578999999 567888888888888886543 45566666554

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.

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

Probab=97.73  E-value=0.00088  Score=54.17  Aligned_cols=41  Identities=12%  Similarity=0.309  Sum_probs=30.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQ  180 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~  180 (305)
                      ..+.+|+-|| -..++.+..+.++.++.+...  +..+|++|.+
T Consensus       159 ~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd  202 (226)
T COG1136         159 NNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHD  202 (226)
T ss_pred             cCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCC
Confidence            5678999999 577888888888888887643  4466667665

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=97.73  E-value=0.00014  Score=62.05  Aligned_cols=52  Identities=15%  Similarity=0.290  Sum_probs=35.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCc-eEEEEecCCcccchhhhcc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNT-RFALICNQVNKIIPALQSR  191 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~-~iil~~~~~~~l~~~l~~r  191 (305)
                      .++.++|+|| ...+++.....+.+++....... ..|+++++.......+-.|
T Consensus       153 ~~P~lliLDEPt~GLDp~~~~~~~~~l~~l~~~g~~tvlissH~l~e~~~~~d~  206 (293)
T COG1131         153 HDPELLILDEPTSGLDPESRREIWELLRELAKEGGVTILLSTHILEEAEELCDR  206 (293)
T ss_pred             cCCCEEEECCCCcCCCHHHHHHHHHHHHHHHhCCCcEEEEeCCcHHHHHHhCCE
Confidence            6678999999 57788999999999998877654 4444444433333333334

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=97.73  E-value=0.00029  Score=55.90  Aligned_cols=38  Identities=29%  Similarity=0.435  Sum_probs=24.3

Q ss_pred             eEEEEEeCCCcCCH-HHHHHHHHHHHHhcCCceEEEEec
Q 021937          142 VKLVLLDEADAMTK-DAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       142 ~~vliiDe~~~l~~-~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      ..++++||+|.+.. .....+..++...+....+++++.
T Consensus       130 ~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~sa  168 (201)
T smart00487      130 VDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSA  168 (201)
T ss_pred             CCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEEEEec
Confidence            45899999999986 444555555555544455555443

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.73  E-value=0.00021  Score=53.07  Aligned_cols=26  Identities=38%  Similarity=0.653  Sum_probs=23.4

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..|+++++|-||+||||++..++...
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHHHh
Confidence            35779999999999999999999876

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=97.73  E-value=0.00032  Score=55.02  Aligned_cols=55  Identities=15%  Similarity=0.271  Sum_probs=36.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeE
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~  194 (305)
                      .++.++++|| ...++-.....|.+++.......+.++.+++...-.+++-.|.-+
T Consensus       150 h~P~i~vlDEP~sGLDi~~~r~~~dfi~q~k~egr~viFSSH~m~EvealCDrviv  205 (245)
T COG4555         150 HDPSILVLDEPTSGLDIRTRRKFHDFIKQLKNEGRAVIFSSHIMQEVEALCDRVIV  205 (245)
T ss_pred             cCCCeEEEcCCCCCccHHHHHHHHHHHHHhhcCCcEEEEecccHHHHHHhhheEEE
Confidence            6688999999 455666667788888887766555555555544444566666543

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=97.72  E-value=0.0004  Score=68.47  Aligned_cols=101  Identities=13%  Similarity=0.204  Sum_probs=60.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHH-------HHHhhhcccccCCCCCceEEEEE
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ-------IQDFASTQSFSFGVKASVKLVLL  147 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------i~~~~~~~~~~~~~~~~~~vlii  147 (305)
                      ...++.|++|+||||+++.+...+...++.  ++.+.. .......+.+.       +..+..........-....||||
T Consensus       398 r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~--V~g~Ap-TgkAA~~L~e~~Gi~a~TIas~ll~~~~~~~~l~~~~vlVI  474 (1102)
T PRK13826        398 RIAAVVGRAGAGKTTMMKAAREAWEAAGYR--VVGGAL-AGKAAEGLEKEAGIQSRTLSSWELRWNQGRDQLDNKTVFVL  474 (1102)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHcCCe--EEEEcC-cHHHHHHHHHhhCCCeeeHHHHHhhhccCccCCCCCcEEEE
Confidence            458999999999999999999887655543  333222 21111222111       11110000000011123579999


Q ss_pred             eCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          148 DEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       148 De~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      ||+..++......|+......  ..++|++++.
T Consensus       475 DEAsMv~~~~m~~Ll~~~~~~--garvVLVGD~  505 (1102)
T PRK13826        475 DEAGMVASRQMALFVEAVTRA--GAKLVLVGDP  505 (1102)
T ss_pred             ECcccCCHHHHHHHHHHHHhc--CCEEEEECCH
Confidence            999999988888887776543  5788888853

>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=97.71  E-value=0.00014  Score=57.26  Aligned_cols=43  Identities=16%  Similarity=0.338  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCC--ceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKN--TRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~--~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+....  ..+++++.+..
T Consensus       117 ~~p~llilDEP~~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~  162 (178)
T cd03229         117 MDPDVLLLDEPTSALDPITRREVRALLKSLQAQLGITVVLVTHDLD  162 (178)
T ss_pred             CCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            4578999999 5778888888999988876543  55666665543

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.

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=97.71  E-value=0.00018  Score=66.02  Aligned_cols=41  Identities=20%  Similarity=0.299  Sum_probs=32.5

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      .+|+++++||+ ..++++....+++.+++.-+...+|-++.+
T Consensus       532 ~kP~~v~LDEATsALDe~~e~~l~q~l~~~lp~~tvISV~Hr  573 (604)
T COG4178         532 HKPKWVFLDEATSALDEETEDRLYQLLKEELPDATVISVGHR  573 (604)
T ss_pred             cCCCEEEEecchhccChHHHHHHHHHHHhhCCCCEEEEeccc
Confidence            66899999996 567888899999999876556777766654

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.71  E-value=0.0013  Score=52.21  Aligned_cols=24  Identities=21%  Similarity=0.347  Sum_probs=21.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|+||+|+|||++++.+.+..
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcC
Confidence            348999999999999999998864

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.70  E-value=0.00054  Score=54.98  Aligned_cols=25  Identities=32%  Similarity=0.590  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .++++||+|+||||++++++..+..
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~   27 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINK   27 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhh
Confidence            3799999999999999999988753

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.70  E-value=0.00039  Score=60.80  Aligned_cols=25  Identities=36%  Similarity=0.530  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..++|+||+|+||||++..++..+.
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~  162 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCV  162 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3489999999999999999998753

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.70  E-value=0.00022  Score=56.00  Aligned_cols=103  Identities=14%  Similarity=0.121  Sum_probs=65.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC-CcChhHHHH------------------------------
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGIDVVRQ------------------------------  123 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~------------------------------  123 (305)
                      ..+.++|++|.||||+|..++-+....+....++.+--.. ..+.....+                              
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            4589999999999999999999887776666555553332 111111111                              


Q ss_pred             HHHHhhhcccccCCCCCceEEEEEeCCCcCCHH---HHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          124 QIQDFASTQSFSFGVKASVKLVLLDEADAMTKD---AQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       124 ~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~---~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .+..+....     ....+++||+||+-....-   ..+.+.++++..|...-+|+|++...
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            111110000     1244789999997554321   24568888888888999999997653

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.69  E-value=0.0003  Score=62.81  Aligned_cols=54  Identities=24%  Similarity=0.329  Sum_probs=41.4

Q ss_pred             CCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      ..+++.+...+...+.+.+.+.... .-++++||+|+||||+...+.+.++....
T Consensus       234 ~l~l~~Lg~~~~~~~~~~~~~~~p~-GliLvTGPTGSGKTTTLY~~L~~ln~~~~  287 (500)
T COG2804         234 ILDLEKLGMSPFQLARLLRLLNRPQ-GLILVTGPTGSGKTTTLYAALSELNTPER  287 (500)
T ss_pred             cCCHHHhCCCHHHHHHHHHHHhCCC-eEEEEeCCCCCCHHHHHHHHHHHhcCCCc
Confidence            3356677667777777777776553 23899999999999999999999976544

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.68  E-value=0.0003  Score=58.90  Aligned_cols=35  Identities=14%  Similarity=0.157  Sum_probs=27.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      ++++|+||+|||+++..++......+....++.+.
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            89999999999999999877654455555565554

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

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.68  E-value=0.00094  Score=53.54  Aligned_cols=31  Identities=35%  Similarity=0.518  Sum_probs=25.1

Q ss_pred             HhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           69 TSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        69 l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +-+....+.++.||||+||||+.+-+++.+.
T Consensus       132 ly~~g~lntLiigpP~~GKTTlLRdiaR~~s  162 (308)
T COG3854         132 LYQNGWLNTLIIGPPQVGKTTLLRDIARLLS  162 (308)
T ss_pred             HHhcCceeeEEecCCCCChHHHHHHHHHHhh
Confidence            3344445589999999999999999999874

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=97.68  E-value=0.00034  Score=56.64  Aligned_cols=43  Identities=19%  Similarity=0.319  Sum_probs=30.9

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       143 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~tH~~~  187 (208)
T cd03268         143 GNPDLLILDEPTNGLDPDGIKELRELILSLRDQGITVLISSHLLS  187 (208)
T ss_pred             cCCCEEEECCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEcCCHH
Confidence            5678999999 566788888888888886543 345666665543

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.

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=97.67  E-value=0.00055  Score=58.87  Aligned_cols=43  Identities=12%  Similarity=0.224  Sum_probs=31.9

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++....
T Consensus       155 ~~P~lllLDEPt~gLD~~~~~~l~~~l~~l~~~g~till~sH~l~  199 (306)
T PRK13537        155 NDPDVLVLDEPTTGLDPQARHLMWERLRSLLARGKTILLTTHFME  199 (306)
T ss_pred             CCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEECCCHH
Confidence            6678999999 567888888999999987654 345666665443

>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=97.66  E-value=0.00039  Score=54.47  Aligned_cols=34  Identities=29%  Similarity=0.355  Sum_probs=26.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      ++++|++|+|||+++..++..+...+....++..
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~   36 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAA   36 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Confidence            6899999999999999999988665544444443

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.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.66  E-value=0.00037  Score=55.61  Aligned_cols=43  Identities=19%  Similarity=0.353  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       125 ~~p~vlllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiiivtH~~~  169 (192)
T cd03232         125 AKPSILFLDEPTSGLDSQAAYNIVRFLKKLADSGQAILCTIHQPS  169 (192)
T ss_pred             cCCcEEEEeCCCcCCCHHHHHHHHHHHHHHHHcCCEEEEEEcCCh
Confidence            5578999999 566778888888888886543 456667776654

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.

>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=97.66  E-value=0.00013  Score=61.59  Aligned_cols=51  Identities=25%  Similarity=0.415  Sum_probs=37.7

Q ss_pred             CccccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           51 SLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      +++++.-.....+.+.+.+...  ....++++|++|+||||++.++...+...
T Consensus       102 sle~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~  154 (270)
T PF00437_consen  102 SLEDLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE  154 (270)
T ss_dssp             CHCCCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred             cHhhccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhcccc
Confidence            5667766665556666665543  23459999999999999999999987544

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=97.66  E-value=0.00071  Score=54.28  Aligned_cols=24  Identities=17%  Similarity=0.355  Sum_probs=21.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|+||.|+||||+++.++...
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHH
Confidence            448999999999999999998654

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

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.65  E-value=0.00044  Score=56.71  Aligned_cols=47  Identities=26%  Similarity=0.388  Sum_probs=32.5

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        64 ~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      .|...+.++-+..  +.++|+||+|||+++..++......+....++..
T Consensus        11 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~   59 (225)
T PRK09361         11 MLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDT   59 (225)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEC
Confidence            3455555553333  7999999999999999999877555544444443

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.65  E-value=0.0007  Score=53.51  Aligned_cols=22  Identities=23%  Similarity=0.610  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++++|+||+||||+++.+++.+
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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.65  E-value=0.00092  Score=54.24  Aligned_cols=22  Identities=27%  Similarity=0.477  Sum_probs=19.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      ..++|+||.|+||||+++.++.
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            4489999999999999999984

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

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=97.63  E-value=0.00034  Score=60.08  Aligned_cols=43  Identities=14%  Similarity=0.237  Sum_probs=31.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...+++.....+.+++.+... ...+++++....
T Consensus       141 ~~p~lllLDEPt~gLD~~~~~~l~~~l~~~~~~g~tvi~~sH~~~  185 (302)
T TIGR01188       141 HQPDVLFLDEPTTGLDPRTRRAIWDYIRALKEEGVTILLTTHYME  185 (302)
T ss_pred             cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEECCCHH
Confidence            5678999999 577888888899998887643 345666665543

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=97.62  E-value=0.00077  Score=58.76  Aligned_cols=43  Identities=14%  Similarity=0.253  Sum_probs=31.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...+++.....+.+++.+... ...+++++...+
T Consensus       189 ~~P~lLiLDEPt~gLD~~~r~~l~~~l~~l~~~g~tilisSH~l~  233 (340)
T PRK13536        189 NDPQLLILDEPTTGLDPHARHLIWERLRSLLARGKTILLTTHFME  233 (340)
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHHHHHHhCCCEEEEECCCHH
Confidence            5678999999 577888889999999987643 345555655443

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=97.61  E-value=0.00012  Score=60.38  Aligned_cols=21  Identities=29%  Similarity=0.659  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|+||+|||++++.+...
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

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.61  E-value=0.00025  Score=59.08  Aligned_cols=27  Identities=33%  Similarity=0.543  Sum_probs=23.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      ++|+|+||+||||+++.+++.+...+.
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~   28 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNI   28 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence            689999999999999999998854443

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.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=97.60  E-value=0.00067  Score=54.96  Aligned_cols=43  Identities=21%  Similarity=0.292  Sum_probs=31.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       145 ~~p~~lllDEP~~~LD~~~~~~~~~~l~~~~~~~~tii~~sH~~~  189 (210)
T cd03269         145 HDPELLILDEPFSGLDPVNVELLKDVIRELARAGKTVILSTHQME  189 (210)
T ss_pred             cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHH
Confidence            5678999999 467888888889999887543 345666665543

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.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=97.59  E-value=0.00033  Score=57.07  Aligned_cols=43  Identities=19%  Similarity=0.369  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       155 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~vsH~~~  199 (216)
T TIGR00960       155 HKPPLLLADEPTGNLDPELSRDIMRLFEEFNRRGTTVLVATHDIN  199 (216)
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            5678999999 567788888888888886543 445666666643

>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=97.59  E-value=0.00023  Score=58.65  Aligned_cols=43  Identities=19%  Similarity=0.251  Sum_probs=32.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+..
T Consensus       150 ~~p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tii~~sH~~~  194 (232)
T cd03218         150 TNPKFLLLDEPFAGVDPIAVQDIQKIIKILKDRGIGVLITDHNVR  194 (232)
T ss_pred             cCCCEEEecCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            5678999999 577888888888888876643 445666766544

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.

>cd01394 radB RadB

Probab=97.59  E-value=0.0012  Score=53.88  Aligned_cols=46  Identities=28%  Similarity=0.421  Sum_probs=32.0

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCCCcccEE
Q 021937           63 DTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (305)
Q Consensus        63 ~~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (305)
                      ..|...+.++-++.  ++++|+||+|||+++..++......+....++
T Consensus         6 ~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi   53 (218)
T cd01394           6 KGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYI   53 (218)
T ss_pred             hHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            34555565543333  78999999999999999998875544443333

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

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=97.59  E-value=0.0003  Score=57.05  Aligned_cols=43  Identities=12%  Similarity=0.325  Sum_probs=33.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+......+++++.+..
T Consensus       147 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~tii~vsH~~~  190 (211)
T cd03264         147 GDPSILIVDEPTAGLDPEERIRFRNLLSELGEDRIVILSTHIVE  190 (211)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHhCCCEEEEEcCCHH
Confidence            6678999999 567888889999999987765555666665543

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.

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=97.58  E-value=0.0017  Score=54.12  Aligned_cols=186  Identities=20%  Similarity=0.193  Sum_probs=96.8

Q ss_pred             CccccccchHHHHHHHHHHh-cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhh
Q 021937           51 SLADVAAHRDIVDTIDRLTS-ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~-~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  129 (305)
                      ....+++-+...+.+...-- ........++|.+|.|||+.++.+++..    .....++.+...  ....+...+....
T Consensus        70 ~~~~~l~tkt~r~~~~~~~~A~k~g~l~~vyg~~g~gKt~a~~~y~~s~----p~~~l~~~~p~~--~a~~~i~~i~~~~  143 (297)
T COG2842          70 LAPDFLETKTVRRIFFRTRPASKTGSLVVVYGYAGLGKTQAAKNYAPSN----PNALLIEADPSY--TALVLILIICAAA  143 (297)
T ss_pred             ccccccccchhHhHhhhhhhhhhcCceEEEeccccchhHHHHHhhcccC----ccceeecCChhh--HHHHHHHHHHHHH
Confidence            34456665554332222211 1222358999999999999999998763    222222222221  1111111111100


Q ss_pred             hccc----------ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC--------Ccccchhhhcc
Q 021937          130 STQS----------FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ--------VNKIIPALQSR  191 (305)
Q Consensus       130 ~~~~----------~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~--------~~~l~~~l~~r  191 (305)
                      ....          ......+..+.|++||++.+.....+.+..+.+...  .-++++++.        .......+.+|
T Consensus       144 ~~~~~~~~~d~~~~~~~~l~~~~~~iivDEA~~L~~~ale~lr~i~d~~G--i~~vLvG~prL~~~l~~~~~~~~rl~sr  221 (297)
T COG2842         144 FGATDGTINDLTERLMIRLRDTVRLIIVDEADRLPYRALEELRRIHDKTG--IGVVLVGMPRLFKVLRRPEDELSRLYSR  221 (297)
T ss_pred             hcccchhHHHHHHHHHHHHccCcceeeeehhhccChHHHHHHHHHHHhhC--ceEEEecChHHHhccccchHHHHHHHHH
Confidence            0000          000124557899999999999999999999888764  333344322        11222333343


Q ss_pred             eeE---EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh
Q 021937          192 CTR---FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM  248 (305)
Q Consensus       192 ~~~---i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  248 (305)
                      ..+   +...-++..+..++....+    -....+.+..+.....|++|.+-..+.-...
T Consensus       222 v~v~~~~~~~~~d~d~~~~~~~~~l----~~~~~~~v~~~~~~~~g~~~~L~~~l~~~~~  277 (297)
T COG2842         222 VRVGKLLGEKFPDADELAEIAALVL----PTEDELVLMQVIKETEGNIRRLDKILAGAVG  277 (297)
T ss_pred             hhhHhhhhhhhhhhHHHHHHHHhhC----ccchHHHHHHHHHhcchhHhHHHHHHhhhhh
Confidence            211   1111222233333333221    1256677777888889999988877754443

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

Probab=97.58  E-value=0.00077  Score=54.51  Aligned_cols=51  Identities=20%  Similarity=0.379  Sum_probs=33.8

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcC--CceEEEEecCCcccchhhhcc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVNKIIPALQSR  191 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~~l~~~l~~r  191 (305)
                      .++.++++||. -.++...|..+++++.+...  +..+++++.+.. +...+-.|
T Consensus       158 ~~PklLIlDEptSaLD~siQa~IlnlL~~l~~~~~lt~l~IsHdl~-~v~~~cdR  211 (252)
T COG1124         158 PEPKLLILDEPTSALDVSVQAQILNLLLELKKERGLTYLFISHDLA-LVEHMCDR  211 (252)
T ss_pred             cCCCEEEecCchhhhcHHHHHHHHHHHHHHHHhcCceEEEEeCcHH-HHHHHhhh
Confidence            66889999995 55667778888888876543  345667765542 33444444

>PRK07261 topology modulation protein; Provisional

Probab=97.58  E-value=0.0011  Score=51.83  Aligned_cols=23  Identities=17%  Similarity=0.427  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++++|++|+||||+++.+++.+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998876

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.58  E-value=0.0011  Score=57.71  Aligned_cols=39  Identities=21%  Similarity=0.303  Sum_probs=29.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      .++|+||+|+||||++..++..+...+....++..+...
T Consensus       208 ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR  246 (407)
T PRK12726        208 IISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFR  246 (407)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccC
Confidence            478999999999999999998876555555555555443

>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=97.58  E-value=0.0014  Score=51.45  Aligned_cols=41  Identities=22%  Similarity=0.285  Sum_probs=30.5

Q ss_pred             eEEEEEeC-CCcCCHHHHHHHHHHHHHhc-CCceEEEEecCCc
Q 021937          142 VKLVLLDE-ADAMTKDAQFALRRVIEKYT-KNTRFALICNQVN  182 (305)
Q Consensus       142 ~~vliiDe-~~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~~  182 (305)
                      +.++++|| ...++......+.+.+.+.. ....+|+++.+..
T Consensus       108 p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~  150 (176)
T cd03238         108 GTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLD  150 (176)
T ss_pred             CCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            79999999 56788888888888887654 2455666776654

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.58  E-value=0.00043  Score=58.09  Aligned_cols=49  Identities=22%  Similarity=0.434  Sum_probs=36.5

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      +++++--.+...+.+..++.... ..++++|++|+||||+++++...+..
T Consensus        58 ~l~~lg~~~~~~~~l~~~~~~~~-GlilisG~tGSGKTT~l~all~~i~~  106 (264)
T cd01129          58 DLEKLGLKPENLEIFRKLLEKPH-GIILVTGPTGSGKTTTLYSALSELNT  106 (264)
T ss_pred             CHHHcCCCHHHHHHHHHHHhcCC-CEEEEECCCCCcHHHHHHHHHhhhCC
Confidence            45555556666677777765442 35899999999999999999888754

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.

>PRK06762 hypothetical protein; Provisional

Probab=97.58  E-value=0.0029  Score=49.15  Aligned_cols=23  Identities=26%  Similarity=0.547  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++++|++|+||||+++.+++.+
T Consensus         4 li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999999987

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.57  E-value=0.00076  Score=55.75  Aligned_cols=47  Identities=21%  Similarity=0.224  Sum_probs=31.9

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        64 ~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      .|.+.+.++-++.  ++++|+||+|||+++..++......+....++..
T Consensus         9 ~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~   57 (237)
T TIGR03877         9 GMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVAL   57 (237)
T ss_pred             hHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEe
Confidence            4555566554433  8999999999999999887664444444444443

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.57  E-value=0.00056  Score=60.83  Aligned_cols=37  Identities=19%  Similarity=0.303  Sum_probs=29.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      .+.++|++|+||||++..++..+...+....++..+.
T Consensus       102 vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~  138 (429)
T TIGR01425       102 VIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADT  138 (429)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcc
Confidence            3789999999999999999998876665555554443

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.57  E-value=0.00057  Score=55.32  Aligned_cols=35  Identities=26%  Similarity=0.525  Sum_probs=26.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      +.++||||+|||+++..++......+..  ++.++..
T Consensus        15 ~~i~G~~GsGKT~l~~~~~~~~~~~g~~--v~yi~~e   49 (209)
T TIGR02237        15 TQIYGPPGSGKTNICMILAVNAARQGKK--VVYIDTE   49 (209)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCe--EEEEECC
Confidence            7999999999999999998877554433  4444443

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

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=97.57  E-value=0.0069  Score=52.53  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=22.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      .+++++|++|+||||+++++...+.
T Consensus       161 ~nili~G~tgSGKTTll~aL~~~ip  185 (332)
T PRK13900        161 KNIIISGGTSTGKTTFTNAALREIP  185 (332)
T ss_pred             CcEEEECCCCCCHHHHHHHHHhhCC
Confidence            4599999999999999999998874

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.57  E-value=0.00055  Score=60.16  Aligned_cols=40  Identities=33%  Similarity=0.595  Sum_probs=30.2

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           63 DTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        63 ~~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      ..|.+.+.++-.+.  ++++|+||+|||+++..++..+...+
T Consensus        69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g  110 (372)
T cd01121          69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG  110 (372)
T ss_pred             HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcC
Confidence            45666666554333  79999999999999999998775443

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.

>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=97.56  E-value=7.2e-05  Score=59.78  Aligned_cols=52  Identities=13%  Similarity=0.139  Sum_probs=30.8

Q ss_pred             ceEEEEEeCCCcCCHHHH------HHHHHHHHHhc-CCceEEEEecCCcccchhhhcce
Q 021937          141 SVKLVLLDEADAMTKDAQ------FALRRVIEKYT-KNTRFALICNQVNKIIPALQSRC  192 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~~------~~l~~~l~~~~-~~~~iil~~~~~~~l~~~l~~r~  192 (305)
                      ...+|+|||++...+...      ....+.+.... ....++++|.+...+++.++..+
T Consensus        79 ~~~liviDEa~~~~~~r~~~~~~~~~~~~~l~~hRh~g~diiliTQ~~~~id~~ir~lv  137 (193)
T PF05707_consen   79 KGSLIVIDEAQNFFPSRSWKGKKVPEIIEFLAQHRHYGWDIILITQSPSQIDKFIRDLV  137 (193)
T ss_dssp             TT-EEEETTGGGTSB---T-T----HHHHGGGGCCCTT-EEEEEES-GGGB-HHHHCCE
T ss_pred             CCcEEEEECChhhcCCCccccccchHHHHHHHHhCcCCcEEEEEeCCHHHHhHHHHHHH
Confidence            368999999998753221      12334444333 24568888988888888888765

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.56  E-value=0.00024  Score=60.27  Aligned_cols=37  Identities=24%  Similarity=0.409  Sum_probs=28.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCC-C-CcccEEEeec
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGA-Q-YHNMILELNA  112 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~-~-~~~~~~~~~~  112 (305)
                      .++|+||+|+||||++..++..+... + ....++..+.
T Consensus       196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~  234 (282)
T TIGR03499       196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT  234 (282)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence            48899999999999999999887543 2 5555555543

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=97.56  E-value=0.0003  Score=57.51  Aligned_cols=42  Identities=19%  Similarity=0.298  Sum_probs=31.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+.
T Consensus       149 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~  192 (222)
T cd03224         149 SRPKLLLLDEPSEGLAPKIVEEIFEAIRELRDEGVTILLVEQNA  192 (222)
T ss_pred             cCCCEEEECCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCH
Confidence            5678999999 567888888889998886643 44566666554

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=97.56  E-value=0.00099  Score=54.11  Aligned_cols=42  Identities=17%  Similarity=0.337  Sum_probs=31.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+.
T Consensus       153 ~~p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tiiivtH~~  196 (214)
T cd03292         153 NSPTILIADEPTGNLDPDTTWEIMNLLKKINKAGTTVVVATHAK  196 (214)
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHHHHHHHcCCEEEEEeCCH
Confidence            5678999999 567888888889998887642 34566666654

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK14532 adenylate kinase; Provisional

Probab=97.55  E-value=0.0037  Score=49.66  Aligned_cols=23  Identities=30%  Similarity=0.696  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++++.|+||+||||+++.+++.+
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48899999999999999999876

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=97.55  E-value=0.00099  Score=54.58  Aligned_cols=43  Identities=16%  Similarity=0.197  Sum_probs=31.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCC-ceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKN-TRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~-~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+.... ..+|+++.+..
T Consensus       159 ~~p~llllDEP~~gLD~~~~~~~~~~l~~~~~~~~tiii~sH~~~  203 (224)
T cd03220         159 LEPDILLIDEVLAVGDAAFQEKCQRRLRELLKQGKTVILVSHDPS  203 (224)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            5678999999 5678888888888888765433 45666666543

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=97.55  E-value=0.00027  Score=56.82  Aligned_cols=43  Identities=23%  Similarity=0.291  Sum_probs=31.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++....
T Consensus       121 ~~p~illlDEPt~~LD~~~~~~l~~~L~~~~~~~~tiii~sh~~~  165 (200)
T cd03217         121 LEPDLAILDEPDSGLDIDALRLVAEVINKLREEGKSVLIITHYQR  165 (200)
T ss_pred             cCCCEEEEeCCCccCCHHHHHHHHHHHHHHHHCCCEEEEEecCHH
Confidence            5578999999 467888888888888887643 345666666544

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.

>PRK13709 conjugal transfer nickase/helicase TraI; Provisional

Probab=97.55  E-value=0.0019  Score=66.78  Aligned_cols=118  Identities=16%  Similarity=0.139  Sum_probs=66.4

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC--CCCcccEEEeecCCCcChhHHHH------HHHHhhh
Q 021937           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG--AQYHNMILELNASDDRGIDVVRQ------QIQDFAS  130 (305)
Q Consensus        59 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~------~i~~~~~  130 (305)
                      +.-...+...+.+. ...++|.|.+|+||||+++.+...+..  ......++-+.+ .......+.+      .+..+..
T Consensus       970 ~~Q~~Av~~il~s~-dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAP-TgrAAk~L~e~Gi~A~TI~s~L~ 1047 (1747)
T PRK13709        970 SGQRAATRMILEST-DRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGP-THRAVGEMRSAGVDAQTLASFLH 1047 (1747)
T ss_pred             HHHHHHHHHHHhCC-CcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECC-cHHHHHHHHhcCcchhhHHHHhc
Confidence            33344555555443 245899999999999999999887642  111122333322 2111111111      1111111


Q ss_pred             ccc-cc---CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          131 TQS-FS---FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       131 ~~~-~~---~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      ... +.   ........|+||||+-.++......|++.+...  ..++|++++.
T Consensus      1048 ~~~~~~~~~~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~~--garvVLVGD~ 1099 (1747)
T PRK13709       1048 DTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAG--GGRAVSSGDT 1099 (1747)
T ss_pred             ccccccccccCCCCCCcEEEEEccccccHHHHHHHHHhhhcC--CCEEEEecch
Confidence            100 00   011123589999999999988888888877643  5678888864

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=97.55  E-value=0.00042  Score=57.03  Aligned_cols=43  Identities=23%  Similarity=0.360  Sum_probs=32.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+...  ...+|+++....
T Consensus       148 ~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~~~~tii~~sH~~~  193 (230)
T TIGR03410       148 TRPKLLLLDEPTEGIQPSIIKDIGRVIRRLRAEGGMAILLVEQYLD  193 (230)
T ss_pred             cCCCEEEecCCcccCCHHHHHHHHHHHHHHHHcCCcEEEEEeCCHH
Confidence            5678999999 567788888889998887643  456666766544

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.55  E-value=0.0017  Score=56.82  Aligned_cols=26  Identities=27%  Similarity=0.543  Sum_probs=22.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ..++++||+|+||||+++++...+..
T Consensus       123 g~ili~G~tGSGKTT~l~al~~~i~~  148 (343)
T TIGR01420       123 GLILVTGPTGSGKSTTLASMIDYINK  148 (343)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCc
Confidence            45899999999999999999988753

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.55  E-value=0.00057  Score=61.73  Aligned_cols=41  Identities=34%  Similarity=0.613  Sum_probs=30.7

Q ss_pred             HHHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           62 VDTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        62 ~~~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      +..|.+.+.++-.+.  ++|+|+||+|||+++..++......+
T Consensus        66 i~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g  108 (446)
T PRK11823         66 IGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAG  108 (446)
T ss_pred             cHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            346667776654333  79999999999999999998775433

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=97.54  E-value=0.00047  Score=56.22  Aligned_cols=43  Identities=21%  Similarity=0.249  Sum_probs=31.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+..
T Consensus       153 ~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~tH~~~  197 (218)
T cd03266         153 HDPPVLLLDEPTTGLDVMATRALREFIRQLRALGKCILFSTHIMQ  197 (218)
T ss_pred             cCCCEEEEcCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            5678999999 567788888889888887643 345666665543

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.54  E-value=0.00024  Score=56.23  Aligned_cols=42  Identities=14%  Similarity=0.362  Sum_probs=30.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      -++.||++|| .-.|++-+...+-+++.+...+..++++|...
T Consensus       166 v~PeVlLmDEPtSALDPIsT~kIEeLi~eLk~~yTIviVTHnm  208 (253)
T COG1117         166 VKPEVLLMDEPTSALDPISTLKIEELITELKKKYTIVIVTHNM  208 (253)
T ss_pred             cCCcEEEecCcccccCchhHHHHHHHHHHHHhccEEEEEeCCH
Confidence            4578999999 44556666667777777777777777777554

>KOG2383 consensus Predicted ATPase [General function prediction only]

Probab=97.54  E-value=0.00094  Score=57.74  Aligned_cols=25  Identities=36%  Similarity=0.413  Sum_probs=21.5

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +..++|||.-|||||+|.-.+...+
T Consensus       114 PkGlYlYG~VGcGKTmLMDlFy~~~  138 (467)
T KOG2383|consen  114 PKGLYLYGSVGCGKTMLMDLFYDAL  138 (467)
T ss_pred             CceEEEecccCcchhHHHHHHhhcC
Confidence            4459999999999999999998654

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.54  E-value=0.001  Score=55.99  Aligned_cols=37  Identities=30%  Similarity=0.366  Sum_probs=29.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      .+.++||+|+||||++..++..+...+....++..+.
T Consensus        74 vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~  110 (272)
T TIGR00064        74 VILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDT  110 (272)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCC
Confidence            3788899999999999999998876665555555443

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.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.54  E-value=0.0008  Score=55.30  Aligned_cols=46  Identities=13%  Similarity=0.278  Sum_probs=34.7

Q ss_pred             CCceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCC-ceEEEEecCCccc
Q 021937          139 KASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKN-TRFALICNQVNKI  184 (305)
Q Consensus       139 ~~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~-~~iil~~~~~~~l  184 (305)
                      ..++.++++|| ...++...+..+++++.+.... ..+++++.+....
T Consensus       155 ~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~eg~tIl~vtHDL~~v  202 (254)
T COG1121         155 AQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQEGKTVLMVTHDLGLV  202 (254)
T ss_pred             ccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCcHHh
Confidence            36788999999 7888889999999999977654 4455566555433

>TIGR02012 tigrfam_recA protein RecA

Probab=97.53  E-value=0.0015  Score=56.10  Aligned_cols=39  Identities=23%  Similarity=0.308  Sum_probs=27.6

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           64 TIDRLTS-ENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        64 ~l~~~l~-~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      .|...+. ++-++.  +.|+||+|+|||+++..++......+
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g   83 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKAG   83 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            4455555 443333  78999999999999988877765443

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.

>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold

Probab=97.52  E-value=0.00099  Score=58.72  Aligned_cols=67  Identities=19%  Similarity=0.248  Sum_probs=45.1

Q ss_pred             CceEEEEEeCCCcCCHHHHHHHHHHHHHh-----cCCceEEEEecCCcccchhhhcce-eEE--EecCCCHHHHH
Q 021937          140 ASVKLVLLDEADAMTKDAQFALRRVIEKY-----TKNTRFALICNQVNKIIPALQSRC-TRF--RFAPLEPVHVT  206 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~~~~~l~~~l~~~-----~~~~~iil~~~~~~~l~~~l~~r~-~~i--~~~~~~~~~~~  206 (305)
                      .++.|+|+||+|.+..+.-..|++-++..     ++.+-+.++|..+.++++.+.+.+ ..+  -+..++..+.+
T Consensus       254 kPklVfFfDEAHLLF~da~kall~~ieqvvrLIRSKGVGv~fvTQ~P~DiP~~VL~QLGnrIQHaLRAfTP~DqK  328 (502)
T PF05872_consen  254 KPKLVFFFDEAHLLFNDAPKALLDKIEQVVRLIRSKGVGVYFVTQNPTDIPDDVLGQLGNRIQHALRAFTPKDQK  328 (502)
T ss_pred             CceEEEEEechhhhhcCCCHHHHHHHHHHHHHhhccCceEEEEeCCCCCCCHHHHHhhhhHHHHHHhcCCHhHHH
Confidence            55668899999999877766666666642     456778889988888877766654 222  24445555444

This family is restricted to bacterial proteins, none of which have currently been characterised.

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

Probab=97.52  E-value=0.00043  Score=57.11  Aligned_cols=42  Identities=12%  Similarity=0.319  Sum_probs=30.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~  181 (305)
                      ..+.++++|| ...++-..+-.+++++.+...  +..+|++..+.
T Consensus       155 Q~~~iLLLDEPTs~LDi~~Q~evl~ll~~l~~~~~~tvv~vlHDl  199 (258)
T COG1120         155 QETPILLLDEPTSHLDIAHQIEVLELLRDLNREKGLTVVMVLHDL  199 (258)
T ss_pred             cCCCEEEeCCCccccCHHHHHHHHHHHHHHHHhcCCEEEEEecCH
Confidence            5678999999 566777788888888887653  34456666543

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=97.52  E-value=0.0012  Score=53.71  Aligned_cols=42  Identities=19%  Similarity=0.296  Sum_probs=31.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+.
T Consensus       154 ~~p~lllLDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~tH~~  197 (214)
T TIGR02673       154 NSPPLLLADEPTGNLDPDLSERILDLLKRLNKRGTTVIVATHDL  197 (214)
T ss_pred             CCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCH
Confidence            5678999999 566788888899998887543 45566666554

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=97.52  E-value=0.00057  Score=55.47  Aligned_cols=43  Identities=14%  Similarity=0.305  Sum_probs=31.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+..
T Consensus       152 ~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~tvi~~sh~~~  196 (213)
T cd03262         152 MNPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMVVVTHEMG  196 (213)
T ss_pred             cCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence            5678999999 567888888889998887643 345666665543

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=97.51  E-value=0.0011  Score=54.11  Aligned_cols=44  Identities=14%  Similarity=0.294  Sum_probs=33.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCcc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~~  183 (305)
                      .++.++++|| ...++......+.+++.+...  ...+|+++.+...
T Consensus       157 ~~p~lllLDEP~~~LD~~~~~~l~~~l~~~~~~~~~tii~~sH~~~~  203 (218)
T cd03255         157 NDPKIILADEPTGNLDSETGKEVMELLRELNKEAGTTIVVVTHDPEL  203 (218)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHhcCCeEEEEECCHHH
Confidence            5678999999 567888888899999887643  4567777766543

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]

Probab=97.51  E-value=0.0014  Score=59.34  Aligned_cols=143  Identities=19%  Similarity=0.160  Sum_probs=88.4

Q ss_pred             ccccchHHHHHHHHHHhcCC------CC------eEEEECCCCCcHHHHHHHHHHHHh----CCCCcccEEEeecCCCcC
Q 021937           54 DVAAHRDIVDTIDRLTSENR------LP------HLLLYGPPGTGKTSTILAVARKLY----GAQYHNMILELNASDDRG  117 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~~------~~------~~ll~G~~G~GKT~l~~~l~~~~~----~~~~~~~~~~~~~~~~~~  117 (305)
                      .+.|++.+++.+.-++-++.      +.      ++++.|.|.+.|+.|++.+.+...    -.|.+..-+.++.+-...
T Consensus       302 SI~GH~~vKkAillLLlGGvEk~L~NGshlRGDINiLlvGDPSvAKSQLLRyVLntAplAI~TTGRGSSGVGLTAAVTtD  381 (818)
T KOG0479|consen  302 SIYGHDYVKKAILLLLLGGVEKNLENGSHLRGDINILLVGDPSVAKSQLLRYVLNTAPLAIATTGRGSSGVGLTAAVTTD  381 (818)
T ss_pred             ccccHHHHHHHHHHHHhccceeccCCCceeccceeEEEecCchHHHHHHHHHHHhcccccccccCCCCCCccceeEEeec
Confidence            46789999888877776531      11      289999999999999999988652    122233333333222111


Q ss_pred             hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-------------cCCceEEEEecCCc--
Q 021937          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQVN--  182 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~iil~~~~~~--  182 (305)
                      .+.-...++..+       ..-+.++|++|||+|+++.-..-++...++..             ++.+.++.++|...  
T Consensus       382 ~eTGERRLEAGA-------MVLADRGVVCIDEFDKMsDiDRvAIHEVMEQqtVTIaKAGIHasLNARCSVlAAANPvyG~  454 (818)
T KOG0479|consen  382 QETGERRLEAGA-------MVLADRGVVCIDEFDKMSDIDRVAIHEVMEQQTVTIAKAGIHASLNARCSVLAAANPVYGQ  454 (818)
T ss_pred             cccchhhhhcCc-------eEEccCceEEehhcccccchhHHHHHHHHhcceEEeEeccchhhhccceeeeeecCccccc
Confidence            111112222111       11234789999999999988888888888853             34566666665321  


Q ss_pred             -----------ccchhhhcceeE--EEecCCCHH
Q 021937          183 -----------KIIPALQSRCTR--FRFAPLEPV  203 (305)
Q Consensus       183 -----------~l~~~l~~r~~~--i~~~~~~~~  203 (305)
                                 .+++++.+||..  +.+...+..
T Consensus       455 Yd~~k~P~eNIgLpDSLLSRFDLlFv~lD~~d~~  488 (818)
T KOG0479|consen  455 YDQSKTPMENIGLPDSLLSRFDLLFVVLDDIDAD  488 (818)
T ss_pred             cCCCCChhhccCCcHHHHhhhcEEEEEeccccch
Confidence                       468899999843  444444443

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=97.51  E-value=0.0068  Score=52.78  Aligned_cols=52  Identities=13%  Similarity=0.107  Sum_probs=37.8

Q ss_pred             eeEEEecCCCHHHHHHHHHHHHHHcCC--CC-CHHHHHHHHHHcCCCHHHHHHHH
Q 021937          192 CTRFRFAPLEPVHVTERLKHVIEAEGL--DV-TEGGLAALVRLCNGDMRKALNIL  243 (305)
Q Consensus       192 ~~~i~~~~~~~~~~~~~l~~~~~~~~~--~~-~~~~~~~l~~~~~g~~r~~~~~l  243 (305)
                      +..+++++++.+|...++..++++.=+  ++ .++...++.=.++||++....++
T Consensus       403 f~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~Ee~~kql~fLSngNP~l~~~lc  457 (461)
T KOG3928|consen  403 FVPIEVENYTLDEFEALIDYYLQSNWLLKKVPGEENIKQLYFLSNGNPSLMERLC  457 (461)
T ss_pred             cCccccCCCCHHHHHHHHHHHHHhhHHHhhcCcccchhhhhhhcCCCHHHHHHHH
Confidence            566889999999999999888765311  23 36677888888999995444433

>PRK06696 uridine kinase; Validated

Probab=97.51  E-value=0.00022  Score=58.43  Aligned_cols=45  Identities=13%  Similarity=0.203  Sum_probs=33.0

Q ss_pred             chHHHHHHHHHHhc---CCCCeEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           58 HRDIVDTIDRLTSE---NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        58 ~~~~~~~l~~~l~~---~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      +.+.+++|...+..   ..+..+.+.|++|+||||+++.+++.+...+
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g   50 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKKRG   50 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            34566667666643   2233378999999999999999999985443

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.50  E-value=0.0006  Score=55.67  Aligned_cols=43  Identities=19%  Similarity=0.309  Sum_probs=33.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+......+++++.+..
T Consensus       150 ~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sH~~~  193 (220)
T cd03263         150 GGPSVLLLDEPTSGLDPASRRAIWDLILEVRKGRSIILTTHSMD  193 (220)
T ss_pred             cCCCEEEECCCCCCCCHHHHHHHHHHHHHHhcCCEEEEEcCCHH
Confidence            5678999999 567788888899999987665555666666544

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.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=97.50  E-value=0.00029  Score=65.45  Aligned_cols=40  Identities=18%  Similarity=0.229  Sum_probs=28.9

Q ss_pred             CceEEEEEeCCC-cCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          140 ASVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       140 ~~~~vliiDe~~-~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      .++.++++||+- .++.+....+.+.+.+..++..+|+++.
T Consensus       487 ~~~~iliLDE~TSaLD~~te~~I~~~l~~~~~~~TvIiItH  527 (529)
T TIGR02868       487 ADAPILLLDEPTEHLDAGTESELLEDLLAALSGKTVVVITH  527 (529)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEEec
Confidence            667899999964 4677777888888887655555555554

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.

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=97.50  E-value=0.0026  Score=55.84  Aligned_cols=25  Identities=20%  Similarity=0.290  Sum_probs=22.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .++++||+|+||||+++++.+.+..
T Consensus       151 lilI~G~TGSGKTT~l~al~~~i~~  175 (372)
T TIGR02525       151 LGLICGETGSGKSTLAASIYQHCGE  175 (372)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4899999999999999999998853

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).

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.49  E-value=0.0014  Score=53.06  Aligned_cols=43  Identities=14%  Similarity=0.341  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       151 ~~p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tvi~~sH~~~  195 (211)
T cd03225         151 MDPDILLLDEPTAGLDPAGRRELLELLKKLKAEGKTIIIVTHDLD  195 (211)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence            5678999999 567888888889998876643 455666666543

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.

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

Probab=97.48  E-value=0.0024  Score=55.66  Aligned_cols=50  Identities=28%  Similarity=0.557  Sum_probs=36.9

Q ss_pred             HHHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           62 VDTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        62 ~~~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      +.++.+.+.++-.+.  ++|-|.||.|||||+-.++..+...+   .++++++..
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEE  130 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEE  130 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCc
Confidence            456777777764444  88999999999999999999885543   456665543

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.48  E-value=0.00099  Score=58.88  Aligned_cols=87  Identities=20%  Similarity=0.271  Sum_probs=47.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH-hCCCCcccEEEeecCCCcChhHHHHHHHHhhhccc--ccC----------CCCCceE
Q 021937           77 LLLYGPPGTGKTSTILAVARKL-YGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS--FSF----------GVKASVK  143 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~--~~~----------~~~~~~~  143 (305)
                      +++.||+|+||||++..++... ...+....++..+.........+    ........  +..          .......
T Consensus       226 i~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQL----k~yAe~lgvp~~~~~~~~~l~~~l~~~~~D  301 (432)
T PRK12724        226 VFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQL----KRYADTMGMPFYPVKDIKKFKETLARDGSE  301 (432)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHH----HHHHHhcCCCeeehHHHHHHHHHHHhCCCC
Confidence            7899999999999999999765 33344444444443221111111    11111100  000          0113468


Q ss_pred             EEEEeCCCcCC--HHHHHHHHHHHHH
Q 021937          144 LVLLDEADAMT--KDAQFALRRVIEK  167 (305)
Q Consensus       144 vliiDe~~~l~--~~~~~~l~~~l~~  167 (305)
                      +|+||=+.+..  ......|..+++.
T Consensus       302 ~VLIDTaGr~~rd~~~l~eL~~~~~~  327 (432)
T PRK12724        302 LILIDTAGYSHRNLEQLERMQSFYSC  327 (432)
T ss_pred             EEEEeCCCCCccCHHHHHHHHHHHHh
Confidence            89999766553  4556666666654

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.48  E-value=2.3e-05  Score=63.38  Aligned_cols=22  Identities=55%  Similarity=0.801  Sum_probs=19.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      ..++|||+||+||||+|+.++.
T Consensus        13 ~~~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        13 NMYLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             cEEEEECCCCCCHHHHHHhcCC
Confidence            3489999999999999999863

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.

>PRK14712 conjugal transfer nickase/helicase TraI; Provisional

Probab=97.48  E-value=0.0028  Score=64.88  Aligned_cols=118  Identities=17%  Similarity=0.162  Sum_probs=65.8

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC--CCCcccEEEeecCCCcChhHHH------HHHHHhhh
Q 021937           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG--AQYHNMILELNASDDRGIDVVR------QQIQDFAS  130 (305)
Q Consensus        59 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~------~~i~~~~~  130 (305)
                      +.-.+.+...+.+.. ..++|.|.+|+||||+++.+...+..  ......++-+. +.......+.      ..+..+..
T Consensus       838 ~~Qr~Av~~iLts~d-r~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glA-PTgkAa~~L~e~Gi~A~TIasfL~  915 (1623)
T PRK14712        838 SGQRAATRMILETSD-RFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLG-PTHRAVGEMRSAGVDAQTLASFLH  915 (1623)
T ss_pred             HHHHHHHHHHHhCCC-ceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEe-chHHHHHHHHHhCchHhhHHHHhc
Confidence            333445555554432 35899999999999999888776532  11112233332 2211111111      11111111


Q ss_pred             ccc-c---cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          131 TQS-F---SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       131 ~~~-~---~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      ... +   ......+..++||||+-.++......|+.+++.  ...++|++++.
T Consensus       916 ~~~~~~~~~~~~~~~~~llIVDEASMV~~~~m~~ll~~~~~--~garvVLVGD~  967 (1623)
T PRK14712        916 DTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAA--GGGRAVASGDT  967 (1623)
T ss_pred             cccchhhcccCCCCCCcEEEEEccccccHHHHHHHHHhhhh--CCCEEEEEcch
Confidence            100 0   000112368999999999998888888888764  25678888864

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=97.48  E-value=0.0021  Score=52.23  Aligned_cols=101  Identities=15%  Similarity=0.236  Sum_probs=58.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEE---------------EeecCCCcChhHHHHHHHHhhhcccccCCCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL---------------ELNASDDRGIDVVRQQIQDFASTQSFSFGVKA  140 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  140 (305)
                      .++++|++|+||||++..+........+.....               .+..-+..+...++..........        
T Consensus         7 kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~--------   78 (219)
T COG1100           7 KIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGA--------   78 (219)
T ss_pred             EEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCC--------
Confidence            389999999999999999998765533222111               112223334444444444433322        


Q ss_pred             ceEEEEEeCCC-cCCHHHHHHHHHHHHHhc-CCceEEEEecCCccc
Q 021937          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYT-KNTRFALICNQVNKI  184 (305)
Q Consensus       141 ~~~vliiDe~~-~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~~~l  184 (305)
                      ...+++.|... .-..+....+...+.... ....++++.+..+..
T Consensus        79 ~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~  124 (219)
T COG1100          79 NGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLF  124 (219)
T ss_pred             CEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccc
Confidence            25677777665 333445555665555544 357788888765543

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.48  E-value=0.0016  Score=52.11  Aligned_cols=99  Identities=23%  Similarity=0.306  Sum_probs=60.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD  156 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~  156 (305)
                      ++|.|+.|+|||+..+.+.......     .  +.  .....+. ...+..              .-++.+||++.+.+.
T Consensus        55 lvl~G~QG~GKStf~~~L~~~~~~d-----~--~~--~~~~kd~-~~~l~~--------------~~iveldEl~~~~k~  110 (198)
T PF05272_consen   55 LVLVGKQGIGKSTFFRKLGPEYFSD-----S--IN--DFDDKDF-LEQLQG--------------KWIVELDELDGLSKK  110 (198)
T ss_pred             eeEecCCcccHHHHHHHHhHHhccC-----c--cc--cCCCcHH-HHHHHH--------------hHheeHHHHhhcchh
Confidence            7899999999999999996553111     1  11  1111222 222221              368999999999877


Q ss_pred             HHHHHHHHHHH---------------hcCCceEEEEecCCcccch-hhhcceeEEEecC
Q 021937          157 AQFALRRVIEK---------------YTKNTRFALICNQVNKIIP-ALQSRCTRFRFAP  199 (305)
Q Consensus       157 ~~~~l~~~l~~---------------~~~~~~iil~~~~~~~l~~-~l~~r~~~i~~~~  199 (305)
                      ..+.|-.++-.               .+....++.++|...-+.. +=-+|+..+.+..
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            77766666542               1234456777777654433 3345676666655

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=97.48  E-value=0.0014  Score=56.34  Aligned_cols=43  Identities=14%  Similarity=0.253  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++....
T Consensus       152 ~~p~lllLDEPt~gLD~~~~~~l~~~l~~~~~~g~til~~sH~~~  196 (303)
T TIGR01288       152 NDPQLLILDEPTTGLDPHARHLIWERLRSLLARGKTILLTTHFME  196 (303)
T ss_pred             cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEECCCHH
Confidence            5678999999 577888888889998887643 345666665543

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.47  E-value=0.0005  Score=55.35  Aligned_cols=42  Identities=10%  Similarity=0.176  Sum_probs=30.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+...  ...+++++++.
T Consensus       135 ~~p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~~t~ii~~~h~  179 (202)
T cd03233         135 SRASVLCWDNSTRGLDSSTALEILKCIRTMADVLKTTTFVSLYQA  179 (202)
T ss_pred             hCCCEEEEcCCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEEcCC
Confidence            5578999999 577888888899999887643  34455555443

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.47  E-value=0.0032  Score=57.31  Aligned_cols=26  Identities=38%  Similarity=0.639  Sum_probs=22.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ..+.|+||+|+||||++..++..+..
T Consensus       351 ~vIaLVGPtGvGKTTtaakLAa~la~  376 (559)
T PRK12727        351 GVIALVGPTGAGKTTTIAKLAQRFAA  376 (559)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            34889999999999999999887643

>PRK04328 hypothetical protein; Provisional

Probab=97.47  E-value=0.0016  Score=54.25  Aligned_cols=47  Identities=21%  Similarity=0.187  Sum_probs=31.5

Q ss_pred             HHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           64 TIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        64 ~l~~~l~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      .|.+.+.++-++  .++++|+||+|||+++..++......+....++.+
T Consensus        11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~   59 (249)
T PRK04328         11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVAL   59 (249)
T ss_pred             hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEe
Confidence            455556555333  38999999999999999887764444444444443

>PRK06547 hypothetical protein; Provisional

Probab=97.46  E-value=0.00029  Score=55.06  Aligned_cols=30  Identities=27%  Similarity=0.357  Sum_probs=24.6

Q ss_pred             HhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           69 TSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        69 l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.......+.+.|++|+||||+++.+++.+
T Consensus        10 ~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         10 LCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             hhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            444444558899999999999999999986

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=97.46  E-value=0.00059  Score=56.28  Aligned_cols=43  Identities=16%  Similarity=0.349  Sum_probs=31.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+...  ...+++++.+..
T Consensus       157 ~~p~lllLDEP~~~LD~~~~~~l~~~l~~~~~~~~~tvii~sH~~~  202 (233)
T cd03258         157 NNPKVLLCDEATSALDPETTQSILALLRDINRELGLTIVLITHEME  202 (233)
T ss_pred             cCCCEEEecCCCCcCCHHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence            5678999999 567888888899999887642  455666666543

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=97.46  E-value=0.0011  Score=56.77  Aligned_cols=24  Identities=29%  Similarity=0.663  Sum_probs=21.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++++||+|+|||+++..+++.+
T Consensus         5 ~~i~i~GptgsGKt~la~~la~~~   28 (307)
T PRK00091          5 KVIVIVGPTASGKTALAIELAKRL   28 (307)
T ss_pred             eEEEEECCCCcCHHHHHHHHHHhC
Confidence            348999999999999999999987

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=97.46  E-value=0.00057  Score=55.80  Aligned_cols=43  Identities=16%  Similarity=0.247  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+...  ...+++++.+..
T Consensus       148 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tvi~~tH~~~  193 (220)
T cd03265         148 HRPEVLFLDEPTIGLDPQTRAHVWEYIEKLKEEFGMTILLTTHYME  193 (220)
T ss_pred             cCCCEEEEcCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            5678999999 577888888888888876543  345666666544

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10908 cell division protein FtsE; Provisional

Probab=97.46  E-value=0.00066  Score=55.53  Aligned_cols=43  Identities=12%  Similarity=0.302  Sum_probs=31.4

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       154 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~  198 (222)
T PRK10908        154 NKPAVLLADEPTGNLDDALSEGILRLFEEFNRVGVTVLMATHDIG  198 (222)
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            5678999999 567888888888888887643 455666666543

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=97.45  E-value=0.0013  Score=56.30  Aligned_cols=48  Identities=21%  Similarity=0.290  Sum_probs=34.4

Q ss_pred             Ccccccc----chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           51 SLADVAA----HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        51 ~~~~~~g----~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ++++++.    .+...+.|..++...  .+++++|++|+||||+++++...+..
T Consensus       107 tl~~l~~~g~~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~al~~~i~~  158 (299)
T TIGR02782       107 TLDDYVEAGIMTAAQRDVLREAVLAR--KNILVVGGTGSGKTTLANALLAEIAK  158 (299)
T ss_pred             CHHHHHhcCCCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHHhhc
Confidence            4455542    234455666666543  45999999999999999999988743

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.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=97.45  E-value=0.0012  Score=53.55  Aligned_cols=42  Identities=14%  Similarity=0.289  Sum_probs=31.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+...  ...+++++.+.
T Consensus       147 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tvi~~sH~~  191 (213)
T cd03301         147 REPKVFLMDEPLSNLDAKLRVQMRAELKRLQQRLGTTTIYVTHDQ  191 (213)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEeCCH
Confidence            5678999999 567788888888888876542  45566676654

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>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=97.45  E-value=9.2e-05  Score=55.97  Aligned_cols=22  Identities=41%  Similarity=0.918  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++++|+||+||||+++.+++.+
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            6899999999999999999876

...

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=97.45  E-value=0.00054  Score=56.78  Aligned_cols=43  Identities=23%  Similarity=0.349  Sum_probs=30.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++..... ...+++++.+..
T Consensus       154 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~sH~~~  198 (241)
T PRK10895        154 ANPKFILLDEPFAGVDPISVIDIKRIIEHLRDSGLGVLITDHNVR  198 (241)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHHhcCCEEEEEEcCHH
Confidence            5678999999 457788888888888876543 445666665543

>PRK10867 signal recognition particle protein; Provisional

Probab=97.45  E-value=0.0015  Score=58.38  Aligned_cols=37  Identities=22%  Similarity=0.352  Sum_probs=28.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCC-CCcccEEEeecC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNAS  113 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~  113 (305)
                      ++++|++|+||||++..++..+... +....++..+..
T Consensus       103 I~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~  140 (433)
T PRK10867        103 IMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVY  140 (433)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEcccc
Confidence            7899999999999999999988665 555555555443

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.44  E-value=0.0003  Score=57.73  Aligned_cols=35  Identities=40%  Similarity=0.642  Sum_probs=23.8

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        62 ~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.+...+....  ..+++||||||||+++..+...+
T Consensus         7 ~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    7 REAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHh
Confidence            344444444332  37999999999999888888877

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.44  E-value=0.0018  Score=52.65  Aligned_cols=43  Identities=16%  Similarity=0.162  Sum_probs=30.6

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+..
T Consensus       154 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~  198 (214)
T PRK13543        154 SPAPLWLLDEPYANLDLEGITLVNRMISAHLRGGGAALVTTHGAY  198 (214)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEecChh
Confidence            5678999999 567788888888888876432 345666665543

>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=97.44  E-value=0.00026  Score=46.20  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.+.|++|+||||+++.+++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999987

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.43  E-value=0.0057  Score=55.79  Aligned_cols=118  Identities=18%  Similarity=0.256  Sum_probs=84.5

Q ss_pred             eEEEEEeCCCcCC--HHHHHHHHHHHHHhcCCc-eEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCC
Q 021937          142 VKLVLLDEADAMT--KDAQFALRRVIEKYTKNT-RFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGL  218 (305)
Q Consensus       142 ~~vliiDe~~~l~--~~~~~~l~~~l~~~~~~~-~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~  218 (305)
                      +.++++.|+|.+.  +.....|.++........ .+|+++ ....++..+.+-+.++.++-|+.+|+.+++...+...+.
T Consensus        82 ~~~~vl~d~h~~~~~~~~~r~l~~l~~~~~~~~~~~i~~~-~~~~~p~el~~~~~~~~~~lP~~~ei~~~l~~~~~~~~~  160 (489)
T CHL00195         82 PALFLLKDFNRFLNDISISRKLRNLSRILKTQPKTIIIIA-SELNIPKELKDLITVLEFPLPTESEIKKELTRLIKSLNI  160 (489)
T ss_pred             CcEEEEecchhhhcchHHHHHHHHHHHHHHhCCCEEEEEc-CCCCCCHHHHhceeEEeecCcCHHHHHHHHHHHHHhcCC
Confidence            5799999999984  334455555544333222 344444 345688888888899999999999999999988877788


Q ss_pred             CCCHHHHHHHHHHcCCC-HHHHHHHHHHHhhccCccCHHHHHh
Q 021937          219 DVTEGGLAALVRLCNGD-MRKALNILQSTHMASQQITEEAVYL  260 (305)
Q Consensus       219 ~~~~~~~~~l~~~~~g~-~r~~~~~l~~~~~~~~~i~~~~v~~  260 (305)
                      .++++.++.+++.+.|- ...+.+.+..+....+.++.+++..
T Consensus       161 ~~~~~~~~~l~~~~~gls~~~~~~~~~~~~~~~~~~~~~~~~~  203 (489)
T CHL00195        161 KIDSELLENLTRACQGLSLERIRRVLSKIIATYKTIDENSIPL  203 (489)
T ss_pred             CCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHHcCCCChhhHHH
Confidence            89999999999998874 4455555555544556677766543

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.43  E-value=0.00096  Score=53.83  Aligned_cols=43  Identities=12%  Similarity=0.260  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc-CCceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT-KNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+.. ....+++++.+..
T Consensus       143 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sH~~~  187 (205)
T cd03226         143 SGKDLLIFDEPTSGLDYKNMERVGELIRELAAQGKAVIVITHDYE  187 (205)
T ss_pred             hCCCEEEEeCCCccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            5678999999 56788888889999988763 3445666665543

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=97.43  E-value=0.00025  Score=54.30  Aligned_cols=41  Identities=22%  Similarity=0.367  Sum_probs=31.3

Q ss_pred             HHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCccc
Q 021937           66 DRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNM  106 (305)
Q Consensus        66 ~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~  106 (305)
                      +......++..+.|+|.+|+||||+|.++.+.+...++...
T Consensus        15 r~~~~~~~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y   55 (197)
T COG0529          15 REALKGQKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVY   55 (197)
T ss_pred             HHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEE
Confidence            33444444445899999999999999999999977766443

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.43  E-value=0.00022  Score=55.88  Aligned_cols=25  Identities=32%  Similarity=0.505  Sum_probs=22.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +..++|+|++|+||||+++.+++.+
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            3458999999999999999999997

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=97.43  E-value=0.00043  Score=56.22  Aligned_cols=43  Identities=19%  Similarity=0.287  Sum_probs=31.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+...  ...+++++.+..
T Consensus       147 ~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tii~~sH~~~  192 (213)
T cd03259         147 REPSLLLLDEPLSALDAKLREELREELKELQRELGITTIYVTHDQE  192 (213)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEecCHH
Confidence            5678999999 567788888889998887532  445666666543

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>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=97.42  E-value=0.0003  Score=59.02  Aligned_cols=88  Identities=18%  Similarity=0.322  Sum_probs=44.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec-----CC---CcChhHHHHHHHHhhhcccccCCCCCceEEEE
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA-----SD---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVL  146 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~-----~~---~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vli  146 (305)
                      |.++|+|.||+|||++++.+...+...+....++.-..     ..   .......+..+........      .+..+||
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------SKDTIVI   75 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHH------TT-SEEE
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhh------ccCeEEE
Confidence            56899999999999999999999876554443333111     11   1112233333333222211      1147999


Q ss_pred             EeCCCcCCHHHHHHHHHHHHHhc
Q 021937          147 LDEADAMTKDAQFALRRVIEKYT  169 (305)
Q Consensus       147 iDe~~~l~~~~~~~l~~~l~~~~  169 (305)
                      +|+..++. ...-.|+.+-....
T Consensus        76 ~Dd~nYiK-g~RYelyclAr~~~   97 (270)
T PF08433_consen   76 LDDNNYIK-GMRYELYCLARAYG   97 (270)
T ss_dssp             E-S---SH-HHHHHHHHHHHHTT
T ss_pred             EeCCchHH-HHHHHHHHHHHHcC
Confidence            99988775 34455666555543

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.41  E-value=0.0016  Score=52.41  Aligned_cols=42  Identities=26%  Similarity=0.247  Sum_probs=31.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc-CCceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT-KNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+.. ....+|+++...
T Consensus       144 ~~p~~lilDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~  187 (200)
T PRK13540        144 SKAKLWLLDEPLVALDELSLLTIITKIQEHRAKGGAVLLTSHQD  187 (200)
T ss_pred             cCCCEEEEeCCCcccCHHHHHHHHHHHHHHHHcCCEEEEEeCCc
Confidence            5678999999 56778888888999888753 345566666554

>cd04124 RabL2 RabL2 subfamily

Probab=97.41  E-value=0.002  Score=49.69  Aligned_cols=21  Identities=19%  Similarity=0.381  Sum_probs=18.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||+++..+...
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999888754

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

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=97.41  E-value=0.0015  Score=53.27  Aligned_cols=43  Identities=16%  Similarity=0.241  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc-C-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT-K-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~-~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+.. . ...+++++.+..
T Consensus       148 ~~p~lllLDEPt~~LD~~~~~~~~~~l~~~~~~~~~tiii~sH~~~  193 (220)
T cd03293         148 VDPDVLLLDEPFSALDALTREQLQEELLDIWRETGKTVLLVTHDID  193 (220)
T ss_pred             cCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHcCCEEEEEecCHH
Confidence            5678999999 56788888889999887653 2 455666666543

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.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.41  E-value=0.0014  Score=60.16  Aligned_cols=47  Identities=17%  Similarity=0.285  Sum_probs=34.1

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           63 DTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        63 ~~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      ..|...+.++-++.  +++.||||+|||+++..++......+....++.
T Consensus       250 ~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s  298 (484)
T TIGR02655       250 VRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFA  298 (484)
T ss_pred             HhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            46677777764444  899999999999999999887755544444443

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=97.41  E-value=0.0015  Score=53.40  Aligned_cols=43  Identities=21%  Similarity=0.346  Sum_probs=32.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       141 ~~p~llllDEP~~~LD~~~~~~l~~~L~~~~~~~~tiii~sH~~~  185 (223)
T TIGR03740       141 NHPKLLILDEPTNGLDPIGIQELRELIRSFPEQGITVILSSHILS  185 (223)
T ss_pred             cCCCEEEECCCccCCCHHHHHHHHHHHHHHHHCCCEEEEEcCCHH
Confidence            5678999999 577888888899999887643 345666666543

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.41  E-value=0.0039  Score=52.29  Aligned_cols=91  Identities=25%  Similarity=0.377  Sum_probs=51.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccccc--C--------------CC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS--F--------------GV  138 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--~--------------~~  138 (305)
                      ..+.++|++|+|||+++..++..+...+....++..+...   .....+ +........+.  .              ..
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~r---i~~~~q-l~~~~~~~~~~~~~~~~~~~l~~~l~~l~~  151 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSR---IGTVQQ-LQDYVKTIGFEVIAVRDEAAMTRALTYFKE  151 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCC---HHHHHH-HHHHhhhcCceEEecCCHHHHHHHHHHHHh
Confidence            5689999999999999999998875444444444433222   122211 11111111000  0              01


Q ss_pred             CCceEEEEEeCCCcCC--HHHHHHHHHHHHHhc
Q 021937          139 KASVKLVLLDEADAMT--KDAQFALRRVIEKYT  169 (305)
Q Consensus       139 ~~~~~vliiDe~~~l~--~~~~~~l~~~l~~~~  169 (305)
                      ..+..+++||-..+..  ......+..+++...
T Consensus       152 ~~~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~  184 (270)
T PRK06731        152 EARVDYILIDTAGKNYRASETVEEMIETMGQVE  184 (270)
T ss_pred             cCCCCEEEEECCCCCcCCHHHHHHHHHHHhhhC
Confidence            1246889999887774  445566666665443

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=97.41  E-value=0.0089  Score=45.58  Aligned_cols=123  Identities=14%  Similarity=0.132  Sum_probs=65.6

Q ss_pred             ECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHH-HHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHH
Q 021937           80 YGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR-QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQ  158 (305)
Q Consensus        80 ~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~  158 (305)
                      .+..||||||++.++.+.+..++    .+.=+.........+. ..+..+..         ....++|.|-=..... ..
T Consensus         5 IAtiGCGKTTva~aL~~LFg~wg----HvQnDnI~~k~~~~f~~~~l~~L~~---------~~~~vViaDRNNh~~r-eR   70 (168)
T PF08303_consen    5 IATIGCGKTTVALALSNLFGEWG----HVQNDNITGKRKPKFIKAVLELLAK---------DTHPVVIADRNNHQKR-ER   70 (168)
T ss_pred             ecCCCcCHHHHHHHHHHHcCCCC----ccccCCCCCCCHHHHHHHHHHHHhh---------CCCCEEEEeCCCchHH-HH
Confidence            57899999999999999873211    1111111111223332 23333311         1257999997665543 45


Q ss_pred             HHHHHHHHHhcC-------CceEEEEecCC-c---cc----chhhhcce---eEEEecCCCHHHHHHHHHHHHHHc
Q 021937          159 FALRRVIEKYTK-------NTRFALICNQV-N---KI----IPALQSRC---TRFRFAPLEPVHVTERLKHVIEAE  216 (305)
Q Consensus       159 ~~l~~~l~~~~~-------~~~iil~~~~~-~---~l----~~~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~  216 (305)
                      +.|+..++....       +.++|...=.. .   .+    ..++..|+   +.+............+++..+.+.
T Consensus        71 ~ql~~~~~~~~~~yl~~~~~~r~VaL~fv~~~~~~~i~~it~~RV~~RGDNHQTika~~~~~~~~~~Im~gFi~rf  146 (168)
T PF08303_consen   71 KQLFEDVSQLKPDYLPYDTNVRFVALNFVHDDDLDEIRRITQDRVLARGDNHQTIKADSKDEKKVEGIMEGFIKRF  146 (168)
T ss_pred             HHHHHHHHHhcccccccCCCeEEEEEEccCCCCHHHHHHHHHHHHHhcCcCcceeecCCCCHHHHHHHHHHHHHhc
Confidence            566666665443       55555544111 1   11    12333444   556666666666777776666544

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=97.40  E-value=0.0037  Score=53.62  Aligned_cols=44  Identities=14%  Similarity=0.340  Sum_probs=31.5

Q ss_pred             ccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       134 ~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +..++.-+...|||||++.+.+...   ..++-+....++|+++++.
T Consensus       344 ~IRGRSl~~~FiIIDEaQNLTphei---kTiltR~G~GsKIVl~gd~  387 (436)
T COG1875         344 YIRGRSLPDSFIIIDEAQNLTPHEL---KTILTRAGEGSKIVLTGDP  387 (436)
T ss_pred             eecccccccceEEEehhhccCHHHH---HHHHHhccCCCEEEEcCCH
Confidence            3345555678999999999997654   4455556667888888753

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=97.40  E-value=0.0026  Score=52.90  Aligned_cols=82  Identities=13%  Similarity=0.252  Sum_probs=47.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCcccchhhhcceeEE------EecCCCHHHHHHHHH
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVNKIIPALQSRCTRF------RFAPLEPVHVTERLK  210 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~~l~~~l~~r~~~i------~~~~~~~~~~~~~l~  210 (305)
                      .++.++++|| ...++......+.+++.+...  ...+|+++.+... ...+..|...+      .-..-+...+.+.+.
T Consensus       132 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tiiivsHd~~~-~~~~~d~i~~l~~~~~~~~~~~~~~~~~~~~~  210 (246)
T cd03237         132 KDADIYLLDEPSAYLDVEQRLMASKVIRRFAENNEKTAFVVEHDIIM-IDYLADRLIVFEGEPSVNGVANPPQSLRSGMN  210 (246)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH-HHHhCCEEEEEcCCCeeEEEeCCchHHHHHHH
Confidence            5678999999 567788888888888876532  4556666655432 23333333221      001112233445666


Q ss_pred             HHHHHcCCCCCH
Q 021937          211 HVIEAEGLDVTE  222 (305)
Q Consensus       211 ~~~~~~~~~~~~  222 (305)
                      ..+...++.+..
T Consensus       211 ~~l~~~~~~~~~  222 (246)
T cd03237         211 RFLKNLDITFRR  222 (246)
T ss_pred             HHHHHCCCEEec
Confidence            666666665543

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.

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=97.39  E-value=0.0022  Score=54.14  Aligned_cols=22  Identities=32%  Similarity=0.732  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.||+|+|||+++..+++.+
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.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=97.39  E-value=0.00086  Score=57.56  Aligned_cols=52  Identities=21%  Similarity=0.383  Sum_probs=36.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcce
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~  192 (305)
                      .++.++++|| ...++......+.+++.+......+++++..... ...+..|+
T Consensus       150 ~~p~lliLDEPt~gLD~~~~~~l~~~l~~~~~~~tiii~sH~l~~-~~~~~d~i  202 (301)
T TIGR03522       150 HDPKVLILDEPTTGLDPNQLVEIRNVIKNIGKDKTIILSTHIMQE-VEAICDRV  202 (301)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHhcCCCEEEEEcCCHHH-HHHhCCEE
Confidence            6678999999 5778888888999999887655556666655432 23344443

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

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

Probab=97.38  E-value=0.0018  Score=55.60  Aligned_cols=39  Identities=21%  Similarity=0.282  Sum_probs=27.7

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           64 TIDRLTS-ENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        64 ~l~~~l~-~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      .|...+. ++-++.  ..++||+|+|||+++..++......+
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g   83 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLG   83 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            4555555 443333  78999999999999999887764443

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=97.38  E-value=0.00069  Score=63.87  Aligned_cols=42  Identities=14%  Similarity=0.331  Sum_probs=31.7

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .++.++++||+ -.++.+....+.+.+.+..++..+|+++.+.
T Consensus       502 ~~~~IliLDE~TSaLD~~te~~i~~~l~~~~~~~TvIiItHrl  544 (588)
T PRK11174        502 QPCQLLLLDEPTASLDAHSEQLVMQALNAASRRQTTLMVTHQL  544 (588)
T ss_pred             cCCCEEEEeCCccCCCHHHHHHHHHHHHHHhCCCEEEEEecCh
Confidence            56789999996 4577777888888888775566667777665

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=97.37  E-value=0.0005  Score=65.30  Aligned_cols=42  Identities=19%  Similarity=0.358  Sum_probs=32.2

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .++.|+++||+ -.++.+....+.+.+.+...+..+|+++.+.
T Consensus       626 ~~P~ILlLDEaTSaLD~~sE~~I~~~L~~~~~~~T~I~IaHRl  668 (709)
T COG2274         626 SKPKILLLDEATSALDPETEAIILQNLLQILQGRTVIIIAHRL  668 (709)
T ss_pred             cCCCEEEEeCcccccCHhHHHHHHHHHHHHhcCCeEEEEEccc
Confidence            67889999996 4567777788888888776666677777664

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=97.37  E-value=0.00061  Score=56.33  Aligned_cols=43  Identities=21%  Similarity=0.254  Sum_probs=31.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+..
T Consensus       154 ~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~  198 (237)
T PRK11614        154 SQPRLLLLDEPSLGLAPIIIQQIFDTIEQLREQGMTIFLVEQNAN  198 (237)
T ss_pred             hCCCEEEEcCccccCCHHHHHHHHHHHHHHHHCCCEEEEEeCcHH
Confidence            5678999999 567888888888888876543 455666665543

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=97.37  E-value=0.0009  Score=55.51  Aligned_cols=43  Identities=14%  Similarity=0.329  Sum_probs=31.4

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       158 ~~p~llilDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~  202 (242)
T PRK11124        158 MEPQVLLFDEPTAALDPEITAQIVSIIRELAETGITQVIVTHEVE  202 (242)
T ss_pred             cCCCEEEEcCCCCcCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence            5678999999 467788888899998887643 345666665543

>PRK09354 recA recombinase A; Provisional

Probab=97.37  E-value=0.0021  Score=55.66  Aligned_cols=39  Identities=23%  Similarity=0.290  Sum_probs=27.8

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           64 TIDRLTS-ENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        64 ~l~~~l~-~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      .|...+. ++-+..  ..|+||+|+|||+++..++......+
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G   88 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAG   88 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            4555565 443333  78999999999999999887664443

>PRK13764 ATPase; Provisional

Probab=97.37  E-value=0.00074  Score=62.62  Aligned_cols=27  Identities=30%  Similarity=0.449  Sum_probs=23.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      .+++++||+|+||||++++++..+...
T Consensus       258 ~~ILIsG~TGSGKTTll~AL~~~i~~~  284 (602)
T PRK13764        258 EGILIAGAPGAGKSTFAQALAEFYADM  284 (602)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhhC
Confidence            459999999999999999999988643

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=97.36  E-value=0.0017  Score=55.81  Aligned_cols=39  Identities=21%  Similarity=0.302  Sum_probs=30.2

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        59 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ++..+.|..++...  .+++++|++|+||||++++++..+.
T Consensus       131 ~~~~~~L~~~v~~~--~nilI~G~tGSGKTTll~aL~~~i~  169 (323)
T PRK13833        131 EAQASVIRSAIDSR--LNIVISGGTGSGKTTLANAVIAEIV  169 (323)
T ss_pred             HHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHHHh
Confidence            33445666666654  3599999999999999999999873

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=97.36  E-value=0.00097  Score=55.25  Aligned_cols=44  Identities=16%  Similarity=0.396  Sum_probs=32.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCcc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~~  183 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+...
T Consensus       153 ~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~  198 (240)
T PRK09493        153 VKPKLMLFDEPTSALDPELRHEVLKVMQDLAEEGMTMVIVTHEIGF  198 (240)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHHH
Confidence            5678999999 566788888888888876643 4556667666543

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=97.36  E-value=0.00069  Score=55.03  Aligned_cols=43  Identities=12%  Similarity=0.249  Sum_probs=31.9

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+...  ...+++++.+..
T Consensus       145 ~~p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~~tii~vsh~~~  190 (213)
T TIGR01277       145 RPNPILLLDEPFSALDPLLREEMLALVKQLCSERQRTLLMVTHHLS  190 (213)
T ss_pred             cCCCEEEEcCCCccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            5678999999 566788888889999887642  456666666543

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=97.35  E-value=0.0023  Score=52.90  Aligned_cols=45  Identities=18%  Similarity=0.225  Sum_probs=33.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc--CCceEEEEecCCccc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT--KNTRFALICNQVNKI  184 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~--~~~~iil~~~~~~~l  184 (305)
                      .++.++++|| ...++......+.+++.+..  ....+++++.+...+
T Consensus       149 ~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~~~  196 (236)
T TIGR03864       149 HRPALLLLDEPTVGLDPASRAAIVAHVRALCRDQGLSVLWATHLVDEI  196 (236)
T ss_pred             cCCCEEEEcCCccCCCHHHHHHHHHHHHHHHHhCCCEEEEEecChhhH
Confidence            5678999999 56688888888988888764  245677777665544

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.35  E-value=0.0021  Score=51.44  Aligned_cols=43  Identities=21%  Similarity=0.201  Sum_probs=30.5

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHh-cCCceEEEEecCCc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKY-TKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~-~~~~~iil~~~~~~  182 (305)
                      .++.++++||. ..++......+.+++... .....+++++.+..
T Consensus       140 ~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  184 (195)
T PRK13541        140 CQSDLWLLDEVETNLSKENRDLLNNLIVMKANSGGIVLLSSHLES  184 (195)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCcc
Confidence            56789999995 577788888888888643 23455666666554

>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases

Probab=97.34  E-value=0.0034  Score=48.68  Aligned_cols=21  Identities=33%  Similarity=0.570  Sum_probs=17.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVA   95 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~   95 (305)
                      .++++.||+|+|||..+...+
T Consensus        15 ~~~li~aptGsGKT~~~~~~~   35 (169)
T PF00270_consen   15 KNVLISAPTGSGKTLAYILPA   35 (169)
T ss_dssp             SEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEECCCCCccHHHHHHHH
Confidence            459999999999999877444

Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=97.34  E-value=0.0021  Score=54.01  Aligned_cols=43  Identities=12%  Similarity=0.216  Sum_probs=30.5

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++||. ..++......+.+++.+... ...+|+++....
T Consensus       160 ~~p~iLlLDEPt~gLD~~~~~~l~~~L~~~~~~g~tiIiisH~~~  204 (264)
T PRK13546        160 VNPDILVIDEALSVGDQTFAQKCLDKIYEFKEQNKTIFFVSHNLG  204 (264)
T ss_pred             hCCCEEEEeCccccCCHHHHHHHHHHHHHHHHCCCEEEEEcCCHH
Confidence            56789999994 57778888888888876543 345666665543

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.34  E-value=0.0022  Score=50.27  Aligned_cols=24  Identities=29%  Similarity=0.526  Sum_probs=21.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+++.||+||||||+.+.++-..
T Consensus        32 e~vv~lGpSGcGKTTLLnl~AGf~   55 (259)
T COG4525          32 ELVVVLGPSGCGKTTLLNLIAGFV   55 (259)
T ss_pred             CEEEEEcCCCccHHHHHHHHhcCc
Confidence            348999999999999999998866

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=97.34  E-value=0.0021  Score=53.77  Aligned_cols=43  Identities=23%  Similarity=0.322  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc--CCceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT--KNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~--~~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+..  ....+|+++.+..
T Consensus       145 ~~p~lllLDEPt~~LD~~~~~~l~~~L~~~~~~~g~tviivsH~~~  190 (255)
T PRK11248        145 ANPQLLLLDEPFGALDAFTREQMQTLLLKLWQETGKQVLLITHDIE  190 (255)
T ss_pred             cCCCEEEEeCCCccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            5678999999 56788888889999888752  2455666766543

>PRK07667 uridine kinase; Provisional

Probab=97.34  E-value=0.00057  Score=54.60  Aligned_cols=35  Identities=17%  Similarity=0.235  Sum_probs=28.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      +.|.|++|+||||+++.++..+...+.+..++..+
T Consensus        20 IgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~D   54 (193)
T PRK07667         20 LGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHID   54 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcC
Confidence            68999999999999999999986655554455544

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.34  E-value=0.0008  Score=55.55  Aligned_cols=43  Identities=16%  Similarity=0.251  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+...  ...+++++.+..
T Consensus       153 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tvi~vsH~~~  198 (235)
T cd03261         153 LDPELLLYDEPTAGLDPIASGVIDDLIRSLKKELGLTSIMVTHDLD  198 (235)
T ss_pred             cCCCEEEecCCcccCCHHHHHHHHHHHHHHHHhcCcEEEEEecCHH
Confidence            5678999999 567888888888888887543  345666666544

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.

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.33  E-value=0.0026  Score=53.93  Aligned_cols=45  Identities=16%  Similarity=0.370  Sum_probs=33.6

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCccc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVNKI  184 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~~l  184 (305)
                      .++.++++|| ...++......+.+++.+...  ...+++++.+...+
T Consensus       157 ~~p~lLlLDEPt~~LD~~~~~~l~~~l~~l~~~~g~tilivtH~~~~~  204 (279)
T PRK13650        157 MRPKIIILDEATSMLDPEGRLELIKTIKGIRDDYQMTVISITHDLDEV  204 (279)
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEecCHHHH
Confidence            5678999999 567788888889898887643  45677777665544

>PRK05973 replicative DNA helicase; Provisional

Probab=97.33  E-value=0.0038  Score=51.19  Aligned_cols=35  Identities=29%  Similarity=0.348  Sum_probs=26.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      ++|.|+||+|||+++..++......+....++.+.
T Consensus        67 ~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlE  101 (237)
T PRK05973         67 VLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLE  101 (237)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEe
Confidence            89999999999999999887765445444444443

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=97.33  E-value=0.00078  Score=54.60  Aligned_cols=43  Identities=14%  Similarity=0.209  Sum_probs=31.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+...  ...+++++.+..
T Consensus       145 ~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~~tii~~sH~~~  190 (211)
T cd03298         145 RDKPVLLLDEPFAALDPALRAEMLDLVLDLHAETKMTVLMVTHQPE  190 (211)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            5678999999 566788888899998887542  345666665543

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>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=97.33  E-value=0.00019  Score=52.97  Aligned_cols=22  Identities=36%  Similarity=0.616  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++|.|++|+||||+++.+.+.+
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            5799999999999999999985

...

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=97.33  E-value=0.00064  Score=54.86  Aligned_cols=43  Identities=9%  Similarity=0.215  Sum_probs=31.9

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+..
T Consensus       151 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~  195 (206)
T TIGR03608       151 KDPPLILADEPTGSLDPKNRDEVLDLLLELNDEGKTIIIVTHDPE  195 (206)
T ss_pred             cCCCEEEEeCCcCCCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            6678999999 567788888899998887543 455666666543

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	305
1sxj_C	340	Crystal Structure Of The Eukaryotic Clamp Loader (R		6e-71
1iqp_A	327	Crystal Structure Of The Clamp Loader Small Subunit		2e-62
2chq_A	319	Replication Factor C Adpnp Complex Length = 319		2e-56
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-52
1sxj_D	353	Crystal Structure Of The Eukaryotic Clamp Loader (R		1e-49
1sxj_E	354	Crystal Structure Of The Eukaryotic Clamp Loader (R		5e-26
3u5z_B	324	Structure Of T4 Bacteriophage Clamp Loader Bound To		9e-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		3e-10
3glh_B	376	Crystal Structure Of The E. Coli Clamp Loader Bound		5e-10
1xxi_B	368	Adp Bound E. Coli Clamp Loader Complex Length = 368		8e-10
1jr3_A	373	Crystal Structure Of The Processivity Clamp Loader		8e-10
1njg_A	250	Nucleotide-Free Form Of An Isolated E. Coli Clamp L		1e-09
3pvs_A	447	Structure And Biochemical Activities Of Escherichia		1e-07
1sxj_A	516	Crystal Structure Of The Eukaryotic Clamp Loader (R		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 =  264 bits (674), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 128/248 (51%), Positives = 171/248 (68%), Gaps = 10/248 (4%)
Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP++L +V    +++ T+ +   E +LPHLL YGPPGTGKTSTI+A+AR++YG 
Sbjct: 14  PWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK 73
Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFAST-QSFSFGVKASVKLVLLDEADAMTKDAQFA 160
            Y NM+LELNASDDRGIDVVR QI+DFAST Q FS G     KL++LDEADAMT  AQ A
Sbjct: 74  NYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKG----FKLIILDEADAMTNAAQNA 129
Query: 161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV 220
           LRRVIE+YTKNTRF ++ N  +K+ PAL S+CTRFRF PL    +  R+ +V+  E L +
Sbjct: 130 LRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKL 189
Query: 221 TEGGLAALVRLCNGDMRKALNILQSTHMA-----SQQITEEAVYLCTGNPLPKDIEQISY 275
           +     AL+ L NGDMR+ LN+LQS           +I+++ +Y C G P P D++ +  
Sbjct: 190 SPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDLKAVLK 249
Query: 276 WLLNESFA 283
            +L + + 
Sbjct: 250 SILEDDWG 257

>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From Pyrococcus Furiosus Length = 327

Iteration: 1
 Score =  235 bits (600), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 110/250 (44%), Positives = 164/250 (65%), Gaps = 3/250 (1%)
Query: 41  SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG 100
            PWVEKYRPQ L D+     IV  +        +PHLL  GPPG GKT+  LA+AR+L+G
Sbjct: 13  KPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFG 72
Query: 101 AQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFA 160
             + +  LELNASD+RGI+V+R+++++FA T+       AS K++ LDEADA+T+DAQ A
Sbjct: 73  ENWRHNFLELNASDERGINVIREKVKEFARTKPIG---GASFKIIFLDEADALTQDAQQA 129
Query: 161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV 220
           LRR +E ++ N RF L CN  +KII  +QSRC  FRF PL    + +RL+++ E EGL++
Sbjct: 130 LRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLEL 189
Query: 221 TEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNE 280
           TE GL A++ +  GDMR+A+NILQ+     ++IT+E V++      P+DI ++    L  
Sbjct: 190 TEEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPEDIREMMLLALKG 249
Query: 281 SFADSFKRIQ 290
           +F  + ++++
Sbjct: 250 NFLKAREKLR 259

>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex Length = 319

Iteration: 1
 Score =  215 bits (548), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 102/243 (41%), Positives = 152/243 (62%), Gaps = 3/243 (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 ADS 285
            ++
Sbjct: 244 MEA 246

>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 =  202 bits (513), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 104/246 (42%), Positives = 154/246 (62%), Gaps = 5/246 (2%)
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 FADSFK 287
             DS +
Sbjct: 245 LEDSIQ 250

>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 (490), 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 =  114 bits (286), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 73/247 (29%), Positives = 131/247 (53%), Gaps = 39/247 (15%)
Query: 41  SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLY 99
           S WV+KYRP+SL  ++ + ++ + +  L+ + R LPHLLLYGP GTGK +  +A+   ++
Sbjct: 2   SLWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIF 61
Query: 100 G---------------------------AQYHNMILELNASDDRGID--VVRQQIQDFAS 130
           G                           + YH   LE+  SD    D  V+++ +++ A 
Sbjct: 62  GPGVYRLKIDVRQFVTASNRKLELNVVSSPYH---LEITPSDMGNNDRIVIQELLKEVAQ 118
Query: 131 TQSFSF-----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKII 185
            +   F     G+    K V+++EA+++TKDAQ ALRR +EKY+KN R  ++C+ ++ II
Sbjct: 119 MEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPII 178
Query: 186 PALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV-TEGGLAALVRLCNGDMRKALNILQ 244
             ++S+C   R        ++  L  V+  E + + T+  L  + +  NG++R +L +L+
Sbjct: 179 APIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLE 238
Query: 245 STHMASQ 251
           S  + ++
Sbjct: 239 SMALNNE 245

>pdb|3U5Z|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4 Clamp, Primer-Template Dna, And Atp Analog Length = 324

Iteration: 1
 Score = 84.0 bits (206), Expect = 9e-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 = 62.4 bits (150), Expect = 3e-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 = 61.6 bits (148), Expect = 5e-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|1XXI|B Chain B, Adp Bound E. Coli Clamp Loader Complex Length = 368

Iteration: 1
 Score = 61.2 bits (147), Expect = 8e-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|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 = 8e-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 = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 53/241 (21%), Positives = 105/241 (43%), Gaps = 28/241 (11%)
Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVA--------- 95
           K+RPQ+ ADV     ++  +    S  R+ H  L+ G  G GKTS    +A         
Sbjct: 16  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 75
Query: 96  -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
                      R++   ++ ++I E++A+    ++  R  + +     +     +   K+
Sbjct: 76  TATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDLLDNVQYAPA-----RGRFKV 129
Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
            L+DE   +++ +  AL + +E+  ++ +F L      K+   + SRC +F    L+   
Sbjct: 130 YLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQ 189
Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTG 263
           +  +L+H++  E +      L  L R   G +R AL++  Q+      Q++ +AV    G
Sbjct: 190 IRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLG 249
Query: 264 N 264
Sbjct: 250 T 250

>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli Mgsa Length = 447

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-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

>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

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	305
2chq_A	319	Replication factor C small subunit; DNA-binding pr	1e-132
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	1e-132
2chg_A	226	Replication factor C small subunit; DNA-binding pr	1e-128
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	1e-126
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	1e-124
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	1e-118
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	1e-105
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	1e-103
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	3e-91
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	5e-26
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	1e-24
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	2e-19
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-15
3pvs_A	447	Replication-associated recombination protein A; ma	2e-14
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	3e-11
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	7e-11
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	3e-09
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	3e-09
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	6e-06
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-05
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	4e-05
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	1e-04
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	2e-04
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	7e-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 =  376 bits (968), Expect = e-132
 Identities = 103/251 (41%), Positives = 155/251 (61%), Gaps = 3/251 (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 FADSFKRIQNL 292
           F ++ + +  L
Sbjct: 243 FMEARELLDRL 253

>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 =  377 bits (969), Expect = e-132
 Identities = 110/257 (42%), Positives = 166/257 (64%), Gaps = 3/257 (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 WLLNESFADSFKRIQNL 292
             L  +F  + ++++ +
Sbjct: 245 LALKGNFLKAREKLREI 261

>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 (936), 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_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 =  362 bits (931), Expect = e-126
 Identities = 125/266 (46%), Positives = 173/266 (65%), Gaps = 8/266 (3%)

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 PKDIEQISYWLLNESFADSFKRIQNL 292
           P D++ +   +L + +  +   +  +
Sbjct: 241 PSDLKAVLKSILEDDWGTAHYTLNKV 266

>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 =  356 bits (916), Expect = e-124
 Identities = 103/251 (41%), Positives = 154/251 (61%), Gaps = 5/251 (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 FADSFKRIQNL 292
             DS + ++  
Sbjct: 245 LEDSIQILRTD 255

>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 =  343 bits (882), Expect = e-118
 Identities = 101/284 (35%), Positives = 154/284 (54%), Gaps = 14/284 (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 --QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
             + IT   V    G      + +I   + +  F +  K +   
Sbjct: 247 DGKNITSTQVEELAGVVPHDILIEIVEKVKSGDFDEIKKYVNTF 290

>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 =  308 bits (792), Expect = e-105
 Identities = 69/271 (25%), Positives = 118/271 (43%), Gaps = 23/271 (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 TGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           T +     I+ +   L N+            
Sbjct: 234 TND--RGAIDDVLESLKNKDVKQLRALAPKY 262

>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 =  304 bits (780), Expect = e-103
 Identities = 74/285 (25%), Positives = 143/285 (50%), Gaps = 34/285 (11%)

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 MASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
           + + ++  ++            I +++  ++ E   +S    + +
Sbjct: 242 LNN-ELALKSSSPIIKPDWIIVIHKLTRKIVKERSVNSLIECRAV 285

>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 =  279 bits (716), Expect = 3e-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 =  104 bits (261), Expect = 5e-26
 Identities = 45/218 (20%), Positives = 83/218 (38%), Gaps = 33/218 (15%)

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 AEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQ 252
           +  + +++  L A +RL  G    AL + Q  +  +++
Sbjct: 177 SREVTMSQDALLAALRLSAGSPGAALALFQGDNWQARE 214

>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 = 98.4 bits (246), Expect = 1e-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 = 86.5 bits (215), Expect = 2e-19
 Identities = 56/271 (20%), Positives = 111/271 (40%), Gaps = 32/271 (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 TGNPLPKDIEQISYWLLNESFADSFKRIQNL 292
            G         +   ++  +       I   
Sbjct: 241 LGTLDDDQALSLVEAMVEANGERVMALINEA 271

>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 = 76.8 bits (188), Expect = 1e-15
 Identities = 53/303 (17%), Positives = 93/303 (30%), Gaps = 69/303 (22%)

Query: 42  PWV-EKYRPQSLADVAAHRDIVDTIDRLTSENRL-------------------------P 75
            ++    + +        R  ++  DRL ++N++                          
Sbjct: 92  KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAK 151

Query: 76  HLLLYGPPGTGKTSTILAVARKL-YGAQYHNMILELNASDDRGIDVVRQQIQDFAS--TQ 132
           ++L+ G  G+GKT   L V        +    I  LN  +    + V + +Q        
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP 211

Query: 133 SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQS 190
           +++     S  + L           Q  LRR++ K        L+   V   K   A   
Sbjct: 212 NWTSRSDHSSNIKLRIH------SIQAELRRLL-KSKPYENCLLVLLNVQNAKAWNAFNL 264

Query: 191 RCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNIL-QSTHM 248
            C          + +T R K V +   L        +L          +  ++L +    
Sbjct: 265 SCK---------ILLTTRFKQVTDF--LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313

Query: 249 ASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQN--------LSFIIRLVL 300
             Q +  E     T NP      ++S  ++ ES  D      N        L+ II   L
Sbjct: 314 RPQDLPREV---LTTNPR-----RLS--IIAESIRDGLATWDNWKHVNCDKLTTIIESSL 363

Query: 301 FVL 303
            VL
Sbjct: 364 NVL 366

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 72.6 bits (179), 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

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D* Length = 368

 Score = 62.6 bits (152), Expect = 3e-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

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Length = 384

 Score = 61.3 bits (148), Expect = 7e-11
 Identities = 41/239 (17%), Positives = 68/239 (28%), Gaps = 48/239 (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----LAALVRLCNGDMRKALNILQS 245
                F P +   +   L             +      +AA+    +GD RKA+N+L  
Sbjct: 189 GPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFR 247

>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 = 3e-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 = 56.2 bits (135), Expect = 3e-09
 Identities = 57/296 (19%), Positives = 105/296 (35%), Gaps = 52/296 (17%)

Query: 47  YRPQSLADVAAHRD-----IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           Y P  L     HR+     I   +  L  E +  ++ +YG  GTGKT+ +  V  KL+  
Sbjct: 17  YIPDELP----HREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKK 72

Query: 102 QYHNM-ILELNASDDRGIDVVRQQIQDFASTQSFSFGV---------------KASVKLV 145
                  + +N         V   + +    +    G+                 S  ++
Sbjct: 73  FLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVI 132

Query: 146 LLDEADAMTK----DAQFALRRVIEKYTKNTRFALIC-----NQVNKIIPALQSRC--TR 194
           +LDE DA  K    D  + L R+  +    ++ + I        V+ + P ++S      
Sbjct: 133 VLDEIDAFVKKYNDDILYKLSRINSEV-NKSKISFIGITNDVKFVDLLDPRVKSSLSEEE 191

Query: 195 FRFAPLEPVHVTERLKH-VIEAEGLDVTEGG----LAALVRLCNGDMRKALNILQSTHMA 249
             F P     + + L      A    V         AAL    +GD R+AL++L+ +   
Sbjct: 192 IIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEI 251

Query: 250 SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVLLL 305
           ++++ +  V         + +      +  +   D    I  L F  +LVL  ++ 
Sbjct: 252 AERMKDTKV-------KEEYVYMAKEEIERDRVRD---IILTLPFHSKLVLMAVVS 297

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 45.9 bits (108), Expect = 6e-06
 Identities = 37/187 (19%), Positives = 65/187 (34%), Gaps = 23/187 (12%)

Query: 68  LTSENRLPHLLLYGPPGTGKTSTILAVARKLY--GAQYHNMILELNASDDRGIDVVRQQI 125
           L  E    H+   G PGTGKT+  L +A  L+  G      ++ +        D+V Q I
Sbjct: 61  LAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD-----DLVGQYI 115

Query: 126 QDFASTQSFSFGVKASVKLVLLDEADAMT---------KDAQFALRRVIEKYTKNTRFAL 176
              A         +A   ++ +DEA  +          ++A   L +V+E    +    L
Sbjct: 116 GHTAPKTKEVLK-RAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVIL 174

Query: 177 IC--NQVNKII---PALQSR-CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR 230
               +++       P  +SR      F       + E   H+++ +   +T     AL  
Sbjct: 175 AGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRA 234

Query: 231 LCNGDMR 237
                  
Sbjct: 235 YIGLRRN 241

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix} Length = 387

 Score = 43.6 bits (102), Expect = 4e-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

>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 = 42.0 bits (99), Expect = 1e-04
 Identities = 42/263 (15%), Positives = 95/263 (36%), Gaps = 30/263 (11%)

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 ALVRLCNGDMRKALNILQSTHMASQ--------QITEEAVYLCTGNPLPKDIEQISYWLL 278
                 +G M  +L +L++  +  +         +    +         K+   +   + 
Sbjct: 175 LGAEKLSGLME-SLKVLETEKLLKKVLSKGLEGYLACRELLERFSKVESKEFFALFDQVT 233

Query: 279 NESF-ADSFKRIQNLSFIIRLVL 300
           N     D+F  IQ L+ II    
Sbjct: 234 NTITGKDAFLLIQRLTRIILHEN 256

>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

>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 = 7e-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	305
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	100.0
2chq_A	319	Replication factor C small subunit; DNA-binding pr	100.0
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	100.0
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	100.0
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	100.0
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	100.0
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	99.98
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.96
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.96
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.94
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
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.93
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.92
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	99.92
3bos_A	242	Putative DNA replication factor; P-loop containing	99.91
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.9
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.9
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.89
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.88
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.88
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.87
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.87
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.87
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.87
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.86
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.86
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.86
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.85
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.85
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.85
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.85
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.85
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.84
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.84
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.84
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.84
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.84
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.84
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.83
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.83
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.82
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.82
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.8
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.79
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.79
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.79
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.79
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.79
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.77
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.77
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.76
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.75
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.75
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.74
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.73
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.73
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.73
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.72
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.72
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.71
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.71
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.7
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.7
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.7
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.7
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.7
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.68
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.67
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.66
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.62
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.62
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.6
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.58
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.58
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.56
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.56
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.53
3co5_A	143	Putative two-component system transcriptional RES	99.51
2fna_A	357	Conserved hypothetical protein; structural genomic	99.47
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.46
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.45
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.45
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.44
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.4
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.38
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	99.21
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	99.2
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	99.18
2qgz_A	308	Helicase loader, putative primosome component; str	99.13
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	99.1
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.08
1tue_A	212	Replication protein E1; helicase, replication, E1E	99.03
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.0
3f8t_A	506	Predicted ATPase involved in replication control,	98.99
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	98.98
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.91
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	98.87
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	98.72
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.69
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.6
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.57
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.54
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.51
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.29
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	98.29
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.27
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	98.12
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	98.04
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	98.0
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.99
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.92
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.89
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	97.82
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.8
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.79
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.78
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.77
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.74
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.74
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.72
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.69
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.66
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.66
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.63
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.61
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.6
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.6
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	97.59
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.58
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.56
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.55
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.55
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	97.54
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	97.54
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.53
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.53
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.53
3io5_A	333	Recombination and repair protein; storage dimer, i	97.52
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	97.52
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.5
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.48
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	97.48
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	97.48
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.47
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.45
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	97.45
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.45
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.45
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	97.44
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.44
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.44
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.44
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	97.42
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	97.42
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.42
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	97.41
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.4
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.4
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	97.4
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	97.38
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.37
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	97.36
1g6h_A	257	High-affinity branched-chain amino acid transport	97.35
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.35
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.34
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.34
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	97.34
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.34
1ji0_A	240	ABC transporter; ATP binding protein, structural g	97.32
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.32
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.31
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	97.31
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.29
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.29
3b6e_A	216	Interferon-induced helicase C domain-containing P;	97.29
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.29
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	97.29
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	97.28
3h1t_A	590	Type I site-specific restriction-modification syst	97.28
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.27
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	97.27
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.26
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	97.26
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.25
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	97.24
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	97.22
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	97.21
2r6a_A	454	DNAB helicase, replicative helicase; replication,	97.21
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.2
1via_A	175	Shikimate kinase; structural genomics, transferase	97.19
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.19
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	97.18
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	97.18
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.17
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.16
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.16
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.15
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.15
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	97.15
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.14
3bor_A	237	Human initiation factor 4A-II; translation initiat	97.14
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.13
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.12
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.1
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.1
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.09
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	97.09
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.08
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.07
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	97.06
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	97.06
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.05
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.05
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	97.05
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.04
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.03
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.02
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.02
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.02
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	97.02
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.01
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	97.0
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	97.0
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	97.0
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.99
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.98
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	96.97
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.96
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.96
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.95
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.95
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.94
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.93
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	96.93
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.93
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	96.93
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	96.92
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.92
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	96.92
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.92
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.92
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.91
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.91
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	96.9
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	96.9
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.89
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	96.89
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.89
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.89
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	96.88
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.88
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.87
3llu_A	196	RAS-related GTP-binding protein C; structural geno	96.85
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.85
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.85
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.85
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.85
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.85
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.84
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.84
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.84
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.83
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.83
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	96.83
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.83
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	96.83
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.82
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.82
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.82
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.82
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	96.82
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.82
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	96.81
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.81
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	96.8
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	96.8
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	96.79
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	96.79
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.79
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	96.78
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.78
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	96.78
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.77
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	96.77
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.77
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.76
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.76
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	96.76
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.75
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	96.75
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.73
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.73
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.73
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.73
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.72
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.72
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.71
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.7
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.7
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	96.69
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	96.69
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	96.68
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.68
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	96.68
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	96.68
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	96.67
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.67
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	96.65
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.65
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	96.64
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.63
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	96.63
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.63
2zpa_A	671	Uncharacterized protein YPFI; RNA modification enz	96.62
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	96.61
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	96.61
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	96.61
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	96.61
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.6
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.59
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	96.58
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.58
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.57
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	96.57
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	96.56
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	96.56
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.56
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	96.56
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	96.55
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	96.54
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.54
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.54
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	96.53
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	96.53
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	96.53
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	96.52
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.52
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	96.52
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.51
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	96.51
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	96.51
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	96.5
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	96.5
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.49
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	96.48
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.48
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.47
1jql_B	140	DNA polymerase III, delta subunit; processivity cl	96.47
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	96.46
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	96.46
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	96.45
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.45
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	96.45
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.45
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.44
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	96.44
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	96.44
2xxa_A	433	Signal recognition particle protein; protein trans	96.44
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.43
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	96.43
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	96.43
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	96.43
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	96.43
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.42
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	96.41
2fh5_B	214	SR-beta, signal recognition particle receptor beta	96.41
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	96.41
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	96.41
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.41
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.41
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	96.4
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.4
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	96.39
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.39
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.39
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.38
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.38
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	96.37
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	96.37
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	96.36
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	96.36
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.34
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.33
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	96.32
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	96.31
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.31
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	96.31
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	96.29
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	96.28
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.28
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	96.28
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	96.27
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	96.26
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	96.26
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.25
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.24
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.23
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	96.22
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	96.22
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.22
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	96.21
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.21
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	96.2
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	96.2
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	96.19
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	96.18
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	96.17
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.17
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	96.17
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.17
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.15
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	96.15
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.15
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.14
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	96.13
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.13
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	96.13
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	96.11
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	96.1
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	96.1
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	96.1
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	96.09
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	96.09
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.09
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	96.08
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.06
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	96.06
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	96.06
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	96.04
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	96.04
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	96.04
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	96.04
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	96.03
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	96.03
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.02
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.02
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	96.02
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	96.01
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.01
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	96.01
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.01
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	96.0
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.0
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	95.98
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.98
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.98
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	95.98
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	95.97
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	95.96
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	95.94
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	95.94
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.94
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	95.93
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	95.93
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.93
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.92
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.92
2og2_A	359	Putative signal recognition particle receptor; nuc	95.92
3ice_A	422	Transcription termination factor RHO; transcriptio	95.89
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	95.89
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.87
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.86
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.86
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	95.85
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	95.83
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.82
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.8
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.79
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.79
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.77
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.76
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	95.75
1yks_A	440	Genome polyprotein [contains: flavivirin protease	95.74
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.73
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.73
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	95.72
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.71
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.71
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.7
1z63_A	500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	95.7
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	95.69
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.69
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.68
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.66
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.66
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	95.66
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.65
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.63
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.63
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.61
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.6
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	95.6
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.6
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.58
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.58
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	95.58

>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=8.1e-35  Score=252.72  Aligned_cols=258  Identities=48%  Similarity=0.835  Sum_probs=228.9

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      ...||.++|+|.+|++++|++..++.|...+..+..++++|+||+|+||||+++++++.+.+..+...+..++.++..+.
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            46799999999999999999999999999999998888999999999999999999999987766677888888776667


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~  198 (305)
                      +.+++.+..+......   ...++.|++|||+|.+....++.|++++++++.++.++++++....+.+++.+||..+.|.
T Consensus        91 ~~ir~~i~~~~~~~~~---~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~  167 (340)
T 1sxj_C           91 DVVRNQIKDFASTRQI---FSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQ  167 (340)
T ss_dssp             HHHHTHHHHHHHBCCS---SSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             HHHHHHHHHHHhhccc---CCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEecc
Confidence            7777766665543221   1123799999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccC-----ccCHHHHHhhhCCCChhhHHHH
Q 021937          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-----QITEEAVYLCTGNPLPKDIEQI  273 (305)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~-----~i~~~~v~~~~~~~~~~~~~~l  273 (305)
                      +++.+++.+++...+..+++.+++++++.+++.++|++|.+++.++.++....     .|+.+.++++++......++++
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            99999999999999988899999999999999999999999999988876544     6999999999999999999999


Q ss_pred             HHHHHcccHHHHHHHHHHHHH-HHHHH
Q 021937          274 SYWLLNESFADSFKRIQNLSF-IIRLV  299 (305)
Q Consensus       274 ~~~~~~~~~~~~~~~l~~l~~-~~~~~  299 (305)
                      ++++..+|+.+|+.++..+.. ....+
T Consensus       248 ~~~i~~~~~~~al~~l~~l~~~~g~~~  274 (340)
T 1sxj_C          248 LKSILEDDWGTAHYTLNKVRSAKGLAL  274 (340)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHHTTTCCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHcCCCH
Confidence            999999999999999999987 54433

>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=4.1e-35  Score=252.42  Aligned_cols=253  Identities=41%  Similarity=0.741  Sum_probs=223.7

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      ...||.++|+|.+|++++|++..++.+..++..+..++++|+||+|+|||++++.+++.+.+.++...++.++++...+.
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            45789999999999999999999999999999888888999999999999999999999877666667888888776555


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~  198 (305)
                      +.+...+.......++.   ..++.+++|||+|.+..+.++.|++++++++.++.+|++++....+.+++.+||..+.|+
T Consensus        83 ~~~~~~~~~~~~~~~~~---~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~  159 (319)
T 2chq_A           83 DVVRHKIKEFARTAPIG---GAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFK  159 (319)
T ss_dssp             TTSSHHHHHHHHSCCSS---SCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECC
T ss_pred             HHHHHHHHHHHhcCCCC---CCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEec
Confidence            55555555554333221   234799999999999999999999999998888999999999889999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCChhhHHHHHHHHH
Q 021937          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (305)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~~~  278 (305)
                      +++.+++.+++...+.+.+..+++++++.+++.++||+|.+++.++.++...+.|+.++|.++++......++++++++.
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            99999999999999999999999999999999999999999999999888777899999999999999999999999999


Q ss_pred             cccHHHHHHHHHHHHH
Q 021937          279 NESFADSFKRIQNLSF  294 (305)
Q Consensus       279 ~~~~~~~~~~l~~l~~  294 (305)
                      .++..+++..+..+..
T Consensus       240 ~~~~~~a~~~l~~l~~  255 (319)
T 2chq_A          240 KGNFMEARELLDRLMV  255 (319)
T ss_dssp             HTCHHHHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHH
Confidence            9999999999999886

>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=2.4e-34  Score=248.50  Aligned_cols=256  Identities=43%  Similarity=0.769  Sum_probs=224.5

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      ...||.++|+|.+|++++|++..++.+..++..+..++++|+||+|+|||++++.+++.+.+..+...++.+++....+.
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            35789999999999999999999999999999998888999999999999999999999866655566888887664444


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~  198 (305)
                      +.+...+.......++.   ..++.+|+|||+|.+..+.++.|++++++++.++.+|++++....+.+++.+||..+.|+
T Consensus        91 ~~~~~~~~~~~~~~~~~---~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~  167 (327)
T 1iqp_A           91 NVIREKVKEFARTKPIG---GASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFR  167 (327)
T ss_dssp             HTTHHHHHHHHHSCCGG---GCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECC
T ss_pred             HHHHHHHHHHHhhCCcC---CCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEec
Confidence            44455555544333222   134789999999999999999999999998888999999998888999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCChhhHHHHHHHHH
Q 021937          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (305)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~~~  278 (305)
                      +++.+++.+++...+...++.+++++++.+++.++||+|.+++.++.++.....|+.+++....+.....+++.+++++.
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            99999999999999998999999999999999999999999999999887777899999999999999999999999999


Q ss_pred             cccHHHHHHHHHHHH-HHHH
Q 021937          279 NESFADSFKRIQNLS-FIIR  297 (305)
Q Consensus       279 ~~~~~~~~~~l~~l~-~~~~  297 (305)
                      .++...++..++.+. ..+.
T Consensus       248 ~~~~~~~~~~~~~ll~~~g~  267 (327)
T 1iqp_A          248 KGNFLKAREKLREILLKQGL  267 (327)
T ss_dssp             HTCHHHHHHHHHHHHHHHCC
T ss_pred             cCCHHHHHHHHHHHHHHcCC
Confidence            999999999999887 5443

>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=2e-33  Score=242.49  Aligned_cols=245  Identities=27%  Similarity=0.395  Sum_probs=202.4

Q ss_pred             CCCCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           37 DIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        37 ~~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      .....+|.++|+|.+|++++|++..++.+..++..+..++ ++++||||+|||++++++++.+     ...++.++++..
T Consensus        10 ~~~~~~~~~k~rP~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l-----~~~~~~i~~~~~   84 (324)
T 3u61_B           10 NEKEHILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV-----NADMMFVNGSDC   84 (324)
T ss_dssp             CTTCSSHHHHSCCCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT-----TEEEEEEETTTC
T ss_pred             CcccchHHHhhCCCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh-----CCCEEEEccccc
Confidence            3567899999999999999999999999999999887776 6777889999999999999987     567888887663


Q ss_pred             cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-HHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeE
Q 021937          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (305)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~  194 (305)
                       +.+.++..+.......++..    ++.+|+|||+|.+. .+.++.|+.+++.++.++.+|++++....+.+++.+||..
T Consensus        85 -~~~~i~~~~~~~~~~~~~~~----~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~  159 (324)
T 3u61_B           85 -KIDFVRGPLTNFASAASFDG----RQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRV  159 (324)
T ss_dssp             -CHHHHHTHHHHHHHBCCCSS----CEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEE
T ss_pred             -CHHHHHHHHHHHHhhcccCC----CCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcE
Confidence             36667776766655544332    48999999999999 9999999999999988999999999999999999999999


Q ss_pred             EEecCCCHHH-------HHHHHHHHHHHcCCCCCH-HHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCC
Q 021937          195 FRFAPLEPVH-------VTERLKHVIEAEGLDVTE-GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPL  266 (305)
Q Consensus       195 i~~~~~~~~~-------~~~~l~~~~~~~~~~~~~-~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~  266 (305)
                      +.|++|+.++       +.+++...+...++.+++ ++++.+++.++||+|.+++.|+.++ ..+.|+.++++.+...  
T Consensus       160 i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a~~~L~~~~-~~~~i~~~~v~~~~~~--  236 (324)
T 3u61_B          160 ITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSYS-SKGVLDAGILSLVTND--  236 (324)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHHHHHHHHHG-GGTCBCC-----------
T ss_pred             EEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHHHHHHHHHh-ccCCCCHHHHHHHhCC--
Confidence            9999999877       445566667778999988 9999999999999999999999998 5667999999988776  


Q ss_pred             hhhHHHHHHHHHcccHHHHHHHHHHHHH
Q 021937          267 PKDIEQISYWLLNESFADSFKRIQNLSF  294 (305)
Q Consensus       267 ~~~~~~l~~~~~~~~~~~~~~~l~~l~~  294 (305)
                      ...++.+++++..+++++++.++..+..
T Consensus       237 ~~~i~~~~~~~~~~~~~~a~~~~~~l~~  264 (324)
T 3u61_B          237 RGAIDDVLESLKNKDVKQLRALAPKYAA  264 (324)
T ss_dssp             ---CHHHHHHHHTTCHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhcc
Confidence            5678899999999999999999998765

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=100.00  E-value=1.8e-33  Score=245.68  Aligned_cols=261  Identities=39%  Similarity=0.647  Sum_probs=219.7

Q ss_pred             CCCCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCC-CCcccEEEeecCCC
Q 021937           37 DIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNASDD  115 (305)
Q Consensus        37 ~~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~~~  115 (305)
                      .....||.++|+|.+|++++|+++.++.+..++..+..++++|+||+|+|||++++++++.+.++ .....+..+++...
T Consensus        21 ~~~~~~~~~k~~p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~  100 (353)
T 1sxj_D           21 SLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDE  100 (353)
T ss_dssp             -----CHHHHTCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSC
T ss_pred             cccCccHHHhcCCCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccc
Confidence            44568999999999999999999999999999999887789999999999999999999987532 23456777887765


Q ss_pred             cChhHHHHHHHHhhhccccc-------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhh
Q 021937          116 RGIDVVRQQIQDFASTQSFS-------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPAL  188 (305)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~-------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l  188 (305)
                      .+...+.+.+..........       .....++.+|+|||++.+....++.|++++++++.+.++|++++....+.+++
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l  180 (353)
T 1sxj_D          101 RGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPL  180 (353)
T ss_dssp             CCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHH
T ss_pred             cchHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchh
Confidence            56666655555443321100       00123468999999999999999999999999988899999999988999999


Q ss_pred             hcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccC------ccCHHHHHhhh
Q 021937          189 QSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ------QITEEAVYLCT  262 (305)
Q Consensus       189 ~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~------~i~~~~v~~~~  262 (305)
                      .+|+..+.|++++.+++..++...+...++.+++++++.|++.++||+|.+++.++.++...+      .|+.++|++++
T Consensus       181 ~sR~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~l~~~~~~~~~~~~~~~It~~~v~~~~  260 (353)
T 1sxj_D          181 ASQCSKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELA  260 (353)
T ss_dssp             HHHSEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHHHHH
T ss_pred             hccCceEEeCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCccCccccHHHHHHHh
Confidence            999999999999999999999999988899999999999999999999999999988776432      69999999999


Q ss_pred             CCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHH
Q 021937          263 GNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIR  297 (305)
Q Consensus       263 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~  297 (305)
                      +......+..+++++..++.++++.+++.+.....
T Consensus       261 ~~~~~~~~~~l~~~~~~~~~~~a~~~l~~l~~~g~  295 (353)
T 1sxj_D          261 GVVPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGW  295 (353)
T ss_dssp             TCCCSHHHHHHHHHHHSCCHHHHHHHHHHHHHTSC
T ss_pred             CCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Confidence            99988999999999999999999999999876543

>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=1e-32  Score=237.88  Aligned_cols=251  Identities=41%  Similarity=0.686  Sum_probs=219.5

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      ...||.++|+|..|++++|++..++.+..++..+..++++|+||+|+|||++++.+++.+.+..+...++.+++....+.
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            35789999999999999999999999999999988888999999999999999999999876666667888888776666


Q ss_pred             hHHHHHHHHhhhcc-cccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEe
Q 021937          119 DVVRQQIQDFASTQ-SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRF  197 (305)
Q Consensus       119 ~~~~~~i~~~~~~~-~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~  197 (305)
                      +.+++.+..+.... .+   ...++.+|+|||+|.+....++.|++++++++.++.+|++++....+.+++.+||..+.|
T Consensus        87 ~~i~~~~~~~~~~~~~~---~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~  163 (323)
T 1sxj_B           87 DVVRNQIKHFAQKKLHL---PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRY  163 (323)
T ss_dssp             HHHHTHHHHHHHBCCCC---CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEEC
T ss_pred             HHHHHHHHHHHhccccC---CCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEee
Confidence            77776666654221 11   022379999999999999999999999999988999999999988999999999999999


Q ss_pred             cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCChhhHHHHHHHH
Q 021937          198 APLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWL  277 (305)
Q Consensus       198 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~~  277 (305)
                      ++++.+++.+++...+...+..++++.++.+++.++||+|.+++.++.++...+.++.++|.++++......+++++++ 
T Consensus       164 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~~~~~-  242 (323)
T 1sxj_B          164 SKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKKMLLA-  242 (323)
T ss_dssp             CCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHHHSSBCHHHHHHHHTSCCHHHHHHHHSC-
T ss_pred             cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCcCHHHHHHHHCCCCHHHHHHHHhc-
Confidence            9999999999999999989999999999999999999999999999988876678999999999999988888888887 


Q ss_pred             HcccHHHHHHHHHH-HHHH
Q 021937          278 LNESFADSFKRIQN-LSFI  295 (305)
Q Consensus       278 ~~~~~~~~~~~l~~-l~~~  295 (305)
                        ++..+++.++.. +...
T Consensus       243 --~~~~~~l~~l~~dl~~~  259 (323)
T 1sxj_B          243 --SNLEDSIQILRTDLWKK  259 (323)
T ss_dssp             --SSHHHHHHHHHHTTTTT
T ss_pred             --CCHHHHHHHHHHHHHHc
Confidence              788888888886 5443

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=100.00  E-value=2.4e-31  Score=233.83  Aligned_cols=256  Identities=20%  Similarity=0.303  Sum_probs=218.3

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCc--------------
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYH--------------  104 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~--------------  104 (305)
                      ..+|.++|+|..|++++|++..++.+...+..+..++ ++|+||+|+|||++++.+++.+.+....              
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            4689999999999999999999999999999887666 7999999999999999999998653211              


Q ss_pred             -----ccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          105 -----NMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       105 -----~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                           ..++.++.......+.++..+.......     ...++.||+|||+|.+....++.|++++++++.++.+|++++
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                 1345555544344455555555443221     223478999999999999999999999999888899999999


Q ss_pred             CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc-cCccCHHHH
Q 021937          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (305)
Q Consensus       180 ~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-~~~i~~~~v  258 (305)
                      ....+.+.+.+|+..+.|++++.+++.+++..++.+.|+.+++++++.+++.++||+|.+.+.++.+... .+.|+.++|
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            8888999999999999999999999999999999999999999999999999999999999999877653 467999999


Q ss_pred             HhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHH
Q 021937          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSFIIRLVL  300 (305)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~  300 (305)
                      +++++......++++++++..++..+++..++.+...+..+.
T Consensus       238 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~g~~~~  279 (373)
T 1jr3_A          238 SAMLGTLDDDQALSLVEAMVEANGERVMALINEAAARGIEWE  279 (373)
T ss_dssp             HHHTTCCCHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCHH
Confidence            999999999999999999999999999999999987765554

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=100.00  E-value=1.1e-31  Score=239.27  Aligned_cols=251  Identities=21%  Similarity=0.300  Sum_probs=206.6

Q ss_pred             CcchhhhcCCCCccccccchHHH---HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIV---DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~---~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      ..||.++++|.+|++++|+++.+   ..|...+..+..++++|+||||||||++++.+++.+     ...++.+++.. .
T Consensus        13 ~~pla~r~rP~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~-----~~~f~~l~a~~-~   86 (447)
T 3pvs_A           13 FQPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA-----NADVERISAVT-S   86 (447)
T ss_dssp             -CCHHHHTCCCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT-----TCEEEEEETTT-C
T ss_pred             cCChHHHhCCCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh-----CCCeEEEEecc-C
Confidence            36999999999999999999999   799999999988889999999999999999999987     45677777654 4


Q ss_pred             ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEe--cCCcccchhhhcceeE
Q 021937          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCTR  194 (305)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~--~~~~~l~~~l~~r~~~  194 (305)
                      +...++..+........     ..++.+|||||+|.+....++.|+..+++.  .+.+|+++  +....+.+++.+|+.+
T Consensus        87 ~~~~ir~~~~~a~~~~~-----~~~~~iLfIDEI~~l~~~~q~~LL~~le~~--~v~lI~att~n~~~~l~~aL~sR~~v  159 (447)
T 3pvs_A           87 GVKEIREAIERARQNRN-----AGRRTILFVDEVHRFNKSQQDAFLPHIEDG--TITFIGATTENPSFELNSALLSRARV  159 (447)
T ss_dssp             CHHHHHHHHHHHHHHHH-----TTCCEEEEEETTTCC------CCHHHHHTT--SCEEEEEESSCGGGSSCHHHHTTEEE
T ss_pred             CHHHHHHHHHHHHHhhh-----cCCCcEEEEeChhhhCHHHHHHHHHHHhcC--ceEEEecCCCCcccccCHHHhCceeE
Confidence            56666666665443322     123689999999999999999999999974  46666666  3345788999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccC-------ccCHHHHHh
Q 021937          195 FRFAPLEPVHVTERLKHVIEA-------EGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-------QITEEAVYL  260 (305)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~-------~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~-------~i~~~~v~~  260 (305)
                      +.|++++.+++..++...+..       .++.+++++++.|++.++||+|.+++.|+.++..+.       .|+.+++++
T Consensus       160 ~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~a~~~a~~~~~~~~~It~e~v~~  239 (447)
T 3pvs_A          160 YLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMMADMAEVDDSGKRVLKPELLTE  239 (447)
T ss_dssp             EECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHHHHHHSCBCTTSCEECCHHHHHH
T ss_pred             EeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccccCCCCccCHHHHHH
Confidence            999999999999999999886       456789999999999999999999999998876442       599999999


Q ss_pred             hhCCCC----------hhhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhh
Q 021937          261 CTGNPL----------PKDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFVL  303 (305)
Q Consensus       261 ~~~~~~----------~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~  303 (305)
                      ++....          ++.++.++++++++|+++|+.++..|...+..|+++.
T Consensus       240 ~l~~~~~~~dk~gd~~yd~isal~ksirgsd~daAl~~la~ml~~Gedp~~i~  292 (447)
T 3pvs_A          240 IAGERSARFDNKGDRFYDLISALHKSVRGSAPDAALYWYARIITAGGDPLYVA  292 (447)
T ss_dssp             HHTCCCCC---CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHhhhhhccCCccchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCHHHHH
Confidence            998763          3678899999999999999999999999988887653

>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=2.5e-31  Score=232.14  Aligned_cols=245  Identities=29%  Similarity=0.525  Sum_probs=189.4

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHH-hcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCc---------------
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLT-SENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH---------------  104 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l-~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~---------------  104 (305)
                      .+|.++|+|.+|++++|++..++.+..++ ..+..++++|+||+|+||||+++.+++.+.++...               
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            47999999999999999999999999999 87777779999999999999999999977554321               


Q ss_pred             ---------ccEEEeecCCCcChh--HHHHHHHHhhhccccc-----CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh
Q 021937          105 ---------NMILELNASDDRGID--VVRQQIQDFASTQSFS-----FGVKASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (305)
Q Consensus       105 ---------~~~~~~~~~~~~~~~--~~~~~i~~~~~~~~~~-----~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~  168 (305)
                               ..++.++........  .+++.+..+.....+.     .+...++.+++|||++.++...++.|+++++++
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                     123344433221111  3455555544333221     011335789999999999999999999999998


Q ss_pred             cCCceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHHHHh
Q 021937          169 TKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRKALNILQSTH  247 (305)
Q Consensus       169 ~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~l~~~~~g~~r~~~~~l~~~~  247 (305)
                      +.++.+|++++....+.+++.+||..+.|++|+.+++.+++...+.++|+.++ +++++.|++.++||+|.+++.++.++
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 99999999999999999999999888


Q ss_pred             hccC-ccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHH
Q 021937          248 MASQ-QITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFK  287 (305)
Q Consensus       248 ~~~~-~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  287 (305)
                      .... .|+.+.+  .........++++++++...+...++.
T Consensus       242 ~~~~~~i~~~~~--~~~~~~~~~~~~l~~~i~~~~~~~~~~  280 (354)
T 1sxj_E          242 LNNELALKSSSP--IIKPDWIIVIHKLTRKIVKERSVNSLI  280 (354)
T ss_dssp             HTTTTEECSSCC--CCCCHHHHHHHHHHHHHHHCCSHHHHH
T ss_pred             HhCCCCcCcCcC--CCCccHHHHHHHHHHHHHHhcchhHHH
Confidence            7655 5776543  222223356788999988755444443

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.98  E-value=4.4e-30  Score=209.49  Aligned_cols=222  Identities=45%  Similarity=0.799  Sum_probs=194.9

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      ...+|.++|+|..|++++|++..++.+..++..+..++++|+||+|+|||++++.+++.+.+.++...++.+++......
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            35789999999999999999999999999999887777999999999999999999999877666777888888776666


Q ss_pred             hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEec
Q 021937          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (305)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~  198 (305)
                      ..+...+........+   ...++.+|+|||+|.+....++.|+.+++..+.+..+|++++....+.+.+.+|+..+.++
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            6666666655443221   1234789999999999999999999999998888899999998888999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhC
Q 021937          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTG  263 (305)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~  263 (305)
                      +++.+++.+++...+...+..++++.++.+++.++||+|.+++.++.++..++.|+.++|+++++
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            99999999999999998899999999999999999999999999999988778899999998875

>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=4.3e-27  Score=194.31  Aligned_cols=220  Identities=23%  Similarity=0.389  Sum_probs=177.4

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCc-------------
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYH-------------  104 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~-------------  104 (305)
                      ...+|.++|+|..|++++|++..++.+..++..+..++ ++|+||+|+|||++++.+++.+.+....             
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 8999999999999999999988543211             


Q ss_pred             ------ccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021937          105 ------NMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       105 ------~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                            ..++.++.........+...+.....     .....++.+|+|||+|.+....++.|+..+++.+.+..+|+++
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                  12344443332223333333322211     1123447899999999999999999999999887788899999


Q ss_pred             cCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc-CccCHHH
Q 021937          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEA  257 (305)
Q Consensus       179 ~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~-~~i~~~~  257 (305)
                      +....+.+.+.+|+..+.+++++.+++.+++...+...+..++++.++.+++.++|++|.+.+.++.+...+ +.|+.++
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            888888899999999999999999999999999999889899999999999999999999999998877643 5699999


Q ss_pred             HHhhhC
Q 021937          258 VYLCTG  263 (305)
Q Consensus       258 v~~~~~  263 (305)
                      |+++++
T Consensus       244 v~~~~~  249 (250)
T 1njg_A          244 VSAMLG  249 (250)
T ss_dssp             HHHHSC
T ss_pred             HHHHhC
Confidence            998875

>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=2e-27  Score=216.73  Aligned_cols=240  Identities=23%  Similarity=0.383  Sum_probs=185.5

Q ss_pred             CCCCCCCcchhhhcCCCCccccccchHHHHHHHHHHhcC-----------------CCCeEEEECCCCCcHHHHHHHHHH
Q 021937           34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN-----------------RLPHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        34 ~~~~~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~-----------------~~~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .+......+|.++|+|.+|++++|++..++.+..++...                 ..+.++|+||||+|||++|+++++
T Consensus        20 ~~~~~~~~lW~ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~   99 (516)
T 1sxj_A           20 GPHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQ   99 (516)
T ss_dssp             ------CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCccCCCcccccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            344567789999999999999999999999999998751                 335699999999999999999999


Q ss_pred             HHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccc----cC-----CCCCceEEEEEeCCCcCCHHHH---HHHHHH
Q 021937           97 KLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF----SF-----GVKASVKLVLLDEADAMTKDAQ---FALRRV  164 (305)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~----~~-----~~~~~~~vliiDe~~~l~~~~~---~~l~~~  164 (305)
                      .+     ...++.++++.......+...+.........    ..     ....++.||+|||+|.+....+   ..|.++
T Consensus       100 ~l-----~~~~i~in~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~  174 (516)
T 1sxj_A          100 EL-----GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQF  174 (516)
T ss_dssp             HT-----TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHH
T ss_pred             Hc-----CCCEEEEeCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHH
Confidence            97     5678888888766555444433322221111    11     1235678999999999976443   677777


Q ss_pred             HHHhcCCceEEEEecCCc-ccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 021937          165 IEKYTKNTRFALICNQVN-KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (305)
Q Consensus       165 l~~~~~~~~iil~~~~~~-~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  243 (305)
                      ++..  +..+|++++... ...+.+.+|+..+.|++|+.+++.+++...+.++++.+++++++.|++.++||+|.+++.|
T Consensus       175 l~~~--~~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          175 CRKT--STPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             HHHC--SSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHhc--CCCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHH
Confidence            7764  455666665443 3446788899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhccCccCHHHHHhhhC---CCChhhHHHHHHHHHcc
Q 021937          244 QSTHMASQQITEEAVYLCTG---NPLPKDIEQISYWLLNE  280 (305)
Q Consensus       244 ~~~~~~~~~i~~~~v~~~~~---~~~~~~~~~l~~~~~~~  280 (305)
                      +.++...+.|+.+++++++.   ......++++++.+...
T Consensus       253 ~~~~~~~~~It~~~v~~~~~~~~~~~~~~~f~~~~~il~~  292 (516)
T 1sxj_A          253 STISTTTKTINHENINEISKAWEKNIALKPFDIAHKMLDG  292 (516)
T ss_dssp             THHHHHSSCCCTTHHHHHHHHHHTTTTSHHHHHHHHHTBG
T ss_pred             HHHHhcCCCCchHHHHHHHHhhccCCCCCHHHHHHHHhcC
Confidence            99888778899999887765   44556788888888863

>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=99.94  E-value=4.2e-26  Score=193.57  Aligned_cols=223  Identities=17%  Similarity=0.185  Sum_probs=179.2

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh-CCCCcccEEEeecCC-CcChhHHHHHHHHhhhcccc
Q 021937           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASD-DRGIDVVRQQIQDFASTQSF  134 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~i~~~~~~~~~  134 (305)
                      ||++.++.|.+.+..+..++++|+||+|+|||++++++++.+. +......+..++... ..+.+.+++.+..+.. .++
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~-~p~   79 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNY-SPE   79 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTS-CCS
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhh-ccc
Confidence            6888999999999988866799999999999999999998642 222244677777664 4677788887666543 333


Q ss_pred             cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHH
Q 021937          135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE  214 (305)
Q Consensus       135 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~  214 (305)
                      .    .+++|+||||+|.+....+++|+++++++++++.+|++++.+.++.+++++|  .+.|++++.+++.+++...+ 
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            2    2379999999999999999999999999999999999999999999999999  99999999999999999887 


Q ss_pred             HcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc--------cCccCHHHHHhhhCCCChh--hHHHHHHHHHcccHHH
Q 021937          215 AEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA--------SQQITEEAVYLCTGNPLPK--DIEQISYWLLNESFAD  284 (305)
Q Consensus       215 ~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~--------~~~i~~~~v~~~~~~~~~~--~~~~l~~~~~~~~~~~  284 (305)
                        +  ++++.+    +.+.||+|.+++.++.....        ....+.++|+++++.....  +++++++++..+|..+
T Consensus       153 --~--i~~~~~----~~~~g~~~~al~~l~~~~~~~~~l~~~~~~~~~~~~v~~~~~~~~~~~~~v~~l~~ai~~~~~~~  224 (305)
T 2gno_A          153 --G--DLWEEL----PLLERDFKTALEAYKLGAEKLSGLMESLKVLETEKLLKKVLSKGLEGYLACRELLERFSKVESKE  224 (305)
T ss_dssp             --T--THHHHC----GGGGTCHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHTTTTTCSHHHHHHHHHHHHHHHHHSCGGG
T ss_pred             --C--CCHHHH----HHHCCCHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHccCCcchHHHHHHHHHHHCCCHHH
Confidence              3  555544    55799999999888632210        0112477888888887644  8999999999999999


Q ss_pred             HHHHHHHHHHH
Q 021937          285 SFKRIQNLSFI  295 (305)
Q Consensus       285 ~~~~l~~l~~~  295 (305)
                      |+..++.|...
T Consensus       225 a~~~~~~l~~~  235 (305)
T 2gno_A          225 FFALFDQVTNT  235 (305)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999999983

>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=3.2e-25  Score=191.56  Aligned_cols=222  Identities=22%  Similarity=0.274  Sum_probs=171.7

Q ss_pred             cchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCc-------------------ccEEEeecC---
Q 021937           57 AHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYH-------------------NMILELNAS---  113 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~-------------------~~~~~~~~~---  113 (305)
                      .+++..+.+...+..++.+| ++|+||+|+|||++++.+++.+.+....                   ..+..++..   
T Consensus         6 w~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~   85 (334)
T 1a5t_A            6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGK   85 (334)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTC
T ss_pred             chHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccC
Confidence            45678889999999888877 9999999999999999999999775421                   345666654   


Q ss_pred             CCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhccee
Q 021937          114 DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (305)
Q Consensus       114 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~  193 (305)
                      ...+.+.+++.+..+...+     ..+++.|++|||+|.+..+.++.|++.+++++.++.+|++++....+.+++++||+
T Consensus        86 ~~~~i~~ir~l~~~~~~~~-----~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~  160 (334)
T 1a5t_A           86 NTLGVDAVREVTEKLNEHA-----RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCR  160 (334)
T ss_dssp             SSBCHHHHHHHHHHTTSCC-----TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             CCCCHHHHHHHHHHHhhcc-----ccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcce
Confidence            3355667776665543322     22347999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhCCCChhhHHHH
Q 021937          194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQI  273 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l  273 (305)
                      .+.|++++.+++.+++...+     .+++++++.+++.++|++|.+++.++........+..+.+..+...   .++..+
T Consensus       161 ~~~~~~~~~~~~~~~L~~~~-----~~~~~~~~~l~~~s~G~~r~a~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~~~  232 (334)
T 1a5t_A          161 LHYLAPPPEQYAVTWLSREV-----TMSQDALLAALRLSAGSPGAALALFQGDNWQARETLCQALAYSVPS---GDWYSL  232 (334)
T ss_dssp             EEECCCCCHHHHHHHHHHHC-----CCCHHHHHHHHHHTTTCHHHHHHTTSSHHHHHHHHHHHHHHHHHHH---CCCGGG
T ss_pred             eeeCCCCCHHHHHHHHHHhc-----CCCHHHHHHHHHHcCCCHHHHHHHhccchHHHHHHHHHHHHHHHhC---hHHHHH
Confidence            99999999999999998764     5789999999999999999999999766543344555666655541   122234


Q ss_pred             HHHHHcccHHHHHHHHHH
Q 021937          274 SYWLLNESFADSFKRIQN  291 (305)
Q Consensus       274 ~~~~~~~~~~~~~~~l~~  291 (305)
                      ++.+...+....+.++..
T Consensus       233 ~~~l~~~~~~~~l~~l~~  250 (334)
T 1a5t_A          233 LAALNHEQAPARLHWLAT  250 (334)
T ss_dssp             HHHHCSTTHHHHHHHHHH
T ss_pred             HHHHhcccHHHHHHHHHH
Confidence            455555555555554443

>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=7.2e-25  Score=190.01  Aligned_cols=209  Identities=15%  Similarity=0.203  Sum_probs=165.5

Q ss_pred             CCCcchhhhcCCCCccccccchHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      .....|.++|+|.+|++++|++..++.+..++..     ...++++|+||+|||||++|+++++.+     ...++.+++
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            4556899999999999999999999999888874     344569999999999999999999986     445777777


Q ss_pred             CCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcC------------------CceE
Q 021937          113 SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK------------------NTRF  174 (305)
Q Consensus       113 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~------------------~~~i  174 (305)
                      ........+...+...           .++++|+|||++.+....+..|+..+++...                  .+.+
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            6655444444443321           2368999999999999999999999986431                  2567


Q ss_pred             EEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc----
Q 021937          175 ALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----  249 (305)
Q Consensus       175 il~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~----  249 (305)
                      |.+++....+.+++.+|+ ..+.+++|+.+++..++...+...+..+++++++.+++.++|++|.+.+.++.+...    
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            788888888999999999 889999999999999999999999988999999999999999999999999875432    


Q ss_pred             -cCccCHHHHHhhh
Q 021937          250 -SQQITEEAVYLCT  262 (305)
Q Consensus       250 -~~~i~~~~v~~~~  262 (305)
                       ...|+.+++..++
T Consensus       238 ~~~~i~~~~~~~~~  251 (338)
T 3pfi_A          238 DEEIITEKRANEAL  251 (338)
T ss_dssp             TCSEECHHHHHHHH
T ss_pred             cCCccCHHHHHHHH
Confidence             3458888887655

>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=1.8e-24  Score=189.65  Aligned_cols=225  Identities=16%  Similarity=0.211  Sum_probs=166.3

Q ss_pred             CCCCCcchhhhcCCCC-ccccccchHHHHH---HHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           36 PDIKASPWVEKYRPQS-LADVAAHRDIVDT---IDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        36 ~~~~~~~~~~~~~p~~-~~~~~g~~~~~~~---l~~~l~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      ....+..+.++++|.. |++++|++..++.   +...+..+..+  +++|+||||+|||++++++++.+.+.   ..++.
T Consensus        26 ~~~~~l~l~~~~~p~~~~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~---~~~~~  102 (368)
T 3uk6_A           26 SHIRGLGLDDALEPRQASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD---TPFTA  102 (368)
T ss_dssp             TTCCSCCBCTTSCBCSEETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSS---CCEEE
T ss_pred             hhhhccCcccccCcCcchhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhccc---CCccc
Confidence            3455677888999998 9999999999776   45555565544  69999999999999999999998432   23443


Q ss_pred             eecCCC-------------------------------------------------------cChhHHHHHHHHhhhcccc
Q 021937          110 LNASDD-------------------------------------------------------RGIDVVRQQIQDFASTQSF  134 (305)
Q Consensus       110 ~~~~~~-------------------------------------------------------~~~~~~~~~i~~~~~~~~~  134 (305)
                      +++...                                                       .....++..+.........
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~  182 (368)
T 3uk6_A          103 IAGSEIFSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWRE  182 (368)
T ss_dssp             EEGGGGSCSSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhcccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhh
Confidence            332210                                                       0022233333322221111


Q ss_pred             cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec------------CCcccchhhhcceeEEEecCCCH
Q 021937          135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN------------QVNKIIPALQSRCTRFRFAPLEP  202 (305)
Q Consensus       135 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~------------~~~~l~~~l~~r~~~i~~~~~~~  202 (305)
                      .+.....++||||||+|.+..+.++.|++.+++.+... ++++++            ....+++++.+||..+.|++|+.
T Consensus       183 ~g~~~~~~~vl~IDEi~~l~~~~~~~L~~~le~~~~~~-~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~  261 (368)
T 3uk6_A          183 EGKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPV-LIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSE  261 (368)
T ss_dssp             HTC---CBCEEEEESGGGSBHHHHHHHHHHTTCTTCCE-EEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCH
T ss_pred             hccccccCceEEEhhccccChHHHHHHHHHhhCcCCCe-eeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCH
Confidence            11111124699999999999999999999998776543 444443            24567899999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC-CCHHHHHHHHHHHhhc-----cCccCHHHHHhhhCC
Q 021937          203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCN-GDMRKALNILQSTHMA-----SQQITEEAVYLCTGN  264 (305)
Q Consensus       203 ~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~-g~~r~~~~~l~~~~~~-----~~~i~~~~v~~~~~~  264 (305)
                      +++.+++...+...+..+++++++.+++.+. |++|.+.+.|+.++..     ...|+.++|++++..
T Consensus       262 ~e~~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~~~It~~~v~~a~~~  329 (368)
T 3uk6_A          262 KDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSL  329 (368)
T ss_dssp             HHHHHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Confidence            9999999999999999999999999999998 9999999999887653     246999999988765

>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=99.92  E-value=1.5e-23  Score=180.67  Aligned_cols=205  Identities=19%  Similarity=0.240  Sum_probs=164.7

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (305)
                      +.++|+|.+|++++|++..++.+..++..     ....+++|+||+|+|||++|+++++.+     ...++.+++.....
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            45689999999999999999988888763     234569999999999999999999987     34566677766544


Q ss_pred             hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc------------------CCceEEEEec
Q 021937          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALICN  179 (305)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~iil~~~  179 (305)
                      ...+...+..          ....+++|+|||++.+....+..|+..+++..                  .++.+|++++
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            4443332221          01236899999999999999999999998753                  2466888888


Q ss_pred             CCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc-----Ccc
Q 021937          180 QVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQI  253 (305)
Q Consensus       180 ~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~-----~~i  253 (305)
                      ....+.+++.+|+ ..+.+++|+.+++..++...+...+..+++++++.++++++|++|.+.+.++.+...+     ..|
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            8888899999999 6899999999999999999998888899999999999999999999999998776433     358


Q ss_pred             CHHHHHhhh
Q 021937          254 TEEAVYLCT  262 (305)
Q Consensus       254 ~~~~v~~~~  262 (305)
                      +.+++..+.
T Consensus       227 ~~~~~~~~~  235 (324)
T 1hqc_A          227 TRERALEAL  235 (324)
T ss_dssp             CHHHHHHHH
T ss_pred             CHHHHHHHH
Confidence            888876654

>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=99.92  E-value=3.3e-24  Score=186.17  Aligned_cols=229  Identities=12%  Similarity=0.053  Sum_probs=186.2

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcc-cEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceE
Q 021937           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHN-MILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVK  143 (305)
Q Consensus        65 l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~  143 (305)
                      +.+.+.+...+.++|+||+|.||++.+..+++.+.+.++.. ..+.++.  .   ..+++.+..... .++.+    ++.
T Consensus         9 l~~~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~--~---~~~~~l~~~~~~-~plf~----~~k   78 (343)
T 1jr3_D            9 LRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP--N---TDWNAIFSLCQA-MSLFA----SRQ   78 (343)
T ss_dssp             HHHHHHHCCCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT--T---CCHHHHHHHHHH-HHHCC----SCE
T ss_pred             HHHHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC--C---CCHHHHHHHhcC-cCCcc----CCe
Confidence            34444434455699999999999999999999886554322 3334432  2   233343333322 22222    279


Q ss_pred             EEEEeCCCc-CCHHHHHHHHHHHHHhcCCceEEEEecCC------cccchhhhcceeEEEecCCCHHHHHHHHHHHHHHc
Q 021937          144 LVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQV------NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE  216 (305)
Q Consensus       144 vliiDe~~~-l~~~~~~~l~~~l~~~~~~~~iil~~~~~------~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~  216 (305)
                      |++|||+|. +..+.++.|+++++++++++.+|++++..      .++.+++.+||+++.|.+++..++..|+...+.+.
T Consensus        79 vvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~~~~  158 (343)
T 1jr3_D           79 TLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQL  158 (343)
T ss_dssp             EEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHHHHc
Confidence            999999999 99889999999999999999999988653      46788999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc--cCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHHHHHH
Q 021937          217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMA--SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQNLSF  294 (305)
Q Consensus       217 ~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~--~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~  294 (305)
                      |+.+++++++.+++.++||+|.+.+.|++++..  .+.|+.++|+++++.....+++++++++..+|..+++..++.+..
T Consensus       159 g~~i~~~a~~~l~~~~~gdl~~~~~elekl~l~~~~~~It~e~V~~~~~~~~~~~if~l~~ai~~~d~~~al~~l~~l~~  238 (343)
T 1jr3_D          159 NLELDDAANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHILQQLRL  238 (343)
T ss_dssp             TCEECHHHHHHHHHSSTTCHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHCCCCHHHHHHHHTTSCHHHHHHHHTSSTT
T ss_pred             CCCCCHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999998874  457999999999998888999999999999999999999999887


Q ss_pred             HHHHHHHhh
Q 021937          295 IIRLVLFVL  303 (305)
Q Consensus       295 ~~~~~~~~~  303 (305)
                      .+..+..++
T Consensus       239 ~g~~~~~il  247 (343)
T 1jr3_D          239 EGSEPVILL  247 (343)
T ss_dssp             TTCCHHHHH
T ss_pred             CCCcHHHHH
Confidence            766665543

>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=99.91  E-value=2.3e-23  Score=171.77  Aligned_cols=210  Identities=14%  Similarity=0.209  Sum_probs=160.3

Q ss_pred             CCcchhhhcCC-CCcccccc---chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           39 KASPWVEKYRP-QSLADVAA---HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        39 ~~~~~~~~~~p-~~~~~~~g---~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      ...+|..+++| .+|+++++   +...++.+..++.....++++|+||+|+|||++++.+++.+...+..  +..+++..
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            45678888888 68999997   35788888888887667779999999999999999999998655443  34444332


Q ss_pred             CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHH--HHHHHHHHHHhcCC-c-eEEEEecCCc----ccch
Q 021937          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA--QFALRRVIEKYTKN-T-RFALICNQVN----KIIP  186 (305)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~--~~~l~~~l~~~~~~-~-~iil~~~~~~----~l~~  186 (305)
                      ...  .+...+    .       .-.++.+|+|||++.+....  +..|+.+++..... . .+|++++...    ...+
T Consensus        91 ~~~--~~~~~~----~-------~~~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~  157 (242)
T 3bos_A           91 HAS--ISTALL----E-------GLEQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLP  157 (242)
T ss_dssp             GGG--SCGGGG----T-------TGGGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCH
T ss_pred             HHH--HHHHHH----H-------hccCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhh
Confidence            110  000000    0       11236899999999997655  77888888765422 2 4777776433    3458


Q ss_pred             hhhcce---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc----cCccCHHHHH
Q 021937          187 ALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVY  259 (305)
Q Consensus       187 ~l~~r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~  259 (305)
                      .+.+|+   ..+.+++|+.+++.+++...+...+..+++++++.+++.++||+|.+.+.++.++..    .+.|+.++++
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            889998   899999999999999999999988999999999999999999999999999877653    3459999998


Q ss_pred             hhhC
Q 021937          260 LCTG  263 (305)
Q Consensus       260 ~~~~  263 (305)
                      +++.
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=99.90  E-value=1.3e-21  Score=169.00  Aligned_cols=210  Identities=17%  Similarity=0.227  Sum_probs=157.2

Q ss_pred             CCCcchhhhcCCCCccccccchHHHHHHHHHHhcC-----CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN-----RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~-----~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      .....|.+.++|.+|++++|++..++.+...+..+     ...+++|+||+|+||||+++.++..+.     ..+...++
T Consensus        10 ~~~~~~~~~lr~~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~-----~~~~~~sg   84 (334)
T 1in4_A           10 TVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ-----TNIHVTSG   84 (334)
T ss_dssp             -------CTTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT-----CCEEEEET
T ss_pred             HHHHHHHHHcCCccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhC-----CCEEEEec
Confidence            34567899999999999999999999888877642     345699999999999999999999983     23334444


Q ss_pred             CCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc------------------CCceE
Q 021937          113 SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRF  174 (305)
Q Consensus       113 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~------------------~~~~i  174 (305)
                      ........+...+...           ..+.|++|||++.+.+...+.|+..++...                  +...+
T Consensus        85 ~~~~~~~~l~~~~~~~-----------~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~l  153 (334)
T 1in4_A           85 PVLVKQGDMAAILTSL-----------ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  153 (334)
T ss_dssp             TTCCSHHHHHHHHHHC-----------CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             hHhcCHHHHHHHHHHc-----------cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEE
Confidence            3332333333222211           125799999999999877888877776431                  12345


Q ss_pred             EEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-----
Q 021937          175 ALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-----  248 (305)
Q Consensus       175 il~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-----  248 (305)
                      +.+++....+.+.+++|+ ..+.|++++.+++.+++++.+...++.++++++..|++.+.|++|.+.+.|+.+..     
T Consensus       154 i~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~~  233 (334)
T 1in4_A          154 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVV  233 (334)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHH
T ss_pred             EEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHc
Confidence            556677788899999998 46899999999999999999988899999999999999999999999999976543     


Q ss_pred             ccCccCHHHHHhhhC
Q 021937          249 ASQQITEEAVYLCTG  263 (305)
Q Consensus       249 ~~~~i~~~~v~~~~~  263 (305)
                      ..+.|+.+.+++++.
T Consensus       234 ~~~~It~~~v~~al~  248 (334)
T 1in4_A          234 KADRINTDIVLKTME  248 (334)
T ss_dssp             TCSSBCHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHH
Confidence            235699998887764

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.90  E-value=8.9e-22  Score=176.86  Aligned_cols=123  Identities=17%  Similarity=0.233  Sum_probs=108.3

Q ss_pred             EEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEe---------cC----CcccchhhhcceeEEEecCCCHHHHHHHH
Q 021937          143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC---------NQ----VNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (305)
Q Consensus       143 ~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~---------~~----~~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (305)
                      +|++|||+|.+..+.++.|++.+++++.+ .+|+.+         +.    +..+++++++||+.++|++++.+++.+++
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 566666         33    56788999999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhh-----ccCccCHHHHHhhhCCCC
Q 021937          210 KHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHM-----ASQQITEEAVYLCTGNPL  266 (305)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~~~~~  266 (305)
                      +.++...+..++++++..+++.+ .|++|.++++++.+..     ....|+.++|+++++...
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            99999899999999999999999 9999999999987643     235799999998876553

>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=1e-21  Score=173.10  Aligned_cols=244  Identities=19%  Similarity=0.242  Sum_probs=170.6

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhc----CCCCeEEEECCCCCcHHHHHHHHHHHHhCC----CCcccEEEeec
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNA  112 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~----~~~~~~~~~~~  112 (305)
                      .+|...|.|   ++++|++..++.+..++..    ...++++|+||+|+|||++++.+++.+...    +....++.+++
T Consensus        10 ~~l~~~~~p---~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (387)
T 2v1u_A           10 WVLLPDYVP---DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNA   86 (387)
T ss_dssp             HHHSTTCCC---SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEET
T ss_pred             HhcCCccCC---CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEEC
Confidence            345556666   6789999999999998853    345569999999999999999999987432    22456778887


Q ss_pred             CCCcChhHHHHHHHHhhhcc-cc--------------cCCCCCceEEEEEeCCCcCCHH--HHHHHHHHHHHh-----cC
Q 021937          113 SDDRGIDVVRQQIQDFASTQ-SF--------------SFGVKASVKLVLLDEADAMTKD--AQFALRRVIEKY-----TK  170 (305)
Q Consensus       113 ~~~~~~~~~~~~i~~~~~~~-~~--------------~~~~~~~~~vliiDe~~~l~~~--~~~~l~~~l~~~-----~~  170 (305)
                      ........+...+....... +.              ......++.+|+|||+|.+...  .+..|..+++..     +.
T Consensus        87 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~  166 (387)
T 2v1u_A           87 RHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRV  166 (387)
T ss_dssp             TTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC----
T ss_pred             CcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCc
Confidence            66444332222211111000 00              0001234679999999999876  677888888754     44


Q ss_pred             CceEEEEecCC---cccchhhhcce--eEEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHcC---CCHHHHH
Q 021937          171 NTRFALICNQV---NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVRLCN---GDMRKAL  240 (305)
Q Consensus       171 ~~~iil~~~~~---~~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~l~~~~~---g~~r~~~  240 (305)
                      +..+|++++..   ..+.+.+.+|+  ..+.|++++.+++.+++...+..  .+..+++++++.+++.+.   ||+|.++
T Consensus       167 ~~~~I~~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~  246 (387)
T 2v1u_A          167 WVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRAL  246 (387)
T ss_dssp             -CEEEEECSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHH
T ss_pred             eEEEEEEECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHH
Confidence            66788888766   56788999998  68999999999999999998875  456789999999999998   9999999


Q ss_pred             HHHHHHhhc-----cCccCHHHHHhhhCCCChhhHHHHHHHHHcccHHHHHHHHH
Q 021937          241 NILQSTHMA-----SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRIQ  290 (305)
Q Consensus       241 ~~l~~~~~~-----~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~  290 (305)
                      +.++.+...     ...|+.+++.+++.....   ..+.+.+.+-+..+...++.
T Consensus       247 ~~l~~a~~~a~~~~~~~i~~~~v~~a~~~~~~---~~~~~~~~~l~~~~~~~l~a  298 (387)
T 2v1u_A          247 DLLRVAGEIAERRREERVRREHVYSARAEIER---DRVSEVVRTLPLHAKLVLLS  298 (387)
T ss_dssp             HHHHHHHHHHHHTTCSCBCHHHHHHHHHHHHH---HHHHHHHHSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCcCHHHHHHHHHHHhh---chHHHHHHcCCHHHHHHHHH
Confidence            999877653     256999999887755422   23344445545444444433

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.88  E-value=5.6e-21  Score=168.55  Aligned_cols=222  Identities=19%  Similarity=0.216  Sum_probs=161.8

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhc----CCCC--eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~----~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      ..+|..+|.|   ++++|++..++.+..++..    ....  +++|+||+|+|||++++.+++.+.... ...++.+++.
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            3456677777   6789999999988888765    3333  799999999999999999999985442 3457777766


Q ss_pred             CCcChhHHHHHHHHhhhcccccCC---------------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc----CCceE
Q 021937          114 DDRGIDVVRQQIQDFASTQSFSFG---------------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT----KNTRF  174 (305)
Q Consensus       114 ~~~~~~~~~~~i~~~~~~~~~~~~---------------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~----~~~~i  174 (305)
                      .......+...+...........+               ...++.+|+|||+|.+....+..|..+++..+    .+..+
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            544333322222211111000000               01236799999999999888889989887644    37778


Q ss_pred             EEEecCC---cccchhhhccee--EEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHc---------CCCHHH
Q 021937          175 ALICNQV---NKIIPALQSRCT--RFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLC---------NGDMRK  238 (305)
Q Consensus       175 il~~~~~---~~l~~~l~~r~~--~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~l~~~~---------~g~~r~  238 (305)
                      |++++..   ..+.+.+.+|+.  .+.|+|++.+++.+++...+...  ...+++++++.+++.+         +||+|.
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            8888776   456777778874  79999999999999999988752  2368999999999999         899999


Q ss_pred             HHHHHHHHhhc-----cCccCHHHHHhhhCCC
Q 021937          239 ALNILQSTHMA-----SQQITEEAVYLCTGNP  265 (305)
Q Consensus       239 ~~~~l~~~~~~-----~~~i~~~~v~~~~~~~  265 (305)
                      +++.++.++..     ...++.+++..+....
T Consensus       243 ~~~~l~~a~~~a~~~~~~~i~~~~v~~~~~~~  274 (389)
T 1fnn_A          243 AIDILYRSAYAAQQNGRKHIAPEDVRKSSKEV  274 (389)
T ss_dssp             HHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Confidence            99999877652     3568888887665443

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.88  E-value=8.6e-21  Score=167.30  Aligned_cols=190  Identities=19%  Similarity=0.234  Sum_probs=146.6

Q ss_pred             chhhhcCCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      .|.++++|..|++++|++..++.|..++..            ....+++|+||+|||||++|+++++.+     ...++.
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            588889999999999999999999988731            234569999999999999999999986     557788


Q ss_pred             eecCCCcC------hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHHh----
Q 021937          110 LNASDDRG------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY----  168 (305)
Q Consensus       110 ~~~~~~~~------~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~~----  168 (305)
                      +++.....      ...+...+..+...         .++||||||+|.+.           ...+..|+..++..    
T Consensus       179 v~~~~l~~~~~g~~~~~~~~~~~~a~~~---------~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  249 (389)
T 3vfd_A          179 ISAASLTSKYVGEGEKLVRALFAVAREL---------QPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAG  249 (389)
T ss_dssp             ECSCCC-------CHHHHHHHHHHHHHS---------SSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC---
T ss_pred             eeHHHhhccccchHHHHHHHHHHHHHhc---------CCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccC
Confidence            88765322      12222333222221         25899999999883           33455677777644    


Q ss_pred             cCCceEEEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q 021937          169 TKNTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQS  245 (305)
Q Consensus       169 ~~~~~iil~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~  245 (305)
                      +.++.+|.++|....+++.+.+|| ..+.++.|+.+++.+++..++...+..++++.+..+++.+.|..+..+..|..
T Consensus       250 ~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          250 DDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             --CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            235677778888889999999999 57999999999999999999988888899999999999999987766655543

>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=99.87  E-value=8.9e-21  Score=162.98  Aligned_cols=197  Identities=16%  Similarity=0.201  Sum_probs=145.5

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHh----------c--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEE
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTS----------E--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~----------~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (305)
                      ..|...+.+..|++++|++..++.|...+.          .  ....+++|+||||||||++|+++++.+     ...++
T Consensus         6 ~~~~~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~-----~~~~~   80 (322)
T 3eie_A            6 TAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA-----NSTFF   80 (322)
T ss_dssp             CCSEEECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH-----TCEEE
T ss_pred             cceeecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH-----CCCEE
Confidence            346778888899999999999999998872          1  123459999999999999999999997     45677


Q ss_pred             EeecCCC--cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHh---cCCc
Q 021937          109 ELNASDD--RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY---TKNT  172 (305)
Q Consensus       109 ~~~~~~~--~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~---~~~~  172 (305)
                      .+++...  .........+........     ...++||+|||+|.+..           ..+..++..++..   ..++
T Consensus        81 ~v~~~~l~~~~~g~~~~~~~~~f~~a~-----~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v  155 (322)
T 3eie_A           81 SVSSSDLVSKWMGESEKLVKQLFAMAR-----ENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGV  155 (322)
T ss_dssp             EEEHHHHHTTTGGGHHHHHHHHHHHHH-----HTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCE
T ss_pred             EEchHHHhhcccchHHHHHHHHHHHHH-----hcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCce
Confidence            7766431  112222222222221111     11268999999998853           2356677777644   3355


Q ss_pred             eEEEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHh
Q 021937          173 RFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTH  247 (305)
Q Consensus       173 ~iil~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~  247 (305)
                      .+|.++|.+..+++++.+|| ..+.++.|+.+++.++++..+...+..+++..++.|++.+.| +.+.+.++++.++
T Consensus       156 ~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~~a~  232 (322)
T 3eie_A          156 LVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDAL  232 (322)
T ss_dssp             EEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHHHHT
T ss_pred             EEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            67778888889999999999 778999999999999999999888878899999999999987 5666666665544

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.87  E-value=4.2e-20  Score=157.15  Aligned_cols=211  Identities=18%  Similarity=0.213  Sum_probs=154.6

Q ss_pred             chhhhcCCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      .|..++.+.+|++++|++..++.+...+..            ....+++|+||||||||++++++++.+     ...++.
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            366678888999999999999999888743            234569999999999999999999987     456777


Q ss_pred             eecCCCcC------hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHHhcC--
Q 021937          110 LNASDDRG------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKYTK--  170 (305)
Q Consensus       110 ~~~~~~~~------~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~~~~--  170 (305)
                      +++.....      ....+..+.....         ..+++|+|||+|.+.           ...+..|+..++..+.  
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            77764321      1122222222211         126899999998884           3345567777776542  


Q ss_pred             ---CceEEEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHH-HHHHH
Q 021937          171 ---NTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKAL-NILQS  245 (305)
Q Consensus       171 ---~~~iil~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~-~~l~~  245 (305)
                         ++.+|.+++....+++.+.+|| ..+.++.|+.++...++...+...+..++++.++.+++.+.|..+..+ ++++.
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               4567778888888999999998 678999999999999999998888888899999999999999877555 44444


Q ss_pred             Hhhcc-----------------CccCHHHHHhhhCCCC
Q 021937          246 THMAS-----------------QQITEEAVYLCTGNPL  266 (305)
Q Consensus       246 ~~~~~-----------------~~i~~~~v~~~~~~~~  266 (305)
                      ++..+                 ..|+.+++..++....
T Consensus       236 a~~~a~r~~~~~~~~~~~~~~~~~i~~~d~~~a~~~~~  273 (297)
T 3b9p_A          236 AALEPIRELNVEQVKCLDISAMRAITEQDFHSSLKRIR  273 (297)
T ss_dssp             HTTHHHHTCC--------CCCCCCCCHHHHHHHTTSCC
T ss_pred             HHHHHHHHHhhhhcccccccccCCcCHHHHHHHHHHcC
Confidence            43211                 2466777766665543

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.87  E-value=3.4e-20  Score=160.63  Aligned_cols=200  Identities=20%  Similarity=0.279  Sum_probs=140.5

Q ss_pred             CCCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      ...+|+++.|.++.++.|++.+.-             ..+.+++||||||||||.+|+++|+++     ...++.++++.
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             233459999999999999999999998     66788887765


Q ss_pred             Cc--C----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--------------HHHHHHHHHHHHh--cCCc
Q 021937          115 DR--G----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKY--TKNT  172 (305)
Q Consensus       115 ~~--~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~l~~~l~~~--~~~~  172 (305)
                      ..  .    ...++..+..+....         ++||||||+|.+..              .....|+..++..  ..++
T Consensus       218 l~sk~vGese~~vr~lF~~Ar~~a---------P~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V  288 (405)
T 4b4t_J          218 LVQKYIGEGSRMVRELFVMAREHA---------PSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNI  288 (405)
T ss_dssp             GSCSSTTHHHHHHHHHHHHHHHTC---------SEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCE
T ss_pred             hhccccchHHHHHHHHHHHHHHhC---------CceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCe
Confidence            32  2    233444444433322         69999999999842              1234566666643  3356


Q ss_pred             eEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhh
Q 021937          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM  248 (305)
Q Consensus       173 ~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~  248 (305)
                      .+|.+||.++.+++++.+  |+ ..++|+.|+.+++.++++.++.+.++. ++..++.|++.+.| +...+.+++..++.
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  77 789999999999999999887655432 12237889998876 44444455544443


Q ss_pred             c-----cCccCHHHHHhhh
Q 021937          249 A-----SQQITEEAVYLCT  262 (305)
Q Consensus       249 ~-----~~~i~~~~v~~~~  262 (305)
                      .     ...|+.+++..++
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            2     2346666665554

>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=99.87  E-value=5.5e-20  Score=159.88  Aligned_cols=193  Identities=18%  Similarity=0.201  Sum_probs=139.3

Q ss_pred             chhhhcCCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      .+...+.+..|++++|++..++.|...+..            ....+++|+||||||||++|+++++.+     ...++.
T Consensus        40 ~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~-----~~~~~~  114 (355)
T 2qp9_X           40 AILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA-----NSTFFS  114 (355)
T ss_dssp             -------CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH-----TCEEEE
T ss_pred             hhcccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh-----CCCEEE
Confidence            345567788999999999999999988731            123359999999999999999999998     445666


Q ss_pred             eecCCC------cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHh---c
Q 021937          110 LNASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY---T  169 (305)
Q Consensus       110 ~~~~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~---~  169 (305)
                      +++...      .....+...+..+..         ..++||||||+|.+..           ...+.|+..++..   .
T Consensus       115 v~~~~l~~~~~g~~~~~~~~~f~~a~~---------~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~  185 (355)
T 2qp9_X          115 VSSSDLVSKWMGESEKLVKQLFAMARE---------NKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDS  185 (355)
T ss_dssp             EEHHHHHSCC---CHHHHHHHHHHHHH---------TSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---
T ss_pred             eeHHHHhhhhcchHHHHHHHHHHHHHH---------cCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccC
Confidence            665421      112223333322211         1268999999999863           2356677777743   3


Q ss_pred             CCceEEEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHh
Q 021937          170 KNTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTH  247 (305)
Q Consensus       170 ~~~~iil~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~  247 (305)
                      .++.+|.++|....+++++.+|| ..+.+++|+.+++.+++..++...+..+++..++.|++.+.| +.+.+.++++.++
T Consensus       186 ~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~~~A~  265 (355)
T 2qp9_X          186 QGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDAL  265 (355)
T ss_dssp             CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            45677778898889999999999 779999999999999999998877777889999999999988 5666666665544


Q ss_pred             h
Q 021937          248 M  248 (305)
Q Consensus       248 ~  248 (305)
                      .
T Consensus       266 ~  266 (355)
T 2qp9_X          266 M  266 (355)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.86  E-value=5.5e-21  Score=163.49  Aligned_cols=187  Identities=20%  Similarity=0.275  Sum_probs=142.8

Q ss_pred             ccccchHHHHHHHHHHh---------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC--cccEEEeecCCCc
Q 021937           54 DVAAHRDIVDTIDRLTS---------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY--HNMILELNASDDR  116 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~---------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~--~~~~~~~~~~~~~  116 (305)
                      +++|++..++.+...+.               .....+++|+||||||||++|+++++.+...+.  ...++.+++....
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               233446999999999999999999999855432  3356666654321


Q ss_pred             C--hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcC---------CHHHHHHHHHHHHHhcCCceEEEEecCCc---
Q 021937          117 G--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM---------TKDAQFALRRVIEKYTKNTRFALICNQVN---  182 (305)
Q Consensus       117 ~--~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l---------~~~~~~~l~~~l~~~~~~~~iil~~~~~~---  182 (305)
                      .  .......+.......        .+++|+|||+|.+         ....++.|++++++.+.+..+|++++...   
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  111111122221111        1479999999988         67788999999998887888888885432   


Q ss_pred             --ccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--------CCCHHHHHHHHHHHhh
Q 021937          183 --KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC--------NGDMRKALNILQSTHM  248 (305)
Q Consensus       183 --~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~--------~g~~r~~~~~l~~~~~  248 (305)
                        .+.+.+++|+ ..++|++|+.+++.+++..++.+.+..+++++++.+++++        .||+|.+.+.++.++.
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              3468999999 8999999999999999999999999999999999999863        4999999999987774

>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=99.86  E-value=5e-21  Score=168.61  Aligned_cols=223  Identities=17%  Similarity=0.139  Sum_probs=157.7

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhc----CCCCeEEEECCCCCcHHHHHHHHHHHHhCC-----CC-cccEE
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGA-----QY-HNMIL  108 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~-----~~-~~~~~  108 (305)
                      ....|..+|.|   ++++|++..++.+..++..    ..+++++|+||+|+|||++++.+++.+...     +. ...++
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            34567788888   6789999999988876653    445569999999999999999999987433     12 45677


Q ss_pred             EeecCCCc-ChhHH-HHHHHHhhhccc-cc------------CCCCCceEEEEEeCCCcCCHHH-HHH-HHHHHHHhcCC
Q 021937          109 ELNASDDR-GIDVV-RQQIQDFASTQS-FS------------FGVKASVKLVLLDEADAMTKDA-QFA-LRRVIEKYTKN  171 (305)
Q Consensus       109 ~~~~~~~~-~~~~~-~~~i~~~~~~~~-~~------------~~~~~~~~vliiDe~~~l~~~~-~~~-l~~~l~~~~~~  171 (305)
                      .+++.... ....+ ...+..+..... ..            ......+.+|+|||+|.+.... ++. +..+++.. .+
T Consensus        86 ~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~-~~  164 (384)
T 2qby_B           86 YVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD-AN  164 (384)
T ss_dssp             EEEHHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS-SC
T ss_pred             EEECccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC-cc
Confidence            77765432 22222 111222110000 00            0001112399999999997543 455 55555544 57


Q ss_pred             ceEEEEecCC---cccchhhhcce-eEEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHcC---CCHHHHHHH
Q 021937          172 TRFALICNQV---NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVRLCN---GDMRKALNI  242 (305)
Q Consensus       172 ~~iil~~~~~---~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~l~~~~~---g~~r~~~~~  242 (305)
                      ..+|++++..   ..+.+.+.+|+ ..+.|++++.+++.+++...+..  .+..+++++++.+++.++   ||+|.+++.
T Consensus       165 ~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~  244 (384)
T 2qby_B          165 ISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNL  244 (384)
T ss_dssp             EEEEEECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHH
T ss_pred             eEEEEEECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHH
Confidence            7888888776   56788888885 78999999999999999998875  345789999999999998   999999999


Q ss_pred             HHHHhhcc---CccCHHHHHhhhCCC
Q 021937          243 LQSTHMAS---QQITEEAVYLCTGNP  265 (305)
Q Consensus       243 l~~~~~~~---~~i~~~~v~~~~~~~  265 (305)
                      |+.+...+   ..|+.+++.+++...
T Consensus       245 l~~a~~~a~~~~~i~~~~v~~~~~~~  270 (384)
T 2qby_B          245 LFRAAQLASGGGIIRKEHVDKAIVDY  270 (384)
T ss_dssp             HHHHHHHTTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCccCHHHHHHHHHHH
Confidence            98776543   469999988777554

>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=99.86  E-value=8.5e-20  Score=158.94  Aligned_cols=195  Identities=15%  Similarity=0.187  Sum_probs=142.1

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      +.+++.|.+|++++|++..++.|...+..            ....+++|+||+|||||++|+++++.+     ...++.+
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            34567788999999999999999988752            344569999999999999999999987     4567777


Q ss_pred             ecCCCcC--hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHh----cCCce
Q 021937          111 NASDDRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY----TKNTR  173 (305)
Q Consensus       111 ~~~~~~~--~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~----~~~~~  173 (305)
                      ++.....  .......+.......     ....+.+|||||+|.+..           ..++.|+..++..    ..++.
T Consensus       149 ~~~~l~~~~~g~~~~~~~~~~~~a-----~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~  223 (357)
T 3d8b_A          149 SASSLTSKWVGEGEKMVRALFAVA-----RCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRIL  223 (357)
T ss_dssp             EGGGGCCSSTTHHHHHHHHHHHHH-----HHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEE
T ss_pred             ehHHhhccccchHHHHHHHHHHHH-----HhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEE
Confidence            7654321  112222222221111     011268999999988732           2345666666642    23566


Q ss_pred             EEEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHh
Q 021937          174 FALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTH  247 (305)
Q Consensus       174 iil~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~  247 (305)
                      +|.+++....+++.+.+|+ ..+.++.|+.++..+++...+...+..++++.++.+++.+.| ..+.+..+++.++
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            7778888888999999999 578999999999999999999888888999999999999988 4555555555444

>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=99.85  E-value=2.2e-20  Score=166.66  Aligned_cols=217  Identities=11%  Similarity=0.180  Sum_probs=154.9

Q ss_pred             cCCC-Cccccc-c--chHHHHHHHHHHhcCC-CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHH
Q 021937           47 YRPQ-SLADVA-A--HRDIVDTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (305)
Q Consensus        47 ~~p~-~~~~~~-g--~~~~~~~l~~~l~~~~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (305)
                      +.|. +|++|+ |  +......+...+.... .++++|+||+|+||||+++++++.+........++.+++...  ...+
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            4444 688887 5  4445556666666543 566999999999999999999998855433445666654431  1111


Q ss_pred             HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--HHHHHHHHHHHHhc-CCceEEEEecCCc----ccchhhhcce--
Q 021937          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSRC--  192 (305)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~-~~~~iil~~~~~~----~l~~~l~~r~--  192 (305)
                      ...+..... ..+.......+.+|+|||+|.+..  ..++.|+.+++... .+..+|++++...    .+.+++.+|+  
T Consensus       176 ~~~~~~~~~-~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~  254 (440)
T 2z4s_A          176 VDSMKEGKL-NEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQM  254 (440)
T ss_dssp             HHHHHTTCH-HHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHS
T ss_pred             HHHHHcccH-HHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccC
Confidence            111111000 000000001368999999999985  67888989888654 3456666776532    2678999998  


Q ss_pred             -eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc----cCccCHHHHHhhhCCCC
Q 021937          193 -TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTGNPL  266 (305)
Q Consensus       193 -~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~----~~~i~~~~v~~~~~~~~  266 (305)
                       ..+.+++|+.+++.+++...+...++.+++++++.|++.++||+|.+.+.|+.+...    ...|+.+++++++....
T Consensus       255 g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~~~~l~~~~  333 (440)
T 2z4s_A          255 GLVAKLEPPDEETRKSIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEAILLLKDFI  333 (440)
T ss_dssp             SBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHTSTTT
T ss_pred             CeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Confidence             689999999999999999999988999999999999999999999999999876653    34699999999887654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.1e-19  Score=157.97  Aligned_cols=200  Identities=20%  Similarity=0.255  Sum_probs=139.0

Q ss_pred             cCCCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      -...+|+++.|.++.++.|.+.+..             ..+.+++||||||||||.+|+++|+++     ...++.++++
T Consensus       176 ~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~-----~~~fi~v~~s  250 (437)
T 4b4t_I          176 SPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT-----SATFLRIVGS  250 (437)
T ss_dssp             SCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH-----TCEEEEEESG
T ss_pred             CCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh-----CCCEEEEEHH
Confidence            3445899999999999998887641             234459999999999999999999998     5677777766


Q ss_pred             CCc--C----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------H---HHHHHHHHHHHh--cCC
Q 021937          114 DDR--G----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------D---AQFALRRVIEKY--TKN  171 (305)
Q Consensus       114 ~~~--~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~---~~~~l~~~l~~~--~~~  171 (305)
                      ...  .    ...++..+..+....         ++||||||+|.+..           .   ....|+..++..  ..+
T Consensus       251 ~l~sk~vGesek~ir~lF~~Ar~~a---------P~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~  321 (437)
T 4b4t_I          251 ELIQKYLGDGPRLCRQIFKVAGENA---------PSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGD  321 (437)
T ss_dssp             GGCCSSSSHHHHHHHHHHHHHHHTC---------SEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSS
T ss_pred             HhhhccCchHHHHHHHHHHHHHhcC---------CcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCC
Confidence            432  1    223344444433322         69999999998842           1   233455555543  245


Q ss_pred             ceEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC-CHHHHHHHHHHH
Q 021937          172 TRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNG-DMRKALNILQST  246 (305)
Q Consensus       172 ~~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g-~~r~~~~~l~~~  246 (305)
                      +.+|.+||.++.+++++.+  |+ ..++|+.|+.+++.++++.++.+.+  ++++ .++.|++.+.| +...+.+++..+
T Consensus       322 ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~--l~~dvdl~~LA~~T~GfSGADI~~l~~eA  399 (437)
T 4b4t_I          322 VKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMN--LSEDVNLETLVTTKDDLSGADIQAMCTEA  399 (437)
T ss_dssp             EEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSC--BCSCCCHHHHHHHCCSCCHHHHHHHHHHH
T ss_pred             EEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCC--CCCcCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            6778889999999999998  77 6799999999999999998876554  3332 37888888865 344444455444


Q ss_pred             hhc-----cCccCHHHHHhhh
Q 021937          247 HMA-----SQQITEEAVYLCT  262 (305)
Q Consensus       247 ~~~-----~~~i~~~~v~~~~  262 (305)
                      +..     ...|+.+++..++
T Consensus       400 ~~~Air~~~~~It~eDf~~Al  420 (437)
T 4b4t_I          400 GLLALRERRMQVTAEDFKQAK  420 (437)
T ss_dssp             HHHHHHTTCSCBCHHHHHHHH
T ss_pred             HHHHHHcCCCccCHHHHHHHH
Confidence            332     2346666665544

>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=1.4e-19  Score=153.20  Aligned_cols=194  Identities=10%  Similarity=0.087  Sum_probs=137.7

Q ss_pred             cccchHHHHHHHHH----HhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCCCcChhHHHHHH
Q 021937           55 VAAHRDIVDTIDRL----TSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDDRGIDVVRQQI  125 (305)
Q Consensus        55 ~~g~~~~~~~l~~~----l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~i  125 (305)
                      +.|++..++.+...    +.++.+++++|+||||||||++++.+++.+....     ....++.++|....+...+...+
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I  101 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI  101 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH
Confidence            77888777766544    4567777899999999999999999999985321     14578889987755443332222


Q ss_pred             -HHhhhccc------------ccC--CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh---cCCceEEEEecCCc----c
Q 021937          126 -QDFASTQS------------FSF--GVKASVKLVLLDEADAMTKDAQFALRRVIEKY---TKNTRFALICNQVN----K  183 (305)
Q Consensus       126 -~~~~~~~~------------~~~--~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~---~~~~~iil~~~~~~----~  183 (305)
                       .++.....            |..  .....+.|++|||+|.+.  .++.|+.+++..   ..+..+|++++..+    .
T Consensus       102 ~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~  179 (318)
T 3te6_A          102 WFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKLSIICVGGHNVTIREQ  179 (318)
T ss_dssp             HHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHH
T ss_pred             HHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcEEEEEEecCcccchhh
Confidence             22211000            000  123457899999999998  677888888743   23456666776654    2


Q ss_pred             cchhhhcce--eEEEecCCCHHHHHHHHHHHHHHcCC-----------------------------------CCCHHHHH
Q 021937          184 IIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAEGL-----------------------------------DVTEGGLA  226 (305)
Q Consensus       184 l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~~~-----------------------------------~~~~~~~~  226 (305)
                      +.+.+.+|+  ..+.|+|++.+++.+++..++....-                                   .+++++++
T Consensus       180 L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ai~  259 (318)
T 3te6_A          180 INIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNVIVINHKINNKITQ  259 (318)
T ss_dssp             HHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CTTEEEECEECCHHHHH
T ss_pred             cchhhhccCCceEEEeCCCCHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccccccccccccCHHHHH
Confidence            456667786  67999999999999999999876421                                   36899999


Q ss_pred             HHHH---HcCCCHHHHHHHHHHHhhcc
Q 021937          227 ALVR---LCNGDMRKALNILQSTHMAS  250 (305)
Q Consensus       227 ~l~~---~~~g~~r~~~~~l~~~~~~~  250 (305)
                      .+++   ..+||+|.|++.|+.+...+
T Consensus       260 ~~A~~vA~~~GD~R~Al~ilr~A~~~a  286 (318)
T 3te6_A          260 LIAKNVANVSGSTEKAFKICEAAVEIS  286 (318)
T ss_dssp             HHHHHHHHHHCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCChHHHHHHHHHHHHHHH
Confidence            9998   56899999999999887643

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.85  E-value=1.3e-19  Score=150.89  Aligned_cols=205  Identities=19%  Similarity=0.217  Sum_probs=146.5

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      |.+++.+..|++++|.+..++.+...+..            ..+.+++|+||+|+|||++++++++.+     ...++.+
T Consensus         2 ~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~-----~~~~~~i   76 (257)
T 1lv7_A            2 LTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFTI   76 (257)
T ss_dssp             EEECSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH-----TCCEEEE
T ss_pred             CCccCCCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc-----CCCEEEE
Confidence            77888899999999999999988776542            124459999999999999999999987     3346667


Q ss_pred             ecCCCc------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--------------HHHHHHHHHHHHh--
Q 021937          111 NASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKY--  168 (305)
Q Consensus       111 ~~~~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~l~~~l~~~--  168 (305)
                      ++....      ....+...+.....         ..+++++|||+|.+..              .....++..++..  
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~a~~---------~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  147 (257)
T 1lv7_A           77 SGSDFVEMFVGVGASRVRDMFEQAKK---------AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  147 (257)
T ss_dssp             CSCSSTTSCCCCCHHHHHHHHHHHHT---------TCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS
T ss_pred             eHHHHHHHhhhhhHHHHHHHHHHHHH---------cCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCccc
Confidence            665421      12233333333322         1258999999977642              2334555556543  


Q ss_pred             cCCceEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC-CHHHHHHHH
Q 021937          169 TKNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNG-DMRKALNIL  243 (305)
Q Consensus       169 ~~~~~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g-~~r~~~~~l  243 (305)
                      +.++.+|.+++....+++.+.+  |+ ..+.+++|+.++..++++.++.+.+  ++++ ....++..+.| ++|.+.+.+
T Consensus       148 ~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~--l~~~~~~~~la~~~~G~~~~dl~~l~  225 (257)
T 1lv7_A          148 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVP--LAPDIDAAIIARGTPGFSGADLANLV  225 (257)
T ss_dssp             SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHTCTTCCHHHHHHHH
T ss_pred             CCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCC--CCccccHHHHHHHcCCCCHHHHHHHH
Confidence            3356677778888888888877  66 6789999999999999988876544  3332 36778889999 999999998


Q ss_pred             HHHhhc-----cCccCHHHHHhhhC
Q 021937          244 QSTHMA-----SQQITEEAVYLCTG  263 (305)
Q Consensus       244 ~~~~~~-----~~~i~~~~v~~~~~  263 (305)
                      +.++..     ...|+.+++++++.
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            776653     24588888876653

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.3e-19  Score=159.28  Aligned_cols=202  Identities=18%  Similarity=0.232  Sum_probs=140.5

Q ss_pred             CCCCccccccchHHHHHHHHHHh------------c-CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTS------------E-NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~------------~-~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      .+.+|+++.|.++.++.|...+.            + ..+.+++||||||||||++|+++|+++     ...++.++++.
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            34589999999999999887643            1 234459999999999999999999998     56777777765


Q ss_pred             Cc--C----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HH---HHHHHHHHHHhc--CCc
Q 021937          115 DR--G----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DA---QFALRRVIEKYT--KNT  172 (305)
Q Consensus       115 ~~--~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~---~~~l~~~l~~~~--~~~  172 (305)
                      ..  .    ...++..+..+....         ++||||||+|.+..           ..   ...|+..++...  .++
T Consensus       251 l~~~~vGese~~ir~lF~~A~~~a---------P~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~V  321 (434)
T 4b4t_M          251 LVQMYIGEGAKLVRDAFALAKEKA---------PTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRV  321 (434)
T ss_dssp             GCSSCSSHHHHHHHHHHHHHHHHC---------SEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSS
T ss_pred             hhhcccchHHHHHHHHHHHHHhcC---------CeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCE
Confidence            32  2    223344443333322         69999999998721           12   234555555433  345


Q ss_pred             eEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhh
Q 021937          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM  248 (305)
Q Consensus       173 ~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~  248 (305)
                      .+|.+||.++.+++++.+  |+ ..++|+.|+.+++.++++.++.+....- +-.++.|++.+.| +...+.+++..++.
T Consensus       322 iVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~-dvdl~~lA~~t~G~sGADi~~l~~eA~~  400 (434)
T 4b4t_M          322 KVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDD-DINWQELARSTDEFNGAQLKAVTVEAGM  400 (434)
T ss_dssp             EEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCS-CCCHHHHHHHCSSCCHHHHHHHHHHHHH
T ss_pred             EEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCC-cCCHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            677788999999999987  77 6799999999999999998888765421 1236788988876 44445555544433


Q ss_pred             -----ccCccCHHHHHhhhCC
Q 021937          249 -----ASQQITEEAVYLCTGN  264 (305)
Q Consensus       249 -----~~~~i~~~~v~~~~~~  264 (305)
                           ....|+.+++.+++..
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                 2345788877766643

>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=99.84  E-value=5.8e-19  Score=147.25  Aligned_cols=186  Identities=20%  Similarity=0.185  Sum_probs=128.8

Q ss_pred             CCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      +.+|++++|++..++.+.+.+..            ....+++|+||||||||++++++++.+     ...++.+++....
T Consensus         2 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~-----~~~~~~~~~~~~~   76 (262)
T 2qz4_A            2 GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA-----QVPFLAMAGAEFV   76 (262)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCCEEEEETTTTS
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEechHHHH
Confidence            35789999999999988877542            233459999999999999999999987     4456777766532


Q ss_pred             C------hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH------------HHHHHHHHHHH---H--hcCCce
Q 021937          117 G------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIE---K--YTKNTR  173 (305)
Q Consensus       117 ~------~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~------------~~~~~l~~~l~---~--~~~~~~  173 (305)
                      .      ...+...+..+..         ..+.+|+|||+|.+..            ..+..+..+++   .  .+.++.
T Consensus        77 ~~~~~~~~~~~~~~~~~a~~---------~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~  147 (262)
T 2qz4_A           77 EVIGGLGAARVRSLFKEARA---------RAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVI  147 (262)
T ss_dssp             SSSTTHHHHHHHHHHHHHHH---------TCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEE
T ss_pred             hhccChhHHHHHHHHHHHHh---------cCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEE
Confidence            1      1222233332221         1258999999999842            22333444444   3  223566


Q ss_pred             EEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCC-HHHHHHHHHHHhh
Q 021937          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNGD-MRKALNILQSTHM  248 (305)
Q Consensus       174 iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~~~g~-~r~~~~~l~~~~~  248 (305)
                      +|.+++....+++++.+  |+ ..+.+++|+.++..++++..+...+...+.+. ...+++.+.|. .+.+.++++.++.
T Consensus       148 vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~a~~  227 (262)
T 2qz4_A          148 VLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAAL  227 (262)
T ss_dssp             EEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHHHHHT
T ss_pred             EEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence            77778888888899988  88 78999999999999999999998887777654 47888888774 4566666666654

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.84  E-value=7.7e-19  Score=154.53  Aligned_cols=199  Identities=18%  Similarity=0.226  Sum_probs=138.3

Q ss_pred             CCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      ..+|+++.|.++.++.|...+..             ..+.+++||||||||||++|+++|+++     ...++.++++..
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            34799999999999998887641             233459999999999999999999998     566777776643


Q ss_pred             c--Ch----hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--------------HHHHHHHHHHHHhc--CCce
Q 021937          116 R--GI----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT--KNTR  173 (305)
Q Consensus       116 ~--~~----~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~l~~~l~~~~--~~~~  173 (305)
                      .  ..    ..++..+..+...         .++||||||+|.+..              .....|+..++...  .++.
T Consensus       252 ~sk~~Gese~~ir~~F~~A~~~---------~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vi  322 (437)
T 4b4t_L          252 VDKYIGESARIIREMFAYAKEH---------EPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTK  322 (437)
T ss_dssp             CCSSSSHHHHHHHHHHHHHHHS---------CSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSE
T ss_pred             ccccchHHHHHHHHHHHHHHhc---------CCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeE
Confidence            2  22    2233333333222         269999999998842              12345666666433  3567


Q ss_pred             EEEEecCCcccchhhhcc--e-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhhc
Q 021937          174 FALICNQVNKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHMA  249 (305)
Q Consensus       174 iil~~~~~~~l~~~l~~r--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~~  249 (305)
                      +|++||.++.+++++.++  + ..++|+.|+.+++.++++.++.+.... ++..++.+++.+.| +...+.+++..++..
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            888899999999999875  5 679999999999999999888765432 22236788988876 444444555444332


Q ss_pred             -----cCccCHHHHHhhh
Q 021937          250 -----SQQITEEAVYLCT  262 (305)
Q Consensus       250 -----~~~i~~~~v~~~~  262 (305)
                           ...|+.+++.+++
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                 2346666665544

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.84  E-value=5.9e-19  Score=151.33  Aligned_cols=189  Identities=19%  Similarity=0.205  Sum_probs=139.7

Q ss_pred             hcCCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           46 KYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        46 ~~~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      .+.+.+|+++.|.+..++.|.+.+..            ..+.+++|+||||||||++|+++++.+.    ...++.++++
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            34566899999999999999887741            2234599999999999999999999862    2356666665


Q ss_pred             CCc------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHHh---cCCce
Q 021937          114 DDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY---TKNTR  173 (305)
Q Consensus       114 ~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~~---~~~~~  173 (305)
                      ...      ....++..+..+..         ..+++|||||+|.+.           ....+.|+..++..   ..++.
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            421      22333443333322         126899999999983           12345667777653   34566


Q ss_pred             EEEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHh
Q 021937          174 FALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTH  247 (305)
Q Consensus       174 iil~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~-~r~~~~~l~~~~  247 (305)
                      +|.++|.+..+++++.+|+ ..+.++.|+.++..++++..+...+..+++..++.|++.+.|- .+.+.++++.++
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 7899999999999999999988777778899999999999875 555555555554

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.84  E-value=2.4e-19  Score=157.18  Aligned_cols=198  Identities=20%  Similarity=0.294  Sum_probs=136.6

Q ss_pred             CCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      .+|+++.|.++.++.|++.+.-             ..+.+++||||||||||++|+++|+++     ...++.++++...
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            4799999999999999877531             234559999999999999999999998     5677777776532


Q ss_pred             --C----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------H---HHHHHHHHHHHh--cCCceE
Q 021937          117 --G----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------D---AQFALRRVIEKY--TKNTRF  174 (305)
Q Consensus       117 --~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~---~~~~l~~~l~~~--~~~~~i  174 (305)
                        .    ...++..+..+....         ++||||||+|.+..           .   ....++..++..  ..++.+
T Consensus       281 sk~vGesek~ir~lF~~Ar~~a---------P~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViV  351 (467)
T 4b4t_H          281 QKYVGEGARMVRELFEMARTKK---------ACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKV  351 (467)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHTC---------SEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEE
T ss_pred             cccCCHHHHHHHHHHHHHHhcC---------CceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEE
Confidence              1    223444444433322         69999999998842           1   223444555533  235567


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhh--
Q 021937          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM--  248 (305)
Q Consensus       175 il~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~--  248 (305)
                      |.+||.++.+++++.+  || ..++|+.|+.+++.++++.++....+.- +-.++.|++.+.| +...+.+++..++.  
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 MFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVER-GIRWELISRLCPNSTGAELRSVCTEAGMFA  430 (467)
T ss_dssp             EEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCS-SCCHHHHHHHCCSCCHHHHHHHHHHHHHHH
T ss_pred             EeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCC-CCCHHHHHHHCCCCCHHHHHHHHHHHHHHH
Confidence            7788999999999988  88 7899999999999999998876554321 1236788888876 34444444544433  


Q ss_pred             ---ccCccCHHHHHhhh
Q 021937          249 ---ASQQITEEAVYLCT  262 (305)
Q Consensus       249 ---~~~~i~~~~v~~~~  262 (305)
                         ....++.+++..++
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               22346666665543

>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=99.84  E-value=6.7e-20  Score=156.68  Aligned_cols=204  Identities=19%  Similarity=0.272  Sum_probs=144.7

Q ss_pred             cccccchHHHHHHHHHHhc--------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC-
Q 021937           53 ADVAAHRDIVDTIDRLTSE--------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-  117 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~--------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-  117 (305)
                      +.++|++..++.+...+..              ..+.+++|+||||||||++++++++.+     ...++.+++..... 
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            3589999999998887754              234569999999999999999999998     34566666654221 


Q ss_pred             -------hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHH------------HHHHHHHHHHh----------
Q 021937          118 -------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA------------QFALRRVIEKY----------  168 (305)
Q Consensus       118 -------~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~------------~~~l~~~l~~~----------  168 (305)
                             ...+...+......  +.  ...+++||+|||+|.+....            ++.|+.+++..          
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~--~~--~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~  165 (310)
T 1ofh_A           90 GYVGKEVDSIIRDLTDSAGGA--ID--AVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVK  165 (310)
T ss_dssp             CSGGGSTTHHHHHHHHTTTTC--HH--HHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEE
T ss_pred             CccCccHHHHHHHHHHHhhHH--Hh--hccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEeccccccc
Confidence                   11122222211000  00  00126899999999997554            78899999863          


Q ss_pred             cCCceEEEEe----cCCcccchhhhcce-eEEEecCCCHHHHHHHHHH-----------HHHHcC--CCCCHHHHHHHHH
Q 021937          169 TKNTRFALIC----NQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKH-----------VIEAEG--LDVTEGGLAALVR  230 (305)
Q Consensus       169 ~~~~~iil~~----~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~-----------~~~~~~--~~~~~~~~~~l~~  230 (305)
                      ..+..+|+++    +....+.+++.+|+ ..+.|++|+.+++.+++..           .+...+  ..+++++++.|++
T Consensus       166 ~~~~~~i~~~~~~~~~~~~l~~~l~~R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~  245 (310)
T 1ofh_A          166 TDHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAE  245 (310)
T ss_dssp             CTTCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHH
T ss_pred             CCcEEEEEcCCcccCCcccCCHHHHhhCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHHHHHH
Confidence            2345566663    34567889999999 5699999999999998872           222344  3689999999999


Q ss_pred             Hc--------CCCHHHHHHHHHHHhh-----c---cC---ccCHHHHHhhhCCC
Q 021937          231 LC--------NGDMRKALNILQSTHM-----A---SQ---QITEEAVYLCTGNP  265 (305)
Q Consensus       231 ~~--------~g~~r~~~~~l~~~~~-----~---~~---~i~~~~v~~~~~~~  265 (305)
                      .+        .||+|.+.+.++.+..     .   .+   .|+.++|+++++..
T Consensus       246 ~~~~~~~~~~~g~~R~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~v~~~l~~~  299 (310)
T 1ofh_A          246 AAFRVNEKTENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADALGEV  299 (310)
T ss_dssp             HHHHHHHHSCCCTTHHHHHHHHHHSHHHHHHGGGCTTCEEEECHHHHHHHTCSS
T ss_pred             HhhhhcccccccCcHHHHHHHHHHHHhhhcCCccccCCEEEEeeHHHHHHHHhh
Confidence            88        7999999999987652     1   11   38999999888754

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.84  E-value=1.9e-19  Score=152.10  Aligned_cols=205  Identities=19%  Similarity=0.233  Sum_probs=141.5

Q ss_pred             CCCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      .+..|++++|++..++.|...+..             ....+++|+||||||||++++++++.+     ...++.+++..
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             345569999999999999999999987     44566665543


Q ss_pred             Cc--ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcC-----------CHHHHHHHHHHHHHh-----cCCceEEE
Q 021937          115 DR--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM-----------TKDAQFALRRVIEKY-----TKNTRFAL  176 (305)
Q Consensus       115 ~~--~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l-----------~~~~~~~l~~~l~~~-----~~~~~iil  176 (305)
                      ..  ........+........     ...++||+|||+|.+           ....+..+..+++..     ..++.+|+
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~-----~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~  161 (285)
T 3h4m_A           87 LVKKFIGEGASLVKDIFKLAK-----EKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIG  161 (285)
T ss_dssp             GCCCSTTHHHHHHHHHHHHHH-----HTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEE
T ss_pred             HHHhccchHHHHHHHHHHHHH-----HcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEE
Confidence            21  12222222222211110     112589999999987           345566676666643     23567777


Q ss_pred             EecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhh----
Q 021937          177 ICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM----  248 (305)
Q Consensus       177 ~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~----  248 (305)
                      +++....+++.+.+  |+ ..+.+++|+.++..++++..+...+.. .+..+..++..+.| +.+.+..++..+..    
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            88888889999988  87 579999999999999999887665543 22346778888876 55555555554443    


Q ss_pred             -ccCccCHHHHHhhhC
Q 021937          249 -ASQQITEEAVYLCTG  263 (305)
Q Consensus       249 -~~~~i~~~~v~~~~~  263 (305)
                       ....|+.+++.+++.
T Consensus       241 ~~~~~I~~~d~~~al~  256 (285)
T 3h4m_A          241 ELRDYVTMDDFRKAVE  256 (285)
T ss_dssp             TTCSSBCHHHHHHHHH
T ss_pred             hccCcCCHHHHHHHHH
Confidence             224588888877664

>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=99.83  E-value=8.1e-20  Score=157.27  Aligned_cols=204  Identities=14%  Similarity=0.176  Sum_probs=143.0

Q ss_pred             Cccccc-c--chHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHH
Q 021937           51 SLADVA-A--HRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (305)
Q Consensus        51 ~~~~~~-g--~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (305)
                      +|++|+ |  +......+..++...  ..++++|+||+|+|||++++++++.+...  ...++.+++...  ...+...+
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 3  555566777777664  34569999999999999999999988544  334555554321  11111111


Q ss_pred             HHhhhcccccCCCCCceEEEEEeCCCcCCH--HHHHHHHHHHHHhc-CCceEEEEecCCc----ccchhhhcce---eEE
Q 021937          126 QDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSRC---TRF  195 (305)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~-~~~~iil~~~~~~----~l~~~l~~r~---~~i  195 (305)
                      ..... ..+.. ...++.+|+|||+|.+..  ..++.++.+++... .+..++++++...    .+.+++.+|+   ..+
T Consensus        85 ~~~~~-~~~~~-~~~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i  162 (324)
T 1l8q_A           85 KKGTI-NEFRN-MYKSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILV  162 (324)
T ss_dssp             HHTCH-HHHHH-HHHTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEE
T ss_pred             HcCcH-HHHHH-HhcCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEE
Confidence            11000 00000 001258999999999985  66778888887543 3456666665432    4788999998   789


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc---------cCcc-CHHHHHhhh
Q 021937          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA---------SQQI-TEEAVYLCT  262 (305)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~---------~~~i-~~~~v~~~~  262 (305)
                      .++| +.+++.+++...+...++.+++++++.|++.+ ||+|.+.+.++.++..         ...| +.+++.+++
T Consensus       163 ~l~~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~~~~-g~~r~l~~~l~~~~~~~~~~l~~~~~~~i~t~~~i~~~~  237 (324)
T 1l8q_A          163 EIEL-DNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIKLKGFEGLERKERKERDKLMQIVEFV  237 (324)
T ss_dssp             ECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC-CCHHHHHHHHHHHHHcCHHHhccccccCCCCHHHHHHHH
Confidence            9999 99999999999999999999999999999999 9999999999877655         1236 667766654

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.83  E-value=1.4e-18  Score=152.66  Aligned_cols=198  Identities=20%  Similarity=0.260  Sum_probs=138.5

Q ss_pred             CCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           50 QSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      .+|+++.|.+..++.|...+..             ..+.+++||||||||||++|+++|+++     ...++.++++...
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            4799999999999988887641             233459999999999999999999998     5677777776532


Q ss_pred             --C----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--------------HHHHHHHHHHHHhc--CCceE
Q 021937          117 --G----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT--KNTRF  174 (305)
Q Consensus       117 --~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~l~~~l~~~~--~~~~i  174 (305)
                        .    ...++..+..+....         ++||+|||+|.+..              .....|+..++...  .++.+
T Consensus       244 ~~~~Ge~e~~ir~lF~~A~~~a---------P~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~v  314 (428)
T 4b4t_K          244 HKYLGEGPRMVRDVFRLARENA---------PSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKV  314 (428)
T ss_dssp             CSSCSHHHHHHHHHHHHHHHTC---------SEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEE
T ss_pred             ccccchhHHHHHHHHHHHHHcC---------CCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEE
Confidence              1    233444444433322         69999999987621              23456777777543  35677


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEec-CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhh-
Q 021937          175 ALICNQVNKIIPALQS--RC-TRFRFA-PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM-  248 (305)
Q Consensus       175 il~~~~~~~l~~~l~~--r~-~~i~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~-  248 (305)
                      |++||.++.+++++.+  |+ ..+.|+ .|+.+++..+++.++.+.+.. ++..++.|++.+.| +...+.++++.++. 
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  67 568896 688899999998888755432 12237888888866 44444455544433 


Q ss_pred             ----ccCccCHHHHHhhh
Q 021937          249 ----ASQQITEEAVYLCT  262 (305)
Q Consensus       249 ----~~~~i~~~~v~~~~  262 (305)
                          ....|+.+++.+++
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                22457777776654

>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=99.82  E-value=4.9e-19  Score=158.26  Aligned_cols=193  Identities=18%  Similarity=0.205  Sum_probs=141.0

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHh------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTS------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      +...+.+..|++++|++..++.|...+.            .....+++|+||||||||++|+++++.+.    ...++.+
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            3445677899999999999999998873            12335699999999999999999999862    2356666


Q ss_pred             ecCCCc------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHHh---cC
Q 021937          111 NASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY---TK  170 (305)
Q Consensus       111 ~~~~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~~---~~  170 (305)
                      +++...      ....++..+..+..         ..++||||||+|.+.           ....+.|+..++..   +.
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            665421      11223333333221         126899999999983           23445566666542   34


Q ss_pred             CceEEEEecCCcccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhh
Q 021937          171 NTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM  248 (305)
Q Consensus       171 ~~~iil~~~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~  248 (305)
                      ++.+|.++|.+..+++++.+|| ..+.++.|+.+++..++...+...+..+++..++.|++.+.| +.+.+.++++.++.
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            6778888899999999999999 689999999999999999988777767889999999999988 55566666655543

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.82  E-value=1.4e-19  Score=159.25  Aligned_cols=215  Identities=21%  Similarity=0.324  Sum_probs=148.8

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhc----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC-cccEEEeecCCC
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNASDD  115 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-~~~~~~~~~~~~  115 (305)
                      .+|...|.|   ++++|++..++.+..++..    .....++|+||+|+|||++++.+++.+..... ...++.+++...
T Consensus        11 ~~l~~~~~p---~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~   87 (386)
T 2qby_A           11 EYLLPDYIP---DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQI   87 (386)
T ss_dssp             GGGSSSCCC---SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHH
T ss_pred             hhCCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCC
Confidence            345555665   6789999999999998873    44456999999999999999999998743311 334555554321


Q ss_pred             cC----------------------hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH----HHHHHHHHHHHHh-
Q 021937          116 RG----------------------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK----DAQFALRRVIEKY-  168 (305)
Q Consensus       116 ~~----------------------~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~----~~~~~l~~~l~~~-  168 (305)
                      ..                      ...+...+......       ...+.+|+|||++.+..    +....|++.++.. 
T Consensus        88 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~-------~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~  160 (386)
T 2qby_A           88 DTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRD-------YGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVN  160 (386)
T ss_dssp             CSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHT-------CCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCC
T ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhc-------cCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcC
Confidence            11                      11212222222111       12268999999999863    3344455555432 


Q ss_pred             cCCceEEEEecCC---cccchhhhcce--eEEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHcC---CCHHH
Q 021937          169 TKNTRFALICNQV---NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLCN---GDMRK  238 (305)
Q Consensus       169 ~~~~~iil~~~~~---~~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~l~~~~~---g~~r~  238 (305)
                      ..+..+|++++..   ..+.+.+.+|+  ..+.|++++.+++.+++...+...  ...+++++++.+++.+.   |++|.
T Consensus       161 ~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~  240 (386)
T 2qby_A          161 KSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARR  240 (386)
T ss_dssp             C--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHH
T ss_pred             CCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHH
Confidence            3356677777765   35667788887  689999999999999999887643  35689999999999998   99999


Q ss_pred             HHHHHHHHhhc-----cCccCHHHHHhhhCCC
Q 021937          239 ALNILQSTHMA-----SQQITEEAVYLCTGNP  265 (305)
Q Consensus       239 ~~~~l~~~~~~-----~~~i~~~~v~~~~~~~  265 (305)
                      +++.++.++..     ...|+.++++.++...
T Consensus       241 ~~~ll~~a~~~a~~~~~~~i~~~~v~~a~~~~  272 (386)
T 2qby_A          241 ALDLLRVSGEIAERMKDTKVKEEYVYMAKEEI  272 (386)
T ss_dssp             HHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCccCHHHHHHHHHHH
Confidence            99999876652     2468999888766543

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.80  E-value=6.7e-19  Score=151.98  Aligned_cols=212  Identities=15%  Similarity=0.150  Sum_probs=151.3

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhH
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (305)
                      .+|.++++|..+.+++|++..++.+...+..+  .+++|+||||+|||++++++++.+     ...+..+++........
T Consensus        15 ~~~~~~~~~~~~~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~-----~~~~~~i~~~~~~~~~~   87 (331)
T 2r44_A           15 RNKIKEVIDEVGKVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTM-----DLDFHRIQFTPDLLPSD   87 (331)
T ss_dssp             HHHHHHHHHHHTTTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHT-----TCCEEEEECCTTCCHHH
T ss_pred             HHHHHHHHHHhccceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHh-----CCCeEEEecCCCCChhh
Confidence            36889999999999999999999998888775  469999999999999999999987     33455555543222222


Q ss_pred             HHHHHHHhhhc---c--cccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-----------cCCceEEEEecCCc--
Q 021937          121 VRQQIQDFAST---Q--SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVN--  182 (305)
Q Consensus       121 ~~~~i~~~~~~---~--~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~iil~~~~~~--  182 (305)
                      +   +......   .  .+..+ .-..++++|||++.+....++.|+..+++.           +....++.++|...  
T Consensus        88 l---~g~~~~~~~~~~~~~~~g-~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~  163 (331)
T 2r44_A           88 L---IGTMIYNQHKGNFEVKKG-PVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQE  163 (331)
T ss_dssp             H---HEEEEEETTTTEEEEEEC-TTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCS
T ss_pred             c---CCceeecCCCCceEeccC-cccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCccc
Confidence            1   1100000   0  00000 001369999999999999999999999964           23344554555332  


Q ss_pred             ---ccchhhhccee-EEEecCCCHHHHHHHHHHHHHH----------------------cCCCCCHHHHHHHHHHc----
Q 021937          183 ---KIIPALQSRCT-RFRFAPLEPVHVTERLKHVIEA----------------------EGLDVTEGGLAALVRLC----  232 (305)
Q Consensus       183 ---~l~~~l~~r~~-~i~~~~~~~~~~~~~l~~~~~~----------------------~~~~~~~~~~~~l~~~~----  232 (305)
                         .+++++.+||. .+.+++|+.++..++++..+..                      .++.+++++++.+++.+    
T Consensus       164 ~~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~i~~~~~~~r  243 (331)
T 2r44_A          164 GTYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISESLEKYIIELVFATR  243 (331)
T ss_dssp             CCCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHHHHHHHHHHHHHHH
T ss_pred             CcccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHh
Confidence               37899999995 5999999999999999887654                      26678999998888754    


Q ss_pred             -CC---------------CHHHHHHHHHHHhh-----ccCccCHHHHHhhhC
Q 021937          233 -NG---------------DMRKALNILQSTHM-----ASQQITEEAVYLCTG  263 (305)
Q Consensus       233 -~g---------------~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~~  263 (305)
                       .|               ++|.+.+.++.+..     ....++.+++.+++.
T Consensus       244 ~~~~~~~~~~~~~~~~~~s~R~~~~ll~~a~a~A~l~g~~~v~~~dv~~~~~  295 (331)
T 2r44_A          244 FPAEYGLEAEASYILYGASTRAAINLNRVAKAMAFFNNRDYVLPEDIKEVAY  295 (331)
T ss_dssp             SGGGGTCHHHHHHEEECCCHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHH
T ss_pred             ccccccccccccccccCcChhHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence             22               69999888865443     224589999887664

>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=99.79  E-value=1.9e-18  Score=150.18  Aligned_cols=216  Identities=14%  Similarity=0.146  Sum_probs=140.3

Q ss_pred             cCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCC----CCcc-----------------
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA----QYHN-----------------  105 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~----~~~~-----------------  105 (305)
                      -+|.+|++++|++..++.+..........+++|+||||||||++|+++++.+...    +...                 
T Consensus        18 ~~~~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (350)
T 1g8p_A           18 RPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLST   97 (350)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCC
T ss_pred             CCCCCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCccccccccccccccccccccchhhhhcc
Confidence            3567899999999988776655554444569999999999999999999987421    0000                 


Q ss_pred             -------cEEEeecCCCcChhHH------HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh----
Q 021937          106 -------MILELNASDDRGIDVV------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY----  168 (305)
Q Consensus       106 -------~~~~~~~~~~~~~~~~------~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~----  168 (305)
                             .++.+...  .....+      ...+...........-..+.+++++|||++.+..+.++.|+.+++..    
T Consensus        98 ~~~~~~~~~~~~~~~--~~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~~~~~~Ll~~le~~~~~~  175 (350)
T 1g8p_A           98 NVIRKPTPVVDLPLG--VSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVV  175 (350)
T ss_dssp             CEEEECCCEEEECTT--CCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEE
T ss_pred             ccccCCCcccccCCC--cchhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCCHHHHHHHHHHHhcCceEE
Confidence                   11111110  111111      11111110000000001123689999999999999999999999974    


Q ss_pred             ---------cCCceEEEEecCCc-ccchhhhccee-EEEecCCC-HHHHHHHHHHH------------------------
Q 021937          169 ---------TKNTRFALICNQVN-KIIPALQSRCT-RFRFAPLE-PVHVTERLKHV------------------------  212 (305)
Q Consensus       169 ---------~~~~~iil~~~~~~-~l~~~l~~r~~-~i~~~~~~-~~~~~~~l~~~------------------------  212 (305)
                               +.+..+|.++|... .+.+++.+||. .+.+++|+ .++..+++...                        
T Consensus       176 ~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~R~~~~~~l~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~  255 (350)
T 1g8p_A          176 ERDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQ  255 (350)
T ss_dssp             CCTTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHH
T ss_pred             EecceEEeeCCceEEEEEeCCCCCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHHHhcccCchhhccccccchHHHHHH
Confidence                     23455666677544 78899999995 49999995 44444665442                        


Q ss_pred             -----HHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHHHHHhhc-----cCccCHHHHHhhhCC
Q 021937          213 -----IEAEGLDVTEGGLAALVRLCNG----DMRKALNILQSTHMA-----SQQITEEAVYLCTGN  264 (305)
Q Consensus       213 -----~~~~~~~~~~~~~~~l~~~~~g----~~r~~~~~l~~~~~~-----~~~i~~~~v~~~~~~  264 (305)
                           ....++.+++++++.|++.+.+    ++|.+.+.++.+...     ...|+.+++.+++..
T Consensus       256 i~~~~~~~~~~~ls~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~~A~~~~~~~v~~~~v~~a~~~  321 (350)
T 1g8p_A          256 ILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEGATAVGRDHLKRVATM  321 (350)
T ss_dssp             HHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHH
Confidence                 1223567999999999998866    899999999765442     245899998876643

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.79  E-value=1.1e-18  Score=157.10  Aligned_cols=194  Identities=15%  Similarity=0.211  Sum_probs=140.1

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCC
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~  114 (305)
                      ..+|.++++|..+++++|++..++.+...+.....++++|+||||||||++++.+++.+.+..     ....++.+++..
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            456889999999999999999999999999988888899999999999999999999985532     133455555541


Q ss_pred             ---CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc-----ccch
Q 021937          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN-----KIIP  186 (305)
Q Consensus       115 ---~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~-----~l~~  186 (305)
                         ......+...+.....         .++.+||||    ...+.++.|...++..  ...+|.+++...     .+++
T Consensus       247 ~~~g~~e~~~~~~~~~~~~---------~~~~iLfiD----~~~~a~~~L~~~L~~g--~v~vI~at~~~e~~~~~~~~~  311 (468)
T 3pxg_A          247 KYRGEFEDRLKKVMDEIRQ---------AGNIILFID----AAIDASNILKPSLARG--ELQCIGATTLDEYRKYIEKDA  311 (468)
T ss_dssp             ------CTTHHHHHHHHHT---------CCCCEEEEC----C--------CCCTTSS--SCEEEEECCTTTTHHHHTTCS
T ss_pred             cccchHHHHHHHHHHHHHh---------cCCeEEEEe----CchhHHHHHHHhhcCC--CEEEEecCCHHHHHHHhhcCH
Confidence               1111233344443322         125899999    3334555566666532  567777777665     5789


Q ss_pred             hhhcceeEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHhh
Q 021937          187 ALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTHM  248 (305)
Q Consensus       187 ~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g------~~r~~~~~l~~~~~  248 (305)
                      ++.+||..+.|++|+.++...++...+..    .++.++++++..+++++.+      -++.+++.++.++.
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            99999999999999999999999987765    6788999999999987653      36789999877664

>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=99.79  E-value=1e-17  Score=149.61  Aligned_cols=199  Identities=19%  Similarity=0.248  Sum_probs=140.8

Q ss_pred             CCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      ..+|++++|.++.++.+.+.+..            ..+.+++|+||||||||+++++++...     ...++.++++...
T Consensus        12 ~~~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~-----~~~f~~is~~~~~   86 (476)
T 2ce7_A           12 RVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA-----NVPFFHISGSDFV   86 (476)
T ss_dssp             CCCGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH-----TCCEEEEEGGGTT
T ss_pred             CCCHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCeeeCCHHHHH
Confidence            45789999999999888877542            123459999999999999999999987     4567777665432


Q ss_pred             C------hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--------------HHHHHHHHHHHHh--cCCceE
Q 021937          117 G------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKY--TKNTRF  174 (305)
Q Consensus       117 ~------~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~l~~~l~~~--~~~~~i  174 (305)
                      .      ...++..+..+...         .+++|||||+|.+..              ..++.|+..++..  ..++.+
T Consensus        87 ~~~~g~~~~~~r~lf~~A~~~---------~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viV  157 (476)
T 2ce7_A           87 ELFVGVGAARVRDLFAQAKAH---------APCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIV  157 (476)
T ss_dssp             TCCTTHHHHHHHHHHHHHHHT---------CSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEE
T ss_pred             HHHhcccHHHHHHHHHHHHhc---------CCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEE
Confidence            1      12233333333221         268999999998843              2345566666642  345677


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCCCH-HHHHHHHHHHhhc
Q 021937          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNGDM-RKALNILQSTHMA  249 (305)
Q Consensus       175 il~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g~~-r~~~~~l~~~~~~  249 (305)
                      |.++|..+.+++.+.+  || ..+.+++|+.+++.++++.++...+  +.++ .+..+++.+.|+. +.+.+++..++..
T Consensus       158 IaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~--l~~~v~l~~la~~t~G~sgadL~~lv~~Aal~  235 (476)
T 2ce7_A          158 MAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKP--LAEDVNLEIIAKRTPGFVGADLENLVNEAALL  235 (476)
T ss_dssp             EEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHH
T ss_pred             EEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCC--CcchhhHHHHHHhcCCCcHHHHHHHHHHHHHH
Confidence            7788888888888876  77 5789999999999999988776544  3333 3677999999977 6777777665542


Q ss_pred             -----cCccCHHHHHhhhC
Q 021937          250 -----SQQITEEAVYLCTG  263 (305)
Q Consensus       250 -----~~~i~~~~v~~~~~  263 (305)
                           ...|+.+++..++.
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                 24588888877664

>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=2.3e-18  Score=147.33  Aligned_cols=194  Identities=16%  Similarity=0.222  Sum_probs=138.7

Q ss_pred             cccccchHHHHHHHHHHhcC--------CC-CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHH
Q 021937           53 ADVAAHRDIVDTIDRLTSEN--------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~--------~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (305)
                      ..++|++..++.+...+...        .+ .+++|+||+|||||++|+++++.+...+.  .++.+++...........
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            46789999999888887653        12 35999999999999999999999865433  455666554322222222


Q ss_pred             HHHHhhhcccccC-------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecC-----
Q 021937          124 QIQDFASTQSFSF-------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQ-----  180 (305)
Q Consensus       124 ~i~~~~~~~~~~~-------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~-----  180 (305)
                      .+...........       ....++++++|||++.++...++.|++++++..           .++.+|+++|.     
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            2110000000000       001235899999999999999999999999754           24558888877     


Q ss_pred             ---------------------Ccccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHH
Q 021937          181 ---------------------VNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVTEGGLAALV  229 (305)
Q Consensus       181 ---------------------~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~~~~~l~  229 (305)
                                           ...+.+++.+|+ ..+.|.||+.+++..++...+.+.         ...+++++++.++
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                                 335778889999 789999999999999888866542         3468999999999


Q ss_pred             HHc---CCCHHHHHHHHHHHhh
Q 021937          230 RLC---NGDMRKALNILQSTHM  248 (305)
Q Consensus       230 ~~~---~g~~r~~~~~l~~~~~  248 (305)
                      +++   +|++|.+.+.++.++.
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            975   4999999999987765

>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=99.79  E-value=5.8e-18  Score=143.99  Aligned_cols=187  Identities=19%  Similarity=0.243  Sum_probs=130.1

Q ss_pred             hcCCCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           46 KYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        46 ~~~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      ...+.+|++++|.+..++.|...+..             ....+++|+||||||||++++++++.+     ...++.+++
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            34556789999999999999888753             234459999999999999999999987     345666665


Q ss_pred             CCC------cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------------HHHHHHHHHHHh--cC
Q 021937          113 SDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKY--TK  170 (305)
Q Consensus       113 ~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------------~~~~l~~~l~~~--~~  170 (305)
                      ...      .....+...+..+..         ..+++|+|||+|.+...              .+..|+..++..  ..
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            321      111223333333322         12689999999987643              256778888743  34


Q ss_pred             CceEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q 021937          171 NTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQST  246 (305)
Q Consensus       171 ~~~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~  246 (305)
                      ++.+|.+||..+.+++++.+  |+ ..+++++|+.+++.++++..+.+.+.. .+..++.++..+.| ..+.+.++++.+
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            56778888888889999887  77 679999999999999999888766542 22234567776654 334455555444


Q ss_pred             h
Q 021937          247 H  247 (305)
Q Consensus       247 ~  247 (305)
                      +
T Consensus       233 ~  233 (301)
T 3cf0_A          233 C  233 (301)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=1e-17  Score=139.98  Aligned_cols=205  Identities=16%  Similarity=0.136  Sum_probs=134.0

Q ss_pred             CccccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHh
Q 021937           51 SLADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (305)
                      +|++++|++..+..+...+..  ....+++|+||+|||||++|+++++.....  ...++.+++.... ...+...+...
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            578899999888887766653  233559999999999999999999876332  3457777776532 22222211100


Q ss_pred             hhcccccCC--------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-----------cCCceEEEEecCCc-------
Q 021937          129 ASTQSFSFG--------VKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVN-------  182 (305)
Q Consensus       129 ~~~~~~~~~--------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~iil~~~~~~-------  182 (305)
                      . ...+.+.        ....+++|+|||++.++.+.+..|+.++++.           +.++.+|++++...       
T Consensus        81 ~-~~~~~g~~~~~~~~l~~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~~~~~~~~~~  159 (265)
T 2bjv_A           81 E-AGAFTGAQKRHPGRFERADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVNEG  159 (265)
T ss_dssp             C----------CCCCHHHHTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESSCHHHHHHHT
T ss_pred             c-ccccccccccccchhhhcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCcCHHHHHHcC
Confidence            0 0000000        0123579999999999999999999999864           34677888887642       


Q ss_pred             ccchhhhcce--eEEEecCCCH--HHHHHHHHH----HHHHcCC----CCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhc
Q 021937          183 KIIPALQSRC--TRFRFAPLEP--VHVTERLKH----VIEAEGL----DVTEGGLAALVRLC-NGDMRKALNILQSTHMA  249 (305)
Q Consensus       183 ~l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~----~~~~~~~----~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~  249 (305)
                      .+.+++.+|+  ..+.++++..  +++..++..    .+...+.    .+++++++.+..+. +||+|.+.+.++.++..
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            3567888887  3577777765  555555443    3344454    68999999998775 89999999999887653


Q ss_pred             c--CccCHHHHH
Q 021937          250 S--QQITEEAVY  259 (305)
Q Consensus       250 ~--~~i~~~~v~  259 (305)
                      .  ..|+.+++.
T Consensus       240 ~~~~~i~~~~l~  251 (265)
T 2bjv_A          240 HGTSDYPLDDII  251 (265)
T ss_dssp             HCCSSSCBCCCC
T ss_pred             CCCCcCcHHHcc
Confidence            3  346666553

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.77  E-value=1.4e-18  Score=137.77  Aligned_cols=163  Identities=14%  Similarity=0.164  Sum_probs=114.7

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC-----cccEEEeecCCC
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASDD  115 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-----~~~~~~~~~~~~  115 (305)
                      .+|.++++|..|++++|++..++.+...+......+++|+||+|+|||++++.+++.+.+...     ...++.+++...
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            578999999999999999999999999998877778999999999999999999998854211     233444443221


Q ss_pred             ----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------HHHHHHHHHHHhcCCceEEEEecCCc-
Q 021937          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICNQVN-  182 (305)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------~~~~l~~~l~~~~~~~~iil~~~~~~-  182 (305)
                          .........+........    ...++.+|+|||+|.+...        ..+.|..+++..  +..+|++++... 
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~----~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~~--~~~~i~~~~~~~~  163 (195)
T 1jbk_A           90 VAGAKYRGEFEERLKGVLNDLA----KQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVGATTLDEY  163 (195)
T ss_dssp             HTTTCSHHHHHHHHHHHHHHHH----HSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT--SCCEEEEECHHHH
T ss_pred             hccCCccccHHHHHHHHHHHHh----hcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhccC--CeEEEEeCCHHHH
Confidence                112222222222222110    0122579999999999632        255566666543  567777776554 


Q ss_pred             ----ccchhhhcceeEEEecCCCHHHHHHHH
Q 021937          183 ----KIIPALQSRCTRFRFAPLEPVHVTERL  209 (305)
Q Consensus       183 ----~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (305)
                          .+++++.+|+..+.+++|+.+++.+++
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                568999999988999999999987764

>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=99.76  E-value=1.1e-17  Score=161.09  Aligned_cols=198  Identities=16%  Similarity=0.204  Sum_probs=138.2

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCCC
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD  115 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~  115 (305)
                      .+|.++++|..|++++|++..+..+...+.....++++|+||||+|||++++.+++.+.+..     ....++.+++...
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            45788899999999999999999999999888778899999999999999999999884421     1345666655432


Q ss_pred             c----Ch----hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC--------HHHHHHHHHHHHHhcCCceEEEEec
Q 021937          116 R----GI----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--------KDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       116 ~----~~----~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~--------~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      .    ..    ..+...+......        ..+.||||||+|.+.        .+..+.|..+++..  ...+|.+++
T Consensus       238 ~~g~~~~g~~~~~l~~~~~~~~~~--------~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~--~i~~I~at~  307 (854)
T 1qvr_A          238 LAGAKYRGEFEERLKAVIQEVVQS--------QGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIGATT  307 (854)
T ss_dssp             --------CHHHHHHHHHHHHHTT--------CSSEEEEECCC-------------------HHHHHTT--CCCEEEEEC
T ss_pred             hccCccchHHHHHHHHHHHHHHhc--------CCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhCC--CeEEEEecC
Confidence            1    11    1222333322211        125899999999997        23344566666543  456677765


Q ss_pred             CCc----ccchhhhcceeEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHH
Q 021937          180 QVN----KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQS  245 (305)
Q Consensus       180 ~~~----~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g------~~r~~~~~l~~  245 (305)
                      ...    ..++++.+||..+.+++|+.++..++++..+..    .++.++++++..+++.+.|      -++.++..++.
T Consensus       308 ~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp~kai~llde  387 (854)
T 1qvr_A          308 LDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDE  387 (854)
T ss_dssp             HHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHH
T ss_pred             chHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccChHHHHHHHHH
Confidence            442    367899999999999999999999999876653    4778899999999988743      38888888876


Q ss_pred             Hhh
Q 021937          246 THM  248 (305)
Q Consensus       246 ~~~  248 (305)
                      ++.
T Consensus       388 a~a  390 (854)
T 1qvr_A          388 AAA  390 (854)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            664

>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=99.75  E-value=1.3e-17  Score=150.07  Aligned_cols=188  Identities=19%  Similarity=0.249  Sum_probs=134.8

Q ss_pred             hcCCCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           46 KYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        46 ~~~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      ...+..|++++|.+..++.|...+..             ....+++|+||||||||++|+++++..     ...++.+++
T Consensus       197 ~~~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~-----~~~fv~vn~  271 (489)
T 3hu3_A          197 SLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLING  271 (489)
T ss_dssp             HHTCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC-----SSEEEEEEH
T ss_pred             ccCCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh-----CCCEEEEEc
Confidence            45677899999999999999888753             344559999999999999999999986     456777776


Q ss_pred             CCCc--C----hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHhc--CCce
Q 021937          113 SDDR--G----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNTR  173 (305)
Q Consensus       113 ~~~~--~----~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~~--~~~~  173 (305)
                      ....  .    ...+...+..+..         ..+++|||||+|.+..           ..+..|+..++...  .++.
T Consensus       272 ~~l~~~~~g~~~~~~~~~f~~A~~---------~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~  342 (489)
T 3hu3_A          272 PEIMSKLAGESESNLRKAFEEAEK---------NAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  342 (489)
T ss_dssp             HHHHTSCTTHHHHHHHHHHHHHHH---------TCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEE
T ss_pred             hHhhhhhcchhHHHHHHHHHHHHh---------cCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceE
Confidence            5321  1    1222333333322         1258999999977643           45778899998643  3566


Q ss_pred             EEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHhh
Q 021937          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTHM  248 (305)
Q Consensus       174 iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~-~r~~~~~l~~~~~  248 (305)
                      +|.++|....+++.+.+  || ..+.+++|+.++..++++.++...+.. .+..+..+++.+.|. .+.+.++++.++.
T Consensus       343 vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~-~~~~l~~la~~t~g~s~~dL~~L~~~A~~  420 (489)
T 3hu3_A          343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAALCSEAAL  420 (489)
T ss_dssp             EEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHH
T ss_pred             EEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCc-chhhHHHHHHHccCCcHHHHHHHHHHHHH
Confidence            77788888889999988  66 569999999999999999887655433 223467788888774 4445555555443

>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=99.75  E-value=2.1e-17  Score=138.58  Aligned_cols=186  Identities=15%  Similarity=0.235  Sum_probs=118.5

Q ss_pred             ccccchHHHHHHHH-------HHh---cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc---Ch--
Q 021937           54 DVAAHRDIVDTIDR-------LTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---GI--  118 (305)
Q Consensus        54 ~~~g~~~~~~~l~~-------~l~---~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~---~~--  118 (305)
                      .++|+...++.+..       .+.   .....+++|+||||||||++|+++++..     ...++.++++...   ..  
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~-----~~~~~~i~~~~~~~g~~~~~  108 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES-----NFPFIKICSPDKMIGFSETA  108 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH-----TCSEEEEECGGGCTTCCHHH
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEeCHHHhcCCchHH
Confidence            45666555444433       333   3334459999999999999999999987     4456666655311   11  


Q ss_pred             --hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcC----------CHHHHHHHHHHHHHh---cCCceEEEEecCCcc
Q 021937          119 --DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM----------TKDAQFALRRVIEKY---TKNTRFALICNQVNK  183 (305)
Q Consensus       119 --~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l----------~~~~~~~l~~~l~~~---~~~~~iil~~~~~~~  183 (305)
                        ..+...+..+.         ..++.+|+|||+|.+          .....+.|..+++..   +..+.+|.+++....
T Consensus       109 ~~~~~~~~~~~~~---------~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~  179 (272)
T 1d2n_A          109 KCQAMKKIFDDAY---------KSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDV  179 (272)
T ss_dssp             HHHHHHHHHHHHH---------TSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHH
T ss_pred             HHHHHHHHHHHHH---------hcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhh
Confidence              12222222221         123799999999987          333445555555432   223345556666655


Q ss_pred             cch-hhhcce-eEEEecCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHHHhhccCccCH
Q 021937          184 IIP-ALQSRC-TRFRFAPLEP-VHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-----DMRKALNILQSTHMASQQITE  255 (305)
Q Consensus       184 l~~-~l~~r~-~~i~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-----~~r~~~~~l~~~~~~~~~i~~  255 (305)
                      +++ .+.+|+ ..+.+++++. +++..++...    + .++++.+..+++.+.|     ++|.+++.++.+.........
T Consensus       180 l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~----~-~~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~~~~~~  254 (272)
T 1d2n_A          180 LQEMEMLNAFSTTIHVPNIATGEQLLEALELL----G-NFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRV  254 (272)
T ss_dssp             HHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH----T-CSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSCGGGHH
T ss_pred             cchhhhhcccceEEcCCCccHHHHHHHHHHhc----C-CCCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhchHHHH
Confidence            655 567785 7789988887 5665555442    2 4789999999999987     999999999988765443333


Q ss_pred             HHH
Q 021937          256 EAV  258 (305)
Q Consensus       256 ~~v  258 (305)
                      +.+
T Consensus       255 ~~~  257 (272)
T 1d2n_A          255 RKF  257 (272)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.74  E-value=1.8e-16  Score=134.74  Aligned_cols=206  Identities=16%  Similarity=0.187  Sum_probs=139.2

Q ss_pred             cccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhh
Q 021937           53 ADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  130 (305)
                      ++++|++..++.+...+..  ....+++|+||+|||||++|+++++.....  ...++.+++.... ...+...+.... 
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~--~~~~v~v~~~~~~-~~l~~~~lfg~~-   77 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSARS--DRPLVTLNCAALN-ESLLESELFGHE-   77 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSSCS--SSCCCEEECSSCC-HHHHHHHHTCCC-
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCccc--CCCeEEEeCCCCC-hHHHHHHhcCcc-
Confidence            3578988888888777764  334459999999999999999999875332  3456777776532 222221111000 


Q ss_pred             cccccCC--------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------ccc
Q 021937          131 TQSFSFG--------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKI  184 (305)
Q Consensus       131 ~~~~~~~--------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~l  184 (305)
                      ...+.+.        ....+++|||||++.++...+..|+.++++..           .++++|++++..       ..+
T Consensus        78 ~g~~tg~~~~~~g~~~~a~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~~l~~~v~~g~f  157 (304)
T 1ojl_A           78 KGAFTGADKRREGRFVEADGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAEEVSAGRF  157 (304)
T ss_dssp             SSCCC---CCCCCHHHHHTTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHHHHHHHTSS
T ss_pred             ccccCchhhhhcCHHHhcCCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHHHHHHhCCc
Confidence            0001110        01235799999999999999999999999652           457788888764       134


Q ss_pred             chhhhcce--eEEEecCCC--HHHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc--
Q 021937          185 IPALQSRC--TRFRFAPLE--PVHVTERLKHVIE----AEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--  250 (305)
Q Consensus       185 ~~~l~~r~--~~i~~~~~~--~~~~~~~l~~~~~----~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~--  250 (305)
                      .+++..|+  ..+.++|+.  .+++..++...+.    ..+   ..+++++++.+.++. +||+|.+.+.++.++..+  
T Consensus       158 r~~L~~Rl~~~~i~lPpL~eR~edi~~l~~~~l~~~~~~~~~~~~~~s~~a~~~L~~~~wpGnvReL~~~l~~~~~~~~~  237 (304)
T 1ojl_A          158 RQDLYYRLNVVAIEMPSLRQRREDIPLLADHFLRRFAERNRKVVKGFTPQAMDLLIHYDWPGNIRELENAIERAVVLLTG  237 (304)
T ss_dssp             CHHHHHHHSSEEEECCCSGGGGGGHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHHCCCSSHHHHHHHHHHHHHHHCCS
T ss_pred             HHHHHhhcCeeEEeccCHHHhHhhHHHHHHHHHHHHHHHhccCccCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHhCCC
Confidence            56778886  446787777  4555555554433    333   468999999999987 999999999998877643  


Q ss_pred             CccCHHHHHhhh
Q 021937          251 QQITEEAVYLCT  262 (305)
Q Consensus       251 ~~i~~~~v~~~~  262 (305)
                      ..|+.+++...+
T Consensus       238 ~~i~~~~l~~~~  249 (304)
T 1ojl_A          238 EYISERELPLAI  249 (304)
T ss_dssp             SSBCGGGSCGGG
T ss_pred             CcccHHhhhhhh
Confidence            457777775443

>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=99.73  E-value=9.3e-17  Score=153.16  Aligned_cols=217  Identities=12%  Similarity=0.127  Sum_probs=149.8

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC-----cccEEEeecC
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNAS  113 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~-----~~~~~~~~~~  113 (305)
                      -..+|.++++|..|++++|++..++.+.+.+......+++|+||||||||++++.+++.+.+...     ...++.++..
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            34568999999999999999999999999999888888999999999999999999998854321     2233333322


Q ss_pred             CC----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC---------HHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          114 DD----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT---------KDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       114 ~~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~---------~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      ..    .........+.......     ...++.+|||||+|.+.         .+..+.|..+++.  ....+|.+++.
T Consensus       252 ~l~~~~~~~g~~e~~l~~~~~~~-----~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~--~~~~~I~at~~  324 (758)
T 1r6b_X          252 SLLAGTKYRGDFEKRFKALLKQL-----EQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTY  324 (758)
T ss_dssp             ---CCCCCSSCHHHHHHHHHHHH-----SSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS--CCCEEEEEECH
T ss_pred             HHhccccccchHHHHHHHHHHHH-----HhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC--CCeEEEEEeCc
Confidence            11    11112222222222211     11236899999999983         1222333333332  24566666653


Q ss_pred             C-----cccchhhhcceeEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHH
Q 021937          181 V-----NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQS  245 (305)
Q Consensus       181 ~-----~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g------~~r~~~~~l~~  245 (305)
                      .     ...++++.+||..+.+++|+.++..+++...+..    .++.++++++..++..+.|      .+..++..++.
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            2     3456889999999999999999999999887765    5788999999998887654      46678887766


Q ss_pred             Hhhc---------cCccCHHHHHhhh
Q 021937          246 THMA---------SQQITEEAVYLCT  262 (305)
Q Consensus       246 ~~~~---------~~~i~~~~v~~~~  262 (305)
                      ++..         ...++.+++.+++
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

>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=99.73  E-value=4.5e-17  Score=148.88  Aligned_cols=208  Identities=19%  Similarity=0.262  Sum_probs=136.6

Q ss_pred             cccccchHHHHHHHHHHh------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHH
Q 021937           53 ADVAAHRDIVDTIDRLTS------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (305)
                      ++++|.+.....+...+.      ....++++|+||||||||++++.++..+     ...+..+++........+.....
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l-----~~~~~~i~~~~~~~~~~~~g~~~  155 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL-----GRKFVRISLGGVRDESEIRGHRR  155 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH-----TCEEEEECCCC------------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc-----CCCeEEEEecccchhhhhhhHHH
Confidence            468899988887765543      2234569999999999999999999998     34556665544222111110000


Q ss_pred             Hhhh----cc--cccCCCCCceEEEEEeCCCcCCHHH----HHHHHHHHHHhc---------------CCceEEEEecCC
Q 021937          127 DFAS----TQ--SFSFGVKASVKLVLLDEADAMTKDA----QFALRRVIEKYT---------------KNTRFALICNQV  181 (305)
Q Consensus       127 ~~~~----~~--~~~~~~~~~~~vliiDe~~~l~~~~----~~~l~~~l~~~~---------------~~~~iil~~~~~  181 (305)
                      ....    ..  .+.. ......+++|||++.+..+.    ++.|++.++...               .++.+|+++|..
T Consensus       156 ~~ig~~~~~~~~~~~~-a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~~  234 (543)
T 3m6a_A          156 TYVGAMPGRIIQGMKK-AGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNL  234 (543)
T ss_dssp             --------CHHHHHHT-TCSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSST
T ss_pred             HHhccCchHHHHHHHH-hhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCcc
Confidence            0000    00  0111 11123599999999998763    477888776422               356788888999


Q ss_pred             cccchhhhcceeEEEecCCCHHHHHHHHHHHHHH-----c-----CCCCCHHHHHHHHHHcC--CCHHHHHHHHHHHhhc
Q 021937          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA-----E-----GLDVTEGGLAALVRLCN--GDMRKALNILQSTHMA  249 (305)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~-----~-----~~~~~~~~~~~l~~~~~--g~~r~~~~~l~~~~~~  249 (305)
                      ..+++++++|+.++.|++|+.++..+++..++..     .     ++.++++++..+++.+.  |++|.+.+.++.++..
T Consensus       235 ~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~~~~~~vR~L~~~i~~~~~~  314 (543)
T 3m6a_A          235 ATIPGPLRDRMEIINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYYTREAGVRSLERQLAAICRK  314 (543)
T ss_dssp             TTSCHHHHHHEEEEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHHCCCSSSHHHHHHHHHHHHH
T ss_pred             ccCCHHHHhhcceeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhCChhhchhHHHHHHHHHHHH
Confidence            9999999999999999999999999998876632     2     34578999999887543  7888888777655431


Q ss_pred             -----------cCccCHHHHHhhhCCCC
Q 021937          250 -----------SQQITEEAVYLCTGNPL  266 (305)
Q Consensus       250 -----------~~~i~~~~v~~~~~~~~  266 (305)
                                 ...|+.+++.++++...
T Consensus       315 aa~~~~~~~~~~~~It~~~l~~~Lg~~~  342 (543)
T 3m6a_A          315 AAKAIVAEERKRITVTEKNLQDFIGKRI  342 (543)
T ss_dssp             HHHHHHTTCCSCCEECTTTTHHHHCSCC
T ss_pred             HHHHHHhcCCcceecCHHHHHHHhCCcc
Confidence                       12488888888886654

>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=99.73  E-value=4.8e-19  Score=148.34  Aligned_cols=206  Identities=19%  Similarity=0.228  Sum_probs=134.6

Q ss_pred             hcCCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           46 KYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        46 ~~~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      ++.+..|++++|++..++.+...+..            ....+++|+||||||||++|+++++.+..     .++.+++.
T Consensus         4 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~-----~~~~v~~~   78 (268)
T 2r62_A            4 EKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV-----PFFSMGGS   78 (268)
T ss_dssp             CCCCCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC-----CCCCCCSC
T ss_pred             cCCCCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC-----CEEEechH
Confidence            34566789999999999988877651            22345999999999999999999998832     33444433


Q ss_pred             CCc------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHH---------------HHHHHHHHHHhc---
Q 021937          114 DDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA---------------QFALRRVIEKYT---  169 (305)
Q Consensus       114 ~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~---------------~~~l~~~l~~~~---  169 (305)
                      ...      ....+...+..+..         ..+++|+|||+|.+....               +..|+..++...   
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      11111122222211         125899999999986432               234555554332   


Q ss_pred             CCceEEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHH
Q 021937          170 KNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQS  245 (305)
Q Consensus       170 ~~~~iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~  245 (305)
                      ..+.+|.+++....+++.+.+  |+ ..+.+++|+.+++.++++..+...+.. ++..++.+++.+.| ..+.+.++++.
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            235566677777778888887  66 668999999999999998877544322 22235667777766 35566666665


Q ss_pred             Hhhcc-----CccCHHHHHhhhCCCC
Q 021937          246 THMAS-----QQITEEAVYLCTGNPL  266 (305)
Q Consensus       246 ~~~~~-----~~i~~~~v~~~~~~~~  266 (305)
                      ++..+     ..|+.+++.+++....
T Consensus       229 a~~~a~~~~~~~i~~~~~~~a~~~~~  254 (268)
T 2r62_A          229 AALLAGRNNQKEVRQQHLKEAVERGI  254 (268)
T ss_dssp             HHHTTSSSCCCSCCHHHHHTSCTTCC
T ss_pred             HHHHHHHhccCCcCHHHHHHHHHHHh
Confidence            55432     4699999988876553

>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=1.3e-16  Score=140.08  Aligned_cols=205  Identities=19%  Similarity=0.224  Sum_probs=134.2

Q ss_pred             ccccchHHHHHHHHHHh----c--------------------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           54 DVAAHRDIVDTIDRLTS----E--------------------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~----~--------------------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      .++|++..++.+...+.    .                          ....+++|+||||||||++|+++++.+     
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            47899999998877762    0                          123459999999999999999999987     


Q ss_pred             cccEEEeecCCCcCh----hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------------HHHHHHHHH
Q 021937          104 HNMILELNASDDRGI----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVI  165 (305)
Q Consensus       104 ~~~~~~~~~~~~~~~----~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------------~~~~l~~~l  165 (305)
                      ...++.+++......    ......+......... ......+++|+|||++.+...              .++.|+.++
T Consensus        97 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~-~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~l  175 (376)
T 1um8_A           97 DIPIAISDATSLTEAGYVGEDVENILTRLLQASDW-NVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIV  175 (376)
T ss_dssp             TCCEEEEEGGGCC--------CTHHHHHHHHHTTT-CHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHH
T ss_pred             CCCEEEecchhhhhcCcCCccHHHHHHHHHhhccc-hhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHh
Confidence            345666665432110    0111112111111100 000123689999999999877              889999999


Q ss_pred             HHhc---------------------CCceEEEEecC-----------------------------------------Ccc
Q 021937          166 EKYT---------------------KNTRFALICNQ-----------------------------------------VNK  183 (305)
Q Consensus       166 ~~~~---------------------~~~~iil~~~~-----------------------------------------~~~  183 (305)
                      +...                     .+..+|++++.                                         ...
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                     23455555541                                         112


Q ss_pred             cchhhhcce-eEEEecCCCHHHHHHHHHH----HHH----H-----cCCCCCHHHHHHHHHHcC---CCHHHHHHHHHHH
Q 021937          184 IIPALQSRC-TRFRFAPLEPVHVTERLKH----VIE----A-----EGLDVTEGGLAALVRLCN---GDMRKALNILQST  246 (305)
Q Consensus       184 l~~~l~~r~-~~i~~~~~~~~~~~~~l~~----~~~----~-----~~~~~~~~~~~~l~~~~~---g~~r~~~~~l~~~  246 (305)
                      +.+++.+|+ .++.|++++.+++..++..    .+.    .     .++.+++++++.|++.+.   |++|.+.+.++.+
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            567888898 8899999999999988862    111    1     234689999999999865   9999999999876


Q ss_pred             hhc-----cC------ccCHHHHHhhhCC
Q 021937          247 HMA-----SQ------QITEEAVYLCTGN  264 (305)
Q Consensus       247 ~~~-----~~------~i~~~~v~~~~~~  264 (305)
                      +..     ..      .|+.+++.+....
T Consensus       336 ~~~~~~~~~~~~~~~~~i~~~~v~~~~~~  364 (376)
T 1um8_A          336 CLDIMFDLPKLKGSEVRITKDCVLKQAEP  364 (376)
T ss_dssp             HHHHHHTGGGGTTSEEEECHHHHTTSSCC
T ss_pred             HHHHHhhccCCCCCEEEEeHHHhcCCCCc
Confidence            652     11      3888888775543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.72  E-value=2.4e-17  Score=129.95  Aligned_cols=156  Identities=15%  Similarity=0.168  Sum_probs=107.3

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCC
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~  114 (305)
                      ..+|.++++|..|++++|++..++.+...+......+++|+||+|+|||++++.+++.+....     ....++.++...
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            467999999999999999999999999999887777899999999999999999999885421     123344443321


Q ss_pred             C----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC---------HHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          115 D----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT---------KDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       115 ~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~---------~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .    .........+........-    ..++.+|+|||+|.+.         ....+.|..+++.  .+..+|++++..
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    1111111222221111100    0125899999999986         3345556666654  356777777654


Q ss_pred             c-----ccchhhhcceeEEEecCCC
Q 021937          182 N-----KIIPALQSRCTRFRFAPLE  201 (305)
Q Consensus       182 ~-----~l~~~l~~r~~~i~~~~~~  201 (305)
                      .     .+++++.+||..+.+++|+
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            3     5789999999889998875

>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=99.71  E-value=9.8e-16  Score=135.95  Aligned_cols=217  Identities=18%  Similarity=0.224  Sum_probs=139.7

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHH-h----c--CCCCeEEE--ECCCCCcHHHHHHHHHHHHhCC----CCcccEEE
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLT-S----E--NRLPHLLL--YGPPGTGKTSTILAVARKLYGA----QYHNMILE  109 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l-~----~--~~~~~~ll--~G~~G~GKT~l~~~l~~~~~~~----~~~~~~~~  109 (305)
                      +...+.|   ..++|++..++.|...+ .    +  .....++|  +||+|+|||++++.+++.+...    +....++.
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            3334444   56899999999888887 4    2  24445888  9999999999999999887432    11344566


Q ss_pred             eecCCCcChhHHHHHHHHhhhcc-cccC--------------CCCCceEEEEEeCCCcCCH------HHHHHHHHHHHHh
Q 021937          110 LNASDDRGIDVVRQQIQDFASTQ-SFSF--------------GVKASVKLVLLDEADAMTK------DAQFALRRVIEKY  168 (305)
Q Consensus       110 ~~~~~~~~~~~~~~~i~~~~~~~-~~~~--------------~~~~~~~vliiDe~~~l~~------~~~~~l~~~l~~~  168 (305)
                      +++........+...+....... +...              ....++.+|+|||+|.+..      +....+++.+...
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            66543223322222211111100 0000              0013478999999999853      5555566677654


Q ss_pred             c-----CCceEEEEecCCc---ccc---hhhhcce-eEEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcC-
Q 021937          169 T-----KNTRFALICNQVN---KII---PALQSRC-TRFRFAPLEPVHVTERLKHVIEAEG--LDVTEGGLAALVRLCN-  233 (305)
Q Consensus       169 ~-----~~~~iil~~~~~~---~l~---~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~~~~l~~~~~-  233 (305)
                      +     .+..+|++++...   .+.   +.+.+++ ..+.++|++.+++.+++...+...+  ..++++.+..+++.++ 
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            3     3455666765443   223   4455554 4499999999999999988776543  2578999999999999 


Q ss_pred             -----CCHHHHHHHHHHHhhc-----cCccCHHHHHhhh
Q 021937          234 -----GDMRKALNILQSTHMA-----SQQITEEAVYLCT  262 (305)
Q Consensus       234 -----g~~r~~~~~l~~~~~~-----~~~i~~~~v~~~~  262 (305)
                           |++|.+...++.+...     ...++.+++..++
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                 9999999998765432     2357777765443

>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=1.6e-16  Score=151.29  Aligned_cols=185  Identities=20%  Similarity=0.279  Sum_probs=134.2

Q ss_pred             cccccchHHHHHHHHHHhcCC-------C--CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHH-H
Q 021937           53 ADVAAHRDIVDTIDRLTSENR-------L--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV-R  122 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~~-------~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  122 (305)
                      ..++|++..++.+...+....       .  .+++|+||||||||++|+++++.+...+  ..++.++++........ .
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~--~~~i~i~~s~~~~~~~~~~  568 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDE--ESMIRIDMSEYMEKHSTSG  568 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCT--TCEEEEEGGGGCSSCCCC-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCC--cceEEEechhccccccccc
Confidence            468999999988888876321       1  1599999999999999999999985443  35667776543221100 1


Q ss_pred             HHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-----------cCCceEEEEecCCcc--------
Q 021937          123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVNK--------  183 (305)
Q Consensus       123 ~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~iil~~~~~~~--------  183 (305)
                      ..+......        .+++||+|||++.++++.++.|++++++.           ..++.+|+++|....        
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        12579999999999999999999999973           246688888875332        


Q ss_pred             ----cchhhhcce-eEEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHH---cCCCHHHHHHHHHHH
Q 021937          184 ----IIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVTEGGLAALVRL---CNGDMRKALNILQST  246 (305)
Q Consensus       184 ----l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~~~~~l~~~---~~g~~r~~~~~l~~~  246 (305)
                          +.+++.+|+ ..+.|+|++.+++.+++...+...         .+.+++++++.|++.   .+|++|.+.+.++..
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                678999999 899999999999999888776542         346899999999875   368899888888765


Q ss_pred             h
Q 021937          247 H  247 (305)
Q Consensus       247 ~  247 (305)
                      .
T Consensus       721 v  721 (758)
T 3pxi_A          721 V  721 (758)
T ss_dssp             T
T ss_pred             H
Confidence            4

>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=99.70  E-value=6.8e-16  Score=128.06  Aligned_cols=205  Identities=21%  Similarity=0.248  Sum_probs=131.4

Q ss_pred             hcCCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           46 KYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        46 ~~~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      ...+.+|++++|.+..+..+.+....            ....+++|+||+|+||||++++++..+.     ..++.+++.
T Consensus         9 ~~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~-----~~~i~~~~~   83 (254)
T 1ixz_A            9 EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPFITASGS   83 (254)
T ss_dssp             CCCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT-----CCEEEEEHH
T ss_pred             CCCCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC-----CCEEEeeHH
Confidence            44556889999999888877666432            1234599999999999999999999872     345555543


Q ss_pred             CC--cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------H---HHHHHHHHHHHhcCC--ceEE
Q 021937          114 DD--RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------D---AQFALRRVIEKYTKN--TRFA  175 (305)
Q Consensus       114 ~~--~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~---~~~~l~~~l~~~~~~--~~ii  175 (305)
                      ..  .........+........     ...+.++++||++.+..           .   ..+.++..++.....  ..++
T Consensus        84 ~~~~~~~~~~~~~i~~~~~~~~-----~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~  158 (254)
T 1ixz_A           84 DFVEMFVGVGAARVRDLFETAK-----RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVM  158 (254)
T ss_dssp             HHHHSCTTHHHHHHHHHHHHHT-----TSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEE
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH-----hcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEE
Confidence            21  011111122222222111     11258999999976631           1   123344444433322  2344


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCCH-HHHHHHHHHHhhc-
Q 021937          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNGDM-RKALNILQSTHMA-  249 (305)
Q Consensus       176 l~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~~~g~~-r~~~~~l~~~~~~-  249 (305)
                      .+++.+..+++++.+  |+ ..+.+++|+.++..++++..+.  +..++++. +..+++.+.|+. +.+.+.++.++.. 
T Consensus       159 a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~--~~~~~~~~~~~~la~~~~G~~~~dl~~~~~~a~~~a  236 (254)
T 1ixz_A          159 AATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLA  236 (254)
T ss_dssp             EEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHT--TSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHH
T ss_pred             EccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHc--CCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            456778888999987  55 6789999999999999987764  33444433 778999998865 6777777655542 


Q ss_pred             ----cCccCHHHHHhhh
Q 021937          250 ----SQQITEEAVYLCT  262 (305)
Q Consensus       250 ----~~~i~~~~v~~~~  262 (305)
                          ...|+.+++++++
T Consensus       237 ~~~~~~~I~~~dl~~a~  253 (254)
T 1ixz_A          237 AREGRRKITMKDLEEAA  253 (254)
T ss_dssp             HHTTCSSBCHHHHHHHT
T ss_pred             HHhcCCCcCHHHHHHHh
Confidence                2458888888765

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.70  E-value=1.1e-16  Score=152.60  Aligned_cols=194  Identities=15%  Similarity=0.208  Sum_probs=139.0

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCC
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~  114 (305)
                      ..+|.++++|..+++++|++..++.+...+.....++++|+||||||||++|+.+++.+.+..     ....++.++...
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            456888999999999999999999999999988888899999999999999999999985432     133444444411


Q ss_pred             ---CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc-----ccch
Q 021937          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN-----KIIP  186 (305)
Q Consensus       115 ---~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~-----~l~~  186 (305)
                         ......+...+..+..         ..+.+||||    ...+.++.|...++.  ....+|.+++...     .+++
T Consensus       247 ~~~G~~e~~l~~~~~~~~~---------~~~~iLfiD----~~~~~~~~L~~~l~~--~~v~~I~at~~~~~~~~~~~d~  311 (758)
T 3pxi_A          247 KYRGEFEDRLKKVMDEIRQ---------AGNIILFID----AAIDASNILKPSLAR--GELQCIGATTLDEYRKYIEKDA  311 (758)
T ss_dssp             ------CTTHHHHHHHHHT---------CCCCEEEEC----C--------CCCTTS--SSCEEEEECCTTTTHHHHTTCS
T ss_pred             cccchHHHHHHHHHHHHHh---------cCCEEEEEc----CchhHHHHHHHHHhc--CCEEEEeCCChHHHHHHhhccH
Confidence               1112234444444332         126899999    333455666666653  3567777777666     5789


Q ss_pred             hhhcceeEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcC------CCHHHHHHHHHHHhh
Q 021937          187 ALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (305)
Q Consensus       187 ~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~------g~~r~~~~~l~~~~~  248 (305)
                      ++.+||+.+.|++|+.+++.+++...+..    .++.++++++..+++.+.      ..++.++..+..++.
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            99999999999999999999999877655    577899999999888764      346788888876654

>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=99.70  E-value=2.1e-16  Score=148.59  Aligned_cols=188  Identities=19%  Similarity=0.240  Sum_probs=129.4

Q ss_pred             CCCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      ....|+++.|.++.++.|++.+.-             ..+.+++||||||||||++|+++++++     ...++.++++.
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             234459999999999999999999987     55677777654


Q ss_pred             C--cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHHHHHHHHHHHhc--CCceEEEEec
Q 021937          115 D--RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNTRFALICN  179 (305)
Q Consensus       115 ~--~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~l~~~l~~~~--~~~~iil~~~  179 (305)
                      .  .........+.......     ....++||||||+|.+.+           ...+.|+..++...  .++.+|.+||
T Consensus       274 l~sk~~gese~~lr~lF~~A-----~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN  348 (806)
T 3cf2_A          274 IMSKLAGESESNLRKAFEEA-----EKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATN  348 (806)
T ss_dssp             HHSSCTTHHHHHHHHHHHHH-----TTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECS
T ss_pred             hhcccchHHHHHHHHHHHHH-----HHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecC
Confidence            2  22222223333332221     122369999999999853           23456777777543  3566777889


Q ss_pred             CCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHH
Q 021937          180 QVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQST  246 (305)
Q Consensus       180 ~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~-~r~~~~~l~~~  246 (305)
                      .++.+++++++  || ..++++.|+..++.++++.++...... ++..+..|++.+.|- ...+.++++.+
T Consensus       349 ~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~-~dvdl~~lA~~T~GfsgaDL~~Lv~eA  418 (806)
T 3cf2_A          349 RPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAALCSEA  418 (806)
T ss_dssp             STTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEEC-TTCCHHHHHHHCCSCCHHHHHHHHHHH
T ss_pred             ChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhcCCCCHHHHHHHHHHH
Confidence            99999999998  77 779999999999999998776543321 223467888888763 33333444433

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.70  E-value=6.3e-16  Score=138.83  Aligned_cols=203  Identities=21%  Similarity=0.251  Sum_probs=137.0

Q ss_pred             CCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      .+.+|++++|+++.+..+.+....            ..+.+++|+||||||||+++++++...     ...++.+++...
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            113459999999999999999999987     355777776542


Q ss_pred             c--ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH-----------HHH---HHHHHHHHHhcC--CceEEEE
Q 021937          116 R--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQ---FALRRVIEKYTK--NTRFALI  177 (305)
Q Consensus       116 ~--~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~---~~l~~~l~~~~~--~~~iil~  177 (305)
                      .  ........+.......     ....+++++|||+|.+..           +..   +.++..++....  ...++.+
T Consensus       101 ~~~~~g~~~~~v~~lfq~a-----~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAa  175 (499)
T 2dhr_A          101 VEMFVGVGAARVRDLFETA-----KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAA  175 (499)
T ss_dssp             TSSCTTHHHHHHHHHTTTS-----SSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEEC
T ss_pred             HHhhhhhHHHHHHHHHHHH-----HhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEe
Confidence            2  1222233333333221     122368999999987742           122   333333332222  2345555


Q ss_pred             ecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCCH-HHHHHHHHHHhhc---
Q 021937          178 CNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNGDM-RKALNILQSTHMA---  249 (305)
Q Consensus       178 ~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~~~g~~-r~~~~~l~~~~~~---  249 (305)
                      ++.++.+++++.+  |+ ..+.+++|+.+++.++++.++.  +..+++++ +..++..+.|+. +.+.+++..++..   
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            6777778888887  45 6789999999999999877654  34455443 788999999987 7888888766542   


Q ss_pred             --cCccCHHHHHhhh
Q 021937          250 --SQQITEEAVYLCT  262 (305)
Q Consensus       250 --~~~i~~~~v~~~~  262 (305)
                        ...|+.+++..++
T Consensus       254 ~~~~~It~~dl~~al  268 (499)
T 2dhr_A          254 EGRRKITMKDLEEAA  268 (499)
T ss_dssp             TCCSSCCSHHHHHHH
T ss_pred             hCCCccCHHHHHHHH
Confidence              2358888887665

>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=5.5e-16  Score=147.88  Aligned_cols=183  Identities=18%  Similarity=0.223  Sum_probs=133.9

Q ss_pred             cccccchHHHHHHHHHHhcC---------CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh-----
Q 021937           53 ADVAAHRDIVDTIDRLTSEN---------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI-----  118 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~---------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-----  118 (305)
                      ..++|++..++.+...+...         ...+++|+||||||||++|+++++.+     ...++.++++.....     
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l-----~~~~~~i~~s~~~~~~~~~~  532 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTVSR  532 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH-----TCEEEEEEGGGCSSSSCCSS
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh-----cCCEEEEechhhcchhhHhh
Confidence            45889999998887776531         12259999999999999999999998     345666665432110     


Q ss_pred             ------hHH----HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEE
Q 021937          119 ------DVV----RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALI  177 (305)
Q Consensus       119 ------~~~----~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~  177 (305)
                            ...    ...+......        .+++||+|||++.+.++.++.|++++++..           .++.+|++
T Consensus       533 l~g~~~g~~g~~~~~~l~~~~~~--------~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~t  604 (758)
T 1r6b_X          533 LIGAPPGYVGFDQGGLLTDAVIK--------HPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMT  604 (758)
T ss_dssp             SCCCCSCSHHHHHTTHHHHHHHH--------CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEE
T ss_pred             hcCCCCCCcCccccchHHHHHHh--------CCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEe
Confidence                  000    0011111111        226899999999999999999999999742           35668888


Q ss_pred             ecCCc-------------------------ccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHc---------CCCCCH
Q 021937          178 CNQVN-------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVTE  222 (305)
Q Consensus       178 ~~~~~-------------------------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~~  222 (305)
                      +|...                         .+.+++.+|+ .++.|++++.+++..++...+.+.         .+.+++
T Consensus       605 sN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~  684 (758)
T 1r6b_X          605 TNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQ  684 (758)
T ss_dssp             ECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECH
T ss_pred             cCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEEEeCH
Confidence            87532                         5678899999 789999999999999988877632         346899


Q ss_pred             HHHHHHHHHc---CCCHHHHHHHHHHHhh
Q 021937          223 GGLAALVRLC---NGDMRKALNILQSTHM  248 (305)
Q Consensus       223 ~~~~~l~~~~---~g~~r~~~~~l~~~~~  248 (305)
                      ++++.|++.+   ++++|.+.+.++....
T Consensus       685 ~a~~~l~~~~~~~~~g~R~l~~~i~~~~~  713 (758)
T 1r6b_X          685 EARNWLAEKGYDRAMGARPMARVIQDNLK  713 (758)
T ss_dssp             HHHHHHHHHHCBTTTBTTTHHHHHHHHHT
T ss_pred             HHHHHHHHhCCCcCCCchHHHHHHHHHHH
Confidence            9999999876   4558888888876654

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.68  E-value=2.2e-16  Score=146.47  Aligned_cols=219  Identities=17%  Similarity=0.192  Sum_probs=145.7

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcC-----
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-----  117 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-----  117 (305)
                      ...+|+|..|++++|+...++.+...+..+  .+++|+||+||||||+++.++..+.........+..+......     
T Consensus        31 ~~~~~rp~~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~~~~~~~~~p~i~~  108 (604)
T 3k1j_A           31 EEIEVPEKLIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDENMPRIKT  108 (604)
T ss_dssp             GGSCCCSSHHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEECCTTCTTSCEEEE
T ss_pred             CcccccccccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEeCCcccccCCcEEE
Confidence            456899999999999999999999999887  4699999999999999999999874432111111111100000     


Q ss_pred             -----hhHHHHHHH----------------------------------------------Hhhhcc--------c-cc--
Q 021937          118 -----IDVVRQQIQ----------------------------------------------DFASTQ--------S-FS--  135 (305)
Q Consensus       118 -----~~~~~~~i~----------------------------------------------~~~~~~--------~-~~--  135 (305)
                           ...+.+...                                              .+....        . +.  
T Consensus       109 ~p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~~~~~g~~~~g~  188 (604)
T 3k1j_A          109 VPACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHDPFQSGGLGTPA  188 (604)
T ss_dssp             EETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCCCC----CCCCG
T ss_pred             EecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEechhhcCCccccc
Confidence                 000000000                                              000000        0 00  


Q ss_pred             -------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh---------------------cCCceEEEEecCC--cccc
Q 021937          136 -------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKY---------------------TKNTRFALICNQV--NKII  185 (305)
Q Consensus       136 -------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~---------------------~~~~~iil~~~~~--~~l~  185 (305)
                             .-..++++++||||++.+++..++.|++.+++.                     +.++++|+++|..  ..+.
T Consensus       189 ~~~i~~g~~~~a~~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~~~~~l~  268 (604)
T 3k1j_A          189 HERVEPGMIHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLDTVDKMH  268 (604)
T ss_dssp             GGGEECCHHHHTTTSEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHHHHHHSC
T ss_pred             cccccCceeeecCCCEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHHHHhhcC
Confidence                   001134579999999999999999999999843                     2355688888765  5789


Q ss_pred             hhhhccee----EEEecCC---CHHHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHc---CC-------CHHHHHHHH
Q 021937          186 PALQSRCT----RFRFAPL---EPVHVTERLKHVIEAE-----GLDVTEGGLAALVRLC---NG-------DMRKALNIL  243 (305)
Q Consensus       186 ~~l~~r~~----~i~~~~~---~~~~~~~~l~~~~~~~-----~~~~~~~~~~~l~~~~---~g-------~~r~~~~~l  243 (305)
                      +++.+||.    .+.|++.   ..+.+..++...+...     ...++++++..|.+++   .|       ++|.+.+++
T Consensus       269 ~~l~~R~~v~~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~~g~r~~l~~~~R~l~~ll  348 (604)
T 3k1j_A          269 PALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGIV  348 (604)
T ss_dssp             HHHHHHHHHHSEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHHHHHHHHHHTTCSTTEEECCHHHHHHHH
T ss_pred             HHHHHHhhccceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHHHHHHHHhhhhccccccccCHHHHHHHH
Confidence            99999983    4555432   3455666665544432     2478999999998865   56       699999999


Q ss_pred             HHHhhc-----cCccCHHHHHhhhC
Q 021937          244 QSTHMA-----SQQITEEAVYLCTG  263 (305)
Q Consensus       244 ~~~~~~-----~~~i~~~~v~~~~~  263 (305)
                      +.+...     ...|+.++|.+++.
T Consensus       349 r~A~~~A~~~~~~~I~~edv~~A~~  373 (604)
T 3k1j_A          349 RAAGDIAVKKGKKYVEREDVIEAVK  373 (604)
T ss_dssp             HHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHhcCcccccHHHHHHHHH
Confidence            766542     34699999988874

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.67  E-value=8e-15  Score=123.22  Aligned_cols=203  Identities=21%  Similarity=0.255  Sum_probs=130.4

Q ss_pred             CCCCccccccchHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      .+.+|++++|.++.+..+.+....            ....+++|+||+|+||||++++++..+.     ..++.+++...
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~-----~~~i~~~~~~~  109 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPFITASGSDF  109 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT-----CCEEEEEHHHH
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC-----CCEEEecHHHH
Confidence            456799999999988877766542            1233599999999999999999999872     34555554321


Q ss_pred             --cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC-----------HHHHHHHHHHHHHh---cC-C-ceEEEE
Q 021937          116 --RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY---TK-N-TRFALI  177 (305)
Q Consensus       116 --~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~-----------~~~~~~l~~~l~~~---~~-~-~~iil~  177 (305)
                        .........+........     ...+.++++||++.+.           ......+..++...   .. . ..++.+
T Consensus       110 ~~~~~~~~~~~i~~~~~~~~-----~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~  184 (278)
T 1iy2_A          110 VEMFVGVGAARVRDLFETAK-----RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAA  184 (278)
T ss_dssp             HHSTTTHHHHHHHHHHHHHH-----TSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEE
T ss_pred             HHHHhhHHHHHHHHHHHHHH-----hcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEe
Confidence              011111122222221110     0125899999997652           12233334444432   22 2 344445


Q ss_pred             ecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCCH-HHHHHHHHHHhhc---
Q 021937          178 CNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNGDM-RKALNILQSTHMA---  249 (305)
Q Consensus       178 ~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~~~g~~-r~~~~~l~~~~~~---  249 (305)
                      ++.+..+++++.+  |+ ..+.+++|+.+++.++++..+.  +..+++++ +..++..+.|+. +.+.+.++.++..   
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            6788888999887  55 6789999999999999987764  33444433 778999999876 6677777655542   


Q ss_pred             --cCccCHHHHHhhh
Q 021937          250 --SQQITEEAVYLCT  262 (305)
Q Consensus       250 --~~~i~~~~v~~~~  262 (305)
                        ...|+.+++++++
T Consensus       263 ~~~~~I~~~dl~~a~  277 (278)
T 1iy2_A          263 EGRRKITMKDLEEAA  277 (278)
T ss_dssp             TTCCSBCHHHHHHHT
T ss_pred             hCCCCcCHHHHHHHh
Confidence              2458988888765

>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=99.66  E-value=3.3e-16  Score=150.87  Aligned_cols=194  Identities=17%  Similarity=0.234  Sum_probs=136.5

Q ss_pred             cccccchHHHHHHHHHHhcCC--------C-CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHH
Q 021937           53 ADVAAHRDIVDTIDRLTSENR--------L-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~~--------~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (305)
                      ..++|++..++.+...+....        + .+++|+||+|||||++|+++++.+.+.+  ..++.++++..........
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            568999999998888776421        1 3599999999999999999999986543  4577777765332211111


Q ss_pred             HHHHhhhccc------ccC-CCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC----
Q 021937          124 QIQDFASTQS------FSF-GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV----  181 (305)
Q Consensus       124 ~i~~~~~~~~------~~~-~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~----  181 (305)
                      .+........      +.. -...+++||||||++.++.+.++.|++++++..           .++.+|+++|..    
T Consensus       636 l~g~~~~~~G~~~~g~l~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~tsn~~~~~~  715 (854)
T 1qvr_A          636 LIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLI  715 (854)
T ss_dssp             C--------------CHHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCTTHHHH
T ss_pred             HcCCCCCCcCccccchHHHHHHhCCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEecCcChHHH
Confidence            1100000000      000 001236899999999999999999999999653           355678888752    


Q ss_pred             ----------------------cccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHH
Q 021937          182 ----------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVTEGGLAALV  229 (305)
Q Consensus       182 ----------------------~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~~~~~l~  229 (305)
                                            ..+.+.|.+|+ ..+.|.|++.+++..++...+.+.         ...+++++++.|+
T Consensus       716 ~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~L~  795 (854)
T 1qvr_A          716 LEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLA  795 (854)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHH
T ss_pred             hhhcccccchHHHHHHHHHHHHhhCCHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHHHHHHHHhCCceEEECHHHHHHHH
Confidence                                  23567788898 778899999999999887766531         2468999999999


Q ss_pred             HHcC---CCHHHHHHHHHHHhh
Q 021937          230 RLCN---GDMRKALNILQSTHM  248 (305)
Q Consensus       230 ~~~~---g~~r~~~~~l~~~~~  248 (305)
                      +++.   |++|.+.+.++.+..
T Consensus       796 ~~~~~~~gn~R~L~~~i~~~~~  817 (854)
T 1qvr_A          796 ERGYDPVFGARPLRRVIQRELE  817 (854)
T ss_dssp             HHHCBTTTBTSTHHHHHHHHTH
T ss_pred             HcCCCCCCChHHHHHHHHHHHH
Confidence            9764   999999999987764

>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=99.62  E-value=6.6e-16  Score=134.83  Aligned_cols=204  Identities=21%  Similarity=0.247  Sum_probs=133.0

Q ss_pred             ccccchHHHHHHHHHHh-------------c--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh
Q 021937           54 DVAAHRDIVDTIDRLTS-------------E--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~-------------~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  118 (305)
                      .++|++..++.+...+.             .  ....+++|+||||||||++|+++++.+     ...++.+++......
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            46999999999888873             1  133459999999999999999999987     456777776542211


Q ss_pred             hH----HHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------------HHHHHHHHHHHh------------
Q 021937          119 DV----VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKY------------  168 (305)
Q Consensus       119 ~~----~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------------~~~~l~~~l~~~------------  168 (305)
                      ..    ....+.......... -....+++|||||++.+...              .++.|+++++..            
T Consensus        91 ~~~g~~~~~~~~~~~~~~~~~-~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~  169 (363)
T 3hws_A           91 GYVGEDVENIIQKLLQKCDYD-VQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKH  169 (363)
T ss_dssp             HHHHHHHTHHHHHHHHHTTTC-HHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC------------
T ss_pred             ccccccHHHHHHHHHHHhhhh-HHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCcccccc
Confidence            11    111222221111100 01123689999999988755              789999999821            


Q ss_pred             ---------cCCceEEEEecCC----------cc-----------------------------------cchhhhcce-e
Q 021937          169 ---------TKNTRFALICNQV----------NK-----------------------------------IIPALQSRC-T  193 (305)
Q Consensus       169 ---------~~~~~iil~~~~~----------~~-----------------------------------l~~~l~~r~-~  193 (305)
                               ..+..+|++++..          ..                                   +.+.|.+|+ .
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                     1223444444421          11                                   578888998 5


Q ss_pred             EEEecCCCHHHHHHHHHH----HHH-------HcC--CCCCHHHHHHHHHHc---CCCHHHHHHHHHHHhhcc-------
Q 021937          194 RFRFAPLEPVHVTERLKH----VIE-------AEG--LDVTEGGLAALVRLC---NGDMRKALNILQSTHMAS-------  250 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~----~~~-------~~~--~~~~~~~~~~l~~~~---~g~~r~~~~~l~~~~~~~-------  250 (305)
                      ++.|.||+.+++.+++..    ...       ..+  +.+++++++.|++.+   ++++|.+.+.++.+....       
T Consensus       250 ~~~~~pl~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~~~~~l~~~~~~  329 (363)
T 3hws_A          250 VATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSM  329 (363)
T ss_dssp             EEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHHHHHHHHSTTTC
T ss_pred             eeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHHHHHHHHhcccc
Confidence            566999999998887764    221       123  357999999999753   677888888887666421       


Q ss_pred             -C----ccCHHHHHhhhC
Q 021937          251 -Q----QITEEAVYLCTG  263 (305)
Q Consensus       251 -~----~i~~~~v~~~~~  263 (305)
                       .    .|+.+.|++..+
T Consensus       330 ~~~~~~~I~~~~v~~~~~  347 (363)
T 3hws_A          330 EDVEKVVIDESVIDGQSE  347 (363)
T ss_dssp             CCSEEEECHHHHTTCCSC
T ss_pred             cCCceeEEcHHHHhCcCC
Confidence             1    277777766553

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.62  E-value=1.3e-14  Score=130.43  Aligned_cols=205  Identities=13%  Similarity=0.104  Sum_probs=131.2

Q ss_pred             cccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHH--HHHh--
Q 021937           53 ADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ--IQDF--  128 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--i~~~--  128 (305)
                      ..++|++..++.+...+..+  .+++|+||||||||++|+++++.+..   ...+....+.. .....+...  ....  
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l~~---~~~f~~~~~~~-~t~~dL~G~~~~~~~~~   95 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQN---ARAFEYLMTRF-STPEEVFGPLSIQALKD   95 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGBSS---CCEEEEECCTT-CCHHHHHCCBC------
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHHhh---hhHHHHHHHhc-CCHHHhcCcccHHHHhh
Confidence            46889999999988888776  46999999999999999999987622   22233333322 112111110  0000  


Q ss_pred             -hhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc---------CCc-eEEEEecCCcc---cchhhhcce-e
Q 021937          129 -ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---------KNT-RFALICNQVNK---IIPALQSRC-T  193 (305)
Q Consensus       129 -~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~---------~~~-~iil~~~~~~~---l~~~l~~r~-~  193 (305)
                       .....+..+....++|++|||++.+++..++.|+.++++..         ... .+|++||....   ..+++.+|+ .
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             00001111111246799999999999999999999998531         122 34666765332   345888897 5


Q ss_pred             EEEecCCCH-HHHHHHHHHHH-----------------------HHcCCCCCHHHHHHHHHHc----------CCCHHHH
Q 021937          194 RFRFAPLEP-VHVTERLKHVI-----------------------EAEGLDVTEGGLAALVRLC----------NGDMRKA  239 (305)
Q Consensus       194 ~i~~~~~~~-~~~~~~l~~~~-----------------------~~~~~~~~~~~~~~l~~~~----------~g~~r~~  239 (305)
                      .+.+++|+. ++...++....                       .-.++.+++++++.+++..          +.++|.+
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            588889887 55666665432                       1226678899988888766          4588987


Q ss_pred             HHHHHHHhh-----ccCccCHHHHHhhhCC
Q 021937          240 LNILQSTHM-----ASQQITEEAVYLCTGN  264 (305)
Q Consensus       240 ~~~l~~~~~-----~~~~i~~~~v~~~~~~  264 (305)
                      +..+..+..     ....++++++. ++..
T Consensus       256 ~~llr~A~A~A~l~gr~~Vt~eDv~-~a~~  284 (500)
T 3nbx_X          256 KKAIRLLQASAFFSGRSAVAPVDLI-LLKD  284 (500)
T ss_dssp             HHHHHHHHHHHHHTTCSBCCGGGGG-GGGG
T ss_pred             HHHHHHHHHHHhhcCCccccchHHH-HHHh
Confidence            777654332     23468999998 5443

>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=99.60  E-value=7.2e-16  Score=144.92  Aligned_cols=180  Identities=17%  Similarity=0.241  Sum_probs=113.2

Q ss_pred             CCCccccccchHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC-
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-  114 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-  114 (305)
                      ...|+++.|.++.++.|...+..             ..+.+++||||||||||.+|++++.++     ...++.++.+. 
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            34678899999999988877642             123349999999999999999999997     55667665543 


Q ss_pred             -----CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------------HHHHHHHHHHHhcC--Cce
Q 021937          115 -----DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYTK--NTR  173 (305)
Q Consensus       115 -----~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------------~~~~l~~~l~~~~~--~~~  173 (305)
                           ......+++.+..+....         ++||||||+|.+...              ..+.|+..++....  ++.
T Consensus       548 ~s~~vGese~~vr~lF~~Ar~~~---------P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~  618 (806)
T 3cf2_A          548 LTMWFGESEANVREIFDKARQAA---------PCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVF  618 (806)
T ss_dssp             HTTTCSSCHHHHHHHHHHHHTTC---------SEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEE
T ss_pred             hccccchHHHHHHHHHHHHHHcC---------CceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCCEE
Confidence                 234445666655553332         699999999998531              24567777775443  345


Q ss_pred             EEEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc----CCCHHHHHHHH
Q 021937          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC----NGDMRKALNIL  243 (305)
Q Consensus       174 iil~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~----~g~~r~~~~~l  243 (305)
                      +|.+||.++.+++++.+  |+ ..++++.|+.+++.++++.++.+..+. ++..++.|++.+    +.|+..+.+..
T Consensus       619 vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~-~~~dl~~la~~t~g~SGadi~~l~~~A  694 (806)
T 3cf2_A          619 IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQRA  694 (806)
T ss_dssp             EECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--C-CC----------------CHHHHHHHH
T ss_pred             EEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            55577999999999998  87 779999999999999998776544332 122356666655    44666555443

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.58  E-value=1.4e-14  Score=109.55  Aligned_cols=132  Identities=17%  Similarity=0.217  Sum_probs=91.9

Q ss_pred             ccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhc
Q 021937           54 DVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (305)
                      +++|++..++.+.+.+..  ....+++|+||+|||||++|+++++.....+  ..++ +++............+...   
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            578998888888887753  3334599999999999999999998653332  2455 6666533322222323222   


Q ss_pred             ccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc-------ccchhhhcce--eEEEecCC
Q 021937          132 QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN-------KIIPALQSRC--TRFRFAPL  200 (305)
Q Consensus       132 ~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~-------~l~~~l~~r~--~~i~~~~~  200 (305)
                               .+++|+|||++.++.+.+..|+.+++..+.+.++|++++...       .+.+.+..|+  ..++++|+
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                     147999999999999999999999987777888988887642       3445666664  34666664

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.58  E-value=2e-13  Score=114.11  Aligned_cols=173  Identities=18%  Similarity=0.202  Sum_probs=107.6

Q ss_pred             CCCccccccchHHHHHHHHHHh-------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC
Q 021937           49 PQSLADVAAHRDIVDTIDRLTS-------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~-------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~  115 (305)
                      ..+|+++.|.++.++.|...+.             -....+++|+||+|||||+++++++..+     ...++.+++...
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            4578899999999988877542             1223459999999999999999999986     335677776553


Q ss_pred             cC--hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH-----------HHHHHHHHHHHhcC--CceEEEEecC
Q 021937          116 RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKYTK--NTRFALICNQ  180 (305)
Q Consensus       116 ~~--~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-----------~~~~l~~~l~~~~~--~~~iil~~~~  180 (305)
                      ..  .......+........     ...+.++++||++.+...           ..+.++..+.....  ...++.+++.
T Consensus        81 ~~~~~~~~~~~i~~vf~~a~-----~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~  155 (274)
T 2x8a_A           81 LNMYVGESERAVRQVFQRAK-----NSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNR  155 (274)
T ss_dssp             CSSTTHHHHHHHHHHHHHHH-----HTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESC
T ss_pred             HhhhhhHHHHHHHHHHHHHH-----hcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCC
Confidence            22  2222333333322210     112589999999986421           12344444543322  2344556788


Q ss_pred             Ccccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHc-CCCCC-HHHHHHHHHH
Q 021937          181 VNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAE-GLDVT-EGGLAALVRL  231 (305)
Q Consensus       181 ~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~-~~~~~-~~~~~~l~~~  231 (305)
                      ++.+++++.+  |+ ..+.++.|+.+++.++++.++... ...++ +..++.++..
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            8889999987  77 779999999999999998876432 22222 2235667653

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.56  E-value=2.8e-13  Score=117.31  Aligned_cols=185  Identities=17%  Similarity=0.141  Sum_probs=122.5

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc------ChhHHHHH
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR------GIDVVRQQ  124 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~  124 (305)
                      ....++|++..++.|..++..+  +.++|+||+|+|||++++.+++..     .  ++.+++....      ....+.+.
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            3467899999999999998765  679999999999999999999875     1  3344432211      22222222


Q ss_pred             HHHhhhc------------------cccc-CC------------CCCceEEEEEeCCCcCCH-------HHHHHHHHHHH
Q 021937          125 IQDFAST------------------QSFS-FG------------VKASVKLVLLDEADAMTK-------DAQFALRRVIE  166 (305)
Q Consensus       125 i~~~~~~------------------~~~~-~~------------~~~~~~vliiDe~~~l~~-------~~~~~l~~~l~  166 (305)
                      +......                  .... ..            ...++.+|+|||+|.+..       +....|..+++
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            2111100                  0000 00            001268999999999864       33444555555


Q ss_pred             HhcCCceEEEEecCCcc---------cchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH
Q 021937          167 KYTKNTRFALICNQVNK---------IIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDM  236 (305)
Q Consensus       167 ~~~~~~~iil~~~~~~~---------l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~  236 (305)
                      .. .+..+++++.....         ....+..|. ..+.+.|++.++..+++...+...+..++++.+..+++.++|+|
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 36777777654321         112233343 58999999999999999988777787889999999999999999


Q ss_pred             HHHHHHHHH
Q 021937          237 RKALNILQS  245 (305)
Q Consensus       237 r~~~~~l~~  245 (305)
                      ..+...+..
T Consensus       240 ~~l~~~~~~  248 (350)
T 2qen_A          240 GWLVVFGVE  248 (350)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            876665543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.56  E-value=8.8e-14  Score=117.59  Aligned_cols=150  Identities=15%  Similarity=0.181  Sum_probs=95.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC--c----ChhHHHHHHHHhhhcccccCCCCCceEEEEEe
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--R----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLD  148 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--~----~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiD  148 (305)
                      ..++|+||||||||++++++++.+     ...++.++++..  .    ....+.+.+..+....     ....++||+||
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~~l-----~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~-----~~~~~~vl~iD  106 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFRKM-----GINPIMMSAGELESGNAGEPAKLIRQRYREAAEII-----RKGNMCCLFIN  106 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHHH-----TCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHH-----TTSSCCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHH-----hcCCCeEEEEe
Confidence            358999999999999999999998     445666665431  1    1122333333332110     12236899999


Q ss_pred             CCCcCCH-------------HHHHHHHHHHHHh-------------cCCceEEEEecCCcccchhhhc--ceeEEEecCC
Q 021937          149 EADAMTK-------------DAQFALRRVIEKY-------------TKNTRFALICNQVNKIIPALQS--RCTRFRFAPL  200 (305)
Q Consensus       149 e~~~l~~-------------~~~~~l~~~l~~~-------------~~~~~iil~~~~~~~l~~~l~~--r~~~i~~~~~  200 (305)
                      |+|.+..             ..+..|+++++..             ..++.+|++||..+.+++++.+  |+..+.+ .|
T Consensus       107 EiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~-~P  185 (293)
T 3t15_A          107 DLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW-AP  185 (293)
T ss_dssp             CCC--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE-CC
T ss_pred             chhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe-Cc
Confidence            9998864             1347788887621             2367888899999999999986  6644333 46


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CCCHH
Q 021937          201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLC-NGDMR  237 (305)
Q Consensus       201 ~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~-~g~~r  237 (305)
                      +.++..++++..+...+  ++.+.+..+.... +.++.
T Consensus       186 ~~~~r~~Il~~~~~~~~--~~~~~l~~~~~~~~~~~l~  221 (293)
T 3t15_A          186 TREDRIGVCTGIFRTDN--VPAEDVVKIVDNFPGQSID  221 (293)
T ss_dssp             CHHHHHHHHHHHHGGGC--CCHHHHHHHHHHSCSCCHH
T ss_pred             CHHHHHHHHHHhccCCC--CCHHHHHHHhCCCCcccHH
Confidence            99999999998876555  4555565555544 44554

>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=99.53  E-value=3.1e-13  Score=119.08  Aligned_cols=132  Identities=20%  Similarity=0.283  Sum_probs=91.4

Q ss_pred             ceEEEEEeCCCcCCHH------------HHHHHHHHHHHh----------cCCceEEEEe----cCCcccchhhhcceeE
Q 021937          141 SVKLVLLDEADAMTKD------------AQFALRRVIEKY----------TKNTRFALIC----NQVNKIIPALQSRCTR  194 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~------------~~~~l~~~l~~~----------~~~~~iil~~----~~~~~l~~~l~~r~~~  194 (305)
                      +..++++||+|++...            .|+.|+++++..          ..++.||+++    ..+..+.|.|.+|+.+
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            4669999999998532            567999999952          2345566665    2444577899999954


Q ss_pred             -EEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHH--------cCCCHHHHHHHHHHHhhc---
Q 021937          195 -FRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRL--------CNGDMRKALNILQSTHMA---  249 (305)
Q Consensus       195 -i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~~~~l~~~--------~~g~~r~~~~~l~~~~~~---  249 (305)
                       +.|++++.++..+++..           .+...+.  .++++++..|++.        -++..|.+.+.++.++..   
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             89999999999998831           1112233  5899999999985        246788888777765531   


Q ss_pred             ---c---C--ccCHHHHHhhhCCCC-hhhHHH
Q 021937          250 ---S---Q--QITEEAVYLCTGNPL-PKDIEQ  272 (305)
Q Consensus       250 ---~---~--~i~~~~v~~~~~~~~-~~~~~~  272 (305)
                         .   .  .||.+.|.+.++... ..+++.
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   1  388999988776543 334443

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.51  E-value=3.4e-14  Score=107.13  Aligned_cols=128  Identities=13%  Similarity=0.155  Sum_probs=87.2

Q ss_pred             ccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhc
Q 021937           54 DVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (305)
                      +++|++..++.+.+.+..  ....+++|+||+|||||++|+++++..     . .++.+++..... ......+...   
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            578998888888887764  334559999999999999999998764     1 677777664211 1111111111   


Q ss_pred             ccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-CCceEEEEecCC-cc----cchhhhcce--eEEEecCC
Q 021937          132 QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-KNTRFALICNQV-NK----IIPALQSRC--TRFRFAPL  200 (305)
Q Consensus       132 ~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~-~~----l~~~l~~r~--~~i~~~~~  200 (305)
                               +.++++|||++.++.+.+..|++++++.. .++++|++++.. ..    +.+.+..|+  ..+.++|+
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                     14799999999999999999999998763 467788887643 22    445666665  44667665

>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=99.47  E-value=3.8e-12  Score=110.39  Aligned_cols=183  Identities=16%  Similarity=0.159  Sum_probs=117.5

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC-----cChhHHHHHH
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-----RGIDVVRQQI  125 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~i  125 (305)
                      ....++|++..++.|.. +..   +.++|+||+|+|||++++.+++....     .++.+++...     .........+
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHHHHHH
Confidence            34678999999999999 765   57999999999999999999998732     2344443321     1222222222


Q ss_pred             HHhhh--------------cc----------cc------cCC---------CCC-ceEEEEEeCCCcCCH----HHHHHH
Q 021937          126 QDFAS--------------TQ----------SF------SFG---------VKA-SVKLVLLDEADAMTK----DAQFAL  161 (305)
Q Consensus       126 ~~~~~--------------~~----------~~------~~~---------~~~-~~~vliiDe~~~l~~----~~~~~l  161 (305)
                      .....              ..          .+      ...         ... ++.+|+|||+|.+..    +....|
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            11110              00          00      000         001 378999999999864    233444


Q ss_pred             HHHHHHhcCCceEEEEecCCccc---------chhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 021937          162 RRVIEKYTKNTRFALICNQVNKI---------IPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL  231 (305)
Q Consensus       162 ~~~l~~~~~~~~iil~~~~~~~l---------~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~  231 (305)
                      ..+.+.. .+..+|++++....+         ...+..|. ..+.+.|++.++..+++...+...+...++.  ..+++.
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            4444543 367777777643211         12244454 6899999999999999998877667666544  889999


Q ss_pred             cCCCHHHHHHHHHH
Q 021937          232 CNGDMRKALNILQS  245 (305)
Q Consensus       232 ~~g~~r~~~~~l~~  245 (305)
                      ++|+|..+...+..
T Consensus       239 t~G~P~~l~~~~~~  252 (357)
T 2fna_A          239 IGGIPGWLTYFGFI  252 (357)
T ss_dssp             HCSCHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHH
Confidence            99999987666554

>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=99.46  E-value=2.1e-12  Score=112.48  Aligned_cols=192  Identities=18%  Similarity=0.239  Sum_probs=129.5

Q ss_pred             ccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhc
Q 021937           54 DVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (305)
                      .++|.+.....+...+..  .....++++|++|+||+.+++.+.......   ..++.++|..... ..+...+... ..
T Consensus       130 ~~ig~s~~~~~~~~~~~~~a~~~~~vli~GesGtGKe~lAr~ih~~s~r~---~~fv~vnc~~~~~-~~~~~~lfg~-~~  204 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKIAKSKAPVLITGESGTGKEIVARLIHRYSGRK---GAFVDLNCASIPQ-ELAESELFGH-EK  204 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHTSCSCEEEECCTTSSHHHHHHHHHHHHCCC---SCEEEEESSSSCT-TTHHHHHHEE-CS
T ss_pred             cccccchHHHHHHhhhhhhhccchhheEEeCCCchHHHHHHHHHHhcccc---CCcEEEEcccCCh-HHHHHHhcCc-cc
Confidence            567777766666555432  222349999999999999999998876332   2388999987432 2222222111 11


Q ss_pred             ccccCCC--------CCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cccc
Q 021937          132 QSFSFGV--------KASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKII  185 (305)
Q Consensus       132 ~~~~~~~--------~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~l~  185 (305)
                      ..|.+..        .+.+++|||||++.++...|..|++++++..           .++++|.+|+..       ..+.
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            1122211        1345799999999999999999999999642           256788887643       2344


Q ss_pred             hhhhcce--eEEEecCCCH--HHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc
Q 021937          186 PALQSRC--TRFRFAPLEP--VHVTERLKHVIE----AEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (305)
Q Consensus       186 ~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~~----~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~  250 (305)
                      +++..|+  ..++++|+.+  +++..++...+.    +.+   ..+++++++.+..+. +||+|.+.+.++.++...
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  4577888876  566555444443    333   358999999999877 999999999999887643

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.45  E-value=1.1e-14  Score=134.25  Aligned_cols=205  Identities=17%  Similarity=0.197  Sum_probs=119.6

Q ss_pred             cccccchHHHHHHHHHHhcCCCC-----------eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHH
Q 021937           53 ADVAAHRDIVDTIDRLTSENRLP-----------HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~~~~~-----------~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (305)
                      ..++|++.++..+...+.++...           +++|+||||||||++|+++++.+....+... ...++.... ....
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~-~~~~~~~l~-~~~~  372 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTG-KGSTAAGLT-AAVV  372 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCT-TCSTTTTSE-EECS
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCC-Ccccccccc-ceee
Confidence            46889999888887666655311           6999999999999999999987622111000 000011000 0000


Q ss_pred             HHHHHHhhhcccccCC--CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-------------CCceEEEEecCCc----
Q 021937          122 RQQIQDFASTQSFSFG--VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFALICNQVN----  182 (305)
Q Consensus       122 ~~~i~~~~~~~~~~~~--~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-------------~~~~iil~~~~~~----  182 (305)
                      ...   .........+  ..+.+++++|||++.++++.+..|+..+++..             .++.+|.++|...    
T Consensus       373 ~~~---~~g~~~~~~G~l~~A~~gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~  449 (595)
T 3f9v_A          373 REK---GTGEYYLEAGALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYI  449 (595)
T ss_dssp             SGG---GTSSCSEEECHHHHHSSSEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSC
T ss_pred             ecc---ccccccccCCeeEecCCCcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccC
Confidence            000   0000000000  01225899999999999999999999998532             3456777777654    


Q ss_pred             ---------ccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHc-------------------------CCCCCHHHHHH
Q 021937          183 ---------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE-------------------------GLDVTEGGLAA  227 (305)
Q Consensus       183 ---------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~-------------------------~~~~~~~~~~~  227 (305)
                               .+++++.+|| ..+.+.+++..+...+........                         ...+++++.+.
T Consensus       450 ~~~~~~~ni~l~~aLl~RFDl~~~~~~~~~~e~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~  529 (595)
T 3f9v_A          450 SERPVSDNINLPPTILSRFDLIFILKDQPGEQDRELANYILDVHSGKSTKNIIDIDTLRKYIAYARKYVTPKITSEAKNL  529 (595)
T ss_dssp             TTSCSCTTTCSCSSSGGGCSCCEEECCTTHHHHHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHHHHHCCCCCCCTHHH
T ss_pred             cccCchhccCCCHHHHhhCeEEEEeCCCCCHHHHHHHHHHHHHhhccccccCCCHHHHHHHHHHHHHhCCCCCCHHHHHH
Confidence                     7889999999 455555555444444444433221                         12455555666


Q ss_pred             HHHH---------------cCCCHHHHHHHHHHHhh-----ccCccCHHHHHhhh
Q 021937          228 LVRL---------------CNGDMRKALNILQSTHM-----ASQQITEEAVYLCT  262 (305)
Q Consensus       228 l~~~---------------~~g~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~  262 (305)
                      |.++               .++++|.+.+++..+..     ....++.+++.+++
T Consensus       530 l~~~y~~lR~~~~~~~~~~~~~s~R~l~~lirla~a~A~l~~~~~V~~~dv~~Ai  584 (595)
T 3f9v_A          530 ITDFFVEMRKKSSETPDSPILITPRQLEALIRISEAYAKMALKAEVTREDAERAI  584 (595)
T ss_dssp             HHHHHTTSSCSCCBCSSSCBCSSTTTTTHHHHHHHHHHHTTSSCCSSHHHHHHHH
T ss_pred             HHHHHHHHHHhhccCCCccccccHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHH
Confidence            6655               35677777766654332     22457777766654

>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=99.44  E-value=5.6e-12  Score=110.59  Aligned_cols=204  Identities=19%  Similarity=0.202  Sum_probs=135.4

Q ss_pred             ccccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhh
Q 021937           52 LADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (305)
Q Consensus        52 ~~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  129 (305)
                      +..++|.+..++.+...+..  .....++++|++|+||+++++.+......  ....++.++|+.. ....+...+....
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 EEEYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSDR--SKEPFVALNVASI-PRDIFEAELFGYE  212 (387)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHSTT--TTSCEEEEETTTS-CHHHHHHHHHCBC
T ss_pred             chhhhhccHHhhHHHHHHHHhcCCCCCeEEecCCCcCHHHHHHHHHHhcCC--CCCCeEEEecCCC-CHHHHHHHhcCCC
Confidence            45677777777776666553  22234899999999999999999886422  2456888898863 2222222222111


Q ss_pred             hcccccCCC--------CCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC-------cc
Q 021937          130 STQSFSFGV--------KASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NK  183 (305)
Q Consensus       130 ~~~~~~~~~--------~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~-------~~  183 (305)
                      . ..|.+..        .+.+++|||||++.++.+.|..|++++++..           .++++|.+|+..       ..
T Consensus       213 ~-g~~tga~~~~~g~~~~a~~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~~~~g~  291 (387)
T 1ny5_A          213 K-GAFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGK  291 (387)
T ss_dssp             T-TSSTTCCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTS
T ss_pred             C-CCCCCcccccCCceeeCCCcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHHHHHHcCC
Confidence            1 1122211        2346799999999999999999999999632           356788888653       23


Q ss_pred             cchhhhcce--eEEEecCCCH--HHHHHHHHHHH----HHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc-
Q 021937          184 IIPALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS-  250 (305)
Q Consensus       184 l~~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~----~~~~~---~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~-  250 (305)
                      +.+.+..|+  ..+++||+..  +++..++...+    .+.+.   .+++++++.+..+. +||+|.+.+.++.++..+ 
T Consensus       292 fr~dl~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~l~~~~wpGNvreL~~~i~~~~~~~~  371 (387)
T 1ny5_A          292 FREDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSE  371 (387)
T ss_dssp             SCHHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCC
T ss_pred             ccHHHHHhhcCCeecCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhCC
Confidence            455666665  4567777764  55554444433    33443   37899999998776 899999999999887644 


Q ss_pred             -CccCHHHHH
Q 021937          251 -QQITEEAVY  259 (305)
Q Consensus       251 -~~i~~~~v~  259 (305)
                       ..|+.+++-
T Consensus       372 ~~~i~~~~l~  381 (387)
T 1ny5_A          372 GKFIDRGELS  381 (387)
T ss_dssp             SSEECHHHHH
T ss_pred             CCcCcHHHCc
Confidence             347777664

>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=99.38  E-value=1.6e-12  Score=101.89  Aligned_cols=131  Identities=13%  Similarity=0.168  Sum_probs=82.4

Q ss_pred             hhcCCCCcccccc----chHHHHHHHHHHhcC---CCCeEEEECCCCCcHHHHHHHHHHHHh-CCCCcccEEEeecCCCc
Q 021937           45 EKYRPQSLADVAA----HRDIVDTIDRLTSEN---RLPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDDR  116 (305)
Q Consensus        45 ~~~~p~~~~~~~g----~~~~~~~l~~~l~~~---~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~  116 (305)
                      ++|++.+|+++++    +...++.+..++...   ....++|+||+|+||||++++++..+. ..+....++..      
T Consensus         2 ~r~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~------   75 (180)
T 3ec2_A            2 KRYWNANLDTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDT------   75 (180)
T ss_dssp             CSCTTCCSSSCCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEH------
T ss_pred             chhhhCccccccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEH------
Confidence            5788899999986    556666777776653   234599999999999999999999885 33333333321      


Q ss_pred             ChhHHHHHHHHhhhccccc--CCCCCceEEEEEeCCC--cCCHHHHHHHHHHHHHhc-CCceEEEEecCCcc
Q 021937          117 GIDVVRQQIQDFASTQSFS--FGVKASVKLVLLDEAD--AMTKDAQFALRRVIEKYT-KNTRFALICNQVNK  183 (305)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~--~~~~~~~~vliiDe~~--~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~~~  183 (305)
                        ..+...+..........  ...-.++.+|+|||++  .+.......|..+++... .+..+|++++....
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              11111111111100000  0000136899999998  567777888888887654 45677778876543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=99.21  E-value=5.1e-11  Score=95.01  Aligned_cols=132  Identities=18%  Similarity=0.187  Sum_probs=75.5

Q ss_pred             chhhhcCCCCccccccch----HHHHHHHHHHhcCC----CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           42 PWVEKYRPQSLADVAAHR----DIVDTIDRLTSENR----LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~----~~~~~l~~~l~~~~----~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      .++.++.+.+|+++++..    ..++.+..++....    ..+++|+||+|+|||++++++++.+...+..  ++.+++.
T Consensus        14 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~--~~~~~~~   91 (202)
T 2w58_A           14 FMPREILRASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVS--SLIVYVP   91 (202)
T ss_dssp             SSCGGGGCCCTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCC--EEEEEHH
T ss_pred             CCCHHHHcCCHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCe--EEEEEhH
Confidence            355677788999998744    35556667766542    1569999999999999999999998665443  3333322


Q ss_pred             CCcChhHHHHHHHHhhhcccccC--CCCCceEEEEEeCCCcCCHH--HHHHHH-HHHHHh-cCCceEEEEecCC
Q 021937          114 DDRGIDVVRQQIQDFASTQSFSF--GVKASVKLVLLDEADAMTKD--AQFALR-RVIEKY-TKNTRFALICNQV  181 (305)
Q Consensus       114 ~~~~~~~~~~~i~~~~~~~~~~~--~~~~~~~vliiDe~~~l~~~--~~~~l~-~~l~~~-~~~~~iil~~~~~  181 (305)
                      .      +...+...........  ..-....+|+|||++.....  .+..++ .+++.. .....+|++++..
T Consensus        92 ~------~~~~~~~~~~~~~~~~~~~~~~~~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~~  159 (202)
T 2w58_A           92 E------LFRELKHSLQDQTMNEKLDYIKKVPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNFD  159 (202)
T ss_dssp             H------HHHHHHHC---CCCHHHHHHHHHSSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESSC
T ss_pred             H------HHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCCC
Confidence            1      1111110000000000  00011369999999775433  244343 466643 4566788888754

>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=99.20  E-value=7.4e-11  Score=105.95  Aligned_cols=141  Identities=15%  Similarity=0.186  Sum_probs=80.3

Q ss_pred             CCCCCCcchhhhcCCCCccccc-cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           35 PPDIKASPWVEKYRPQSLADVA-AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        35 ~~~~~~~~~~~~~~p~~~~~~~-g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      ..+.++.||+.+|+|.+|+++- +|.+.+..+...+..+.. .++|.|++|||||+++.+++..+.+.+.. .++.+ +.
T Consensus         6 ~~~~~~~~~~~~~~p~~~~~Ln~~Q~~av~~~~~~i~~~~~-~~li~G~aGTGKT~ll~~~~~~l~~~~~~-~il~~-a~   82 (459)
T 3upu_A            6 HHHHHSSGLVPRGSHMTFDDLTEGQKNAFNIVMKAIKEKKH-HVTINGPAGTGATTLTKFIIEALISTGET-GIILA-AP   82 (459)
T ss_dssp             ---------------CCSSCCCHHHHHHHHHHHHHHHSSSC-EEEEECCTTSCHHHHHHHHHHHHHHTTCC-CEEEE-ES
T ss_pred             CCCCccCCCccccCCCccccCCHHHHHHHHHHHHHHhcCCC-EEEEEeCCCCCHHHHHHHHHHHHHhcCCc-eEEEe-cC
Confidence            3456889999999999999887 688888888888777653 79999999999999999999998665441 12222 22


Q ss_pred             CCcChhHHHHHH-------HHhhhccc--------c---cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEE
Q 021937          114 DDRGIDVVRQQI-------QDFASTQS--------F---SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFA  175 (305)
Q Consensus       114 ~~~~~~~~~~~i-------~~~~~~~~--------~---~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~ii  175 (305)
                      .......+.+.+       ........        +   ......+..+|+|||++.++......|...+.   ....++
T Consensus        83 T~~Aa~~l~~~~~~~~~T~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiDE~~~~~~~~~~~l~~~~~---~~~~~~  159 (459)
T 3upu_A           83 THAAKKILSKLSGKEASTIHSILKINPVTYEENVLFEQKEVPDLAKCRVLICDEVSMYDRKLFKILLSTIP---PWCTII  159 (459)
T ss_dssp             SHHHHHHHHHHHSSCEEEHHHHHTEEEEECSSCEEEEECSCCCCSSCSEEEESCGGGCCHHHHHHHHHHSC---TTCEEE
T ss_pred             cHHHHHHHHhhhccchhhHHHHhccCcccccccchhcccccccccCCCEEEEECchhCCHHHHHHHHHhcc---CCCEEE
Confidence            222222222222       11111000        0   01112346899999999999877766666553   466788


Q ss_pred             EEecCC
Q 021937          176 LICNQV  181 (305)
Q Consensus       176 l~~~~~  181 (305)
                      ++++..
T Consensus       160 ~vGD~~  165 (459)
T 3upu_A          160 GIGDNK  165 (459)
T ss_dssp             EEECTT
T ss_pred             EECCHH
Confidence            887543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=99.18  E-value=3.8e-11  Score=90.75  Aligned_cols=100  Identities=14%  Similarity=0.204  Sum_probs=68.0

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCc
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA  152 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~  152 (305)
                      ....++|+||+|+|||+++++++..+...+.  ..+.++.......        ..          ..++.+++|||++.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~--~~~~~~~~~~~~~--------~~----------~~~~~lLilDE~~~   94 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGK--NAAYIDAASMPLT--------DA----------AFEAEYLAVDQVEK   94 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTC--CEEEEETTTSCCC--------GG----------GGGCSEEEEESTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCC--cEEEEcHHHhhHH--------HH----------HhCCCEEEEeCccc
Confidence            4456999999999999999999998865432  3455554432222        00          11268999999999


Q ss_pred             CCHHHHHHHHHHHHHhcC-Cce-EEEEecCCcc-c--chhhhcce
Q 021937          153 MTKDAQFALRRVIEKYTK-NTR-FALICNQVNK-I--IPALQSRC  192 (305)
Q Consensus       153 l~~~~~~~l~~~l~~~~~-~~~-iil~~~~~~~-l--~~~l~~r~  192 (305)
                      +....+..|+.+++.... ... +|++++.... +  .+++.+|+
T Consensus        95 ~~~~~~~~l~~li~~~~~~g~~~iiits~~~p~~l~~~~~L~SRl  139 (149)
T 2kjq_A           95 LGNEEQALLFSIFNRFRNSGKGFLLLGSEYTPQQLVIREDLRTRM  139 (149)
T ss_dssp             CCSHHHHHHHHHHHHHHHHTCCEEEEEESSCTTTSSCCHHHHHHG
T ss_pred             cChHHHHHHHHHHHHHHHcCCcEEEEECCCCHHHccccHHHHHHH
Confidence            987778889898886432 233 7777764322 1  27888886

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=99.13  E-value=9.6e-11  Score=99.50  Aligned_cols=132  Identities=17%  Similarity=0.214  Sum_probs=74.1

Q ss_pred             chhhhcCCCCccccccch----HHHHHHHHHHhcCC---CCeEEEECCCCCcHHHHHHHHHHHHh-CCCCcccEEEeecC
Q 021937           42 PWVEKYRPQSLADVAAHR----DIVDTIDRLTSENR---LPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNAS  113 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~----~~~~~l~~~l~~~~---~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~  113 (305)
                      .++..+.+.+|++|++..    ..+..+..++....   ..+++|+||+|+|||+++.++++.+. ..+....++.  .+
T Consensus       113 ~l~~~~~~~tfd~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~--~~  190 (308)
T 2qgz_A          113 SLPKSYRHIHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLH--FP  190 (308)
T ss_dssp             SSCGGGGSCCGGGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEE--HH
T ss_pred             CCCHHHHhCCHhhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE--HH
Confidence            344556678899998633    35556667776532   45699999999999999999999886 5554433333  21


Q ss_pred             CCcChhHHHHHHHHhhhcccccC--CCCCceEEEEEeCCCcCCH--HHHHHH-HHHHHHh-cCCceEEEEecCC
Q 021937          114 DDRGIDVVRQQIQDFASTQSFSF--GVKASVKLVLLDEADAMTK--DAQFAL-RRVIEKY-TKNTRFALICNQV  181 (305)
Q Consensus       114 ~~~~~~~~~~~i~~~~~~~~~~~--~~~~~~~vliiDe~~~l~~--~~~~~l-~~~l~~~-~~~~~iil~~~~~  181 (305)
                            .+...+...........  ..-.+..+|+|||++....  ..+..+ ..+++.. ..+..+|++||..
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                  11111111000000000  0001247999999966543  233334 4466643 3456788888754

>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=99.10  E-value=2.3e-09  Score=87.90  Aligned_cols=138  Identities=16%  Similarity=0.217  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHhcC-C-CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCC
Q 021937           60 DIVDTIDRLTSEN-R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG  137 (305)
Q Consensus        60 ~~~~~l~~~l~~~-~-~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  137 (305)
                      .....+..++.+. . ..+++|+||||||||.++.++++.+.      .+..++....                 .+...
T Consensus        88 ~~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~~------l~G~vn~~~~-----------------~f~l~  144 (267)
T 1u0j_A           88 YAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP------FYGCVNWTNE-----------------NFPFN  144 (267)
T ss_dssp             HHHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS------CEEECCTTCS-----------------SCTTG
T ss_pred             HHHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhhc------ccceeecccc-----------------ccccc
Confidence            3445677777765 3 33599999999999999999999741      1222222110                 01111


Q ss_pred             CCCceEEEEEeCCCcCCHHHHHHHHHHHH--------Hhc-----CCceEEEEecCC-----------cccchhhhccee
Q 021937          138 VKASVKLVLLDEADAMTKDAQFALRRVIE--------KYT-----KNTRFALICNQV-----------NKIIPALQSRCT  193 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~~~~~~~l~~~l~--------~~~-----~~~~iil~~~~~-----------~~l~~~l~~r~~  193 (305)
                      .-..+.+++.||..... +..+.+..+++        ...     ..+++|+++|..           ....+.|++|+.
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            11124566666665544 45556666666        222     466888888751           245578999999


Q ss_pred             EEEec--------CCCHHHHHHHHHHHHHHcCCCCCH
Q 021937          194 RFRFA--------PLEPVHVTERLKHVIEAEGLDVTE  222 (305)
Q Consensus       194 ~i~~~--------~~~~~~~~~~l~~~~~~~~~~~~~  222 (305)
                      .+.|.        +++.+++..++. .++.+..++++
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 44666655543

>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=2.5e-09  Score=99.18  Aligned_cols=185  Identities=13%  Similarity=0.129  Sum_probs=109.2

Q ss_pred             CCCCccccccchHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHHh--CCCC--cccEEEeecCCCcChhHH
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLY--GAQY--HNMILELNASDDRGIDVV  121 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~l~~~~~--~~~~--~~~~~~~~~~~~~~~~~~  121 (305)
                      .|.....++|++..++.|...+..  +..+.+.|+|++|+|||++|..+++...  ...+  ...++.+...   ....+
T Consensus       119 ~P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~---~~~~~  195 (591)
T 1z6t_A          119 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ---DKSGL  195 (591)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC---CHHHH
T ss_pred             CCCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC---chHHH
Confidence            356667899999999999999974  3334589999999999999999975321  1112  2333444332   12222


Q ss_pred             HHHHHHhhhccc----c-c-CC---------------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          122 RQQIQDFASTQS----F-S-FG---------------VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       122 ~~~i~~~~~~~~----~-~-~~---------------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      ...+........    . . ..               ...++.+|||||++..  .       .++..+....+|+||..
T Consensus       196 ~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~--~-------~l~~l~~~~~ilvTsR~  266 (591)
T 1z6t_A          196 LMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS--W-------VLKAFDSQCQILLTTRD  266 (591)
T ss_dssp             HHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH--H-------HHHTTCSSCEEEEEESC
T ss_pred             HHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH--H-------HHHHhcCCCeEEEECCC
Confidence            222222111100    0 0 00               0114689999999852  1       23344567788888765


Q ss_pred             CcccchhhhcceeEEE-ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q 021937          181 VNKIIPALQSRCTRFR-FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQST  246 (305)
Q Consensus       181 ~~~l~~~l~~r~~~i~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  246 (305)
                      .... .........+. ..+++.++..+++...+.... .-..+....|++.|+|.|-.+......+
T Consensus       267 ~~~~-~~~~~~~~~v~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~i~~~~~G~PLal~~~a~~l  331 (591)
T 1z6t_A          267 KSVT-DSVMGPKYVVPVESSLGKEKGLEILSLFVNMKK-ADLPEQAHSIIKECKGSPLVVSLIGALL  331 (591)
T ss_dssp             GGGG-TTCCSCEEEEECCSSCCHHHHHHHHHHHHTSCG-GGSCTHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cHHH-HhcCCCceEeecCCCCCHHHHHHHHHHHhCCCc-ccccHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            4321 11112222222 258999999999988764311 1124567899999999988776555444

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=99.03  E-value=7.9e-10  Score=86.57  Aligned_cols=119  Identities=19%  Similarity=0.277  Sum_probs=72.2

Q ss_pred             hHHHHHHHHHHhcCCC-CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCC
Q 021937           59 RDIVDTIDRLTSENRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG  137 (305)
Q Consensus        59 ~~~~~~l~~~l~~~~~-~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  137 (305)
                      ...+..+..++.+-+. .+++++||||+|||+++.++++.+..     .++.+..... ...         .  ..+.  
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-HFW---------L--EPLT--  102 (212)
T ss_dssp             HHHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTC-----EECCCCCSSS-CGG---------G--GGGT--
T ss_pred             HHHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCC-----CeeeEEeccc-hhh---------h--cccC--
Confidence            3456677777765322 25999999999999999999999832     1222111100 000         0  0001  


Q ss_pred             CCCceEEEEEeCCCcCCHHH-HHHHHHHHHHhc-------------CCceEEEEecCC---cccchhhhcceeEEEecC
Q 021937          138 VKASVKLVLLDEADAMTKDA-QFALRRVIEKYT-------------KNTRFALICNQV---NKIIPALQSRCTRFRFAP  199 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~~~~-~~~l~~~l~~~~-------------~~~~iil~~~~~---~~l~~~l~~r~~~i~~~~  199 (305)
                         +..+++|||++.-..+. ...+..+++..+             ...++|++||..   ....+.+.+|+..+.|+.
T Consensus       103 ---~~kIiiLDEad~~~~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~~~~~L~SRi~~f~F~~  178 (212)
T 1tue_A          103 ---DTKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFEFPN  178 (212)
T ss_dssp             ---TCSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEECCS
T ss_pred             ---CCCEEEEECCCchhHHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCcccccchhhhhhhEEEEEcCC
Confidence               14699999998432222 235566666532             245788898763   334578999998887763

>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=99.00  E-value=3.3e-09  Score=111.00  Aligned_cols=145  Identities=15%  Similarity=0.197  Sum_probs=100.0

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccc-----ccCC-C
Q 021937           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS-----FSFG-V  138 (305)
Q Consensus        65 l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~-----~~~~-~  138 (305)
                      +..++..+  .+++|+||||||||++|+.++...    ....+..++.+.......+...+........     ..++ .
T Consensus      1260 l~~~l~~~--~~vLL~GPpGtGKT~la~~~l~~~----~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~ 1333 (2695)
T 4akg_A         1260 FYDLLNSK--RGIILCGPPGSGKTMIMNNALRNS----SLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKS 1333 (2695)
T ss_dssp             HHHHHHHT--CEEEEECSTTSSHHHHHHHHHHSC----SSCEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBS
T ss_pred             HHHHHHCC--CeEEEECCCCCCHHHHHHHHHhcC----CCCceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCC
Confidence            34444444  469999999999999997766543    2345667777766666666666665432211     1111 1


Q ss_pred             CCceEEEEEeCCCcCCH------HHHHHHHHHHHHhc------------CCceEEEEecCC-----cccchhhhcceeEE
Q 021937          139 KASVKLVLLDEADAMTK------DAQFALRRVIEKYT------------KNTRFALICNQV-----NKIIPALQSRCTRF  195 (305)
Q Consensus       139 ~~~~~vliiDe~~~l~~------~~~~~l~~~l~~~~------------~~~~iil~~~~~-----~~l~~~l~~r~~~i  195 (305)
                      ..++.|+||||++....      ...+.|.++++...            .+..+|.++|.+     ..+++++.+||.++
T Consensus      1334 ~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi 1413 (2695)
T 4akg_A         1334 DIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAIL 1413 (2695)
T ss_dssp             SSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEE
T ss_pred             CCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEE
Confidence            34568999999776432      35677788887421            235667777776     36899999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHH
Q 021937          196 RFAPLEPVHVTERLKHVIEA  215 (305)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~  215 (305)
                      .++.|+.+++..++..++..
T Consensus      1414 ~i~~P~~~~l~~I~~~il~~ 1433 (2695)
T 4akg_A         1414 YLGYPSGKSLSQIYEIYYKA 1433 (2695)
T ss_dssp             ECCCCTTTHHHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHHH
Confidence            99999999999999887754

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=98.99  E-value=4e-09  Score=92.68  Aligned_cols=199  Identities=13%  Similarity=0.096  Sum_probs=117.8

Q ss_pred             cccchHHHHHHHHHHhcCC-----CCeEEEECCCCCcHHHHHHHH-HHHHhCCCCcccEEEeecCCCcChhHHHHHHHHh
Q 021937           55 VAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKTSTILAV-ARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~~~~-----~~~~ll~G~~G~GKT~l~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (305)
                      +.|++.++..+.-.+.++.     ..|++|.|+||+ ||.+++.+ ++.. .   ...+.....+.   ...+...+...
T Consensus       215 I~G~e~vK~aLll~L~GG~~k~rgdihVLL~G~PGt-KS~Lar~i~~~i~-p---R~~ft~g~~ss---~~gLt~s~r~~  286 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFSCVGKNSERLHVLLAGYPVV-CSEILHHVLDHLA-P---RGVYVDLRRTE---LTDLTAVLKED  286 (506)
T ss_dssp             STTCHHHHHHHHHHHTTCCSSGGGCCCEEEESCHHH-HHHHHHHHHHHTC-S---SEEEEEGGGCC---HHHHSEEEEES
T ss_pred             cCCCHHHHHHHHHHHcCCccccCCceeEEEECCCCh-HHHHHHHHHHHhC-C---CeEEecCCCCC---ccCceEEEEcC
Confidence            8899998888877776663     126999999999 99999999 6543 1   11222111111   00000000000


Q ss_pred             hhcccccCC--CCCceEEEEEeCCCcCCHHHHHHHHHHHHHh---------cCCceEEEEecCCc-----------ccch
Q 021937          129 ASTQSFSFG--VKASVKLVLLDEADAMTKDAQFALRRVIEKY---------TKNTRFALICNQVN-----------KIIP  186 (305)
Q Consensus       129 ~~~~~~~~~--~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~---------~~~~~iil~~~~~~-----------~l~~  186 (305)
                      .. ..+..+  ..+..+++++||++.++...+..|++.+++.         +.+..++.++|...           .+++
T Consensus       287 tG-~~~~~G~l~LAdgGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~NP~~~yd~~~s~~~~~Lp~  365 (506)
T 3f8t_A          287 RG-WALRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVDGIALNARCAVLAAINPGEQWPSDPPIARIDLDQ  365 (506)
T ss_dssp             SS-EEEEECHHHHTTTSEEEEECCTTCCHHHHHHHHHHHHHSEEEETTEEEECCCEEEEEECCCC--CCSCGGGGCCSCH
T ss_pred             CC-cccCCCeeEEcCCCeeehHhhhhCCHHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeCcccccCCCCCccccCCCh
Confidence            00 000000  1134689999999999999999999999964         45667777777653           6788


Q ss_pred             hhhcceeE-EE-ec-------------CCCHHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHc------------------
Q 021937          187 ALQSRCTR-FR-FA-------------PLEPVHVTERLKHVI-EAEGLDVTEGGLAALVRLC------------------  232 (305)
Q Consensus       187 ~l~~r~~~-i~-~~-------------~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~l~~~~------------------  232 (305)
                      ++.+||.. +. ..             .++.+++.+++...- ......+++++.+.|+++.                  
T Consensus       366 alLDRFDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~~ar~~~~~p~ls~ea~~yI~~~y~~tR~~~~~~~~~~~~~~  445 (506)
T 3f8t_A          366 DFLSHFDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLLYAIREHPAPELTEEARKRLEHWYETRREEVEERLGMGLPTL  445 (506)
T ss_dssp             HHHTTCSEEEETTC--------------CCHHHHHHHHHHHHHHCSCCEECHHHHHHHHHHHHHHHHHHHHHHHTTCCCC
T ss_pred             HHhhheeeEEEecCCCChhHhhcccCCCCCHHHHHHHHHHHHhcCCCceeCHHHHHHHHHHHHHHhcCcccccccccccc
Confidence            99999833 22 22             234455555554432 1235678888777666432                  


Q ss_pred             CCCHHHHHHHHHHHhh-----ccCccCHHHHHhhh
Q 021937          233 NGDMRKALNILQSTHM-----ASQQITEEAVYLCT  262 (305)
Q Consensus       233 ~g~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~  262 (305)
                      +-++|.+..++..+-.     ....++++||++++
T Consensus       446 giSpR~leaLiRlA~A~A~L~gR~~V~~eDV~~Ai  480 (506)
T 3f8t_A          446 PVTRRQLESVERLAKAHARMRLSDDVEPEDVDIAA  480 (506)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHcCcCCCCHHHHHHHH
Confidence            2345666655533222     23457777776665

>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=98.98  E-value=9e-09  Score=94.49  Aligned_cols=183  Identities=18%  Similarity=0.190  Sum_probs=106.4

Q ss_pred             CCCccccccchHHHHHHHHHHhcC---CCCeEEEECCCCCcHHHHHHHHHHH---HhCCCCcccEEEeecCCCc--Chh-
Q 021937           49 PQSLADVAAHRDIVDTIDRLTSEN---RLPHLLLYGPPGTGKTSTILAVARK---LYGAQYHNMILELNASDDR--GID-  119 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~~~---~~~~~ll~G~~G~GKT~l~~~l~~~---~~~~~~~~~~~~~~~~~~~--~~~-  119 (305)
                      |.....+ |++..++.|.+++...   ....+.|+|++|+||||+|+.+++.   .....+. ..+.++.+...  +.. 
T Consensus       125 p~~~~~~-GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~-~~~wv~vs~~~~~~~~~  202 (549)
T 2a5y_B          125 PKQMTCY-IREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYD-SIVWLKDSGTAPKSTFD  202 (549)
T ss_dssp             BCCCCSC-CCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBS-EEEEEECCCCSTTHHHH
T ss_pred             CCCCccC-CchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCC-cEEEEEECCCCCCCHHH
Confidence            4333334 9999999999998654   3344889999999999999999972   2222222 22333333321  122 


Q ss_pred             HHHHHHHHhhhcc---ccc---C------------CCCCc-eEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          120 VVRQQIQDFASTQ---SFS---F------------GVKAS-VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       120 ~~~~~i~~~~~~~---~~~---~------------~~~~~-~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      .....+..+....   ...   .            ....+ +.+|||||++....  . .+.    .. ....+|+||+.
T Consensus       203 ~~~~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~--~-~~~----~~-~gs~ilvTTR~  274 (549)
T 2a5y_B          203 LFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEET--I-RWA----QE-LRLRCLVTTRD  274 (549)
T ss_dssp             HHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHH--H-HHH----HH-TTCEEEEEESB
T ss_pred             HHHHHHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchh--h-ccc----cc-CCCEEEEEcCC
Confidence            2222333222110   000   0            01243 78999999998431  1 111    11 46778777765


Q ss_pred             CcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHH
Q 021937          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGL-DVTEGGLAALVRLCNGDMRKALNI  242 (305)
Q Consensus       181 ~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~g~~r~~~~~  242 (305)
                      .. ...........+.+++++.++..+++...+..... .-..+....|++.|+|.|-.+...
T Consensus       275 ~~-v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~  336 (549)
T 2a5y_B          275 VE-ISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMF  336 (549)
T ss_dssp             GG-GGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HH-HHHHcCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHH
Confidence            32 22222112356899999999999998876422111 111246788999999988776654

>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=98.91  E-value=9.2e-08  Score=100.41  Aligned_cols=167  Identities=17%  Similarity=0.256  Sum_probs=115.6

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCC
Q 021937           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKA  140 (305)
Q Consensus        61 ~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  140 (305)
                      ....+...+..+.  ..++.||+|||||++++.+++.+     +..++.++|........+...+..+...         
T Consensus       634 ~~~tl~~Al~~~~--~~~l~GpaGtGKTe~vk~LA~~l-----g~~~v~~nc~e~ld~~~lg~~~~g~~~~---------  697 (2695)
T 4akg_A          634 GFATLTDSLHQKY--GGCFFGPAGTGKTETVKAFGQNL-----GRVVVVFNCDDSFDYQVLSRLLVGITQI---------  697 (2695)
T ss_dssp             HHHHHHHHHHTTC--EEEEECCTTSCHHHHHHHHHHTT-----TCCCEEEETTSSCCHHHHHHHHHHHHHH---------
T ss_pred             HHHHHHHHHHhCC--CCcccCCCCCCcHHHHHHHHHHh-----CCcEEEEECCCCCChhHhhHHHHHHHhc---------
Confidence            3344455554442  37899999999999999999998     6678888999888877776666655443         


Q ss_pred             ceEEEEEeCCCcCCHHHHHHHHHHHH-------Hh-------------cCCceEEEEec----CCcccchhhhcceeEEE
Q 021937          141 SVKLVLLDEADAMTKDAQFALRRVIE-------KY-------------TKNTRFALICN----QVNKIIPALQSRCTRFR  196 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~~~~l~~~l~-------~~-------------~~~~~iil~~~----~~~~l~~~l~~r~~~i~  196 (305)
                       +..+++||++++..+....+...+.       +.             .+...+++|.|    ....+++.+++||+.+.
T Consensus       698 -Gaw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~~Fr~v~  776 (2695)
T 4akg_A          698 -GAWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFS  776 (2695)
T ss_dssp             -TCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHTTEEEEE
T ss_pred             -CCEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHhheEEEE
Confidence             4799999999999988776633332       21             12344666666    34578999999999999


Q ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-------c------CCCHHHHHHHHHHHh
Q 021937          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL-------C------NGDMRKALNILQSTH  247 (305)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~-------~------~g~~r~~~~~l~~~~  247 (305)
                      +..|+.+.+.+++...   .|+.........++..       .      ...+|.+...|..+.
T Consensus       777 m~~Pd~~~i~ei~l~s---~Gf~~a~~la~kiv~~~~l~~e~ls~q~hydfglRalksvL~~ag  837 (2695)
T 4akg_A          777 MKSPQSGTIAEMILQI---MGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCS  837 (2695)
T ss_dssp             CCCCCHHHHHHHHHHH---HHCSSHHHHHHHHHHHHHHHHHHSCCCTTCCCSHHHHHHHHHHHH
T ss_pred             eeCCCHHHHHHHHHHh---cCCCchHHHHHHHHHHHHHHHHHhCcCCcccccHHHHHHHHHHHH
Confidence            9999998888876432   3554444444433321       1      135788877776543

>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=98.87  E-value=1.1e-07  Score=95.31  Aligned_cols=187  Identities=14%  Similarity=0.153  Sum_probs=111.8

Q ss_pred             CCCCccccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHH--hCCCCcccEEEeecCCCcChhHHHH
Q 021937           48 RPQSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKL--YGAQYHNMILELNASDDRGIDVVRQ  123 (305)
Q Consensus        48 ~p~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~  123 (305)
                      .|.....|+|++..++.|...+...  ....+.|+|++|+|||+||..+++..  ....+...++.++..... ......
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~-~~~~~~  197 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQD-KSGLLM  197 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCC-HHHHHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcC-chHHHH
Confidence            4556678999999999999999643  33448899999999999999987753  122233233333333211 111111


Q ss_pred             HHHH----hhhccccc-----------------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          124 QIQD----FASTQSFS-----------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       124 ~i~~----~~~~~~~~-----------------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .+..    +.......                 ...+.++.+|||||++...         .++...+..++|+||+...
T Consensus       198 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~---------~~~~~~~~~~ilvTtR~~~  268 (1249)
T 3sfz_A          198 KLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPW---------VLKAFDNQCQILLTTRDKS  268 (1249)
T ss_dssp             HHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHH---------HHTTTCSSCEEEEEESSTT
T ss_pred             HHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHH---------HHHhhcCCCEEEEEcCCHH
Confidence            1111    11110000                 0011337899999998531         1233355778888887643


Q ss_pred             ccchhhhcceeEEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q 021937          183 KIIPALQSRCTRFRFAP-LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQST  246 (305)
Q Consensus       183 ~l~~~l~~r~~~i~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  246 (305)
                      -. .........+.+++ ++.++..+++...+...... ..+....|++.|+|.|-.+......+
T Consensus       269 ~~-~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~-~~~~~~~i~~~~~glPLal~~~~~~l  331 (1249)
T 3sfz_A          269 VT-DSVMGPKHVVPVESGLGREKGLEILSLFVNMKKED-LPAEAHSIIKECKGSPLVVSLIGALL  331 (1249)
T ss_dssp             TT-TTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCSTT-CCTHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HH-HhhcCCceEEEecCCCCHHHHHHHHHHhhCCChhh-CcHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            22 12222335677875 99999999998776333222 23567889999999887666554444

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=98.72  E-value=4.5e-07  Score=87.13  Aligned_cols=172  Identities=16%  Similarity=0.109  Sum_probs=95.8

Q ss_pred             ccchHHHHHHHHHHhc-CCCCeEEEECCCCCcHHHHHHHHHHHH-hCCCCcccEEEeecCCCcChhHHHHHHHHhhhccc
Q 021937           56 AAHRDIVDTIDRLTSE-NRLPHLLLYGPPGTGKTSTILAVARKL-YGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS  133 (305)
Q Consensus        56 ~g~~~~~~~l~~~l~~-~~~~~~ll~G~~G~GKT~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  133 (305)
                      +|++..++.|.+++.. ...+.+.|+|++|+||||+|+.+++.. ....+...++.++.........+...+........
T Consensus       131 VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i~  210 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID  210 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHHC
T ss_pred             CCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhcC
Confidence            8999999999999876 334458999999999999999998632 01112222222333322223232222222111000


Q ss_pred             --cc------------------------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchh
Q 021937          134 --FS------------------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPA  187 (305)
Q Consensus       134 --~~------------------------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~  187 (305)
                        +.                        .....++.+|||||++.  .+....       .+...++|+||+...... .
T Consensus       211 ~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd--~eqLe~-------f~pGSRILVTTRd~~Va~-~  280 (1221)
T 1vt4_I          211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN--AKAWNA-------FNLSCKILLTTRFKQVTD-F  280 (1221)
T ss_dssp             SSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCC--HHHHHH-------HHSSCCEEEECSCSHHHH-H
T ss_pred             cccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcCh--HHHHHh-------hCCCeEEEEeccChHHHH-h
Confidence              00                        00124578999999998  222222       235778888887654321 1


Q ss_pred             hh-cceeEEEec----CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 021937          188 LQ-SRCTRFRFA----PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (305)
Q Consensus       188 l~-~r~~~i~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  244 (305)
                      +. .+...+.++    +++.++..+++...+   +.. ..+..   .+.|+|.|-.+.-...
T Consensus       281 l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~---g~~-~eeL~---~eICgGLPLALkLaGs  335 (1221)
T 1vt4_I          281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYL---DCR-PQDLP---REVLTTNPRRLSIIAE  335 (1221)
T ss_dssp             HHHHSSCEEEECSSSSCCCHHHHHHHHHHHH---CCC-TTTHH---HHHCCCCHHHHHHHHH
T ss_pred             cCCCeEEEecCccccCCcCHHHHHHHHHHHc---CCC-HHHHH---HHHhCCCHHHHHHHHH
Confidence            11 112334444    789999999988773   222 22222   2347787765544433

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.69  E-value=1.9e-07  Score=98.79  Aligned_cols=145  Identities=18%  Similarity=0.222  Sum_probs=99.2

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcc------cccCC
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ------SFSFG  137 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~------~~~~~  137 (305)
                      -+..++..+  .+++|+||+|||||.++..+...+    ....++.++.+.......+...+.......      .+..+
T Consensus      1296 ll~~ll~~~--~pvLL~GptGtGKT~li~~~L~~l----~~~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~~~p 1369 (3245)
T 3vkg_A         1296 VLHAWLSEH--RPLILCGPPGSGKTMTLTSTLRAF----PDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRP 1369 (3245)
T ss_dssp             HHHHHHHTT--CCCEEESSTTSSHHHHHHHHGGGC----TTEEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEEEEE
T ss_pred             HHHHHHHCC--CcEEEECCCCCCHHHHHHHHHHhC----CCCceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcccCC
Confidence            344444444  349999999999999887766543    234567788877777777777665433211      11222


Q ss_pred             C-CCceEEEEEeCCCcCCH------HHHHHHHHHHHHhc------------CCceEEEEecCC-----cccchhhhccee
Q 021937          138 V-KASVKLVLLDEADAMTK------DAQFALRRVIEKYT------------KNTRFALICNQV-----NKIIPALQSRCT  193 (305)
Q Consensus       138 ~-~~~~~vliiDe~~~l~~------~~~~~l~~~l~~~~------------~~~~iil~~~~~-----~~l~~~l~~r~~  193 (305)
                      . ..+..|+||||++.-..      ...+.|..+++...            .+..+|.+++.+     ..+.+++.+||.
T Consensus      1370 ~~~Gk~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r~F~ 1449 (3245)
T 3vkg_A         1370 TQLGKWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLRHAP 1449 (3245)
T ss_dssp             SSTTCEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHTTCC
T ss_pred             CcCCceEEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHhhce
Confidence            2 25578999999986553      35677888887421            234566666654     458899999999


Q ss_pred             EEEecCCCHHHHHHHHHHHHH
Q 021937          194 RFRFAPLEPVHVTERLKHVIE  214 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~  214 (305)
                      ++.++.|+.+.+..++..+..
T Consensus      1450 vi~i~~ps~esL~~If~til~ 1470 (3245)
T 3vkg_A         1450 ILLVDFPSTSSLTQIYGTFNR 1470 (3245)
T ss_dssp             EEECCCCCHHHHHHHHHHHHH
T ss_pred             EEEeCCCCHHHHHHHHHHHHH
Confidence            999999999999998776554

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.60  E-value=3.2e-06  Score=89.78  Aligned_cols=168  Identities=15%  Similarity=0.204  Sum_probs=115.9

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCC
Q 021937           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKA  140 (305)
Q Consensus        61 ~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  140 (305)
                      ..-.|...+....+  ..+.||+|||||.+++.+++.+     +..++.++|........+...+..+...         
T Consensus       593 cy~tl~~Al~~~~g--g~~~GPaGtGKTet~k~La~~l-----gr~~~vfnC~~~~d~~~~g~i~~G~~~~---------  656 (3245)
T 3vkg_A          593 CYLTLTQALESRMG--GNPFGPAGTGKTETVKALGSQL-----GRFVLVFCCDEGFDLQAMSRIFVGLCQC---------  656 (3245)
T ss_dssp             HHHHHHHHHHTTCE--EEEECSTTSSHHHHHHHHHHHT-----TCCEEEEECSSCCCHHHHHHHHHHHHHH---------
T ss_pred             HHHHHHHHHHhcCC--CCCCCCCCCCHHHHHHHHHHHh-----CCeEEEEeCCCCCCHHHHHHHHhhHhhc---------
Confidence            33455555554432  5689999999999999999998     5677888998877777666655555443         


Q ss_pred             ceEEEEEeCCCcCCHHHHHHHHHHHH-------Hh--------------cCCceEEEEecC----CcccchhhhcceeEE
Q 021937          141 SVKLVLLDEADAMTKDAQFALRRVIE-------KY--------------TKNTRFALICNQ----VNKIIPALQSRCTRF  195 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~~~~l~~~l~-------~~--------------~~~~~iil~~~~----~~~l~~~l~~r~~~i  195 (305)
                       +...++||++++..+....+...+.       ..              .+...+++|.|.    ...+++.++.+|+.+
T Consensus       657 -GaW~cfDEfNrl~~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~lFr~v  735 (3245)
T 3vkg_A          657 -GAWGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFRSM  735 (3245)
T ss_dssp             -TCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHTTEEEE
T ss_pred             -CcEEEehhhhcCCHHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHhhcEEE
Confidence             4688999999999887766555443       11              123455666653    357899999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH---Hc----------CCCHHHHHHHHHHHhh
Q 021937          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR---LC----------NGDMRKALNILQSTHM  248 (305)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~---~~----------~g~~r~~~~~l~~~~~  248 (305)
                      .+..|+.+.+.+++   +...|+.-.......++.   .|          .-.+|.+...|..+..
T Consensus       736 ~m~~Pd~~~i~ei~---L~s~Gf~~a~~La~k~~~~~~l~~e~LS~Q~HYDfGLRalKsVL~~AG~  798 (3245)
T 3vkg_A          736 AMIKPDREMIAQVM---LYSQGFKTAEVLAGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGG  798 (3245)
T ss_dssp             ECCSCCHHHHHHHH---HHTTTCSCHHHHHHHHHHHHHHHHHSSCCCTTCCCSHHHHHHHHHHHHH
T ss_pred             EEeCCCHHHHHHHH---HHHcccchHHHHHHHHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHH
Confidence            99999999888876   334566433444333332   22          2348888888876553

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.57  E-value=7.2e-08  Score=75.34  Aligned_cols=114  Identities=10%  Similarity=0.088  Sum_probs=57.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhh------cccccCCCCCceEEEEEeC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS------TQSFSFGVKASVKLVLLDE  149 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~------~~~~~~~~~~~~~vliiDe  149 (305)
                      ..+++||+|+||||++..++......+....++........+...+.........      ...+......+..+|+|||
T Consensus         5 i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~dvviIDE   84 (184)
T 2orw_A            5 LTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKYIEEDTRGVFIDE   84 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC-----CCCEECC----CEECEEESSGGGGGGGCCTTEEEEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHHhcCCCCEEEEEC
Confidence            4789999999999999777766644444333322111000000000000000000      0000000112478999999


Q ss_pred             CCcCCHHHHHHHHHHHHHhcCCceEEEEecC------Ccccchhhhcce
Q 021937          150 ADAMTKDAQFALRRVIEKYTKNTRFALICNQ------VNKIIPALQSRC  192 (305)
Q Consensus       150 ~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~------~~~l~~~l~~r~  192 (305)
                      ++.+.++....+..+.+.   +..+++++..      .....+.+.++.
T Consensus        85 ~Q~~~~~~~~~l~~l~~~---~~~Vi~~Gl~~~f~~~~f~~~~~ll~~a  130 (184)
T 2orw_A           85 VQFFNPSLFEVVKDLLDR---GIDVFCAGLDLTHKQNPFETTALLLSLA  130 (184)
T ss_dssp             GGGSCTTHHHHHHHHHHT---TCEEEEEEESBCTTSCBCHHHHHHHHHC
T ss_pred             cccCCHHHHHHHHHHHHC---CCCEEEEeeccccccCCccchHHHHHHh
Confidence            999977666666666654   4556666542      224445555555

>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=98.54  E-value=8e-07  Score=68.94  Aligned_cols=66  Identities=14%  Similarity=0.280  Sum_probs=45.8

Q ss_pred             eEEEEEeCC---CcCCHHHHHHHHHHHHHhcCCceEEEEec--CCcccchhhhcc--eeEEEecCCCHHHHHHHH
Q 021937          142 VKLVLLDEA---DAMTKDAQFALRRVIEKYTKNTRFALICN--QVNKIIPALQSR--CTRFRFAPLEPVHVTERL  209 (305)
Q Consensus       142 ~~vliiDe~---~~l~~~~~~~l~~~l~~~~~~~~iil~~~--~~~~l~~~l~~r--~~~i~~~~~~~~~~~~~l  209 (305)
                      +.++++||+   ..++......+.+++++.  ...+++++.  +...+...+.+|  +.++.+.+.+.+++.+-+
T Consensus       100 p~llilDEigp~~~ld~~~~~~l~~~l~~~--~~~~i~~~H~~h~~~~~~~i~~r~~~~i~~~~~~~r~~~~~~l  172 (178)
T 1ye8_A          100 RKVIIIDEIGKMELFSKKFRDLVRQIMHDP--NVNVVATIPIRDVHPLVKEIRRLPGAVLIELTPENRDVILEDI  172 (178)
T ss_dssp             TCEEEECCCSTTGGGCHHHHHHHHHHHTCT--TSEEEEECCSSCCSHHHHHHHTCTTCEEEECCTTTTTTHHHHH
T ss_pred             CCEEEEeCCCCcccCCHHHHHHHHHHHhcC--CCeEEEEEccCCCchHHHHHHhcCCcEEEEecCcCHHHHHHHH
Confidence            689999995   455677788888888762  344666663  344566777777  678888877766555444

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.51  E-value=1.6e-07  Score=74.21  Aligned_cols=59  Identities=10%  Similarity=0.110  Sum_probs=39.6

Q ss_pred             eEEEEEeCCCcCCH---HHH--HHHHHHHHHh-cCCceEEEEecCCcccchhhhcce-eEEEecCC
Q 021937          142 VKLVLLDEADAMTK---DAQ--FALRRVIEKY-TKNTRFALICNQVNKIIPALQSRC-TRFRFAPL  200 (305)
Q Consensus       142 ~~vliiDe~~~l~~---~~~--~~l~~~l~~~-~~~~~iil~~~~~~~l~~~l~~r~-~~i~~~~~  200 (305)
                      +.||+|||+|.+.+   +..  ..++..++.. .....+|+++.....+...++.|+ ..+++.++
T Consensus        88 ~~vliIDEAq~l~~~~~~~~e~~rll~~l~~~r~~~~~iil~tq~~~~l~~~lr~ri~~~~~l~~~  153 (199)
T 2r2a_A           88 GSIVIVDEAQDVWPARSAGSKIPENVQWLNTHRHQGIDIFVLTQGPKLLDQNLRTLVRKHYHIASN  153 (199)
T ss_dssp             TCEEEETTGGGTSBCCCTTCCCCHHHHGGGGTTTTTCEEEEEESCGGGBCHHHHTTEEEEEEEEEC
T ss_pred             ceEEEEEChhhhccCccccchhHHHHHHHHhcCcCCeEEEEECCCHHHHhHHHHHHhheEEEEcCc
Confidence            68999999999832   111  1233334332 234578888988888999999997 45677664

>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=98.29  E-value=4.4e-06  Score=70.23  Aligned_cols=65  Identities=12%  Similarity=0.225  Sum_probs=39.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe------ecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL------NASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~  150 (305)
                      ++|+||||+|||+++..++..   .+....|+..      +... ...+.....+......          ..+||||++
T Consensus       126 iLI~GpPGsGKTtLAlqlA~~---~G~~VlyIs~~~eE~v~~~~-~~le~~l~~i~~~l~~----------~~LLVIDsI  191 (331)
T 2vhj_A          126 VIVTGKGNSGKTPLVHALGEA---LGGKDKYATVRFGEPLSGYN-TDFNVFVDDIARAMLQ----------HRVIVIDSL  191 (331)
T ss_dssp             EEEECSCSSSHHHHHHHHHHH---HHTTSCCEEEEBSCSSTTCB-CCHHHHHHHHHHHHHH----------CSEEEEECC
T ss_pred             EEEEcCCCCCHHHHHHHHHHh---CCCCEEEEEecchhhhhhhh-cCHHHHHHHHHHHHhh----------CCEEEEecc
Confidence            799999999999999999887   2334455555      1111 1222222222222211          129999999


Q ss_pred             CcCCH
Q 021937          151 DAMTK  155 (305)
Q Consensus       151 ~~l~~  155 (305)
                      +.+..
T Consensus       192 ~aL~~  196 (331)
T 2vhj_A          192 KNVIG  196 (331)
T ss_dssp             TTTC-
T ss_pred             ccccc
Confidence            98853

>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=98.29  E-value=3.3e-06  Score=67.68  Aligned_cols=96  Identities=14%  Similarity=0.149  Sum_probs=55.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC--------CcCh-------hHHHHHHHHhhhcccccCCCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD--------DRGI-------DVVRQQIQDFASTQSFSFGVKA  140 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~--------~~~~-------~~~~~~i~~~~~~~~~~~~~~~  140 (305)
                      .++++|++|+||||++..++......+....++......        ..+.       ....+.+..+....     ...
T Consensus        14 i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~-----~~~   88 (223)
T 2b8t_A           14 IEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNS-----FND   88 (223)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTT-----SCT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHh-----hCC
Confidence            478999999999999999988886555544444211100        0000       00011111111110     112


Q ss_pred             ceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      ++.+|+|||++.+..+....+..+.+.   ...+++++.
T Consensus        89 ~~dvViIDEaQ~l~~~~ve~l~~L~~~---gi~Vil~Gl  124 (223)
T 2b8t_A           89 ETKVIGIDEVQFFDDRICEVANILAEN---GFVVIISGL  124 (223)
T ss_dssp             TCCEEEECSGGGSCTHHHHHHHHHHHT---TCEEEEECC
T ss_pred             CCCEEEEecCccCcHHHHHHHHHHHhC---CCeEEEEec
Confidence            368999999999987766655544442   567777775

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.27  E-value=1e-06  Score=70.29  Aligned_cols=159  Identities=17%  Similarity=0.179  Sum_probs=85.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcc----cc-----cCC-----CCCc
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ----SF-----SFG-----VKAS  141 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~----~~-----~~~-----~~~~  141 (305)
                      .+++.|++|+||||++-.++..+...++...++.++....   ......+.......    .+     ...     ...+
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 KVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGR---AETEALLNGLPQQPLLRTEYRGMTLEEMDLDALLKAA   84 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTC---HHHHHHHTTSCBCCCEEEEETTEEEEECCHHHHHHHC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCC---hhHHHHhcCccccCcceeecCCcccccccHHHHHhcC
Confidence            3899999999999999999999877777665666554221   11111111111100    00     000     1124


Q ss_pred             eEEEEEeCCCcCCHH-H--HHHHHHHHHHhcCCceEEEEecCC------------------cccchhhhcceeEEEecCC
Q 021937          142 VKLVLLDEADAMTKD-A--QFALRRVIEKYTKNTRFALICNQV------------------NKIIPALQSRCTRFRFAPL  200 (305)
Q Consensus       142 ~~vliiDe~~~l~~~-~--~~~l~~~l~~~~~~~~iil~~~~~------------------~~l~~~l~~r~~~i~~~~~  200 (305)
                      +.+++|||+...+.. .  ...+..+.+..+....++.++|-.                  ..+++.+..++..+.+-.+
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            689999998765311 1  112222233344455666666411                  2345555566655677677


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHH
Q 021937          201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLC-NGDMRKALN  241 (305)
Q Consensus       201 ~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~  241 (305)
                      +.+++.+.++    ...+.....+-..+..+. .||+-.+..
T Consensus       165 ~p~~l~~rl~----~g~vy~~~~~~~a~~~~f~~~nl~~lre  202 (228)
T 2r8r_A          165 PPRELLERLR----DGKVYVPEQARAAIDAFFTQTNLTALRE  202 (228)
T ss_dssp             CHHHHHHHHH----TTCCCCTTCCHHHHHHHCCHHHHHHHHH
T ss_pred             CHHHHHHHHH----CCCccChhHHHHHHHhhhchhhHHHHHH
Confidence            7777666543    334444444444444443 355555554

>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=98.12  E-value=2.6e-06  Score=78.25  Aligned_cols=114  Identities=21%  Similarity=0.248  Sum_probs=65.2

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHH-------HHhhhc
Q 021937           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI-------QDFAST  131 (305)
Q Consensus        59 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i-------~~~~~~  131 (305)
                      +.....+...+.   .+.++++|+||||||+++..++..+...+....   +.++.......+.+.+       ..+...
T Consensus       192 ~~Q~~Av~~~~~---~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl---~~ApT~~Aa~~L~e~~~~~a~Tih~ll~~  265 (574)
T 3e1s_A          192 EEQASVLDQLAG---HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVG---LCAPTGKAARRLGEVTGRTASTVHRLLGY  265 (574)
T ss_dssp             HHHHHHHHHHTT---CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEE---EEESSHHHHHHHHHHHTSCEEEHHHHTTE
T ss_pred             HHHHHHHHHHHh---CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEE---EecCcHHHHHHhHhhhcccHHHHHHHHcC
Confidence            334444444442   346899999999999999999998866554322   2222222222222211       111111


Q ss_pred             cc--cc--CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          132 QS--FS--FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       132 ~~--~~--~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .+  +.  .....+..+|||||+..++......|+.   ..+....++++++..
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            10  10  1122346899999999999776555544   344567888888654

>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=98.04  E-value=1.2e-05  Score=63.52  Aligned_cols=100  Identities=11%  Similarity=0.113  Sum_probs=53.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccc------ccCCCCCceEEEEEeCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS------FSFGVKASVKLVLLDEA  150 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~------~~~~~~~~~~vliiDe~  150 (305)
                      .+++|+.|+||||.+...+......+....++........+...+.+.+........      +......+..+|+|||+
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            679999999999999888888766665554444221111111122222211100000      00001124689999999


Q ss_pred             CcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          151 DAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       151 ~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      +.++++..+.+..+.+   .+..+|+++.
T Consensus       111 QF~~~~~V~~l~~l~~---~~~~Vi~~Gl  136 (214)
T 2j9r_A          111 QFFDGDIVEVVQVLAN---RGYRVIVAGL  136 (214)
T ss_dssp             GGSCTTHHHHHHHHHH---TTCEEEEEEC
T ss_pred             ccCCHHHHHHHHHHhh---CCCEEEEEec
Confidence            9998776654444333   2567777764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=98.00  E-value=2.5e-05  Score=80.17  Aligned_cols=48  Identities=19%  Similarity=0.236  Sum_probs=33.9

Q ss_pred             HHHHHHh-cC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           64 TIDRLTS-EN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        64 ~l~~~l~-~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      .|...+. ++  +...++|+||||||||+++.+++.+....+....|+.+.
T Consensus      1414 ~LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e 1464 (2050)
T 3cmu_A         1414 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAE 1464 (2050)
T ss_dssp             HHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTT
T ss_pred             HHHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcc
Confidence            3455555 32  344599999999999999999998876665555454443

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.99  E-value=3.4e-05  Score=60.10  Aligned_cols=100  Identities=13%  Similarity=0.161  Sum_probs=66.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC-CcChhHH-----------------------------HHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGIDVV-----------------------------RQQ  124 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~-----------------------------~~~  124 (305)
                      ..+++++.+|.||||+|-.++-+....++...++.+.... ..+...+                             ...
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            4588999999999999999999988888877777654431 0000111                             111


Q ss_pred             HHHhhhcccccCCCCCceEEEEEeCC------CcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          125 IQDFASTQSFSFGVKASVKLVLLDEA------DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~vliiDe~------~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      +.......     ....+++||+||+      +.++   .+.++.++...+.+..+|+|++...
T Consensus       109 l~~a~~~l-----~~~~yDlvILDEi~~al~~g~l~---~~ev~~~l~~Rp~~~~vIlTGr~ap  164 (196)
T 1g5t_A          109 WQHGKRML-----ADPLLDMVVLDELTYMVAYDYLP---LEEVISALNARPGHQTVIITGRGCH  164 (196)
T ss_dssp             HHHHHHHT-----TCTTCSEEEEETHHHHHHTTSSC---HHHHHHHHHTSCTTCEEEEECSSCC
T ss_pred             HHHHHHHH-----hcCCCCEEEEeCCCccccCCCCC---HHHHHHHHHhCcCCCEEEEECCCCc
Confidence            11111111     1234799999998      4455   3458888888888999999998754

>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=97.92  E-value=2.6e-05  Score=72.18  Aligned_cols=103  Identities=18%  Similarity=0.263  Sum_probs=58.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCC--CCcccEEEeecCCCcChhHHHHHHHHhhhc------------------ccc
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGA--QYHNMILELNASDDRGIDVVRQQIQDFAST------------------QSF  134 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~------------------~~~  134 (305)
                      +.++++|+||||||+++..+...+...  .....+ .+.++.......+.+.+......                  +.+
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~v-ll~APTg~AA~~L~e~~~~~~~~l~l~~~~~~~~~~~~~Tih~l  243 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRI-RLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEDASTLHRL  243 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCE-EEEBSSHHHHHHHHHHHTHHHHHSSCCSCCCCSCSCCCBTTTSC
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeE-EEEeCChhHHHHHHHHHHHHHhcCCCCHHHHhccchhhhhhHhh
Confidence            458999999999999999988877521  112222 23333323233333333221100                  000


Q ss_pred             c------------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          135 S------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       135 ~------------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .            .....+..+|||||++.++......|   +...+...++|++++..
T Consensus       244 l~~~~~~~~~~~~~~~~l~~d~lIIDEAsml~~~~~~~L---l~~l~~~~~liLvGD~~  299 (608)
T 1w36_D          244 LGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPMMSRL---IDALPDHARVIFLGDRD  299 (608)
T ss_dssp             C-----------CTTSCCSCSEEEECSGGGCBHHHHHHH---HHTCCTTCEEEEEECTT
T ss_pred             hccCCCchHHHhccCCCCCCCEEEEechhhCCHHHHHHH---HHhCCCCCEEEEEcchh
Confidence            0            00112457999999998885544444   45556678899988654

>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=97.89  E-value=5.4e-06  Score=64.87  Aligned_cols=91  Identities=13%  Similarity=0.213  Sum_probs=52.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChh----------------HHHHHHHHhhhcccccCCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID----------------VVRQQIQDFASTQSFSFGVK  139 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~i~~~~~~~~~~~~~~  139 (305)
                      ..+++||.|+||||.+..++......+....++........+..                ...+.+...          .
T Consensus        10 i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~~~~~i~s~~g~~~~a~~~~~~~~i~~~~----------~   79 (191)
T 1xx6_A           10 VEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKYF----------E   79 (191)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHHHHHC----------C
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccchHHHHHhhcCCceeeEeeCCHHHHHHHH----------h
Confidence            37899999999999999998887655555444431110000000                000111100          1


Q ss_pred             CceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEec
Q 021937          140 ASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      .+..+|+|||++.++++....+..+.+.   +..+|+++.
T Consensus        80 ~~~dvViIDEaqfl~~~~v~~l~~l~~~---~~~Vi~~Gl  116 (191)
T 1xx6_A           80 EDTEVIAIDEVQFFDDEIVEIVNKIAES---GRRVICAGL  116 (191)
T ss_dssp             TTCSEEEECSGGGSCTHHHHHHHHHHHT---TCEEEEEEC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHHhC---CCEEEEEec
Confidence            1368999999999987766555444332   556777664

>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=97.82  E-value=0.00015  Score=57.86  Aligned_cols=99  Identities=11%  Similarity=0.182  Sum_probs=54.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCC-----CCCceEEEEEeCCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG-----VKASVKLVLLDEAD  151 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~-----~~~~~~vliiDe~~  151 (305)
                      .+++|+-|+||||.+...+......+....++........+ ..+.+.+........+...     ...+..+|+|||++
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            68999999999988877777776666655555533222222 2222222110000000000     00236899999999


Q ss_pred             cCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          152 AMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       152 ~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      .+..  ...+.+.+.+  .+..+|+++.+
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            9974  5566677766  35677777643

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.80  E-value=0.00014  Score=56.59  Aligned_cols=96  Identities=16%  Similarity=0.131  Sum_probs=49.9

Q ss_pred             eEEEECCCCCcHH-HHHHHHHHHHhCCCCcccEEEeecC-CCcChhHHHHHHHHhhhcccccCC-----CCCceEEEEEe
Q 021937           76 HLLLYGPPGTGKT-STILAVARKLYGAQYHNMILELNAS-DDRGIDVVRQQIQDFASTQSFSFG-----VKASVKLVLLD  148 (305)
Q Consensus        76 ~~ll~G~~G~GKT-~l~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~~-----~~~~~~vliiD  148 (305)
                      ..+++||.|+||| .|++++.+.... +.  .++.+.+. +......+.+.+............     ...+..+|+||
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 IQVILGPMFSGKSTELMRRVRRFQIA-QY--KCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEALGVAVIGID   98 (195)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHT-TC--CEEEEEETTCCCGGGSCCHHHHHHSEEEEESSGGGGHHHHHTCSEEEES
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHc-CC--eEEEEccccCccchhhhhhccCCcccceecCCHHHHHHhccCCCEEEEE
Confidence            4789999999999 888888877644 23  33333333 111111122222111000000000     01125799999


Q ss_pred             CCCcCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021937          149 EADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       149 e~~~l~~~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                      |++.+ +++.+.+ +.+.+.  +..||+++
T Consensus        99 EaQFf-k~~ve~~-~~L~~~--gk~VI~~G  124 (195)
T 1w4r_A           99 EGQFF-PDIVEFC-EAMANA--GKTVIVAA  124 (195)
T ss_dssp             SGGGC-TTHHHHH-HHHHHT--TCEEEEEE
T ss_pred             chhhh-HHHHHHH-HHHHHC--CCeEEEEe
Confidence            99999 6544444 444432  45666665

>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=97.79  E-value=0.00017  Score=63.51  Aligned_cols=37  Identities=24%  Similarity=0.293  Sum_probs=29.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      .++++|++|+||||++..++..+...+....++..+.
T Consensus        99 vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~  135 (433)
T 3kl4_A           99 IIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADV  135 (433)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCc
Confidence            3789999999999999999999877666655555543

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.78  E-value=0.00013  Score=58.57  Aligned_cols=24  Identities=42%  Similarity=0.468  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHh
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      .++|.||+|+||||+++.++..+.
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~~~   48 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAKGL   48 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            488999999999999999997664

>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=97.77  E-value=0.00021  Score=61.44  Aligned_cols=45  Identities=20%  Similarity=0.249  Sum_probs=29.9

Q ss_pred             HHHHHHh-cCC--CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEE
Q 021937           64 TIDRLTS-ENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (305)
Q Consensus        64 ~l~~~l~-~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (305)
                      .|...+. ++-  ...++|+||||+|||+++..++..+...+....++
T Consensus        48 ~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi   95 (349)
T 2zr9_A           48 SLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFI   95 (349)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             HHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            3444554 332  23389999999999999999987765444333333

>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=97.74  E-value=0.00046  Score=54.92  Aligned_cols=21  Identities=33%  Similarity=0.504  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .++|+||+|+|||+++..++.
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            389999999999999999988

>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=97.74  E-value=0.00039  Score=61.29  Aligned_cols=36  Identities=31%  Similarity=0.430  Sum_probs=29.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      .++++|++|+||||++..++..+...+....++..+
T Consensus       102 vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D  137 (443)
T 3dm5_A          102 ILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSD  137 (443)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECC
T ss_pred             EEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            388999999999999999999998776655555443

>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=97.72  E-value=0.0003  Score=60.74  Aligned_cols=45  Identities=22%  Similarity=0.228  Sum_probs=29.9

Q ss_pred             HHHHHHh-cCC--CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEE
Q 021937           64 TIDRLTS-ENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (305)
Q Consensus        64 ~l~~~l~-~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (305)
                      .|...+. ++-  ...++|+|+||+|||+++..++..+...+....++
T Consensus        61 ~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi  108 (366)
T 1xp8_A           61 SLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFI  108 (366)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             HHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEE
Confidence            4455554 232  22388999999999999999988765444333333

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.69  E-value=0.00024  Score=55.40  Aligned_cols=24  Identities=46%  Similarity=0.782  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHh
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      .+.|.||+|+||||+++.++..+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhcc
Confidence            478999999999999999999874

>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=97.66  E-value=0.00013  Score=62.76  Aligned_cols=33  Identities=24%  Similarity=0.348  Sum_probs=25.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEE
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (305)
                      .++|+|+||+|||+++..++..+...+....++
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            389999999999999999998775444333333

>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=97.66  E-value=0.00034  Score=60.01  Aligned_cols=39  Identities=21%  Similarity=0.214  Sum_probs=28.3

Q ss_pred             HHHHHHh-cCCCC--eEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           64 TIDRLTS-ENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        64 ~l~~~l~-~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      .|...+. ++-.+  .++|+||||+||||++..++..+...+
T Consensus        48 ~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~g   89 (356)
T 3hr8_A           48 AIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMG   89 (356)
T ss_dssp             HHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            4555555 33222  378999999999999999998875433

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.63  E-value=5e-05  Score=64.13  Aligned_cols=32  Identities=28%  Similarity=0.549  Sum_probs=25.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      .++|+||+|+|||+++..+++.+     ...++..+.
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            48999999999999999999987     345555543

>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=97.61  E-value=0.00063  Score=55.00  Aligned_cols=23  Identities=26%  Similarity=0.229  Sum_probs=20.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|+||+|+|||+++..++...
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            48999999999999999999864

>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=97.60  E-value=0.00034  Score=57.95  Aligned_cols=44  Identities=9%  Similarity=0.237  Sum_probs=32.6

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc-C-CceEEEEecCCcc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT-K-NTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~-~-~~~iil~~~~~~~  183 (305)
                      .++.++++|| .-.++......+.+++.+.. . ...+|+++.+...
T Consensus       160 ~~P~lLlLDEPts~LD~~~~~~i~~~l~~l~~~~g~tvi~vtHdl~~  206 (275)
T 3gfo_A          160 MEPKVLILDEPTAGLDPMGVSEIMKLLVEMQKELGITIIIATHDIDI  206 (275)
T ss_dssp             TCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHHHCCEEEEEESCCSS
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHHhhCCCEEEEEecCHHH
Confidence            5678999999 56788888888888887654 2 4566777766543

>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=97.60  E-value=0.00054  Score=55.50  Aligned_cols=38  Identities=21%  Similarity=0.293  Sum_probs=26.7

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++...+.+..++..   ..++++||+|+|||.++..++...
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            33334444444443   248999999999999998888765

>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=97.59  E-value=0.0002  Score=63.20  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=21.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++++|+||+||||+++.+++.+
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            348899999999999999998865

>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=97.58  E-value=0.0004  Score=52.97  Aligned_cols=22  Identities=27%  Similarity=0.520  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.+ +.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHT
T ss_pred             EEEEECCCCCCHHHHHHHH-HHC
Confidence            4789999999999999999 554

>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=97.55  E-value=0.00097  Score=57.32  Aligned_cols=25  Identities=36%  Similarity=0.620  Sum_probs=22.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .+++.||+|+||||++++++..+..
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~~~~  149 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDYLNN  149 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhcccC
Confidence            5899999999999999999988753

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.55  E-value=0.00065  Score=55.03  Aligned_cols=25  Identities=36%  Similarity=0.333  Sum_probs=20.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .++|+||+|+|||+++..++.....
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~~~~~   49 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLWNGLK   49 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4899999999999998888776543

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=97.54  E-value=7e-05  Score=59.10  Aligned_cols=99  Identities=11%  Similarity=0.097  Sum_probs=49.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhc------ccccCCCCCceEEEEEeCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST------QSFSFGVKASVKLVLLDEA  150 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~------~~~~~~~~~~~~vliiDe~  150 (305)
                      .+++|+-|+||||.+-..+......+....++........+...+.+.+......      ..+......+..+|+|||+
T Consensus        31 ~vitG~M~sGKTT~Llr~~~r~~~~g~kvli~kp~~D~R~~~~~I~Sr~G~~~~a~~v~~~~di~~~i~~~~dvV~IDEa  110 (219)
T 3e2i_A           31 ECITGSMFSGKSEELIRRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEAINISKASEIMTHDLTNVDVIGIDEV  110 (219)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEEC-----------CBTTBCCEEEEESSGGGGGGSCCTTCSEEEECCG
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCceEEEEeccCCcchhhhHHHhcCCceeeEEeCCHHHHHHHHhcCCCEEEEech
Confidence            6899999999999554444554444444333322111111111111100000000      0000001235689999999


Q ss_pred             CcCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021937          151 DAMTKDAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       151 ~~l~~~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                      +.++++....+..+.+   .+..+++.+
T Consensus       111 QFf~~~~v~~l~~la~---~gi~Vi~~G  135 (219)
T 3e2i_A          111 QFFDDEIVSIVEKLSA---DGHRVIVAG  135 (219)
T ss_dssp             GGSCTHHHHHHHHHHH---TTCEEEEEE
T ss_pred             hcCCHHHHHHHHHHHH---CCCEEEEee
Confidence            9999887777777763   245566555

>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=97.54  E-value=0.00033  Score=60.61  Aligned_cols=43  Identities=19%  Similarity=0.274  Sum_probs=31.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| .-.++......++..+.+...  ...+|++|.+..
T Consensus       150 ~~P~lLLLDEPts~LD~~~~~~l~~~l~~l~~~~g~tii~vTHd~~  195 (381)
T 3rlf_A          150 AEPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLGRTMIYVTHDQV  195 (381)
T ss_dssp             HCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEECSCHH
T ss_pred             cCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHhCCCEEEEEECCHH
Confidence            4578999999 677888888888888876532  456667776543

>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=97.53  E-value=0.00041  Score=57.22  Aligned_cols=41  Identities=17%  Similarity=0.265  Sum_probs=30.8

Q ss_pred             ceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCC
Q 021937          141 SVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQV  181 (305)
Q Consensus       141 ~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~  181 (305)
                      ++.++++|| ...++......+.+++.+...  ...+++++.+.
T Consensus       165 ~p~lLllDEPts~LD~~~~~~i~~~l~~l~~~~~~tvi~vtHdl  208 (266)
T 4g1u_C          165 TPRWLFLDEPTSALDLYHQQHTLRLLRQLTRQEPLAVCCVLHDL  208 (266)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHHHHSSEEEEEECSCH
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHHHcCCCEEEEEEcCH
Confidence            799999999 567888888889988876542  33566666554

>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=97.53  E-value=0.00039  Score=53.96  Aligned_cols=23  Identities=26%  Similarity=0.580  Sum_probs=20.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+||+|+||||+++.+....
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            38999999999999999998875

>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=97.53  E-value=0.0033  Score=49.86  Aligned_cols=23  Identities=35%  Similarity=0.566  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.+++.+
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            37899999999999999999876

>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=97.52  E-value=0.0014  Score=54.90  Aligned_cols=51  Identities=16%  Similarity=0.092  Sum_probs=32.6

Q ss_pred             HHHHHHh----cCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           64 TIDRLTS----ENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        64 ~l~~~l~----~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      .|...+.    ++-++. ++|+||||+|||+++..++......+....++.++...
T Consensus        13 ~LD~~LGg~~~GGl~~GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~   68 (333)
T 3io5_A           13 MMNIALSGEITGGMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEF   68 (333)
T ss_dssp             HHHHHHHSSTTCCBCSEEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSC
T ss_pred             HHHHHhCCCCCCCCcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccc
Confidence            4555565    443334 78999999999999888877764332123344555543

>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=97.52  E-value=0.00034  Score=57.31  Aligned_cols=42  Identities=12%  Similarity=0.293  Sum_probs=31.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc-CCceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT-KNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+.. ....+|+++.+.
T Consensus       163 ~~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tiiivtHd~  206 (256)
T 1vpl_A          163 VNPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNM  206 (256)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCH
T ss_pred             cCCCEEEEeCCccccCHHHHHHHHHHHHHHHhCCCEEEEEcCCH
Confidence            5678999999 56788888888888887664 245566666553

>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=97.50  E-value=0.00019  Score=59.04  Aligned_cols=42  Identities=14%  Similarity=0.320  Sum_probs=31.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+.
T Consensus       176 ~~p~lllLDEPts~LD~~~~~~~~~~l~~l~~~g~tvi~vtHd~  219 (263)
T 2olj_A          176 MEPKIMLFDEPTSALDPEMVGEVLSVMKQLANEGMTMVVVTHEM  219 (263)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCEEEEECSCH
T ss_pred             CCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEcCCH
Confidence            5678999999 567888888888888877543 44566666553

>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=97.48  E-value=0.00024  Score=72.20  Aligned_cols=34  Identities=24%  Similarity=0.374  Sum_probs=26.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      +++|||||||||+++.+++.+....+-+..|+.+
T Consensus      1085 ~l~~G~~g~GKT~la~~~~~~~~~~g~~~~fi~~ 1118 (1706)
T 3cmw_A         1085 VEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDA 1118 (1706)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECT
T ss_pred             EEEEcCCCCChHHHHHHHHHHhhhcCCceeEEEc
Confidence            8999999999999999999877544333334443

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=97.48  E-value=0.00055  Score=58.92  Aligned_cols=43  Identities=14%  Similarity=0.258  Sum_probs=31.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+...+.+...  ...+|++|.+..
T Consensus       150 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~  195 (362)
T 2it1_A          150 KEPEVLLLDEPLSNLDALLRLEVRAELKRLQKELGITTVYVTHDQA  195 (362)
T ss_dssp             TCCSEEEEESGGGGSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHHHhCCCEEEEECCCHH
Confidence            6678999999 677888888888888776532  456677776543

>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=97.48  E-value=0.0075  Score=54.75  Aligned_cols=69  Identities=19%  Similarity=0.248  Sum_probs=47.2

Q ss_pred             ceEEEEEeCCCcCC----HHHHHHHHHHHHHhcC-CceEEEEecCCc--ccchhhhcce-eEEEecCCCHHHHHHHH
Q 021937          141 SVKLVLLDEADAMT----KDAQFALRRVIEKYTK-NTRFALICNQVN--KIIPALQSRC-TRFRFAPLEPVHVTERL  209 (305)
Q Consensus       141 ~~~vliiDe~~~l~----~~~~~~l~~~l~~~~~-~~~iil~~~~~~--~l~~~l~~r~-~~i~~~~~~~~~~~~~l  209 (305)
                      ++.+|+|||++.+.    ++....|.++.....+ ...+|+++.++.  .+...+++.+ ..+.|...+..+...++
T Consensus       343 P~ivvVIDE~~~L~~~~~~~~~~~L~~Iar~GRa~GIhLIlaTQRPs~d~I~~~Iran~~~RI~lrv~s~~Dsr~IL  419 (574)
T 2iut_A          343 PTIVVVVDEFADMMMIVGKKVEELIARIAQKARAAGIHLILATQRPSVDVITGLIKANIPTRIAFQVSSKIDSRTIL  419 (574)
T ss_dssp             CEEEEEESCCTTHHHHTCHHHHHHHHHHHHHCTTTTEEEEEEESCCCTTTSCHHHHHTCCEEEEECCSCHHHHHHHH
T ss_pred             CcEEEEEeCHHHHhhhhhHHHHHHHHHHHHHHhhCCeEEEEEecCcccccccHHHHhhhccEEEEEcCCHHHHHHhc
Confidence            45799999999774    3445556666666544 445666666654  5677777776 66788877887777666

>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=97.47  E-value=0.00054  Score=55.37  Aligned_cols=43  Identities=12%  Similarity=0.288  Sum_probs=32.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+...  ...+|+++.+..
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            5678999999 567888888888888877642  456777776654

>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=97.45  E-value=0.0014  Score=56.18  Aligned_cols=51  Identities=16%  Similarity=0.096  Sum_probs=32.1

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHhCCC----CcccEEEeecCC
Q 021937           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNASD  114 (305)
Q Consensus        64 ~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~~----~~~~~~~~~~~~  114 (305)
                      .|...+.++-.+.  ++|+||||+|||+++..++.....+.    ....++.++...
T Consensus       110 ~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          110 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             hHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            3444454433333  78999999999999999998753211    233455555544

>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=97.45  E-value=0.00066  Score=54.81  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=17.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      ..+++.||+|+|||+++..+.-
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~~   98 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFIL   98 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHHHh
Confidence            4589999999999987665543

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=97.45  E-value=0.00051  Score=59.04  Aligned_cols=43  Identities=14%  Similarity=0.331  Sum_probs=32.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.+|++|| .-.+++.....+++++.+...  ...+++++.+..
T Consensus       180 ~~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~~~g~Tii~vTHdl~  225 (366)
T 3tui_C          180 SNPKVLLCDQATSALDPATTRSILELLKDINRRLGLTILLITHEMD  225 (366)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHH
T ss_pred             cCCCEEEEECCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEecCHH
Confidence            6688999999 566888888899998887642  456677776543

>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=97.45  E-value=0.0011  Score=54.45  Aligned_cols=26  Identities=31%  Similarity=0.438  Sum_probs=22.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ..++|+|+||+||||+++.++..+..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~~L~~   30 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAKILSK   30 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            45899999999999999999998643

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=97.44  E-value=0.00059  Score=58.53  Aligned_cols=43  Identities=14%  Similarity=0.271  Sum_probs=31.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+...+.+...  ...+|++|.+..
T Consensus       162 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~  207 (355)
T 1z47_A          162 PRPQVLLFDEPFAAIDTQIRRELRTFVRQVHDEMGVTSVFVTHDQE  207 (355)
T ss_dssp             TCCSEEEEESTTCCSSHHHHHHHHHHHHHHHHHHTCEEEEECSCHH
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEECCCHH
Confidence            5678999999 577888888888888776532  455666766543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.44  E-value=0.00071  Score=55.60  Aligned_cols=25  Identities=32%  Similarity=0.595  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..+.|+||+|+||||+++.++..+.
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            3489999999999999999998774

>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=97.44  E-value=0.00014  Score=55.95  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.+++.+
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            48999999999999999999987

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.44  E-value=0.0008  Score=53.95  Aligned_cols=42  Identities=12%  Similarity=0.201  Sum_probs=31.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+... ...+++++.+.
T Consensus       157 ~~p~lllLDEPt~~LD~~~~~~~~~~l~~l~~~g~tvi~vtHd~  200 (224)
T 2pcj_A          157 NEPILLFADEPTGNLDSANTKRVMDIFLKINEGGTSIVMVTHER  200 (224)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCH
T ss_pred             cCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEcCCH
Confidence            6678999999 566888888888888876642 45566666553

>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=97.42  E-value=0.00065  Score=58.66  Aligned_cols=43  Identities=16%  Similarity=0.280  Sum_probs=31.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+...+.+...  ...+|++|.+..
T Consensus       158 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~  203 (372)
T 1v43_A          158 VEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQV  203 (372)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             cCCCEEEEcCCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            6678999999 677888888888888876532  456677776543

>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=97.42  E-value=0.0013  Score=55.32  Aligned_cols=41  Identities=27%  Similarity=0.355  Sum_probs=25.9

Q ss_pred             ceEEEEEeCCCcCCH--HHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       141 ~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      +..+|||||+|.+..  .....+..++...+.+..+++.+...
T Consensus       235 ~l~~lVlDEad~l~~~~~~~~~~~~i~~~~~~~~q~i~~SAT~  277 (300)
T 3fmo_B          235 KIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATF  277 (300)
T ss_dssp             GCSEEEETTHHHHHHSTTHHHHHHHHHTTSCTTCEEEEEESCC
T ss_pred             hceEEEEeCHHHHhhccCcHHHHHHHHHhCCCCCEEEEEeccC
Confidence            456899999998764  22334445555555666676666443

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.42  E-value=0.00049  Score=70.88  Aligned_cols=37  Identities=22%  Similarity=0.324  Sum_probs=29.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      ..++++||||||||+++.+++.+....+....|+.+.
T Consensus      1082 ~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~e 1118 (2050)
T 3cmu_A         1082 RIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAE 1118 (2050)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcc
Confidence            3499999999999999999998876666655555544

>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=97.41  E-value=0.0028  Score=50.34  Aligned_cols=40  Identities=18%  Similarity=0.347  Sum_probs=26.5

Q ss_pred             ceEEEEEeCCCcCCH--HHHHHHHHHHHHhcCCceEEEEecC
Q 021937          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       141 ~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      ...++++||+|.+..  .....+..++...+.+..+++.|..
T Consensus       158 ~~~~lViDEah~~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT  199 (220)
T 1t6n_A          158 HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSAT  199 (220)
T ss_dssp             TCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEESC
T ss_pred             cCCEEEEcCHHHHhcccCcHHHHHHHHHhCCCcCeEEEEEee
Confidence            457999999998843  3445566666666656666666543

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.40  E-value=0.00056  Score=55.47  Aligned_cols=43  Identities=16%  Similarity=0.206  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+...  ...+++++.+..
T Consensus       143 ~~p~lllLDEPts~LD~~~~~~~~~~l~~l~~~~g~tvi~vtHd~~  188 (240)
T 2onk_A          143 IQPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPILHVTHDLI  188 (240)
T ss_dssp             TCCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCEEEEESCHH
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            5678999999 567888888888888876532  455667776543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.40  E-value=0.00013  Score=56.51  Aligned_cols=25  Identities=36%  Similarity=0.424  Sum_probs=22.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.++|+|++|+||||+++.+++.+
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            3468999999999999999999987

>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=97.40  E-value=0.00086  Score=53.54  Aligned_cols=41  Identities=22%  Similarity=0.406  Sum_probs=26.3

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecCC
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      +..++++||+|.+.... ...+..++...+.+..+++.|...
T Consensus       155 ~~~~iViDEah~~~~~~~~~~l~~i~~~~~~~~~~i~lSAT~  196 (224)
T 1qde_A          155 KIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATM  196 (224)
T ss_dssp             TCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESSC
T ss_pred             hCcEEEEcChhHHhhhhhHHHHHHHHHhCCccCeEEEEEeec
Confidence            35799999999875432 344556666665566666665443

>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=97.38  E-value=0.00024  Score=60.79  Aligned_cols=43  Identities=23%  Similarity=0.289  Sum_probs=31.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+...+.+...  +..+|++|.+..
T Consensus       144 ~~P~lLLLDEP~s~LD~~~~~~l~~~l~~l~~~~g~tii~vTHd~~  189 (348)
T 3d31_A          144 TNPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLHITHDQT  189 (348)
T ss_dssp             SCCSEEEEESSSTTSCHHHHHHHHHHHHHHHHHTTCEEEEEESCHH
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            6678999999 577888888888888876532  456667776543

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.37  E-value=0.0037  Score=49.51  Aligned_cols=23  Identities=30%  Similarity=0.595  Sum_probs=21.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.+++.+
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            37899999999999999999887

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=97.36  E-value=0.0015  Score=53.43  Aligned_cols=42  Identities=24%  Similarity=0.311  Sum_probs=31.4

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+...  ...+|+++.+.
T Consensus       145 ~~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~~g~tvi~vtHd~  189 (253)
T 2nq2_C          145 SECKLILLDEPTSALDLANQDIVLSLLIDLAQSQNMTVVFTTHQP  189 (253)
T ss_dssp             TTCSEEEESSSSTTSCHHHHHHHHHHHHHHHHTSCCEEEEEESCH
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEecCH
Confidence            5678999999 566888888889998887643  44566666554

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=97.35  E-value=0.0015  Score=53.44  Aligned_cols=44  Identities=11%  Similarity=0.258  Sum_probs=32.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCcc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~~  183 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+...
T Consensus       170 ~~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tvi~vtHd~~~  215 (257)
T 1g6h_A          170 TNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDI  215 (257)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCCST
T ss_pred             cCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEEecCHHH
Confidence            5678999999 577888888888888886543 4556667765543

>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=97.35  E-value=0.00094  Score=57.80  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=22.2

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ...++|+||+|+||||+++.++...
T Consensus       169 ~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          169 KRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3458999999999999999999876

>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=97.34  E-value=0.0002  Score=54.65  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.|++|+||||+++.+++.+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999987

>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=97.34  E-value=0.0014  Score=52.04  Aligned_cols=104  Identities=14%  Similarity=0.239  Sum_probs=54.4

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhCCC---Ccc---------cEEEeecCCCcChhHHHHHHHHhhhcccccCCCCC
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQ---YHN---------MILELNASDDRGIDVVRQQIQDFASTQSFSFGVKA  140 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~---~~~---------~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  140 (305)
                      ....+++.|++|+|||+++..+........   +..         .+.-++.+..   ...+..+..+.....    ...
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~---~~~~~~~~~~~~~~~----~~~   83 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGH---VKLRYKLSDYLKTRA----KFV   83 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTGGGSSCEEEECCCC---GGGTHHHHHHHHHHG----GGE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEeeCceEEEEECCCc---HHHHHHHHHHHHhcc----ccC
Confidence            345699999999999999999987642211   110         1111222222   222222222221100    011


Q ss_pred             ceEEEEEeCC-CcC-CHHHHHHHHHHHHH----hcCCceEEEEecCCcc
Q 021937          141 SVKLVLLDEA-DAM-TKDAQFALRRVIEK----YTKNTRFALICNQVNK  183 (305)
Q Consensus       141 ~~~vliiDe~-~~l-~~~~~~~l~~~l~~----~~~~~~iil~~~~~~~  183 (305)
                      ...++++|-. +.- .......+..++..    .+.+.++++++|..+.
T Consensus        84 ~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  132 (218)
T 1nrj_B           84 KGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL  132 (218)
T ss_dssp             EEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTS
T ss_pred             CEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHh
Confidence            2467888866 222 23344555555553    2346778888887664

>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=97.34  E-value=0.00021  Score=61.49  Aligned_cols=43  Identities=14%  Similarity=0.280  Sum_probs=31.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+...+.+...  +..+|++|.+..
T Consensus       150 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~  195 (359)
T 2yyz_A          150 KQPKVLLFDEPLSNLDANLRMIMRAEIKHLQQELGITSVYVTHDQA  195 (359)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEEESCHH
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEcCCHH
Confidence            5678999999 677888888888888776532  456667776543

>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=97.34  E-value=0.0028  Score=54.43  Aligned_cols=22  Identities=27%  Similarity=0.378  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.|+||+|+||||+++.++...
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            7899999999999999999876

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.32  E-value=0.00066  Score=55.06  Aligned_cols=42  Identities=21%  Similarity=0.267  Sum_probs=31.6

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc-CCceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT-KNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+.. ....+|+++.+.
T Consensus       156 ~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~g~tvi~vtHd~  199 (240)
T 1ji0_A          156 SRPKLLMMDEPSLGLAPILVSEVFEVIQKINQEGTTILLVEQNA  199 (240)
T ss_dssp             TCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHTTCCEEEEESCH
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEecCH
Confidence            6678999999 56788888888888887654 345566677654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.32  E-value=0.0002  Score=56.33  Aligned_cols=25  Identities=44%  Similarity=0.527  Sum_probs=22.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +..++|.|++|+||||+++.+++.+
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            3469999999999999999999987

>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=97.31  E-value=0.0025  Score=55.63  Aligned_cols=39  Identities=18%  Similarity=0.081  Sum_probs=26.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCC----CcccEEEeecCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNASD  114 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~----~~~~~~~~~~~~  114 (305)
                      .+.|+||+|+||||++..++-....+.    .....+.++...
T Consensus       180 i~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~  222 (400)
T 3lda_A          180 ITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG  222 (400)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             EEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCC
Confidence            389999999999999998765442211    223355555544

>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=97.31  E-value=0.0021  Score=53.77  Aligned_cols=25  Identities=16%  Similarity=0.194  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .++|.||+|+||||+++.++..+..
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            4899999999999999999988753

>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=97.29  E-value=0.00032  Score=54.53  Aligned_cols=28  Identities=21%  Similarity=0.329  Sum_probs=23.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      ..++|+|++|+||||+++.+++.+...+
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~~g   31 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRKEG   31 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            3589999999999999999999885433

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.29  E-value=0.00019  Score=55.85  Aligned_cols=28  Identities=25%  Similarity=0.350  Sum_probs=24.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      .++|.|++|+||||+++.+++.+...++
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            4789999999999999999999854443

>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=97.29  E-value=0.00072  Score=53.50  Aligned_cols=24  Identities=25%  Similarity=0.523  Sum_probs=19.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+++.+|+|+|||.++..++...
T Consensus        49 ~~~li~~~tGsGKT~~~~~~~~~~   72 (216)
T 3b6e_A           49 KNIIICLPTGSGKTRVAVYIAKDH   72 (216)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHHH
Confidence            359999999999999887776654

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=97.29  E-value=0.0016  Score=55.26  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHh
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      .++|+|+||+|||+++..++....
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            389999999999999999998753

>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=97.29  E-value=0.0024  Score=53.35  Aligned_cols=23  Identities=30%  Similarity=0.638  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+||+|+|||+++..+++.+
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            37899999999999999999986

>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=97.28  E-value=0.0016  Score=51.12  Aligned_cols=40  Identities=25%  Similarity=0.379  Sum_probs=25.5

Q ss_pred             ceEEEEEeCCCcCCHH-HHHHHHHHHHHhcCCceEEEEecC
Q 021937          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~-~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +..++++||+|.+... ....+..++...+.+..+++.|..
T Consensus       146 ~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~l~~SAT  186 (206)
T 1vec_A          146 HVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSAT  186 (206)
T ss_dssp             TCCEEEEETHHHHTSTTTHHHHHHHHHHSCTTCEEEEEESC
T ss_pred             cCCEEEEEChHHhHhhCcHHHHHHHHHhCCccceEEEEEee
Confidence            4579999999987542 334455555655556666665543

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=97.28  E-value=0.0006  Score=62.97  Aligned_cols=42  Identities=19%  Similarity=0.295  Sum_probs=28.4

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      |.+.+..+...+..+. ..+++++|+|+|||..+-.++..+..
T Consensus       183 Q~~ai~~~~~~~~~~~-~~~ll~~~TGsGKT~~~~~~~~~l~~  224 (590)
T 3h1t_A          183 QQIAINRAVQSVLQGK-KRSLITMATGTGKTVVAFQISWKLWS  224 (590)
T ss_dssp             HHHHHHHHHHHHHTTC-SEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC-CceEEEecCCCChHHHHHHHHHHHHh
Confidence            3444444444444433 45899999999999998888777644

>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=97.27  E-value=0.00071  Score=55.13  Aligned_cols=43  Identities=19%  Similarity=0.413  Sum_probs=32.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+......+|+++.+..
T Consensus       162 ~~p~lllLDEPts~LD~~~~~~i~~~l~~~~~g~tviivtH~~~  205 (247)
T 2ff7_A          162 NNPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIIIAHRLS  205 (247)
T ss_dssp             TCCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEECSSGG
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHcCCCEEEEEeCCHH
Confidence            5578999999 566788888888888887654556777776644

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=97.27  E-value=0.00076  Score=58.30  Aligned_cols=43  Identities=12%  Similarity=0.242  Sum_probs=31.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+...+.+...  ...+|++|.+..
T Consensus       156 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~  201 (372)
T 1g29_1          156 RKPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQV  201 (372)
T ss_dssp             TCCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             cCCCEEEECCCCccCCHHHHHHHHHHHHHHHHhcCCEEEEECCCHH
Confidence            5678999999 577888888888888776532  456667776543

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.26  E-value=0.00021  Score=55.50  Aligned_cols=29  Identities=34%  Similarity=0.448  Sum_probs=24.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      ..++|.|++|+||||+++.++..+...+.
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            34899999999999999999998854443

>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=97.26  E-value=0.00015  Score=60.95  Aligned_cols=43  Identities=21%  Similarity=0.367  Sum_probs=31.9

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .++.++++||. -.++......+.+.+.+......+|+++.+..
T Consensus       207 ~~p~iLlLDEPts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~  250 (306)
T 3nh6_A          207 KAPGIILLDEATSALDTSNERAIQASLAKVCANRTTIVVAHRLS  250 (306)
T ss_dssp             HCCSEEEEECCSSCCCHHHHHHHHHHHHHHHTTSEEEEECCSHH
T ss_pred             hCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEEcChH
Confidence            45779999994 56778888888888887655666677776544

>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=97.25  E-value=0.00025  Score=54.73  Aligned_cols=24  Identities=46%  Similarity=0.689  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.++|+|++|+||||+++.+++.+
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHh
Confidence            458999999999999999999987

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=97.24  E-value=0.0012  Score=56.57  Aligned_cols=43  Identities=16%  Similarity=0.264  Sum_probs=29.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHh--cCCceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKY--TKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~--~~~~~iil~~~~~~  182 (305)
                      .++.++++|| .-.++......+...+.+.  .....+|++|.+..
T Consensus       155 ~~P~lLLLDEPts~LD~~~r~~l~~~l~~~~~~~g~tvi~vTHd~~  200 (359)
T 3fvq_A          155 PDPELILLDEPFSALDEQLRRQIREDMIAALRANGKSAVFVSHDRE  200 (359)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHTTCEEEEECCCHH
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            5678999999 6778887777777655432  22456667776543

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=97.22  E-value=0.00028  Score=57.53  Aligned_cols=38  Identities=21%  Similarity=0.416  Sum_probs=28.5

Q ss_pred             EEEEeC-CCcCCHHHHHHHHHHHHHhc-CCceEEEEecCC
Q 021937          144 LVLLDE-ADAMTKDAQFALRRVIEKYT-KNTRFALICNQV  181 (305)
Q Consensus       144 vliiDe-~~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~  181 (305)
                      ++++|| ...++......+.+++.+.. ....+|+++.+.
T Consensus       154 lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tviivtHd~  193 (249)
T 2qi9_C          154 LLLLDEPMNSLDVAQQSALDKILSALSQQGLAIVMSSHDL  193 (249)
T ss_dssp             EEEESSTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCH
T ss_pred             EEEEECCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCH
Confidence            999999 56788888889999888764 344566666553

>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=97.21  E-value=0.00092  Score=55.97  Aligned_cols=24  Identities=33%  Similarity=0.589  Sum_probs=21.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.++|.||+|+|||+++..+++.+
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhC
Confidence            347899999999999999999886

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=97.21  E-value=0.0061  Score=54.28  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHh
Q 021937           77 LLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ++|.|+||+|||+++..++..+.
T Consensus       206 iiI~G~pG~GKTtl~l~ia~~~~  228 (454)
T 2r6a_A          206 IIVAARPSVGKTAFALNIAQNVA  228 (454)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999998774

>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=97.20  E-value=0.0025  Score=54.28  Aligned_cols=37  Identities=19%  Similarity=0.348  Sum_probs=28.0

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        61 ~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      .++.+.-.+..+.  .+.+.||+|+||||+++.++..+.
T Consensus       160 ~l~~l~~~i~~g~--~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          160 AISAIKDGIAIGK--NVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             HHHHHHHHHHHTC--CEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             HHhhhhhhccCCC--EEEEECCCCCCHHHHHHHHhCCCc
Confidence            4445555554443  489999999999999999998763

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.19  E-value=0.00036  Score=53.53  Aligned_cols=23  Identities=30%  Similarity=0.550  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.|++|+||||+++.+++.+
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999987

>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=97.19  E-value=0.00037  Score=54.83  Aligned_cols=28  Identities=25%  Similarity=0.402  Sum_probs=24.0

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           72 NRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..+..+.|.||+|+||||+++.++..+.
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3444588999999999999999999885

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=97.18  E-value=0.0023  Score=52.75  Aligned_cols=43  Identities=21%  Similarity=0.445  Sum_probs=31.9

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc-CCceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT-KNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~-~~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+.. ....+|+++.+..
T Consensus       155 ~~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tii~vtHd~~  199 (266)
T 2yz2_A          155 HEPDILILDEPLVGLDREGKTDLLRIVEKWKTLGKTVILISHDIE  199 (266)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCCT
T ss_pred             cCCCEEEEcCccccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence            6678999999 56688888888999888764 3455666666544

>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=97.18  E-value=0.0026  Score=55.17  Aligned_cols=38  Identities=32%  Similarity=0.377  Sum_probs=24.1

Q ss_pred             ceEEEEEeCCCcCCH--HHHHHHHHHHHHhcCCceEEEEe
Q 021937          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       141 ~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                      +..+||+||+|.+..  .....+..+....+.+..+++.+
T Consensus       145 ~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~i~~S  184 (395)
T 3pey_A          145 KIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFS  184 (395)
T ss_dssp             TCCEEEEETHHHHHHSTTHHHHHHHHHHTSCTTCEEEEEE
T ss_pred             cCCEEEEEChhhhcCccccHHHHHHHHHhCCCCcEEEEEE
Confidence            457999999998764  22334444555555566666665

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.17  E-value=0.00033  Score=53.34  Aligned_cols=25  Identities=36%  Similarity=0.530  Sum_probs=22.4

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.+++|+|++|+||||+++.+++.+
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHh
Confidence            3458999999999999999999987

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.16  E-value=0.00032  Score=55.15  Aligned_cols=26  Identities=31%  Similarity=0.486  Sum_probs=23.0

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+..++|.||+|+||||+++.++..+
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            34558999999999999999999887

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.16  E-value=0.0004  Score=59.20  Aligned_cols=35  Identities=23%  Similarity=0.445  Sum_probs=27.7

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+...+..+..+.++|.|++|+||||+++.++..+
T Consensus        14 ~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A           14 LLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             HHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            33333445556669999999999999999999987

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.15  E-value=0.00049  Score=54.47  Aligned_cols=39  Identities=21%  Similarity=0.268  Sum_probs=28.5

Q ss_pred             HHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           61 IVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        61 ~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      .++.|...+...  .+..+.|.||+|+||||+++.++..+.
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            444555554432  223478999999999999999999885

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.15  E-value=0.00038  Score=56.99  Aligned_cols=23  Identities=35%  Similarity=0.660  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||+|+||||+++.++..+
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            47899999999999999999987

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=97.15  E-value=0.0026  Score=50.57  Aligned_cols=40  Identities=15%  Similarity=0.316  Sum_probs=25.6

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecC
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +..++++||+|.+.... ...+..++...+.+..+++.|..
T Consensus       150 ~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~l~~SAT  190 (219)
T 1q0u_A          150 TAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFSAT  190 (219)
T ss_dssp             GCCEEEECSHHHHHHTTCHHHHHHHHHTSCTTCEEEEEESC
T ss_pred             cceEEEEcCchHHhhhChHHHHHHHHHhCCcccEEEEEecC
Confidence            45789999999876432 34455566666656666665533

>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=97.14  E-value=0.00034  Score=54.12  Aligned_cols=24  Identities=38%  Similarity=0.654  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.++|+|++|+||||+++.+++.+
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

>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=97.14  E-value=0.002  Score=51.95  Aligned_cols=41  Identities=22%  Similarity=0.372  Sum_probs=26.5

Q ss_pred             ceEEEEEeCCCcCCHH-HHHHHHHHHHHhcCCceEEEEecCC
Q 021937          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~-~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      ...+||+||+|.+... ....+..++...+.+..+++.+...
T Consensus       173 ~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~i~~SAT~  214 (237)
T 3bor_A          173 WIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLSATM  214 (237)
T ss_dssp             TCCEEEEESHHHHHHTTCHHHHHHHHHHSCTTCEEEEECSSC
T ss_pred             cCcEEEECCchHhhccCcHHHHHHHHHhCCCCCeEEEEEEec
Confidence            3579999999987532 2344556666666666766666443

>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=0.00029  Score=53.86  Aligned_cols=23  Identities=35%  Similarity=0.644  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.++..+
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999986

>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=97.12  E-value=0.011  Score=53.17  Aligned_cols=69  Identities=17%  Similarity=0.223  Sum_probs=43.3

Q ss_pred             eEEEEEeCCCcCCHHH----HHHHHHHHHHhcC-CceEEEEecCCc--ccchhhhcce-eEEEecCCCHHHHHHHHH
Q 021937          142 VKLVLLDEADAMTKDA----QFALRRVIEKYTK-NTRFALICNQVN--KIIPALQSRC-TRFRFAPLEPVHVTERLK  210 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~----~~~l~~~l~~~~~-~~~iil~~~~~~--~l~~~l~~r~-~~i~~~~~~~~~~~~~l~  210 (305)
                      +.+++|||++.+....    ...+..+...... ...+|+++.++.  .+...+++.+ ..+.|.-.+..+...++.
T Consensus       298 ~ivlvIDE~~~ll~~~~~~~~~~l~~Lar~gRa~GI~LIlaTQrp~~dvl~~~i~~n~~~RI~lrv~s~~dsr~ilg  374 (512)
T 2ius_A          298 YIVVLVDEFADLMMTVGKKVEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKANIPTRIAFTVSSKIDSRTILD  374 (512)
T ss_dssp             EEEEEEETHHHHHHHHHHHHHHHHHHHHHHCGGGTEEEEEEESCCCTTTSCHHHHHHCCEEEEECCSSHHHHHHHHS
T ss_pred             cEEEEEeCHHHHHhhhhHHHHHHHHHHHHHhhhCCcEEEEEecCCccccccHHHHhhcCCeEEEEcCCHHHHHHhcC
Confidence            4699999997665322    2333444444333 556677776655  4666666665 667787778877776664

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.10  E-value=0.00077  Score=53.01  Aligned_cols=43  Identities=19%  Similarity=0.110  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHhcC---CCCeEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           60 DIVDTIDRLTSEN---RLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        60 ~~~~~l~~~l~~~---~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      ..++.+...+...   .+..+.|.|++|+||||+++.++..+...+
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            3455555555542   222378999999999999999998874333

>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=97.10  E-value=0.00054  Score=52.19  Aligned_cols=37  Identities=11%  Similarity=0.046  Sum_probs=29.3

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      .+.+.|.|++|+||||++..++..+...++...++..
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            4558899999999999999999998666655555443

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.09  E-value=0.00082  Score=56.06  Aligned_cols=23  Identities=43%  Similarity=0.573  Sum_probs=21.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+||||+||||+++.++..+
T Consensus        35 livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           35 AFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             EEEEECCTTSCTHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999875

>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=97.09  E-value=0.027  Score=41.92  Aligned_cols=22  Identities=18%  Similarity=0.440  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3899999999999999998764

>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=0.00048  Score=53.60  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.|++|+||||+++.+++.+
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

>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=97.07  E-value=0.00062  Score=54.33  Aligned_cols=25  Identities=28%  Similarity=0.618  Sum_probs=22.6

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +..++|.|++|+||||+++.+++.+
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            3458999999999999999999987

>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=97.06  E-value=0.0055  Score=58.32  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=18.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..+++.||+|+|||+++..++..
T Consensus       110 ~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A          110 QIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999977766544

>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=97.06  E-value=0.005  Score=53.72  Aligned_cols=40  Identities=28%  Similarity=0.360  Sum_probs=24.8

Q ss_pred             CceEEEEEeCCCcCCH--HHHHHHHHHHHHhcCCceEEEEec
Q 021937          140 ASVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      .+..+|++||+|.+..  .....+..+....+.+..+++.+.
T Consensus       167 ~~~~~iViDEah~~~~~~~~~~~~~~~~~~~~~~~~~i~~SA  208 (412)
T 3fht_A          167 KKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSA  208 (412)
T ss_dssp             GGCCEEEEETHHHHHSTTTTHHHHHHHHHTSCTTCEEEEEES
T ss_pred             hhCcEEEEeCHHHHhhcCCcHHHHHHHHhhCCCCceEEEEEe
Confidence            3467999999997742  233344455555555666666653

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.05  E-value=0.00046  Score=53.27  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=21.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||+|+||||+++.++...
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

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.05  E-value=0.00041  Score=54.57  Aligned_cols=24  Identities=29%  Similarity=0.422  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|+|++|+||||+++.++..+
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            358999999999999999999987

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=97.05  E-value=0.0013  Score=61.45  Aligned_cols=43  Identities=23%  Similarity=0.369  Sum_probs=31.5

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      ++.-.+++...+...  +..+|.||||||||+++-.+...+...+
T Consensus       191 N~~Q~~AV~~al~~~--~~~lI~GPPGTGKT~ti~~~I~~l~~~~  233 (646)
T 4b3f_X          191 DTSQKEAVLFALSQK--ELAIIHGPPGTGKTTTVVEIILQAVKQG  233 (646)
T ss_dssp             CHHHHHHHHHHHHCS--SEEEEECCTTSCHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHhcCC--CceEEECCCCCCHHHHHHHHHHHHHhCC
Confidence            566667777777644  3579999999999988777766665443

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.04  E-value=0.00035  Score=53.68  Aligned_cols=21  Identities=29%  Similarity=0.426  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .++|.|+||+||||+++.+++
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHh
Confidence            378999999999999999998

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.03  E-value=0.00042  Score=54.65  Aligned_cols=24  Identities=38%  Similarity=0.700  Sum_probs=21.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|+||+|+||||+++.++..+
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            348999999999999999999876

>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=97.02  E-value=0.0007  Score=51.65  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.+++.+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>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=0.00052  Score=53.54  Aligned_cols=24  Identities=25%  Similarity=0.513  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|.|++|+||||+++.+++.+
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            458999999999999999999987

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.02  E-value=0.0038  Score=52.72  Aligned_cols=40  Identities=25%  Similarity=0.365  Sum_probs=28.6

Q ss_pred             HHHHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           62 VDTIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        62 ~~~l~~~l~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      +..|...+ ++-.+  .++|.|+||+|||+++..++......+
T Consensus        55 ~~~LD~~l-gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g   96 (315)
T 3bh0_A           55 FTELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDND   96 (315)
T ss_dssp             CHHHHHHH-SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTT
T ss_pred             hHHHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcC
Confidence            34555555 33222  389999999999999999987765544

>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=97.02  E-value=0.0074  Score=49.98  Aligned_cols=38  Identities=18%  Similarity=0.128  Sum_probs=26.3

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++...+.+..++.+   ...++.+|+|+|||..+..++...
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            34444555555554   236889999999999987776654

>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=97.01  E-value=0.00054  Score=53.09  Aligned_cols=24  Identities=42%  Similarity=0.570  Sum_probs=21.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +..++|+|++|+||||+++.+++.
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            345899999999999999999997

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=97.00  E-value=0.00086  Score=57.57  Aligned_cols=43  Identities=14%  Similarity=0.258  Sum_probs=30.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+...+.+...  ...+|++|.+..
T Consensus       157 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~  202 (353)
T 1oxx_K          157 KDPSLLLLDEPFSNLDARMRDSARALVKEVQSRLGVTLLVVSHDPA  202 (353)
T ss_dssp             TCCSEEEEESTTTTSCGGGHHHHHHHHHHHHHHHCCEEEEEESCHH
T ss_pred             hCCCEEEEECCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            6678999999 566777777777777765432  455667776543

>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=97.00  E-value=0.0044  Score=53.10  Aligned_cols=39  Identities=28%  Similarity=0.443  Sum_probs=25.2

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEec
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      +..++++||+|.+.... ...+..++...+....+++.|.
T Consensus       147 ~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SA  186 (367)
T 1hv8_A          147 NVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSA  186 (367)
T ss_dssp             SCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEECS
T ss_pred             cCCEEEEeCchHhhhhchHHHHHHHHHhCCCCceEEEEee
Confidence            45799999999875322 3445555665555666666653

>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=97.00  E-value=0.0035  Score=49.14  Aligned_cols=41  Identities=20%  Similarity=0.285  Sum_probs=25.9

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecCC
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      +..++++||+|.+.... ...+..++...+.+..+++.|...
T Consensus       144 ~~~~iViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~  185 (207)
T 2gxq_A          144 RVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATL  185 (207)
T ss_dssp             TCSEEEEESHHHHHHTTCHHHHHHHHHTSCTTSEEEEECSSC
T ss_pred             hceEEEEEChhHhhccchHHHHHHHHHhCCccCeEEEEEEec
Confidence            35799999999875432 344555556555566666665443

>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=96.99  E-value=0.0018  Score=56.92  Aligned_cols=50  Identities=26%  Similarity=0.403  Sum_probs=34.8

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      +++++--.......+...+. .....++|+||+|+||||++++++..+...
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            45555444444555666543 333348999999999999999999988543

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.98  E-value=0.00094  Score=52.43  Aligned_cols=23  Identities=48%  Similarity=0.898  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.+++.+
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            48999999999999999999987

>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=96.97  E-value=0.003  Score=51.39  Aligned_cols=41  Identities=15%  Similarity=0.341  Sum_probs=25.4

Q ss_pred             ceEEEEEeCCCcCCHH-HHHHHHHHHHHhcCCceEEEEecCC
Q 021937          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~-~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      ...+||+||+|.+... -...+..++...+.+..+++.+...
T Consensus       186 ~~~~lViDEah~l~~~~~~~~l~~i~~~~~~~~~~l~~SAT~  227 (249)
T 3ber_A          186 ALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATM  227 (249)
T ss_dssp             TCCEEEECSHHHHHHTTCHHHHHHHHHSSCSSSEEEEEESSC
T ss_pred             ccCEEEEcChhhhhccChHHHHHHHHHhCCCCCeEEEEeccC
Confidence            3578999999987543 2334555566555556666555433

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.96  E-value=0.014  Score=52.42  Aligned_cols=36  Identities=19%  Similarity=0.312  Sum_probs=28.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      .+.++|++|+||||++..++..+...+....++..+
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            388999999999999999998886555555555543

>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=96.96  E-value=0.00068  Score=53.02  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=21.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +..++|+||+|+||||+++.++...
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhhC
Confidence            3448999999999999999999875

>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=96.95  E-value=0.00063  Score=53.85  Aligned_cols=24  Identities=33%  Similarity=0.461  Sum_probs=21.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|+||+|+||||+++.++..+
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            448999999999999999999875

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.95  E-value=0.00055  Score=52.95  Aligned_cols=23  Identities=35%  Similarity=0.759  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.+++.+
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            48999999999999999999887

>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=96.94  E-value=0.0011  Score=58.50  Aligned_cols=36  Identities=28%  Similarity=0.411  Sum_probs=27.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      .++++|++|+||||++..++..+...+....++..+
T Consensus       101 vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D  136 (432)
T 2v3c_C          101 VILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAAD  136 (432)
T ss_dssp             CEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Confidence            489999999999999999999886555444444433

>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=0.00078  Score=53.36  Aligned_cols=30  Identities=20%  Similarity=0.247  Sum_probs=24.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCc
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (305)
                      ..++|+|++|+||||+++.+++.+...+..
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            358999999999999999999987544433

>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=96.93  E-value=0.0042  Score=47.88  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus        13 ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           13 KFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3899999999999999999864

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.93  E-value=0.00073  Score=53.43  Aligned_cols=30  Identities=13%  Similarity=0.193  Sum_probs=24.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCc
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (305)
                      ..++|+|++|+||||+++.+++.+...+..
T Consensus        11 ~~I~l~G~~GsGKST~~~~L~~~l~~~~~~   40 (212)
T 2wwf_A           11 KFIVFEGLDRSGKSTQSKLLVEYLKNNNVE   40 (212)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCC
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHcCCc
Confidence            348999999999999999999987544443

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=96.93  E-value=0.0072  Score=45.81  Aligned_cols=22  Identities=27%  Similarity=0.468  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus         9 ~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            9 KVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3899999999999999999764

>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=96.92  E-value=0.0068  Score=46.84  Aligned_cols=22  Identities=36%  Similarity=0.505  Sum_probs=20.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||++++.+...-
T Consensus        26 i~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           26 LLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhcCC
Confidence            8999999999999999998764

>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=96.92  E-value=0.00067  Score=51.93  Aligned_cols=23  Identities=35%  Similarity=0.553  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.++..+
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            48999999999999999999876

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=96.92  E-value=0.0032  Score=47.37  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||++++.+...-
T Consensus         9 i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            9 VCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            8999999999999999998753

>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=96.92  E-value=0.00048  Score=53.57  Aligned_cols=23  Identities=43%  Similarity=0.603  Sum_probs=20.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..++|.||+|+||||+++.++..
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            34899999999999999999875

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.92  E-value=0.0012  Score=53.64  Aligned_cols=26  Identities=23%  Similarity=0.461  Sum_probs=22.7

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+..++|+|++|+||||+++.+++.+
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            33458999999999999999999887

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.91  E-value=0.00064  Score=53.69  Aligned_cols=26  Identities=19%  Similarity=0.175  Sum_probs=23.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      .++|.|++|+||||+++.+++.+...
T Consensus         6 ~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            6 LIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            48999999999999999999998543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.91  E-value=0.026  Score=43.42  Aligned_cols=23  Identities=30%  Similarity=0.663  Sum_probs=20.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..+++.|++|+|||+++..+...
T Consensus        49 ~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           49 PSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            35999999999999999999875

>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=96.90  E-value=0.0068  Score=48.52  Aligned_cols=40  Identities=20%  Similarity=0.369  Sum_probs=24.7

Q ss_pred             ceEEEEEeCCCcCCHH--HHHHHHHHHHHhcCCceEEEEecC
Q 021937          141 SVKLVLLDEADAMTKD--AQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~--~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +..++++||+|.+...  ....+..++...+....+++.+..
T Consensus       166 ~~~~lViDEah~~~~~~~~~~~~~~i~~~~~~~~~~l~lSAT  207 (230)
T 2oxc_A          166 SIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSAT  207 (230)
T ss_dssp             GCCEEEESSHHHHHSTTSSHHHHHHHHHHSCSSCEEEEEESC
T ss_pred             cCCEEEeCCchHhhcCcchHHHHHHHHHhCCCCCeEEEEEec
Confidence            3468999999987432  234455556666656656555533

>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=96.90  E-value=0.0032  Score=48.75  Aligned_cols=22  Identities=32%  Similarity=0.594  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||++++.+....
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            8999999999999998777654

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.89  E-value=0.00064  Score=54.32  Aligned_cols=24  Identities=21%  Similarity=0.433  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|.|++|+||||+++.+++.+
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999999987

>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=96.89  E-value=0.0076  Score=47.87  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ++|.|.+|+|||+++..+...
T Consensus        16 ivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           16 LVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCcCHHHHHHHHHhC
Confidence            899999999999999998753

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.89  E-value=0.00076  Score=51.20  Aligned_cols=23  Identities=26%  Similarity=0.339  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.+++.+
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            47899999999999999999987

>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=96.89  E-value=0.00078  Score=53.01  Aligned_cols=41  Identities=12%  Similarity=0.159  Sum_probs=20.9

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q 021937           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++...+.+.........-.+++.|++|+|||+++..+...
T Consensus        13 ~~~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           13 GLVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             -----------------CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CcccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhC
Confidence            34445555555554444445999999999999999998864

>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=96.88  E-value=0.0027  Score=47.73  Aligned_cols=23  Identities=22%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+....
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            38999999999999999998753

>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=96.88  E-value=0.0012  Score=53.17  Aligned_cols=24  Identities=33%  Similarity=0.678  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|.|++|+||||+++.+++.+
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999999987

>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=96.87  E-value=0.0013  Score=50.41  Aligned_cols=38  Identities=21%  Similarity=0.281  Sum_probs=28.7

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      .+.+.|.|++|+||||+++.+...+...+.....+...
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            34589999999999999999999876555444444443

>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=96.85  E-value=0.021  Score=44.30  Aligned_cols=22  Identities=36%  Similarity=0.440  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus        22 ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           22 RILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            4999999999999999977664

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.85  E-value=0.00076  Score=52.95  Aligned_cols=24  Identities=25%  Similarity=0.523  Sum_probs=21.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+.|.||+|+||||+++.+....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            348999999999999999999876

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.85  E-value=0.00072  Score=53.06  Aligned_cols=23  Identities=26%  Similarity=0.660  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.|++|+||||+++.+++.+
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            47899999999999999999987

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.85  E-value=0.00073  Score=52.82  Aligned_cols=24  Identities=25%  Similarity=0.504  Sum_probs=22.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|+|++|+||||+++.+++.+
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            358999999999999999999987

>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=96.85  E-value=0.0035  Score=63.87  Aligned_cols=28  Identities=29%  Similarity=0.398  Sum_probs=23.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      .++|+|+||+|||+++..++......+.
T Consensus        36 i~lI~G~pGsGKT~LAlqla~~~~~~G~   63 (1706)
T 3cmw_A           36 IVEIYGPESSGKTTLTLQVIAAAQREGK   63 (1706)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhCCC
Confidence            4899999999999999999877644443

>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=96.85  E-value=0.0018  Score=54.10  Aligned_cols=24  Identities=29%  Similarity=0.606  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      +.|.|++|+||||+++.++..+..
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            789999999999999999998853

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.84  E-value=0.00075  Score=52.48  Aligned_cols=23  Identities=26%  Similarity=0.544  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.|++|+||||+++.+++.+
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            48899999999999999999887

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.84  E-value=0.00079  Score=52.92  Aligned_cols=23  Identities=22%  Similarity=0.514  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.+++.+
T Consensus        17 ~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           17 VIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999876

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.84  E-value=0.015  Score=43.17  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=20.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +.+++.|++|+|||++++.+...
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            35899999999999999999864

>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=96.83  E-value=0.0065  Score=50.80  Aligned_cols=34  Identities=26%  Similarity=0.361  Sum_probs=26.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      .+.++|++|+||||++..++..+...+....++.
T Consensus       100 ~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~  133 (295)
T 1ls1_A          100 LWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVA  133 (295)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence            3778899999999999999998865544443333

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.83  E-value=0.00047  Score=53.17  Aligned_cols=24  Identities=38%  Similarity=0.646  Sum_probs=17.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|+|++|+||||+++.+++.+
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            458999999999999999999886

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.83  E-value=0.00082  Score=62.11  Aligned_cols=44  Identities=20%  Similarity=0.361  Sum_probs=33.2

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~  183 (305)
                      .++.++++||. ..++......+.+.+.+...+..+|+++.+...
T Consensus       508 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~~  552 (598)
T 3qf4_B          508 ANPKILILDEATSNVDTKTEKSIQAAMWKLMEGKTSIIIAHRLNT  552 (598)
T ss_dssp             TCCSEEEECCCCTTCCHHHHHHHHHHHHHHHTTSEEEEESCCTTH
T ss_pred             cCCCEEEEECCccCCCHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence            45789999995 567788888888888876656667777776654

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.82  E-value=0.00097  Score=52.38  Aligned_cols=24  Identities=33%  Similarity=0.602  Sum_probs=21.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+.|.||+|+||||+++.++...
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            348899999999999999999874

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.82  E-value=0.001  Score=53.04  Aligned_cols=24  Identities=29%  Similarity=0.603  Sum_probs=22.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|.|++|+||||+++.+++.+
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            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=96.82  E-value=0.00066  Score=54.49  Aligned_cols=24  Identities=21%  Similarity=0.499  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|.|++|+||||+++.+++.+
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            458999999999999999999886

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.82  E-value=0.00089  Score=53.29  Aligned_cols=24  Identities=25%  Similarity=0.545  Sum_probs=21.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|.||||+||+|.++.+++.+
T Consensus        30 kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           30 KVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             EEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            347889999999999999999987

>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=96.82  E-value=0.01  Score=47.94  Aligned_cols=40  Identities=23%  Similarity=0.336  Sum_probs=24.2

Q ss_pred             ceEEEEEeCCCcCCHH----HHHHHHHHHHHh-cCCceEEEEecC
Q 021937          141 SVKLVLLDEADAMTKD----AQFALRRVIEKY-TKNTRFALICNQ  180 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~----~~~~l~~~l~~~-~~~~~iil~~~~  180 (305)
                      +..+|||||+|.+...    ....+..++... +.+..+++.+..
T Consensus       175 ~~~~lViDEah~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~SAT  219 (245)
T 3dkp_A          175 SVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSAT  219 (245)
T ss_dssp             TCCEEEESSHHHHHHHC--CHHHHHHHHHHHCCCTTCEEEEEESS
T ss_pred             cCcEEEEeChHHhcccccccHHHHHHHHHHhcCCCCcEEEEEecc
Confidence            4578999999998653    344555555543 234555555533

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.82  E-value=0.0011  Score=52.29  Aligned_cols=23  Identities=35%  Similarity=0.686  Sum_probs=21.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||||+||+|.++.+++.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999999987

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=96.81  E-value=0.0014  Score=52.28  Aligned_cols=43  Identities=23%  Similarity=0.210  Sum_probs=27.5

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC-CCCcc
Q 021937           63 DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG-AQYHN  105 (305)
Q Consensus        63 ~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~-~~~~~  105 (305)
                      ..+........+..++|.|++|+||||+++.+++.+.. .+...
T Consensus        10 ~~~~~~~~~~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v   53 (223)
T 3ld9_A           10 GTLEAQTQGPGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNN   53 (223)
T ss_dssp             ---------CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGG
T ss_pred             ccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHHhhccCcee
Confidence            34444555555555899999999999999999999865 55443

>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=96.81  E-value=0.00098  Score=54.18  Aligned_cols=25  Identities=32%  Similarity=0.697  Sum_probs=22.4

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +..+.|.||+|+||||+++.+++.+
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            3458999999999999999999877

>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=96.80  E-value=0.0046  Score=50.70  Aligned_cols=40  Identities=18%  Similarity=0.327  Sum_probs=26.2

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecC
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +..+|||||+|.+.... ...+..++...+....+++.+..
T Consensus       201 ~l~~lViDEah~l~~~~~~~~l~~i~~~~~~~~q~l~~SAT  241 (262)
T 3ly5_A          201 NLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSAT  241 (262)
T ss_dssp             TCCEEEECSHHHHHHTTCHHHHHHHHHHSCSSSEEEEECSS
T ss_pred             cCCEEEEcChHHHhhhhHHHHHHHHHHhCCCCCeEEEEEec
Confidence            45799999999876432 34455566666666666666543

>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=96.80  E-value=0.0059  Score=46.31  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+...-
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            38999999999999999998653

>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=96.79  E-value=0.0064  Score=54.46  Aligned_cols=41  Identities=27%  Similarity=0.351  Sum_probs=25.1

Q ss_pred             CceEEEEEeCCCcCCH--HHHHHHHHHHHHhcCCceEEEEecC
Q 021937          140 ASVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      .+..+|||||+|.+..  .....+..+....+.+..+++.+..
T Consensus       234 ~~~~~iViDEah~~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT  276 (479)
T 3fmp_B          234 KKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSAT  276 (479)
T ss_dssp             GGCCEEEECCHHHHHTSTTHHHHHHHHHTTSCTTSEEEEEESC
T ss_pred             ccCCEEEEECHHHHhhcCCcHHHHHHHHhhCCccceEEEEeCC
Confidence            3467999999997742  2333444455555556666666543

>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=96.79  E-value=0.0086  Score=44.60  Aligned_cols=23  Identities=22%  Similarity=0.486  Sum_probs=20.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+....
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            38999999999999999998653

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.79  E-value=0.0012  Score=54.03  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.|+||+||||+++.++..+
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            38999999999999999999986

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=96.78  E-value=0.0043  Score=48.24  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=20.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999999875

>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=96.78  E-value=0.0014  Score=57.94  Aligned_cols=27  Identities=26%  Similarity=0.397  Sum_probs=22.8

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +...++|+|++|+|||++++.++....
T Consensus       150 kGq~~~i~G~sGvGKTtL~~~l~~~~~  176 (473)
T 1sky_E          150 KGGKIGLFGGAGVGKTVLIQELIHNIA  176 (473)
T ss_dssp             TTCEEEEECCSSSCHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCccHHHHHHHhhhh
Confidence            344589999999999999999988764

>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=96.78  E-value=0.0072  Score=45.19  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999999864

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.77  E-value=0.022  Score=52.47  Aligned_cols=42  Identities=7%  Similarity=0.186  Sum_probs=31.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCC-ceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKN-TRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~-~~iil~~~~~  181 (305)
                      .++.++++|| ...|+......+.+++.+.... ..+|+++.+.
T Consensus       238 ~~p~llllDEPts~LD~~~~~~l~~~l~~l~~~g~tvi~vtHdl  281 (608)
T 3j16_B          238 QEADVYMFDEPSSYLDVKQRLNAAQIIRSLLAPTKYVICVEHDL  281 (608)
T ss_dssp             SCCSEEEEECTTTTCCHHHHHHHHHHHHGGGTTTCEEEEECSCH
T ss_pred             hCCCEEEEECcccCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCH
Confidence            5578999999 5678888888899999876543 3455555543

>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=96.76  E-value=0.0026  Score=58.57  Aligned_cols=43  Identities=21%  Similarity=0.458  Sum_probs=32.3

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .++.++++||. ..++......+.+.+.+...+..+|+++.+..
T Consensus       497 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~~~  540 (582)
T 3b5x_A          497 RDAPVLILDEATSALDTESERAIQAALDELQKNKTVLVIAHRLS  540 (582)
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEEEecCHH
Confidence            56789999995 56778888888888887655556677776654

>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=96.76  E-value=0.0011  Score=51.35  Aligned_cols=23  Identities=26%  Similarity=0.613  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|++|+||||+++.+++.+
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

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=96.76  E-value=0.00065  Score=62.54  Aligned_cols=44  Identities=14%  Similarity=0.375  Sum_probs=32.8

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~  183 (305)
                      .++.++++||. ..++......+.+.+.+...+..+++++.+...
T Consensus       494 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~~  538 (578)
T 4a82_A          494 NNPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLST  538 (578)
T ss_dssp             HCCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGGG
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence            45789999994 567777888888888876656667777766543

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.75  E-value=0.0011  Score=52.15  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+.|.||+|+||||+++.++..+
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            348999999999999999998875

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=96.75  E-value=0.0012  Score=58.13  Aligned_cols=92  Identities=20%  Similarity=0.188  Sum_probs=50.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhh-cc---c------c-cCCCC---Cce
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS-TQ---S------F-SFGVK---ASV  142 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~~---~------~-~~~~~---~~~  142 (305)
                      .++.|+||+|||+++..+++.       .....+.+ .......+++.+..... ..   .      + .....   ...
T Consensus       164 ~~I~G~aGsGKTt~I~~~~~~-------~~~lVlTp-T~~aa~~l~~kl~~~~~~~~~~~~V~T~dsfL~~~~~~~~~~~  235 (446)
T 3vkw_A          164 VLVDGVPGCGKTKEILSRVNF-------EEDLILVP-GRQAAEMIRRRANASGIIVATKDNVRTVDSFLMNYGKGARCQF  235 (446)
T ss_dssp             EEEEECTTSCHHHHHHHHCCT-------TTCEEEES-CHHHHHHHHHHHTTTSCCCCCTTTEEEHHHHHHTTTSSCCCCC
T ss_pred             EEEEcCCCCCHHHHHHHHhcc-------CCeEEEeC-CHHHHHHHHHHhhhcCccccccceEEEeHHhhcCCCCCCCCcC
Confidence            689999999999999887642       11222222 21223333333321100 00   0      0 01111   126


Q ss_pred             EEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       143 ~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      .+|+|||+..++......++.++   + ...++++++.
T Consensus       236 d~liiDE~sm~~~~~l~~l~~~~---~-~~~vilvGD~  269 (446)
T 3vkw_A          236 KRLFIDEGLMLHTGCVNFLVEMS---L-CDIAYVYGDT  269 (446)
T ss_dssp             SEEEEETGGGSCHHHHHHHHHHT---T-CSEEEEEECT
T ss_pred             CEEEEeCcccCCHHHHHHHHHhC---C-CCEEEEecCc
Confidence            89999999999876666555433   2 3678888754

>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=96.73  E-value=0.00088  Score=52.02  Aligned_cols=22  Identities=32%  Similarity=0.599  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .++|.||+|+||||+++.++..
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhcc
Confidence            3789999999999999999874

>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=96.73  E-value=0.0029  Score=53.11  Aligned_cols=29  Identities=31%  Similarity=0.370  Sum_probs=24.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      ..+.|.||+|+||||+++.++..+...+.
T Consensus       103 ~vi~lvG~nGsGKTTll~~Lagll~~~~g  131 (304)
T 1rj9_A          103 RVVLVVGVNGVGKTTTIAKLGRYYQNLGK  131 (304)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHTTTC
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHHhcCC
Confidence            34789999999999999999998865443

>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=96.73  E-value=0.0019  Score=51.17  Aligned_cols=28  Identities=21%  Similarity=0.342  Sum_probs=23.7

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           72 NRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..+..++|.|++|+||||+++.++..+.
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3344588999999999999999999874

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.73  E-value=0.0012  Score=52.55  Aligned_cols=44  Identities=18%  Similarity=0.231  Sum_probs=35.2

Q ss_pred             ccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        56 ~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      -.+.+..+.++........+.+++.|++|+||||++..++....
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            34566667777777666667799999999999999999998863

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.72  E-value=0.003  Score=50.39  Aligned_cols=43  Identities=21%  Similarity=0.315  Sum_probs=33.6

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ++...+.++..+.....+.+++.|.+|+||||++..++.....
T Consensus        22 ~~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~~   64 (226)
T 2hf9_A           22 NKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKD   64 (226)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            4455566677666666666899999999999999999988643

>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=96.72  E-value=0.0012  Score=52.86  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|.|++|+||||+++.++..+
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999886

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.71  E-value=0.0011  Score=51.60  Aligned_cols=25  Identities=24%  Similarity=0.264  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .++|+|++|+||||+++.+++.+..
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

>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=96.70  E-value=0.0015  Score=50.15  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .++|+|++|+||||+++.++..+..
T Consensus         7 ~i~l~G~~GsGKST~~~~L~~~l~~   31 (179)
T 2pez_A            7 TVWLTGLSGAGKTTVSMALEEYLVC   31 (179)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4789999999999999999998743

>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=96.70  E-value=0.00099  Score=52.29  Aligned_cols=24  Identities=17%  Similarity=0.379  Sum_probs=21.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|.|++|+||||+++.+++.+
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            458999999999999999999876

>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=96.69  E-value=0.014  Score=46.45  Aligned_cols=40  Identities=18%  Similarity=0.337  Sum_probs=26.8

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecC
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +..++++||+|.+.... ...+..++...+.+..+++.+..
T Consensus       167 ~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~SAT  207 (228)
T 3iuy_A          167 SITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSAT  207 (228)
T ss_dssp             TCCEEEECCHHHHHHTTCHHHHHHHHHHSCSSCEEEEEESC
T ss_pred             cceEEEEECHHHHhccchHHHHHHHHHhCCcCCeEEEEEee
Confidence            45799999999876432 34555666666666676666544

>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=96.69  E-value=0.02  Score=49.72  Aligned_cols=38  Identities=18%  Similarity=0.273  Sum_probs=22.8

Q ss_pred             ceEEEEEeCCCcCCHHHHH-HHHHHHHHhcCCceEEEEe
Q 021937          141 SVKLVLLDEADAMTKDAQF-ALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~~~-~l~~~l~~~~~~~~iil~~  178 (305)
                      +..+||+||+|.+...... .+..++...+....+++.+
T Consensus       163 ~~~~vIiDEaH~~~~~~~~~~~~~i~~~~~~~~~~i~lS  201 (400)
T 1s2m_A          163 DCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFS  201 (400)
T ss_dssp             TCCEEEEESHHHHSSHHHHHHHHHHHTTSCSSCEEEEEE
T ss_pred             cCCEEEEeCchHhhhhchHHHHHHHHHhCCcCceEEEEE
Confidence            3579999999987654433 3333444444455555544

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=96.68  E-value=0.01  Score=47.68  Aligned_cols=40  Identities=25%  Similarity=0.378  Sum_probs=26.0

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecC
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +..++++||+|.+.... ...+..++...+....+++.|..
T Consensus       171 ~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~SAT  211 (236)
T 2pl3_A          171 DLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFSAT  211 (236)
T ss_dssp             TCCEEEETTHHHHHHTTTHHHHHHHHHTSCTTSEEEEEESS
T ss_pred             cccEEEEeChHHHhcCCcHHHHHHHHHhCCCCCeEEEEEee
Confidence            35699999999875432 34556666666656666665543

>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=96.68  E-value=0.0014  Score=52.03  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.|++|+||||+++.+++.+
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            37899999999999999999987

>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=96.68  E-value=0.0066  Score=53.03  Aligned_cols=38  Identities=29%  Similarity=0.487  Sum_probs=25.7

Q ss_pred             eEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEec
Q 021937          142 VKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      ..+||+||+|.+.... ...+..++...+.+..+++.+.
T Consensus       184 ~~~vViDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SA  222 (414)
T 3eiq_A          184 IKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSA  222 (414)
T ss_dssp             CCEEEECSHHHHHHTTTHHHHHHHHTTSCTTCEEEEECS
T ss_pred             CcEEEEECHHHhhccCcHHHHHHHHHhCCCCCeEEEEEE
Confidence            5799999999875432 3455566666666677776653

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.68  E-value=0.0062  Score=56.10  Aligned_cols=43  Identities=16%  Similarity=0.309  Sum_probs=33.0

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .++.++++||. -.++......+.+.+.+...+..+++++.+..
T Consensus       496 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~l~  539 (587)
T 3qf4_A          496 KKPKVLILDDCTSSVDPITEKRILDGLKRYTKGCTTFIITQKIP  539 (587)
T ss_dssp             TCCSEEEEESCCTTSCHHHHHHHHHHHHHHSTTCEEEEEESCHH
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHhCCCCEEEEEecChH
Confidence            56789999995 56788888888888887766666777776654

>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=96.67  E-value=0.0064  Score=46.83  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||+++..+....
T Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           24 LVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            8999999999999999998653

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.67  E-value=0.0012  Score=52.88  Aligned_cols=23  Identities=35%  Similarity=0.648  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.|++|+||||+++.+++.+
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            37899999999999999999987

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=96.65  E-value=0.0097  Score=45.97  Aligned_cols=23  Identities=39%  Similarity=0.616  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+...-
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            38999999999999999998643

>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=96.65  E-value=0.004  Score=53.57  Aligned_cols=40  Identities=23%  Similarity=0.350  Sum_probs=30.6

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      ....+.|+|++|+||||++..++..+...+....++..+.
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~Dp  117 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVDP  117 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC-
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecCC
Confidence            3345899999999999999999998866666555555543

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=96.64  E-value=0.022  Score=51.38  Aligned_cols=38  Identities=18%  Similarity=0.128  Sum_probs=26.0

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++.-.+.+..++.+   ...+++||+|+|||..+..++...
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            33344444444443   458999999999999987766654

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.63  E-value=0.001  Score=56.35  Aligned_cols=24  Identities=33%  Similarity=0.555  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.++|.||+|+|||+++..+++.+
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHC
Confidence            358999999999999999999986

>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=96.63  E-value=0.0073  Score=45.30  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||++++.+...-
T Consensus         6 i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998643

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.63  E-value=0.0049  Score=49.17  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHh
Q 021937           77 LLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +.|.||+|+||||+++.++....
T Consensus        28 ~~l~G~nGsGKSTll~~l~g~~~   50 (231)
T 4a74_A           28 TEVFGEFGSGKTQLAHTLAVMVQ   50 (231)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            89999999999999999998653

>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA helicase, acetyltransferase, GCN5 acetyltransferase; HET: ACO ADP; 2.35A {Escherichia coli K12}

Probab=96.62  E-value=0.0074  Score=55.84  Aligned_cols=82  Identities=16%  Similarity=0.125  Sum_probs=51.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccC--CCCCceEEEEEeCCCc
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF--GVKASVKLVLLDEADA  152 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~--~~~~~~~vliiDe~~~  152 (305)
                      ...+|+|+.|.|||+++-.++..+..     . +.++.+.......+.+.............  .......+++|||+-.
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            35899999999999999999988732     1 25556666666665554332211111000  1122368999999999


Q ss_pred             CCHHHHHHHH
Q 021937          153 MTKDAQFALR  162 (305)
Q Consensus       153 l~~~~~~~l~  162 (305)
                      ++......|+
T Consensus       267 Ip~pll~~ll  276 (671)
T 2zpa_A          267 IPAPLLHQLV  276 (671)
T ss_dssp             SCHHHHHHHH
T ss_pred             CCHHHHHHHH
Confidence            9965544444

>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=96.61  E-value=0.012  Score=45.20  Aligned_cols=22  Identities=18%  Similarity=0.347  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus        22 ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           22 KIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3899999999999999998764

>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=96.61  E-value=0.01  Score=46.22  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
T Consensus        16 ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           16 KVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999999764

>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=96.61  E-value=0.0096  Score=48.04  Aligned_cols=41  Identities=17%  Similarity=0.330  Sum_probs=26.5

Q ss_pred             CceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecC
Q 021937          140 ASVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      .+..+++|||+|.+.... ...+..++...+.+..+++.+..
T Consensus       175 ~~~~~lViDEah~l~~~~~~~~~~~i~~~~~~~~q~~~~SAT  216 (242)
T 3fe2_A          175 RRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSAT  216 (242)
T ss_dssp             TTCCEEEETTHHHHHHTTCHHHHHHHHTTSCSSCEEEEEESC
T ss_pred             ccccEEEEeCHHHHhhhCcHHHHHHHHHhCCccceEEEEEee
Confidence            345799999999876432 34455556666566666666543

>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=96.61  E-value=0.01  Score=46.33  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus        31 ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           31 KLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhhC
Confidence            3899999999999999999754

>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=96.60  E-value=0.0017  Score=51.83  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=21.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||+|+||||+++.++...
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            48899999999999999999876

>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=96.59  E-value=0.0024  Score=51.30  Aligned_cols=23  Identities=43%  Similarity=0.634  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|.||+|+||||+++.+++.+
T Consensus        11 ~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A           11 VVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999987

>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=96.58  E-value=0.015  Score=50.29  Aligned_cols=39  Identities=18%  Similarity=0.355  Sum_probs=25.7

Q ss_pred             CceEEEEEeCCCcCCH--HHHHHHHHHHHHhcCCceEEEEe
Q 021937          140 ASVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                      .+..+|++||+|.+..  .....+..++...+....+++.|
T Consensus       151 ~~~~~vViDEaH~~~~~~~~~~~~~~~~~~~~~~~~~i~~S  191 (391)
T 1xti_A          151 KHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFS  191 (391)
T ss_dssp             TTCSEEEECSHHHHTSSHHHHHHHHHHHHTSCSSSEEEEEE
T ss_pred             cccCEEEEeCHHHHhhccchHHHHHHHHhhCCCCceEEEEE
Confidence            3457899999998864  34445556666555566666655

>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=96.58  E-value=0.002  Score=59.30  Aligned_cols=43  Identities=21%  Similarity=0.433  Sum_probs=32.2

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .++.++++||. -.++......+.+.+.+...+..+|+++.+..
T Consensus       497 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~~~  540 (582)
T 3b60_A          497 RDSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLS  540 (582)
T ss_dssp             HCCSEEEEETTTSSCCHHHHHHHHHHHHHHHTTSEEEEECSCGG
T ss_pred             hCCCEEEEECccccCCHHHHHHHHHHHHHHhCCCEEEEEeccHH
Confidence            55779999995 56778888888888887655556777776654

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.57  E-value=0.0024  Score=52.05  Aligned_cols=24  Identities=38%  Similarity=0.469  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|.|++|+||||+++.++..+
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhc
Confidence            459999999999999999999987

>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=96.57  E-value=0.01  Score=45.34  Aligned_cols=21  Identities=24%  Similarity=0.488  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus        21 i~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           21 VIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            899999999999999999864

>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=96.56  E-value=0.011  Score=45.51  Aligned_cols=25  Identities=16%  Similarity=0.343  Sum_probs=21.1

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHH
Q 021937           72 NRLPHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .....+++.|++|+|||++++.+..
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhc
Confidence            3344599999999999999999984

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=96.56  E-value=0.029  Score=50.55  Aligned_cols=32  Identities=9%  Similarity=-0.021  Sum_probs=25.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCC-CCcccEE
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGA-QYHNMIL  108 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~  108 (305)
                      ++|.|+||+|||+++..++...... +....++
T Consensus       245 ~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~  277 (503)
T 1q57_A          245 IMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLA  277 (503)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEE
T ss_pred             EEEeecCCCCchHHHHHHHHHHHHhcCCcEEEE
Confidence            7999999999999999999887544 4433333

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.56  E-value=0.00093  Score=52.89  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=20.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..+.|.||.|+|||||++.++..
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            34889999999999999999876

>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=96.56  E-value=0.011  Score=51.48  Aligned_cols=38  Identities=29%  Similarity=0.427  Sum_probs=24.8

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEe
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~  178 (305)
                      ...+||+||+|.+.... ...+..++...+....+++.+
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            35799999999875432 345555565555566666655

>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=96.55  E-value=0.0088  Score=46.63  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A           10 KILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3899999999999999998764

>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=96.54  E-value=0.019  Score=42.80  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3899999999999999999874

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.54  E-value=0.0017  Score=51.83  Aligned_cols=24  Identities=29%  Similarity=0.551  Sum_probs=21.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+.|.||+|+||||+++.++...
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            348999999999999999999875

>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=96.54  E-value=0.00057  Score=54.17  Aligned_cols=26  Identities=19%  Similarity=0.327  Sum_probs=22.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      .++|.|++|+||||+++.+++.+...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~~   27 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            37899999999999999999988543

>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=96.53  E-value=0.012  Score=44.12  Aligned_cols=21  Identities=33%  Similarity=0.593  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
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

>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=96.53  E-value=0.0072  Score=46.29  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+...-
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            38999999999999999998643

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=96.53  E-value=0.0076  Score=46.65  Aligned_cols=21  Identities=29%  Similarity=0.518  Sum_probs=18.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
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            899999999999999999754

>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=96.52  E-value=0.0063  Score=46.32  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=20.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+...-
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            48999999999999999987643

>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=96.52  E-value=0.0041  Score=52.81  Aligned_cols=34  Identities=29%  Similarity=0.411  Sum_probs=26.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      .+.|.||+|+||||+++.++..+...+....+..
T Consensus       131 vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g  164 (328)
T 3e70_C          131 VIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAA  164 (328)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEe
Confidence            3789999999999999999998865544444433

>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=96.52  E-value=0.014  Score=51.87  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++++.+|+|+|||..+-.++...
T Consensus        25 ~~ll~~~tG~GKT~~~~~~~~~~   47 (494)
T 1wp9_A           25 NCLIVLPTGLGKTLIAMMIAEYR   47 (494)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            68999999999999887776654

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.51  E-value=0.006  Score=55.06  Aligned_cols=39  Identities=15%  Similarity=0.193  Sum_probs=30.0

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ....+..+.-.+..+.  .++++||+|+||||++++++..+
T Consensus       246 ~~~~l~~l~~~v~~g~--~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          246 PSGVLAYLWLAIEHKF--SAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CHHHHHHHHHHHHTTC--CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CHHHHHHHHHHHhCCC--EEEEECCCCCCHHHHHHHHHhhC
Confidence            3455566655565553  49999999999999999998876

>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=96.51  E-value=0.0068  Score=47.47  Aligned_cols=23  Identities=30%  Similarity=0.546  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+....
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            38999999999999999988653

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=96.51  E-value=0.019  Score=56.27  Aligned_cols=61  Identities=16%  Similarity=0.168  Sum_probs=33.3

Q ss_pred             CCCCCCCCcchhhhcCCCCcccc--ccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHH
Q 021937           33 GTPPDIKASPWVEKYRPQSLADV--AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        33 ~~~~~~~~~~~~~~~~p~~~~~~--~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      ..|+.....+|.+...|.....+  --.+.-.+.+.... .+  .++++.+|+|+|||..+.....
T Consensus        61 ~~p~~~~~~~~~~~~~p~~~~~~~f~L~~~Q~eai~~l~-~g--~~vLV~apTGSGKTlva~lai~  123 (1010)
T 2xgj_A           61 ALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCID-RG--ESVLVSAHTSAGKTVVAEYAIA  123 (1010)
T ss_dssp             ECCTTCCCCCGGGCCCSSCSCCCSSCCCHHHHHHHHHHH-HT--CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCCCcccCCCCcccChhhHHhCCCCCCHHHHHHHHHHH-cC--CCEEEECCCCCChHHHHHHHHH
Confidence            34444455667666555432111  11222333333333 33  3599999999999998654443

>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=96.50  E-value=0.0035  Score=48.21  Aligned_cols=21  Identities=24%  Similarity=0.460  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus        10 i~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A           10 IVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            899999999999999999875

>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=96.50  E-value=0.013  Score=50.78  Aligned_cols=40  Identities=23%  Similarity=0.403  Sum_probs=26.0

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecC
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +..++++||+|.+.... ...+..++...+....+++.|..
T Consensus       162 ~~~~vIiDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT  202 (394)
T 1fuu_A          162 KIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSAT  202 (394)
T ss_dssp             TCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEECSS
T ss_pred             hCcEEEEEChHHhhCCCcHHHHHHHHHhCCCCceEEEEEEe
Confidence            46799999999875432 34455566665556666666543

>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=96.49  E-value=0.0019  Score=50.99  Aligned_cols=24  Identities=21%  Similarity=0.545  Sum_probs=21.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+.|.||+|+||||+++.++..+
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            348899999999999999999876

>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=96.48  E-value=0.034  Score=55.34  Aligned_cols=39  Identities=18%  Similarity=0.208  Sum_probs=28.0

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHH
Q 021937           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVA   95 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~   95 (305)
                      .|...+..+...+.++.+..++++||+|+|||..+...+
T Consensus       607 ~Q~~ai~~il~~~~~g~p~d~ll~~~TGsGKT~val~aa  645 (1151)
T 2eyq_A          607 DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAA  645 (1151)
T ss_dssp             HHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCcCcEEEECCCCCCHHHHHHHHH
Confidence            355555666655556666679999999999998765444

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.48  E-value=0.0014  Score=50.06  Aligned_cols=18  Identities=28%  Similarity=0.516  Sum_probs=16.4

Q ss_pred             eEEEECCCCCcHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILA   93 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~   93 (305)
                      .+.|.||+|+||||+++.
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            478999999999999994

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.47  E-value=0.0094  Score=50.68  Aligned_cols=46  Identities=17%  Similarity=0.200  Sum_probs=30.4

Q ss_pred             HHHHHHHhcCCCC-eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEE
Q 021937           63 DTIDRLTSENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (305)
Q Consensus        63 ~~l~~~l~~~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (305)
                      ..|...+.+.... .++|.|+||+|||+++..++..+...+....++
T Consensus        34 ~~LD~~~gGl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~f   80 (338)
T 4a1f_A           34 VQLDNYTSGFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVF   80 (338)
T ss_dssp             HHHHHHHCSBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             hHHHHHhcCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            3445555332222 389999999999999999988775444433333

>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=96.47  E-value=0.056  Score=39.53  Aligned_cols=104  Identities=11%  Similarity=-0.016  Sum_probs=62.1

Q ss_pred             HHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcc-cEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEE
Q 021937           67 RLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHN-MILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV  145 (305)
Q Consensus        67 ~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vl  145 (305)
                      ..+.++..+.++|+|+.--=....+..+.+.+...+... .++.++.     .....+.+... ...++.+.    +.+|
T Consensus        11 ~~l~~~~~pvyll~G~E~~l~~~~~~~i~~~~~~~~~~e~~~~~~~~-----~~~~~~l~~~~-~s~slF~~----rrlV   80 (140)
T 1jql_B           11 AQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP-----NTDWNAIFSLC-QAMSLFAS----RQTL   80 (140)
T ss_dssp             HHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEECCCCST-----TCCHHHHHHHH-HCCCTTCC----CEEE
T ss_pred             HHHhccCCceEEEEcCcHHHHHHHHHHHHHHHHHCCCcceeEEEecC-----CCCHHHHHHHH-hcCCCCCC----CEEE
Confidence            334444556799999996556666666666554333221 1222222     12233344333 33333332    7999


Q ss_pred             EEeCCCc-CCHHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          146 LLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       146 iiDe~~~-l~~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +|.+.+. ...+..+.|..+++.+++.+.+|++...
T Consensus        81 ~v~~~~~~~~~~~~~~L~~yl~~p~~~~~lvi~~~k  116 (140)
T 1jql_B           81 LLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNK  116 (140)
T ss_dssp             EEECCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSS
T ss_pred             EEECCCCCCChHHHHHHHHHHhcCCCCEEEEEEeCC
Confidence            9998755 5566778899999988888888888643

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=96.46  E-value=0.015  Score=51.40  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=17.7

Q ss_pred             CeEEEECCCCCcHHHHH-HHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTI-LAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~-~~l~~~   97 (305)
                      ..+++.||+|+|||..+ ..+.+.
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            45899999999999875 445533

>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=0.032  Score=41.48  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||++++.+...-
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999997653

>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=96.45  E-value=0.0086  Score=46.60  Aligned_cols=22  Identities=23%  Similarity=0.543  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus        30 ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           30 KIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            4999999999999999999764

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.45  E-value=0.035  Score=49.24  Aligned_cols=36  Identities=25%  Similarity=0.358  Sum_probs=26.7

Q ss_pred             HHHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHh
Q 021937           63 DTIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        63 ~~l~~~l~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..|...+ ++-.+  .++|.|+||+|||+++..++....
T Consensus       188 ~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a  225 (444)
T 2q6t_A          188 KELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAA  225 (444)
T ss_dssp             HHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             Hhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            3455555 33323  279999999999999999988764

>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=96.45  E-value=0.0045  Score=48.97  Aligned_cols=22  Identities=32%  Similarity=0.507  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
T Consensus        29 ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           29 KLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            3899999999999999999764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.45  E-value=0.0018  Score=51.09  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|.||+|+||||+++.++..+
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            47899999999999999999987

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.44  E-value=0.022  Score=51.78  Aligned_cols=43  Identities=9%  Similarity=0.265  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...|+......+.+++.+... ...+|+++.+..
T Consensus       175 ~~P~lLlLDEPTs~LD~~~~~~l~~~L~~l~~~g~tvi~vsHd~~  219 (538)
T 1yqt_A          175 RNATFYFFDEPSSYLDIRQRLNAARAIRRLSEEGKSVLVVEHDLA  219 (538)
T ss_dssp             SCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCHH
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            5678999999 577888888888888876533 455666665543

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=96.44  E-value=0.005  Score=48.83  Aligned_cols=29  Identities=24%  Similarity=0.271  Sum_probs=25.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      ..++|.|++|+||||.++.+++.+...+.
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            34889999999999999999999876655

>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=96.44  E-value=0.0032  Score=49.99  Aligned_cols=30  Identities=27%  Similarity=0.356  Sum_probs=25.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcc
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~  105 (305)
                      .++|.|++|+||||.++.+++.+...+...
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            478999999999999999999997665543

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.44  E-value=0.02  Score=50.56  Aligned_cols=38  Identities=18%  Similarity=0.325  Sum_probs=30.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCC-CCcccEEEeecC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNAS  113 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~  113 (305)
                      .++++|++|+||||++..++..+... +....++..+..
T Consensus       102 vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~  140 (433)
T 2xxa_A          102 VVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVY  140 (433)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCC
Confidence            37888999999999999999998766 666666655543

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.43  E-value=0.0022  Score=54.44  Aligned_cols=23  Identities=35%  Similarity=0.676  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||+|+||||++..++..+
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            47899999999999999999987

>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=96.43  E-value=0.0088  Score=45.47  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||+++..+...-
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            8999999999999999997643

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=96.43  E-value=0.015  Score=43.57  Aligned_cols=22  Identities=27%  Similarity=0.614  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
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            3899999999999999999763

>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=96.43  E-value=0.021  Score=42.74  Aligned_cols=20  Identities=25%  Similarity=0.479  Sum_probs=18.3

Q ss_pred             eEEEECCCCCcHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVA   95 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~   95 (305)
                      .+++.|++|+|||++++.+.
T Consensus         4 ki~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            38999999999999999986

>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=96.43  E-value=0.012  Score=44.76  Aligned_cols=21  Identities=38%  Similarity=0.686  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           15 LVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECcCCCCHHHHHHHHHcC
Confidence            899999999999999999864

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.42  E-value=0.0083  Score=50.67  Aligned_cols=23  Identities=22%  Similarity=0.247  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHh
Q 021937           77 LLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +.|.||+|+||||+++.+...+.
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            78999999999999999988874

>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=96.41  E-value=0.0041  Score=48.91  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+...-
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            38999999999999999998753

>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=96.41  E-value=0.02  Score=45.00  Aligned_cols=24  Identities=21%  Similarity=0.232  Sum_probs=20.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+++.|++|+|||+++..+...-
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            458999999999999999998653

>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=96.41  E-value=0.0047  Score=49.76  Aligned_cols=29  Identities=24%  Similarity=0.406  Sum_probs=25.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCc
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (305)
                      .++|.|++|+||||.++.+++.+...+..
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            48999999999999999999998765554

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=96.41  E-value=0.002  Score=49.10  Aligned_cols=21  Identities=43%  Similarity=0.702  Sum_probs=19.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .+++.|++|+|||++++.+..
T Consensus        11 ~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B           11 KLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            389999999999999999864

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.41  E-value=0.012  Score=53.52  Aligned_cols=42  Identities=14%  Similarity=0.342  Sum_probs=30.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc--CCceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT--KNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~--~~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+..  ....+++++.+.
T Consensus       402 ~~p~lLlLDEPT~gLD~~~~~~i~~~l~~l~~~~g~tvi~vsHdl  446 (538)
T 3ozx_A          402 KEADLYVLDQPSSYLDVEERYIVAKAIKRVTRERKAVTFIIDHDL  446 (538)
T ss_dssp             SCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHHTTCEEEEECSCH
T ss_pred             cCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCH
Confidence            5678999999 56788888888888887653  244566666554

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.41  E-value=0.0015  Score=50.00  Aligned_cols=39  Identities=21%  Similarity=0.216  Sum_probs=27.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      +.+.|.|++|+||||+++.++..+...++..-.+.++..
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            347899999999999999999998654443444554443

>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=96.40  E-value=0.0053  Score=46.04  Aligned_cols=21  Identities=33%  Similarity=0.610  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .+++.|++|+|||++++.+..
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            489999999999999998854

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.40  E-value=0.0024  Score=52.09  Aligned_cols=24  Identities=38%  Similarity=0.621  Sum_probs=21.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+.|.||+|+||||+++.+++.+
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            458999999999999999999886

>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=96.39  E-value=0.0045  Score=47.39  Aligned_cols=21  Identities=19%  Similarity=0.377  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus         8 i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            8 CVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999998764

>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=96.39  E-value=0.0021  Score=48.41  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=21.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+.|.||.|+||||+++.++..+
T Consensus        34 e~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           34 IMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            348899999999999999999987

>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=96.39  E-value=0.0031  Score=50.62  Aligned_cols=25  Identities=36%  Similarity=0.582  Sum_probs=22.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .++|.|++|+||||+++.+++.+..
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            3889999999999999999999854

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.38  E-value=0.0043  Score=52.11  Aligned_cols=34  Identities=21%  Similarity=0.312  Sum_probs=26.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      +.++|++|+||||++..++..+...+....++..
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            7899999999999999999988655444444443

>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=0.0018  Score=50.87  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|+|++|+||||+++.++. +
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~   24 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-L   24 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-T
T ss_pred             EEEEECCCCcCHHHHHHHHHH-C
Confidence            478999999999999999998 5

>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=96.37  E-value=0.0043  Score=48.09  Aligned_cols=22  Identities=27%  Similarity=0.462  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||++++.+...-
T Consensus        26 i~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           26 IVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998753

>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=96.37  E-value=0.011  Score=45.71  Aligned_cols=22  Identities=27%  Similarity=0.510  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus        25 ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           25 KVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            3899999999999999999764

>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=96.36  E-value=0.022  Score=43.72  Aligned_cols=21  Identities=33%  Similarity=0.369  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus        25 i~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           25 LTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999999864

>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=96.36  E-value=0.012  Score=45.04  Aligned_cols=22  Identities=23%  Similarity=0.513  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||++++.+...-
T Consensus         7 i~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            7 LVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999998643

>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=96.34  E-value=0.0036  Score=49.14  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|.|++|+||||+++.++..+
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            57899999999999999999987

>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=96.33  E-value=0.0029  Score=49.30  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.|+|++|+||||+++.+++.+
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            7899999999999999999986

>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=96.32  E-value=0.0037  Score=56.18  Aligned_cols=44  Identities=7%  Similarity=0.081  Sum_probs=34.1

Q ss_pred             cchHHHHHHHHHH--hcCCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           57 AHRDIVDTIDRLT--SENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        57 g~~~~~~~l~~~l--~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ..+++.+.+++..  .......++|.|.+|+||||+++++++.+..
T Consensus       376 ~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          376 SYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            4567777777766  2333345899999999999999999999953

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=96.31  E-value=0.0094  Score=44.76  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            3899999999999999999865

>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=96.31  E-value=0.0022  Score=50.51  Aligned_cols=21  Identities=29%  Similarity=0.262  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .+.|.|++|+||||+++.++.
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            378999999999999999986

>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=96.31  E-value=0.0074  Score=47.66  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
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            3899999999999999999753

>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=96.29  E-value=0.018  Score=46.24  Aligned_cols=22  Identities=27%  Similarity=0.508  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .++|.|++|+||||+++.+...
T Consensus        31 ~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           31 RIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4899999999999999999864

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=96.28  E-value=0.0076  Score=51.68  Aligned_cols=29  Identities=31%  Similarity=0.407  Sum_probs=23.7

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      .+.+.|.|+||+||||+++.+...+...+
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~~~~~~  102 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKMLTERG  102 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhhhcC
Confidence            34489999999999999999998764433

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.28  E-value=0.025  Score=51.34  Aligned_cols=42  Identities=10%  Similarity=0.276  Sum_probs=32.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .++.++++|| ...|+......+.+++.+......+|+++.+.
T Consensus       155 ~~p~illlDEPts~LD~~~~~~l~~~l~~l~~g~tii~vsHdl  197 (538)
T 3ozx_A          155 READVYIFDQPSSYLDVRERMNMAKAIRELLKNKYVIVVDHDL  197 (538)
T ss_dssp             SCCSEEEEESTTTTCCHHHHHHHHHHHHHHCTTSEEEEECSCH
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHHhCCCEEEEEEeCh
Confidence            5578999999 56788888889999998876555666666554

>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=45.12  Aligned_cols=22  Identities=27%  Similarity=0.588  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
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

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=96.27  E-value=0.015  Score=54.87  Aligned_cols=21  Identities=38%  Similarity=0.433  Sum_probs=17.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVA   95 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~   95 (305)
                      .+++++||+|+|||+.+...+
T Consensus        47 ~~~lv~apTGsGKT~~~~l~i   67 (715)
T 2va8_A           47 NRLLLTSPTGSGKTLIAEMGI   67 (715)
T ss_dssp             CCEEEECCTTSCHHHHHHHHH
T ss_pred             CcEEEEcCCCCcHHHHHHHHH
Confidence            469999999999999984443

>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=96.26  E-value=0.005  Score=47.67  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus        20 ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           20 KCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3899999999999999999875

>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=96.26  E-value=0.01  Score=45.37  Aligned_cols=21  Identities=29%  Similarity=0.525  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus        21 i~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           21 LVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999999865

>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=96.25  E-value=0.0026  Score=49.71  Aligned_cols=23  Identities=17%  Similarity=0.188  Sum_probs=20.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..+.|+|++|+||||+++.+++.
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            34889999999999999999885

>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=96.24  E-value=0.0082  Score=50.50  Aligned_cols=24  Identities=21%  Similarity=0.254  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHh
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      .+.|.||+|+||||+++.++..+.
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            478999999999999999998874

>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=96.23  E-value=0.012  Score=53.52  Aligned_cols=26  Identities=27%  Similarity=0.345  Sum_probs=22.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      .++|.|++|+||||+++.++......
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            48999999999999999999877543

>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=96.22  E-value=0.016  Score=43.76  Aligned_cols=22  Identities=45%  Similarity=0.638  Sum_probs=19.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
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            4899999999999999998753

>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=96.22  E-value=0.0026  Score=64.09  Aligned_cols=25  Identities=28%  Similarity=0.377  Sum_probs=22.1

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +..+.|+||+|+||||+++.+....
T Consensus       444 G~~vaivG~sGsGKSTll~ll~~~~  468 (1321)
T 4f4c_A          444 GQTVALVGSSGCGKSTIISLLLRYY  468 (1321)
T ss_dssp             TCEEEEEECSSSCHHHHHHHHTTSS
T ss_pred             CcEEEEEecCCCcHHHHHHHhcccc
Confidence            3458999999999999999998876

>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=96.22  E-value=0.0029  Score=51.56  Aligned_cols=23  Identities=22%  Similarity=0.304  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|+|++|+||||+++.+++.+
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            48899999999999999999986

>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=96.21  E-value=0.011  Score=45.69  Aligned_cols=21  Identities=29%  Similarity=0.600  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus        24 i~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           24 YIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            899999999999999999764

>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=96.21  E-value=0.0052  Score=51.38  Aligned_cols=38  Identities=21%  Similarity=0.339  Sum_probs=28.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhC-CCCcccEEEeec
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYG-AQYHNMILELNA  112 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~-~~~~~~~~~~~~  112 (305)
                      ..+.+.|++|+||||++..++..+.. .+....++..+.
T Consensus       106 ~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~  144 (296)
T 2px0_A          106 KYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDT  144 (296)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCc
Confidence            34889999999999999999998863 555555554443

>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=96.20  E-value=0.0085  Score=45.42  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
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            899999999999999999854

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=96.20  E-value=0.024  Score=53.35  Aligned_cols=39  Identities=15%  Similarity=0.179  Sum_probs=25.5

Q ss_pred             ceEEEEEeCCCcCC----HHHHHHHHHHHHHhcCCceEEEEec
Q 021937          141 SVKLVLLDEADAMT----KDAQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       141 ~~~vliiDe~~~l~----~~~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      +.++|||||+|.+.    ......++..+....++.++++.+.
T Consensus       138 ~~~~vIiDE~H~l~~~~r~~~~~~ll~~l~~~~~~~~ii~lSA  180 (702)
T 2p6r_A          138 AVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSA  180 (702)
T ss_dssp             GCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEEC
T ss_pred             hcCEEEEeeeeecCCCCcccHHHHHHHHHHhcCcCceEEEECC
Confidence            45799999999974    3344555555555455667766653

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=96.19  E-value=0.026  Score=43.34  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..+++.|++|+|||++++.+...
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

>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=96.17  E-value=0.021  Score=56.54  Aligned_cols=38  Identities=18%  Similarity=0.349  Sum_probs=25.3

Q ss_pred             ceEEEEEeCCCcCCHHHH-HHHHHHHHHhcCCceEEEEe
Q 021937          141 SVKLVLLDEADAMTKDAQ-FALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~~-~~l~~~l~~~~~~~~iil~~  178 (305)
                      +..+|||||+|++..... ..+..++...+.+..+++.|
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            357999999999975433 23444455556667766665

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.17  E-value=0.0021  Score=51.58  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=15.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHH-HHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVA-RKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~-~~~   98 (305)
                      ..+.|.||+|+||||+++.++ ..+
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC---
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            348899999999999999999 764

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=96.17  E-value=0.0078  Score=46.97  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=4.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
T Consensus        22 ~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           22 KVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEC-----------------
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999998765

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.17  E-value=0.0043  Score=52.03  Aligned_cols=25  Identities=28%  Similarity=0.531  Sum_probs=22.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      +.|.||+|+||||+++.++..+...
T Consensus       103 i~lvG~nGsGKTTll~~Lag~l~~~  127 (302)
T 3b9q_A          103 IMIVGVNGGGKTTSLGKLAHRLKNE  127 (302)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            7899999999999999999987543

>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=96.15  E-value=0.052  Score=47.61  Aligned_cols=35  Identities=26%  Similarity=0.339  Sum_probs=27.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEe
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~  110 (305)
                      .+.+.|++|+||||++..++..+...+....++..
T Consensus       100 vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~  134 (425)
T 2ffh_A          100 LWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA  134 (425)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeec
Confidence            37788999999999999999998766554444443

>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=96.15  E-value=0.004  Score=54.02  Aligned_cols=23  Identities=26%  Similarity=0.559  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||+|+|||+++..++..+
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            47899999999999999999988

>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=96.15  E-value=0.0048  Score=51.69  Aligned_cols=25  Identities=32%  Similarity=0.433  Sum_probs=22.4

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ...+.|+||+|+||||+++.++..+
T Consensus       126 Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          126 KNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhhhc
Confidence            3448999999999999999999987

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.14  E-value=0.0026  Score=50.09  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|+|++|+||||+++.++..+
T Consensus        23 ~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           23 IIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            37899999999999999998764

>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=96.13  E-value=0.011  Score=54.80  Aligned_cols=40  Identities=33%  Similarity=0.478  Sum_probs=29.4

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ++.....+...+.   .+..++.||||||||+++..++..+..
T Consensus       182 n~~Q~~av~~~l~---~~~~li~GppGTGKT~~~~~~i~~l~~  221 (624)
T 2gk6_A          182 NHSQVYAVKTVLQ---RPLSLIQGPPGTGKTVTSATIVYHLAR  221 (624)
T ss_dssp             CHHHHHHHHHHHT---CSEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhc---CCCeEEECCCCCCHHHHHHHHHHHHHH
Confidence            4555555555553   245899999999999999888877654

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=96.13  E-value=0.0031  Score=52.79  Aligned_cols=22  Identities=32%  Similarity=0.456  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .++|.|+||+||||+++.+++.
T Consensus         4 ~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            4 IILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            3789999999999999999985

>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=96.13  E-value=0.019  Score=43.72  Aligned_cols=22  Identities=18%  Similarity=0.330  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
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            4899999999999999999853

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=96.11  E-value=0.014  Score=55.11  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=18.4

Q ss_pred             CeEEEECCCCCcHHHHH-HHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTI-LAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~-~~l~~~~   98 (305)
                      .+++++||+|+|||+.+ ..+.+.+
T Consensus        40 ~~~lv~apTGsGKT~~~~l~il~~~   64 (720)
T 2zj8_A           40 KNALISIPTASGKTLIAEIAMVHRI   64 (720)
T ss_dssp             CEEEEECCGGGCHHHHHHHHHHHHH
T ss_pred             CcEEEEcCCccHHHHHHHHHHHHHH
Confidence            56999999999999887 3444443

>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=96.10  E-value=0.0082  Score=60.55  Aligned_cols=44  Identities=20%  Similarity=0.429  Sum_probs=32.4

Q ss_pred             CceEEEEEeCCC-cCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021937          140 ASVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe~~-~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~  183 (305)
                      .++.++++||+- .++.+....+.+.+++..++..+|+++.+...
T Consensus      1234 r~~~ILiLDEaTSaLD~~tE~~Iq~~l~~~~~~~TvI~IAHRLsT 1278 (1321)
T 4f4c_A         1234 RNPKILLLDEATSALDTESEKVVQEALDRAREGRTCIVIAHRLNT 1278 (1321)
T ss_dssp             SCCSEEEEESCCCSTTSHHHHHHHHHHTTTSSSSEEEEECSSSST
T ss_pred             hCCCEEEEeCccccCCHHHHHHHHHHHHHHcCCCEEEEeccCHHH
Confidence            457799999974 45666777788888877667777777766543

>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=96.10  E-value=0.038  Score=46.56  Aligned_cols=38  Identities=21%  Similarity=0.316  Sum_probs=23.7

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEe
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~  178 (305)
                      +..+|++||+|.+.... ...+..++...+....+++.+
T Consensus       129 ~~~~iViDEah~~~~~~~~~~~~~~~~~~~~~~~~~~~S  167 (337)
T 2z0m_A          129 SFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFS  167 (337)
T ss_dssp             GCSEEEEESHHHHHHTTCHHHHHHHHHHCTTCSEEEEEE
T ss_pred             hCcEEEEEChHHhhccccHHHHHHHHhhCCcccEEEEEe
Confidence            35799999999886433 334445555555555555544

>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=96.10  E-value=0.014  Score=45.67  Aligned_cols=22  Identities=27%  Similarity=0.588  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
T Consensus        22 ~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           22 KILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999999854

>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=96.09  E-value=0.0081  Score=45.90  Aligned_cols=21  Identities=38%  Similarity=0.681  Sum_probs=8.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+++..+...
T Consensus        11 i~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C           11 LLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998754

>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=96.09  E-value=0.014  Score=45.11  Aligned_cols=22  Identities=27%  Similarity=0.659  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus        10 ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A           10 RVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            4899999999999999999864

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.09  E-value=0.035  Score=49.17  Aligned_cols=43  Identities=23%  Similarity=0.323  Sum_probs=29.3

Q ss_pred             HHHHHHHHhcCCCC-eEEEECCCCCcHHHHHHHHHHHHhCCCCc
Q 021937           62 VDTIDRLTSENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (305)
Q Consensus        62 ~~~l~~~l~~~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (305)
                      ...|...+.+-... .++|.|+||+|||+++..++......+..
T Consensus       184 ~~~LD~~lgGl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~  227 (444)
T 3bgw_A          184 FTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDV  227 (444)
T ss_dssp             CHHHHHHHSSBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCE
T ss_pred             cHHHHhhcCCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCE
Confidence            34455555322222 38999999999999999998877544433

>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=96.08  E-value=0.014  Score=44.99  Aligned_cols=22  Identities=32%  Similarity=0.537  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||++++.+...-
T Consensus        28 i~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           28 VVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998743

>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=96.06  E-value=0.0023  Score=49.85  Aligned_cols=23  Identities=30%  Similarity=0.538  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||+|+|||+++..+++..
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            48999999999999999998875

>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=96.06  E-value=0.028  Score=51.99  Aligned_cols=39  Identities=13%  Similarity=0.131  Sum_probs=23.7

Q ss_pred             CceEEEEEeCCCcCCHHHHHHHHHHHHHhc-CCceEEEEe
Q 021937          140 ASVKLVLLDEADAMTKDAQFALRRVIEKYT-KNTRFALIC  178 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-~~~~iil~~  178 (305)
                      .+..+|||||+|.+.......+..+++..+ .+..+++.+
T Consensus       276 ~~~~~iViDEah~~~~~~~~~~~~i~~~l~~~~~q~il~S  315 (618)
T 2whx_A          276 PNYNLIVMDEAHFTDPCSVAARGYISTRVEMGEAAAIFMT  315 (618)
T ss_dssp             CCCSEEEEESTTCCSHHHHHHHHHHHHHHHHTSCEEEEEC
T ss_pred             cCCeEEEEECCCCCCccHHHHHHHHHHHhcccCccEEEEE
Confidence            346799999999997554434444443332 355565555

>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=96.06  E-value=0.032  Score=49.87  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=22.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .++++|.+|+||||+++.+++.+..
T Consensus        41 ~IvlvGlpGsGKSTia~~La~~l~~   65 (469)
T 1bif_A           41 LIVMVGLPARGKTYISKKLTRYLNF   65 (469)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhc
Confidence            4899999999999999999998743

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=96.04  E-value=0.0075  Score=54.91  Aligned_cols=45  Identities=16%  Similarity=0.195  Sum_probs=33.4

Q ss_pred             chHHHHHHHHHH--hcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           58 HRDIVDTIDRLT--SENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        58 ~~~~~~~l~~~l--~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      ++++.+.++...  .......++|+|++|+||||+++.+++.+...+
T Consensus       354 r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~~G  400 (546)
T 2gks_A          354 RPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQARG  400 (546)
T ss_dssp             CHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             chhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhhcC
Confidence            456666777766  233334488999999999999999999875443

>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=96.04  E-value=0.034  Score=53.74  Aligned_cols=21  Identities=24%  Similarity=0.341  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .++|+||.|+||||+++.++-
T Consensus       664 i~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          664 FHIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999843

>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=96.04  E-value=0.0072  Score=47.93  Aligned_cols=22  Identities=36%  Similarity=0.587  Sum_probs=18.8

Q ss_pred             EEEECCCCCcHHHHHHH-HHHHH
Q 021937           77 LLLYGPPGTGKTSTILA-VARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~-l~~~~   98 (305)
                      +++.|++|+|||++++. +....
T Consensus        18 i~v~G~~~~GKSsli~~~~~~~~   40 (221)
T 3gj0_A           18 LVLVGDGGTGKTTFVKRHLTGEF   40 (221)
T ss_dssp             EEEEECTTSSHHHHHTTBHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcCCC
Confidence            89999999999999999 44443

>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=96.04  E-value=0.11  Score=39.84  Aligned_cols=24  Identities=33%  Similarity=0.546  Sum_probs=20.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ...+++.|++|+|||+++..+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345999999999999999999754

>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=96.03  E-value=0.014  Score=45.49  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=19.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
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            3899999999999999998753

>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=96.03  E-value=0.01  Score=46.27  Aligned_cols=22  Identities=23%  Similarity=0.510  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
T Consensus        27 ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           27 KLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999999864

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.02  E-value=0.0021  Score=53.63  Aligned_cols=25  Identities=16%  Similarity=0.352  Sum_probs=19.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..+.|+|++|+||||+++.+++.+.
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            3478999999999999999999773

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.02  E-value=0.0044  Score=50.29  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|.||.|+||||+++.++..+
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            37899999999999999999876

>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=96.02  E-value=0.028  Score=43.46  Aligned_cols=22  Identities=27%  Similarity=0.625  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus        30 ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           30 KLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4999999999999999999875

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=96.01  E-value=0.017  Score=44.99  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+...-
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            38999999999999999998753

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=96.01  E-value=0.0058  Score=47.80  Aligned_cols=29  Identities=24%  Similarity=0.286  Sum_probs=25.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcc
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~  105 (305)
                      ++|.|+.|+||||.++.+++.+...+...
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            67899999999999999999997766543

>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=96.01  E-value=0.026  Score=54.42  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .++|+||.|+||||+++.++..
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            4899999999999999998643

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.01  E-value=0.0051  Score=51.87  Aligned_cols=25  Identities=20%  Similarity=0.183  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .+.|.||+|+||||+++.++..+..
T Consensus        92 ivgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           92 IIGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCchHHHHHHHHHhhccc
Confidence            3789999999999999999998754

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19

Probab=96.00  E-value=0.088  Score=42.55  Aligned_cols=18  Identities=28%  Similarity=0.573  Sum_probs=14.7

Q ss_pred             CeEEEECCCCCcHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTIL   92 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~   92 (305)
                      ..+++.+|+|+|||....
T Consensus        61 ~~~l~~a~TGsGKT~~~~   78 (253)
T 1wrb_A           61 RDIMACAQTGSGKTAAFL   78 (253)
T ss_dssp             CCEEEECCTTSSHHHHHH
T ss_pred             CCEEEECCCCChHHHHHH
Confidence            359999999999997533

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.026  Score=52.05  Aligned_cols=42  Identities=12%  Similarity=0.324  Sum_probs=30.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc--CCceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT--KNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~--~~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+..  ....+++++.+.
T Consensus       484 ~~p~lLlLDEPT~gLD~~~~~~i~~ll~~l~~~~g~tviivtHdl  528 (608)
T 3j16_B          484 IPADIYLIDEPSAYLDSEQRIICSKVIRRFILHNKKTAFIVEHDF  528 (608)
T ss_dssp             SCCSEEEECCTTTTCCHHHHHHHHHHHHHHHHHHTCEEEEECSCH
T ss_pred             hCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCH
Confidence            5688999999 56678888888888887653  245566666554

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=95.98  E-value=0.052  Score=42.82  Aligned_cols=24  Identities=21%  Similarity=0.466  Sum_probs=20.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ...+++.|++|+|||+++..+...
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

>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=95.98  E-value=0.0043  Score=49.27  Aligned_cols=21  Identities=33%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .+.|+|++|+||||+++.++.
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            478999999999999999987

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=95.98  E-value=0.015  Score=49.19  Aligned_cols=35  Identities=20%  Similarity=0.197  Sum_probs=25.2

Q ss_pred             HHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHH
Q 021937           64 TIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        64 ~l~~~l~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .|...+.++-.+  .++|+|+||+|||+++..++...
T Consensus        86 ~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           86 ELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             HHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             hHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            444444433222  37999999999999999998764

>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=95.98  E-value=0.0098  Score=46.92  Aligned_cols=21  Identities=33%  Similarity=0.532  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus        28 i~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           28 LLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            899999999999999998753

>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=95.97  E-value=0.011  Score=45.61  Aligned_cols=22  Identities=32%  Similarity=0.607  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||++++.+...-
T Consensus        18 i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           18 ILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998753

>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=95.96  E-value=0.0055  Score=46.73  Aligned_cols=23  Identities=17%  Similarity=0.271  Sum_probs=20.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      -.+++.|++|+|||++++.+...
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            34899999999999999998764

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=95.94  E-value=0.019  Score=51.20  Aligned_cols=38  Identities=21%  Similarity=0.293  Sum_probs=26.8

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++.-.+.+..++..   ..+++.||+|+|||..+..++...
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            34444455545443   248999999999999988777765

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=95.94  E-value=0.019  Score=43.96  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=20.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..+++.|++|+|||++++.+...
T Consensus        19 ~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           19 LRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            34999999999999999998753

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.94  E-value=0.0094  Score=47.95  Aligned_cols=24  Identities=21%  Similarity=0.506  Sum_probs=21.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+.|.|++|+||||+++.++..+
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            348899999999999999999987

>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=95.93  E-value=0.011  Score=46.23  Aligned_cols=22  Identities=36%  Similarity=0.641  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y           10 KLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3899999999999999999764

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=95.93  E-value=0.0067  Score=47.71  Aligned_cols=21  Identities=19%  Similarity=0.330  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+++..+...
T Consensus        12 i~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A           12 CVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            899999999999999999864

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.93  E-value=0.005  Score=53.28  Aligned_cols=25  Identities=32%  Similarity=0.595  Sum_probs=22.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..++|+||+|+||||+++.++..+.
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcC
Confidence            3489999999999999999999874

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.92  E-value=0.0053  Score=55.86  Aligned_cols=42  Identities=24%  Similarity=0.381  Sum_probs=30.5

Q ss_pred             hHHHHHHHHHH--hcCCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           59 RDIVDTIDRLT--SENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        59 ~~~~~~l~~~l--~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ++....++...  .......++|.|++|+||||+++.++..+..
T Consensus       352 peV~~vLR~~~~~~~~~G~iI~LiG~sGSGKSTLar~La~~L~~  395 (552)
T 3cr8_A          352 PEVLAELHRQTPPRERQGFTVFFTGLSGAGKSTLARALAARLME  395 (552)
T ss_dssp             HHHHHHHHHHSCCGGGSCEEEEEEESSCHHHHHHHHHHHHHHHT
T ss_pred             cchhhhhhhhcccccccceEEEEECCCCChHHHHHHHHHHhhcc
Confidence            45555555544  2223345899999999999999999999853

>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=95.92  E-value=0.0046  Score=49.93  Aligned_cols=44  Identities=14%  Similarity=0.175  Sum_probs=31.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHH---HhcCCceEEEEecCCcc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIE---KYTKNTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~---~~~~~~~iil~~~~~~~  183 (305)
                      .++.++++|| ...++......+.+.+.   .......+|+++.+...
T Consensus       144 ~~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~~~~tviivtH~~~~  191 (237)
T 2cbz_A          144 SNADIYLFDDPLSAVDAHVGKHIFENVIGPKGMLKNKTRILVTHSMSY  191 (237)
T ss_dssp             HCCSEEEEESTTTTSCHHHHHHHHHHTTSTTSTTTTSEEEEECSCSTT
T ss_pred             cCCCEEEEeCcccccCHHHHHHHHHHHHHHHhhcCCCEEEEEecChHH
Confidence            4577999999 56688888888888883   33334567777766543

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.92  E-value=0.0063  Score=52.23  Aligned_cols=25  Identities=28%  Similarity=0.531  Sum_probs=22.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      +.|.||+|+||||+++.++..+...
T Consensus       160 i~lvG~nGsGKTTll~~Lag~l~~~  184 (359)
T 2og2_A          160 IMIVGVNGGGKTTSLGKLAHRLKNE  184 (359)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEEcCCCChHHHHHHHHHhhcccc
Confidence            7899999999999999999988543

>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=95.89  E-value=0.0097  Score=51.28  Aligned_cols=43  Identities=21%  Similarity=0.258  Sum_probs=31.8

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCc
Q 021937           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (305)
Q Consensus        62 ~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (305)
                      ++.+.-.+.-+++..+.|.||+|+|||++++.+++.+.+.+..
T Consensus       162 iraID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~  204 (422)
T 3ice_A          162 ARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPD  204 (422)
T ss_dssp             HHHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTT
T ss_pred             ceeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCC
Confidence            3344444555666679999999999999999999887554333

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=95.89  E-value=0.0074  Score=46.97  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
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            3899999999999999998754

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=95.87  E-value=0.012  Score=44.99  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||++++.+...
T Consensus        18 ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           18 RILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999998754

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.86  E-value=0.0084  Score=50.70  Aligned_cols=33  Identities=30%  Similarity=0.466  Sum_probs=26.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      +.++|++|+||||++..++..+...+....++.
T Consensus       108 I~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid  140 (320)
T 1zu4_A          108 FMLVGVNGTGKTTSLAKMANYYAELGYKVLIAA  140 (320)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            789999999999999999998865554444443

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.86  E-value=0.0049  Score=49.36  Aligned_cols=27  Identities=22%  Similarity=0.317  Sum_probs=20.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      ..++|.|++|+||||.++.+++.+...
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            348999999999999999999998544

>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=95.85  E-value=0.0065  Score=47.47  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+...-
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            38999999999999999997753

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* 4db2_A 4db4_A

Probab=95.83  E-value=0.095  Score=47.80  Aligned_cols=17  Identities=29%  Similarity=0.317  Sum_probs=14.6

Q ss_pred             CCeEEEECCCCCcHHHH
Q 021937           74 LPHLLLYGPPGTGKTST   90 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l   90 (305)
                      ...+++.+|+|+|||..
T Consensus       111 ~~~~lv~apTGsGKTl~  127 (563)
T 3i5x_A          111 DHDVIARAKTGTGKTFA  127 (563)
T ss_dssp             SEEEEEECCTTSCHHHH
T ss_pred             CCeEEEECCCCCCccHH
Confidence            34699999999999975

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.82  E-value=0.0059  Score=52.61  Aligned_cols=35  Identities=20%  Similarity=0.354  Sum_probs=26.0

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           63 DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        63 ~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +.+.-.+..+  ..++|+||+|+||||+++.++..+.
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            3333334444  3599999999999999999998763

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.80  E-value=0.0055  Score=50.27  Aligned_cols=42  Identities=12%  Similarity=0.338  Sum_probs=28.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCC
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~  181 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+.
T Consensus       170 ~~p~lllLDEPts~LD~~~~~~~~~~l~~l~~~g~tvi~vtHd~  213 (262)
T 1b0u_A          170 MEPDVLLFDEPTSALDPELVGEVLRIMQQLAEEGKTMVVVTHEM  213 (262)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEECSCH
T ss_pred             cCCCEEEEeCCCccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCH
Confidence            5567899998 456777778888887776532 34556666553

>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=95.79  E-value=0.0052  Score=48.76  Aligned_cols=23  Identities=30%  Similarity=0.517  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|.||.|+||||+++.++..+
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48899999999999999998765

>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=95.79  E-value=0.0075  Score=53.80  Aligned_cols=26  Identities=38%  Similarity=0.526  Sum_probs=22.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      .+.|.|++|+||||+++.++..+...
T Consensus       295 VI~LVGpNGSGKTTLl~~LAgll~~~  320 (503)
T 2yhs_A          295 VILMVGVNGVGKTTTIGKLARQFEQQ  320 (503)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCcccHHHHHHHHHHHhhhc
Confidence            37899999999999999999987543

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.77  E-value=0.0092  Score=47.27  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|+|++|+||||+++.++..+
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            48999999999999999999986

>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=95.76  E-value=0.0069  Score=50.13  Aligned_cols=25  Identities=28%  Similarity=0.352  Sum_probs=21.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..++|+||+|+||||++..++..+.
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            3489999999999999999998664

>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=95.75  E-value=0.02  Score=54.61  Aligned_cols=40  Identities=33%  Similarity=0.478  Sum_probs=29.2

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ++.....+...+.   .+..++.||||||||+++..++..+..
T Consensus       358 n~~Q~~Av~~~l~---~~~~lI~GppGTGKT~ti~~~i~~l~~  397 (800)
T 2wjy_A          358 NHSQVYAVKTVLQ---RPLSLIQGPPGTGKTVTSATIVYHLAR  397 (800)
T ss_dssp             CHHHHHHHHHHHT---SSEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHhcc---CCeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4444555555553   245899999999999999888887754

>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic subunit]; helicase, flavivirus, DEAD-BOX, ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP: c.37.1.14 c.37.1.14 PDB: 1ymf_A*

Probab=95.74  E-value=0.04  Score=48.74  Aligned_cols=24  Identities=25%  Similarity=0.264  Sum_probs=18.0

Q ss_pred             CeEEEECCCCCcHHHHH-HHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTI-LAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~-~~l~~~~   98 (305)
                      ..+++.||+|+|||..+ ..+...+
T Consensus         9 ~~vlv~a~TGSGKT~~~l~~~l~~~   33 (440)
T 1yks_A            9 MTTVLDFHPGAGKTRRFLPQILAEC   33 (440)
T ss_dssp             CEEEECCCTTSSTTTTHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45999999999999874 4444443

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.73  E-value=0.0074  Score=49.65  Aligned_cols=43  Identities=16%  Similarity=0.261  Sum_probs=31.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+++.+... ...+|+++.+..
T Consensus       181 ~~p~lLlLDEPts~LD~~~~~~l~~~l~~l~~~g~tviivtHd~~  225 (267)
T 2zu0_C          181 LEPELCILDESDSGLDIDALKVVADGVNSLRDGKRSFIIVTHYQR  225 (267)
T ss_dssp             HCCSEEEEESTTTTCCHHHHHHHHHHHHTTCCSSCEEEEECSSGG
T ss_pred             hCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeeCHH
Confidence            4567999999 566888889999999987643 345666665543

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=95.73  E-value=0.007  Score=49.27  Aligned_cols=43  Identities=19%  Similarity=0.162  Sum_probs=31.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~  182 (305)
                      .++.++++|| .-.++......+.+++.+... ...+|+++.+..
T Consensus       160 ~~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tvi~vtHd~~  204 (250)
T 2d2e_A          160 LEPTYAVLDETDSGLDIDALKVVARGVNAMRGPNFGALVITHYQR  204 (250)
T ss_dssp             HCCSEEEEECGGGTTCHHHHHHHHHHHHHHCSTTCEEEEECSSSG
T ss_pred             cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            4567999999 566788888899999987743 445666666544

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=95.72  E-value=0.0074  Score=60.70  Aligned_cols=42  Identities=21%  Similarity=0.415  Sum_probs=29.6

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .++.++++||. -.++.+....+.+.++....+..+|+++.+.
T Consensus       543 ~~p~iliLDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l  585 (1284)
T 3g5u_A          543 RNPKILLLDEATSALDTESEAVVQAALDKAREGRTTIVIAHRL  585 (1284)
T ss_dssp             HCCSEEEEESTTCSSCHHHHHHHHHHHHHHHTTSEEEEECSCH
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHHHHHcCCCEEEEEecCH
Confidence            45779999995 5567777777777777665555666676543

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=95.71  E-value=0.0061  Score=48.93  Aligned_cols=43  Identities=16%  Similarity=0.162  Sum_probs=29.8

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHH-HHHhcCCceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRV-IEKYTKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~-l~~~~~~~~iil~~~~~~  182 (305)
                      .++.++++|| ...++......+.+. +........+|+++.+..
T Consensus       147 ~~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~~tvi~vtH~~~  191 (229)
T 2pze_A          147 KDADLYLLDSPFGYLDVLTEKEIFESCVCKLMANKTRILVTSKME  191 (229)
T ss_dssp             SCCSEEEEESTTTTSCHHHHHHHHHHCCCCCTTTSEEEEECCCHH
T ss_pred             cCCCEEEEECcccCCCHHHHHHHHHHHHHHhhCCCEEEEEcCChH
Confidence            5678999999 566788888888886 444433455666766543

>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=95.71  E-value=0.013  Score=47.85  Aligned_cols=35  Identities=26%  Similarity=0.442  Sum_probs=28.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      +++.|.+|+||||++..++..+. .+....++..+.
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            78999999999999999999887 666655665544

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.70  E-value=0.011  Score=50.31  Aligned_cols=37  Identities=32%  Similarity=0.389  Sum_probs=26.9

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      ....+.|.|++|+||||+++.++..+...+....+..
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~~l~g~~~~~~g~v~i~~   90 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLA   90 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhhhhCCCEEEEEE
Confidence            3344889999999999999999987754333333333

>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=95.70  E-value=0.067  Score=48.02  Aligned_cols=119  Identities=15%  Similarity=0.144  Sum_probs=63.7

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccc---c
Q 021937           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS---F  134 (305)
Q Consensus        58 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~---~  134 (305)
                      |.+.+..+......+  .+.+|.-+.|+|||..+-.++..+...+....++-+.+..  -.......+..+.....   +
T Consensus        42 Q~~~v~~l~~~~~~~--~~~ilad~~GlGKT~~ai~~i~~~~~~~~~~~~LIv~P~~--l~~qw~~e~~~~~~~~~v~~~  117 (500)
T 1z63_A           42 QIKGFSWMRFMNKLG--FGICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLS--VLKNWEEELSKFAPHLRFAVF  117 (500)
T ss_dssp             HHHHHHHHHHHHHTT--CCEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECST--THHHHHHHHHHHCTTSCEEEC
T ss_pred             HHHHHHHHHHHhhCC--CCEEEEeCCCCcHHHHHHHHHHHHHhcCCCCCEEEEccHH--HHHHHHHHHHHHCCCceEEEE
Confidence            344444444333333  3488999999999998888877765433223344444322  23344444444321110   0


Q ss_pred             cCC-------------------------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          135 SFG-------------------------VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       135 ~~~-------------------------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .+.                         ......+||+||+|.+.... ....+.+...+...+++++++..
T Consensus       118 ~g~~~~~~~~~~~ivi~t~~~l~~~~~l~~~~~~~vIvDEaH~~kn~~-~~~~~~l~~l~~~~~l~LTaTP~  188 (500)
T 1z63_A          118 HEDRSKIKLEDYDIILTTYAVLLRDTRLKEVEWKYIVIDEAQNIKNPQ-TKIFKAVKELKSKYRIALTGTPI  188 (500)
T ss_dssp             SSSTTSCCGGGSSEEEEEHHHHTTCHHHHTCCEEEEEEETGGGGSCTT-SHHHHHHHTSCEEEEEEECSSCS
T ss_pred             ecCchhccccCCcEEEeeHHHHhccchhcCCCcCEEEEeCccccCCHh-HHHHHHHHhhccCcEEEEecCCC
Confidence            000                         01235799999999996432 23445555555455666666543

>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=95.69  E-value=0.053  Score=51.35  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+||.|+||||+++.++...
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            47899999999999999998764

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=95.69  E-value=0.0068  Score=47.25  Aligned_cols=21  Identities=29%  Similarity=0.588  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +.+.|++|+||||+++.+...
T Consensus         8 v~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            8 VVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            789999999999999999875

>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=95.68  E-value=0.0087  Score=54.82  Aligned_cols=39  Identities=18%  Similarity=0.198  Sum_probs=27.8

Q ss_pred             HHHHHHHHH--hcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           61 IVDTIDRLT--SENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        61 ~~~~l~~~l--~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +.+.++...  .+..+..++|+|++|+||||+++.+++.+.
T Consensus       381 Vsr~lRe~~~~~gq~~~~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          381 VVKILRESNPPRATQGFTIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             HHHHHHTTSCCTTTCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             ccHHHHHhcccccccceEEEeecCCCCCHHHHHHHHHHHhc
Confidence            444444444  222233488999999999999999999984

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=95.66  E-value=0.0059  Score=49.48  Aligned_cols=23  Identities=26%  Similarity=0.470  Sum_probs=20.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|.||+|+||||+++.++...
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48899999999999999998765

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.66  E-value=0.006  Score=49.29  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+||||+++.+++.+
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            47899999999999999999987

>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=95.66  E-value=0.011  Score=46.42  Aligned_cols=22  Identities=23%  Similarity=0.495  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+++..+...
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            4899999999999999999864

>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=95.65  E-value=0.0063  Score=47.18  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.|.|++|+||||+++.+....
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            7999999999999999998754

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.63  E-value=0.0069  Score=49.61  Aligned_cols=44  Identities=18%  Similarity=0.505  Sum_probs=32.9

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~  183 (305)
                      .++.++++|| ...++......+.+++.+......+|+++.+...
T Consensus       172 ~~p~lllLDEPts~LD~~~~~~i~~~l~~l~~~~tviivtH~~~~  216 (260)
T 2ghi_A          172 KDPKIVIFDEATSSLDSKTEYLFQKAVEDLRKNRTLIIIAHRLST  216 (260)
T ss_dssp             HCCSEEEEECCCCTTCHHHHHHHHHHHHHHTTTSEEEEECSSGGG
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHhcCCCEEEEEcCCHHH
Confidence            5577999999 5667888888899988877555566777766543

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.63  E-value=0.0069  Score=49.94  Aligned_cols=43  Identities=21%  Similarity=0.403  Sum_probs=32.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| .-.++......+.+++.+...  ...+|+++.+..
T Consensus       173 ~~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~g~tviivtHd~~  218 (271)
T 2ixe_A          173 RKPRLLILDNATSALDAGNQLRVQRLLYESPEWASRTVLLITQQLS  218 (271)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHCTTTTTSEEEEECSCHH
T ss_pred             cCCCEEEEECCccCCCHHHHHHHHHHHHHHHhhcCCEEEEEeCCHH
Confidence            5678999999 566888888999999987643  455666776543

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.61  E-value=0.0073  Score=49.79  Aligned_cols=22  Identities=18%  Similarity=0.475  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.|.||+|+||||+++.++...
T Consensus         5 v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            5 IMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999999876

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=95.60  E-value=0.0068  Score=46.52  Aligned_cols=23  Identities=26%  Similarity=0.287  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+|+||.|+||||++.++.-.+
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998876

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=95.60  E-value=0.036  Score=52.64  Aligned_cols=40  Identities=23%  Similarity=0.194  Sum_probs=30.5

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHH
Q 021937           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .|.+.+..+..-+.++...++++.||+|+|||..+...+-
T Consensus       372 ~Q~~ai~~I~~~l~~~~~~~~Ll~a~TGSGKTlvall~il  411 (780)
T 1gm5_A          372 AQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAIL  411 (780)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccccCCCcEEEEcCCCCCHHHHHHHHHH
Confidence            4667777777766666666799999999999987655443

>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=95.60  E-value=0.0067  Score=50.33  Aligned_cols=21  Identities=33%  Similarity=0.389  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .+.|+|++|+||||+++.++.
T Consensus        77 iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           77 VLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999994

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.58  E-value=0.019  Score=48.02  Aligned_cols=36  Identities=25%  Similarity=0.281  Sum_probs=27.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      .+.+.|++|+||||++..++..+...+....++..+
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            377899999999999999999886555544444443

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.58  E-value=0.0071  Score=45.88  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .++|.|++|+||||++..+...
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            4999999999999999999874

>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane, nucleotide-binding, RNA replication, transmembrane, viral protein; 1.80A {Japanese encephalitis virus} PDB: 2v8o_A 2qeq_A

Probab=95.58  E-value=0.054  Score=48.20  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=18.2

Q ss_pred             CeEEEECCCCCcHHHH-HHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTST-ILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l-~~~l~~~~   98 (305)
                      ..+++.||+|+|||+. +..+...+
T Consensus        22 ~~vlv~a~TGsGKT~~~~l~il~~~   46 (459)
T 2z83_A           22 QMTVLDLHPGSGKTRKILPQIIKDA   46 (459)
T ss_dssp             CEEEECCCTTSCTTTTHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHH
Confidence            4599999999999986 45555444

---

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	305
d1iqpa2	231	c.37.1.20 (A:2-232) Replication factor C {Archaeon	2e-56
d1sxjb2	224	c.37.1.20 (B:7-230) Replication factor C4 {Baker's	2e-49
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	2e-48
d1sxjc2	227	c.37.1.20 (C:12-238) Replication factor C3 {Baker'	5e-45
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	4e-44
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	5e-33
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	1e-32
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	9e-31
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	3e-23
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	3e-22
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	7e-19
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	2e-15
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	1e-10
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	7e-10
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	1e-04
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	3e-04
d1sxjc1	95	a.80.1.1 (C:239-333) Replication factor C3 {Baker'	0.001
d1vmaa2	213	c.37.1.10 (A:82-294) GTPase domain of the signal r	0.002
d1ny5a2	247	c.37.1.20 (A:138-384) Transcriptional activator si	0.002
d2i3ba1	189	c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57	0.002
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	0.004
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	0.004

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 231

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score =  180 bits (456), Expect = 2e-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 (408), Expect = 2e-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 =  159 bits (404), Expect = 2e-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 (379), Expect = 5e-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 =  148 bits (374), Expect = 4e-44
 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 =  120 bits (300), Expect = 5e-33
 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 (296), Expect = 1e-32
 Identities = 64/249 (25%), Positives = 122/249 (48%), Gaps = 34/249 (13%)

Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYG- 100
           WV+KYRP+SL  ++ + ++ + +  L+ + R    LLLYGP GTGK +  +A+   ++G 
Sbjct: 1   WVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGP 60

Query: 101 --------------------------AQYHNMILELNASDDRGIDVVRQQIQDFASTQSF 134
                                     + YH  I   +  ++  I +     +     Q  
Sbjct: 61  GVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD 120

Query: 135 SF----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQS 190
                 G+    K V+++EA+++TKDAQ ALRR +EKY+KN R  ++C+ ++ II  ++S
Sbjct: 121 FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKS 180

Query: 191 RCTRFRFAPLEPVHVTERLKHVIEAEGLDV-TEGGLAALVRLCNGDMRKALNILQSTHMA 249
           +C   R        ++  L  V+  E + + T+  L  + +  NG++R +L +L+S  + 
Sbjct: 181 QCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMAL- 239

Query: 250 SQQITEEAV 258
           + ++  ++ 
Sbjct: 240 NNELALKSS 248

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]} Length = 198

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

 Score =  112 bits (281), Expect = 9e-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 = 93.5 bits (231), Expect = 3e-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 = 90.6 bits (223), Expect = 3e-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 = 81.6 bits (200), Expect = 7e-19
 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 = 73.2 bits (179), Expect = 2e-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 = 58.7 bits (140), Expect = 1e-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 = 56.7 bits (135), Expect = 7e-10
 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

>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 = 40.6 bits (94), Expect = 1e-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

>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 = 39.6 bits (91), Expect = 3e-04
 Identities = 24/206 (11%), Positives = 54/206 (26%), Gaps = 20/206 (9%)

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-AALVRLCNGDMRKALNIL 243
           D+    L   L  L    +   + + 
Sbjct: 178 DIVVKNLPTNLETLHKTGLFSDIRLY 203

>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 = 35.5 bits (82), Expect = 0.001
 Identities = 4/28 (14%), Positives = 13/28 (46%)

Query: 265 PLPKDIEQISYWLLNESFADSFKRIQNL 292
           P P D++ +   +L + +  +   +  +
Sbjct: 1   PRPSDLKAVLKSILEDDWGTAHYTLNKV 28

>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 = 36.6 bits (84), 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

>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 = 36.4 bits (84), 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

>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 = 36.1 bits (82), Expect = 0.002
 Identities = 11/23 (47%), Positives = 14/23 (60%)

Query: 76 HLLLYGPPGTGKTSTILAVARKL 98
          H+ L GPPG GKT+ I   +  L
Sbjct: 3  HVFLTGPPGVGKTTLIHKASEVL 25

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

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]

 Score = 36.2 bits (83), Expect = 0.004
 Identities = 27/201 (13%), Positives = 58/201 (28%), Gaps = 31/201 (15%)

Query: 76  HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS 135
            +++ G   +GKT  + A+   L G +     +       R  + +     DF       
Sbjct: 125 MVIVTGKGNSGKTPLVHALGEAL-GGKDKYATV-------RFGEPLSGYNTDFNVFVDDI 176

Query: 136 FGVKASVKLVLLDEADAMTKDAQFA------------LRRVIEKYTKNTRFALIC----- 178
                  +++++D    +   A               L   I     +    +I      
Sbjct: 177 ARAMLQHRVIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLNPT 236

Query: 179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHV-IEAEGLDVTEGGLAALVRLCNGDMR 237
           +  +KI+  ++        + +    V    + +    EGL      L            
Sbjct: 237 SNDDKIVELVKEASRSNSTSLVISTDVDGEWQVLTRTGEGLQRLTHTLQTSY-----GEH 291

Query: 238 KALNILQSTHMASQQITEEAV 258
             L I  S     +Q + +A+
Sbjct: 292 SVLTIHTSKQSGGKQASGKAI 312

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

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]

 Score = 35.7 bits (81), Expect = 0.004
 Identities = 29/218 (13%), Positives = 68/218 (31%), Gaps = 28/218 (12%)

Query: 59  RDIVDTIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR 116
            D    + +  + +R P   +LL GPP +GKT+    +A +     +  +          
Sbjct: 23  DDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEE-SNFPFIKICSPDKMIGFS 81

Query: 117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQ----FALRRVIEKYTKNT 172
                       A  + F    K+ +  V++D+ + +         F+   +        
Sbjct: 82  ETAK------CQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLK 135

Query: 173 RFALICNQVNKII----------PALQSRCTRFRFAPLEP--VHVTERLKHVIEAEGLDV 220
           +      ++  I             + +  +     P       + E L+ +   +  + 
Sbjct: 136 KAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLGNFKDKER 195

Query: 221 TEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAV 258
           T        +     ++K L +++   M+ Q   E  V
Sbjct: 196 TTIAQQVKGKKVWIGIKKLLMLIE---MSLQMDPEYRV 230

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	305
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	99.95
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.94
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.87
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.87
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.84
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.83
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.82
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.79
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.78
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.75
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.74
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.67
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.65
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.64
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.6
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.59
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.58
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.57
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.5
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.48
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.41
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.29
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.21
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.16
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.94
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.56
d1tuea_	205	Replication protein E1 helicase domain {Human papi	98.52
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.33
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	98.25
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	98.19
d1okkd2	207	GTPase domain of the signal recognition particle r	98.18
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.17
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.13
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.11
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	98.1
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.07
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	98.04
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.99
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.96
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.94
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.93
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.87
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.86
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.86
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.82
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.82
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.8
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.8
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.77
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.77
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.76
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.74
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.73
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.72
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	97.71
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.7
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.7
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.7
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.7
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.66
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.65
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.65
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.62
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.62
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	97.62
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.61
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.6
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.6
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	97.6
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.58
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.55
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.54
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.54
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.52
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.51
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.49
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.49
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	97.47
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.44
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.42
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.4
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	97.4
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.39
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.38
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	97.37
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.37
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.36
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.35
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	97.34
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.31
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.31
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.3
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.3
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	97.28
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.28
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	97.27
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.25
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	97.25
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.24
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	97.2
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	97.2
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	97.2
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	97.19
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	97.18
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	97.17
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.17
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.17
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.16
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	97.15
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	97.14
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.13
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	97.11
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	97.11
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.1
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	97.09
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	97.07
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.05
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.04
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.04
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.02
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	97.01
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	97.0
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.97
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.97
d1jqlb_	140	delta subunit of DNA polymerase III, N-domain {Esc	96.96
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.96
d1nrjb_	209	Signal recognition particle receptor beta-subunit	96.94
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.93
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.91
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.89
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.87
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	96.84
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.81
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	96.78
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	96.77
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.77
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.76
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.75
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.75
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.74
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.73
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.73
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.72
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.71
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.71
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	96.71
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.69
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	96.69
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	96.69
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.67
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.67
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.65
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	96.63
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.62
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.6
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.6
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	96.59
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.59
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.58
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	96.57
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	96.57
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	96.57
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	96.56
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	96.54
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	96.54
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.51
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	96.49
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.48
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	96.47
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	96.47
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	96.46
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.45
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.41
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	96.38
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	96.36
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	96.36
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.34
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	96.3
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.28
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.26
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	96.22
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	96.22
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	96.2
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.2
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.16
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.13
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.03
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	96.01
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.01
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.0
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.98
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.95
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.94
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	95.93
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	95.91
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.9
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.9
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.66
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.65
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	95.64
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	95.63
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.61
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	95.41
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.41
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.39
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.38
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.37
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.35
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.28
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.25
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.24
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.2
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	95.19
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.07
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	94.99
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.99
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.98
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	94.96
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.85
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.79
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	94.74
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.73
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.69
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.6
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.47
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.4
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	94.31
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.3
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.29
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	94.28
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.19
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	94.06
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	94.03
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	94.01
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.99
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.97
d1z63a1	230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	93.93
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.91
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.9
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	93.87
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.82
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.75
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.71
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.7
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	93.49
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	93.45
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	93.44
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	93.34
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.31
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	93.21
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	93.15
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	93.12
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	93.11
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.03
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	93.01
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	92.87
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	92.78
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.67
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	92.5
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	92.4
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	92.17
d2qw6a1	88	Uncharacterized protein EfaeDRAFT_0938 {Enterococc	92.17
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	91.67
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	91.56
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	91.47
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.43
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	91.3
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	91.29
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	91.08
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	91.03
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	90.81
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	90.59
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	90.57
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	89.99
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	89.94
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	89.35
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	89.22
d1z3ix2	298	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	88.74
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	88.67
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	88.54
d1f9va_	342	Kinesin motor Ncd (non-claret disjunctional) {Bake	87.51
d1x88a1	345	Kinesin {Human (Homo sapiens), mitotic kinesin eg5	87.47
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.28
d2zfia1	349	Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090	87.26
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	86.15
d1sdma_	364	Kinesin heavy chain-like protein {Potato (Solanum	86.0
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	85.93
d1v8ka_	362	Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090	85.87
d2ncda_	368	Kinesin motor Ncd (non-claret disjunctional) {Frui	84.53
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	84.5
d1c4oa1	408	Nucleotide excision repair enzyme UvrB {Thermus th	84.22
d1ys7a2	121	Transcriptional regulatory protein PrrA, N-termina	83.85
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	82.13
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	82.02
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	81.68
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	81.28
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	80.81

>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=2.7e-37  Score=250.85  Aligned_cols=222  Identities=44%  Similarity=0.738  Sum_probs=201.2

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChh
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  119 (305)
                      +.||.++|+|++|++++|+++.++.|..++..+..++++|+||||+|||++|+.+++++.+......+..+++.+..+..
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            46899999999999999999999999999999999999999999999999999999999877667778899999888887


Q ss_pred             HHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecC
Q 021937          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP  199 (305)
Q Consensus       120 ~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~  199 (305)
                      .+...+..........  ...+..++++||+|.+....++.|+..++..+....++++++....+.+++++||..++|++
T Consensus        82 ~i~~~~~~~~~~~~~~--~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~  159 (224)
T d1sxjb2          82 VVRNQIKHFAQKKLHL--PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSK  159 (224)
T ss_dssp             HHHTHHHHHHHBCCCC--CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             ehhhHHHHHHHhhccC--CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcc
Confidence            7777776665543322  23346799999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhhC
Q 021937          200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTG  263 (305)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~  263 (305)
                      |+.+++..++..++.++++.++++.++.|++.++||+|.+++.||.++...+.|+.+.|++++.
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            9999999999999999999999999999999999999999999999988888999999887753

>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=3.4e-36  Score=244.95  Aligned_cols=221  Identities=54%  Similarity=0.934  Sum_probs=196.3

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhH
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (305)
                      .||.++|+|++|++++|+++.++.|..++..+..++++|+||+|+|||++++.+++++.+......+.+.+.+...+.+.
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            58999999999999999999999999999999999999999999999999999999998777777788888888777766


Q ss_pred             HHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCC
Q 021937          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL  200 (305)
Q Consensus       121 ~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~  200 (305)
                      ..............   ...+..+++|||++.+....++.|++.+++.+.++.++++++....+.+++++||..+.|++|
T Consensus        82 ~~~~~~~~~~~~~~---~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~  158 (227)
T d1sxjc2          82 VRNQIKDFASTRQI---FSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPL  158 (227)
T ss_dssp             HHTHHHHHHHBCCS---SSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             eecchhhccccccc---cCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhccccc
Confidence            65555554443321   223367999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhcc-----CccCHHHHHhhhCC
Q 021937          201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQITEEAVYLCTGN  264 (305)
Q Consensus       201 ~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~-----~~i~~~~v~~~~~~  264 (305)
                      +.+++.+++.+++..+++.+++++++.|++.++||+|.+++.||.+....     ..|+.++|++++|.
T Consensus       159 ~~~~i~~~l~~I~~~e~i~i~~~~l~~i~~~s~Gd~R~ain~Lq~~~~~~~~~~~~~It~~~v~e~~g~  227 (227)
T d1sxjc2         159 PQEAIERRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGA  227 (227)
T ss_dssp             CHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTTC
T ss_pred             cccccccccccccccccccCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCCCCCeeCHHHHHHHhCc
Confidence            99999999999999999999999999999999999999999999876542     45999999998873

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=100.00  E-value=3.5e-36  Score=245.44  Aligned_cols=220  Identities=48%  Similarity=0.855  Sum_probs=196.4

Q ss_pred             CcchhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChh
Q 021937           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (305)
Q Consensus        40 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  119 (305)
                      .+||.++|+|++|++++|++..++.|..++..+..++++|+||||+|||++|+.+++++.+......++++++++..+..
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            47899999999999999999999999999999999999999999999999999999999877777788999988765555


Q ss_pred             HHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecC
Q 021937          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP  199 (305)
Q Consensus       120 ~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~  199 (305)
                      .++............   ....+.++++||++.+....+..|+.+++....+..++++++....+++++.+||..+.|.+
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            555555544433221   22347899999999999999999999999998899999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCccCHHHHHhhh
Q 021937          200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCT  262 (305)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~  262 (305)
                      ++..++..++...+.++++.+++++++.|++.++||+|.+++.||.+....+.++.++|..+.
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            999999999999999999999999999999999999999999999998888889999987764

>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=3.3e-34  Score=234.51  Aligned_cols=216  Identities=24%  Similarity=0.408  Sum_probs=187.7

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCC------------------
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY------------------  103 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~------------------  103 (305)
                      +.++|+|++|++++|+++.++.|..++.+++.++ ++|+||+|+|||++|+.+++.+.+...                  
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            5789999999999999999999999999988777 899999999999999999999865421                  


Q ss_pred             -cccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          104 -HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       104 -~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                       ...+++++.......+.++..+......     +...+..++||||+|.+..+.++.|++.+++++.++.||++++...
T Consensus        82 ~~~~~~~~~~~~~~~i~~ir~~~~~~~~~-----~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~  156 (239)
T d1njfa_          82 RFVDLIEIDAASRTKVEDTRDLLDNVQYA-----PARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  156 (239)
T ss_dssp             CCTTEEEEETTCSSSHHHHHHHHHSCCCS-----CSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             CCCeEEEecchhcCCHHHHHHHHHHHHhc-----cccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCcc
Confidence             1246777777666677766655444221     2233468999999999999999999999999999999999999999


Q ss_pred             ccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-ccCccCHHHHHhh
Q 021937          183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEAVYLC  261 (305)
Q Consensus       183 ~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~~  261 (305)
                      .+.+++++||+.+.|++++.+++.+++...+..++..+++++++.|++.++||+|.+++.|+.+.. ..+.|+.++|+++
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            999999999999999999999999999999999999999999999999999999999999976544 5578999999998


Q ss_pred             hC
Q 021937          262 TG  263 (305)
Q Consensus       262 ~~  263 (305)
                      +|
T Consensus       237 lg  238 (239)
T d1njfa_         237 LG  238 (239)
T ss_dssp             HT
T ss_pred             hC
Confidence            86

>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=3.5e-34  Score=234.41  Aligned_cols=222  Identities=44%  Similarity=0.776  Sum_probs=188.3

Q ss_pred             chhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-CcccEEEeecCCCcChhH
Q 021937           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDV  120 (305)
Q Consensus        42 ~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~  120 (305)
                      ||.++|+|++|++++|+++.++.|..++..+..++++|+||+|+|||++++++++++.+.. ........+.....+...
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            7999999999999999999999999999999999999999999999999999999875432 234566667666666655


Q ss_pred             HHHHHHHhhhccccc-------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhccee
Q 021937          121 VRQQIQDFASTQSFS-------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (305)
Q Consensus       121 ~~~~i~~~~~~~~~~-------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~  193 (305)
                      ....+..........       .....+..+++|||++.+.....+.+..+++..+.+..++++++....+.+++++||+
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            555555443332211       1123446799999999999999999999999998889999999999999999999999


Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhc------cCccCHHHHHhhhC
Q 021937          194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA------SQQITEEAVYLCTG  263 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~------~~~i~~~~v~~~~~  263 (305)
                      .+.|++++.+++.+++..++.++++.+++++++.|++.++||+|.+++.||.++..      .+.|+.+.|++++|
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            99999999999999999999999999999999999999999999999999977652      24599999998876

>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=3.9e-30  Score=212.09  Aligned_cols=208  Identities=32%  Similarity=0.600  Sum_probs=161.0

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcc----------------
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHN----------------  105 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~-~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~----------------  105 (305)
                      |.++|+|++|++++|+++..+.|..++... ..++++|+||+|+|||++|+++++.+.......                
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            999999999999999999999999998765 455699999999999999999999874332111                


Q ss_pred             --------cEEEeecCCC--cChhHHHHHHHHhhhcccc-----cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcC
Q 021937          106 --------MILELNASDD--RGIDVVRQQIQDFASTQSF-----SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK  170 (305)
Q Consensus       106 --------~~~~~~~~~~--~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~  170 (305)
                              ....+.....  .........+.........     .........+++|||+|.+..+.++.|++.++.++.
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  1111122222222211111     111234467999999999999999999999999998


Q ss_pred             CceEEEEecCCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHHHHhhc
Q 021937          171 NTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRKALNILQSTHMA  249 (305)
Q Consensus       171 ~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~l~~~~~g~~r~~~~~l~~~~~~  249 (305)
                      ++.||++++....+++++++||..++|++|+.+++.+++..++..+++.++ +++++.|+..++||+|++++.||.++..
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            999999999999999999999999999999999999999999999988764 6788999999999999999999988865


Q ss_pred             c
Q 021937          250 S  250 (305)
Q Consensus       250 ~  250 (305)
                      .
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=7.9e-30  Score=210.38  Aligned_cols=217  Identities=23%  Similarity=0.405  Sum_probs=171.1

Q ss_pred             cchhhhcCCCCccccccchHHHHHHHHHHhc-----------------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        41 ~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~-----------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      ..|.++|+|++|++++|+++.++.|..++..                 +..++++|+||||+|||++|+++++++     
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                 234569999999999999999999997     


Q ss_pred             cccEEEeecCCCcChhHHHHHHHHhhhcccc---------cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh-cCCce
Q 021937          104 HNMILELNASDDRGIDVVRQQIQDFASTQSF---------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-TKNTR  173 (305)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~---------~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-~~~~~  173 (305)
                      ...+..++.+.......+...+.........         ......+..++++||++.+....+..+..+++.. .....
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~  156 (253)
T d1sxja2          77 GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTP  156 (253)
T ss_dssp             TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSC
T ss_pred             HhhhhccccccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhcccccc
Confidence            5567788877766666655544433332211         1123456789999999999877766666666532 22344


Q ss_pred             EEEEec-CCcccchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhhccCc
Q 021937          174 FALICN-QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQ  252 (305)
Q Consensus       174 iil~~~-~~~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~  252 (305)
                      ++++++ ......+.+++|+..++|++|+.+++..++..++.++|+.+++++++.|++.++||+|.+++.|+.++...+.
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 4445667889999999999999999999999999999999999999999999999999999999999888788


Q ss_pred             cCHHHHHhhh
Q 021937          253 ITEEAVYLCT  262 (305)
Q Consensus       253 i~~~~v~~~~  262 (305)
                      ++.+.++++.
T Consensus       237 i~~~~~~~~~  246 (253)
T d1sxja2         237 INHENINEIS  246 (253)
T ss_dssp             CCTTHHHHHH
T ss_pred             CCHHHHHHHh
Confidence            8887766544

>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=3.8e-27  Score=192.35  Aligned_cols=201  Identities=17%  Similarity=0.248  Sum_probs=165.5

Q ss_pred             hcCCCCccccccchHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhH
Q 021937           46 KYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (305)
Q Consensus        46 ~~~p~~~~~~~g~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (305)
                      -+||++|++++|+++.++.|..++..     ...++++|+||||||||++|+++++++     ...+..++.........
T Consensus         2 ~~RP~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~-----~~~~~~~~~~~~~~~~~   76 (238)
T d1in4a2           2 FLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL-----QTNIHVTSGPVLVKQGD   76 (238)
T ss_dssp             TTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH-----TCCEEEEETTTCCSHHH
T ss_pred             CCCCCcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc-----CCCcccccCcccccHHH
Confidence            46899999999999999999988753     346789999999999999999999998     45677777777666655


Q ss_pred             HHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh------------------cCCceEEEEecCCc
Q 021937          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY------------------TKNTRFALICNQVN  182 (305)
Q Consensus       121 ~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~------------------~~~~~iil~~~~~~  182 (305)
                      +...+...           .++.++++||++.+.+..++.++..++..                  ..++.+|++++...
T Consensus        77 ~~~~~~~~-----------~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~  145 (238)
T d1in4a2          77 MAAILTSL-----------ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSG  145 (238)
T ss_dssp             HHHHHHHC-----------CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGG
T ss_pred             HHHHHHhh-----------ccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCc
Confidence            55444332           12579999999999998888888887753                  23567888889888


Q ss_pred             ccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-----ccCccCHH
Q 021937          183 KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-----ASQQITEE  256 (305)
Q Consensus       183 ~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-----~~~~i~~~  256 (305)
                      ...+.+++|+ ..+.|++++.+++..++...+..++..+++++++.+++.++||+|.+++.|+.+..     ....|+.+
T Consensus       146 ~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~s~gd~R~ai~~l~~~~~~~~~~~~~~it~~  225 (238)
T d1in4a2         146 LLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTD  225 (238)
T ss_dssp             GSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSSBCHH
T ss_pred             cccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccchhhHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcCCccCHH
Confidence            8999999998 56799999999999999999999999999999999999999999999999986642     23557777


Q ss_pred             HHHhhh
Q 021937          257 AVYLCT  262 (305)
Q Consensus       257 ~v~~~~  262 (305)
                      .+.+++
T Consensus       226 ~~~~al  231 (238)
T d1in4a2         226 IVLKTM  231 (238)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            777665

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=99.95  E-value=3.8e-26  Score=186.45  Aligned_cols=202  Identities=18%  Similarity=0.246  Sum_probs=160.4

Q ss_pred             cCCCCccccccchHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHH
Q 021937           47 YRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (305)
Q Consensus        47 ~~p~~~~~~~g~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (305)
                      .||++|++++|+++.++.|..++..     ...++++|+||||+|||++|+.+++++     ...+..++..........
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            5899999999999999999988763     346779999999999999999999998     455677777665544443


Q ss_pred             HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHh------------------cCCceEEEEecCCcc
Q 021937          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY------------------TKNTRFALICNQVNK  183 (305)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~------------------~~~~~iil~~~~~~~  183 (305)
                      ...+....          ....++++||+|.+.+..+..++..++..                  +++..++++++....
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            33332221          11479999999999999999999998753                  224456666666554


Q ss_pred             -cchhhhcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhh-----ccCccCHHH
Q 021937          184 -IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-----ASQQITEEA  257 (305)
Q Consensus       184 -l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-----~~~~i~~~~  257 (305)
                       ..+.+.+++..+.+.+++.+++..++...+..+++.++.+.++.+++.++||+|.+++.|+.+..     ..+.|+.+.
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             45666677899999999999999999999999999999999999999999999999999987653     224588888


Q ss_pred             HHhhhC
Q 021937          258 VYLCTG  263 (305)
Q Consensus       258 v~~~~~  263 (305)
                      +.+++.
T Consensus       228 ~~~~l~  233 (239)
T d1ixsb2         228 ALEALA  233 (239)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            777663

>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=3.5e-25  Score=176.03  Aligned_cols=178  Identities=25%  Similarity=0.342  Sum_probs=145.8

Q ss_pred             cchHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCC-------------------CcccEEEeecCC--
Q 021937           57 AHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNASD--  114 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~-------------------~~~~~~~~~~~~--  114 (305)
                      ++....+.|...+..++.+| ++|+||+|+|||++|+.+++.+.+..                   ....+..+....  
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~   85 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGK   85 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTC
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcc
Confidence            46678899999999999888 89999999999999999999986432                   223344443332  


Q ss_pred             -CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhccee
Q 021937          115 -DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (305)
Q Consensus       115 -~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~  193 (305)
                       ....+.++..+......     +..++..|++|||+|.+..+.++.|++++|+++.++.||+++++...+.+++++||+
T Consensus        86 ~~i~~~~ir~l~~~~~~~-----~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~  160 (207)
T d1a5ta2          86 NTLGVDAVREVTEKLNEH-----ARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCR  160 (207)
T ss_dssp             SSBCHHHHHHHHHHTTSC-----CTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             cccccchhhHHhhhhhhc-----cccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeE
Confidence             22345566555544222     223347899999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 021937          194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (305)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  244 (305)
                      .+.|++++.+++..++..     +..++++.+..+++.++|++|.|+++||
T Consensus       161 ~i~~~~~~~~~~~~~L~~-----~~~~~~~~~~~i~~~s~Gs~r~al~~le  206 (207)
T d1a5ta2         161 LHYLAPPPEQYAVTWLSR-----EVTMSQDALLAALRLSAGSPGAALALFQ  206 (207)
T ss_dssp             EEECCCCCHHHHHHHHHH-----HCCCCHHHHHHHHHHTTTCHHHHHHTTS
T ss_pred             EEecCCCCHHHHHHHHHH-----cCCCCHHHHHHHHHHcCCCHHHHHHHhC
Confidence            999999999999998864     4568999999999999999999999874

>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=99.87  E-value=2e-21  Score=157.76  Aligned_cols=202  Identities=21%  Similarity=0.239  Sum_probs=135.2

Q ss_pred             CCccccccchHHHHHHHHHHh------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC--
Q 021937           50 QSLADVAAHRDIVDTIDRLTS------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (305)
                      .+|++++|.++.+++|.+.+.            ...+.+++|+||||||||++|+++++++     ...++.+++...  
T Consensus         6 ~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~-----~~~~~~i~~~~l~~   80 (247)
T d1ixza_           6 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITASGSDFVE   80 (247)
T ss_dssp             CCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEHHHHHH
T ss_pred             CcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc-----CCCEEEEEhHHhhh
Confidence            378999999999988876542            1223459999999999999999999987     556777765432  


Q ss_pred             cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--------------HHHHHHHHHHHHhcC--CceEEEEec
Q 021937          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYTK--NTRFALICN  179 (305)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~l~~~l~~~~~--~~~iil~~~  179 (305)
                      .......+.+.......     ....++||+|||+|.+..              ...+.|+..++....  ++.+|.+||
T Consensus        81 ~~~g~~~~~l~~~f~~a-----~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn  155 (247)
T d1ixza_          81 MFVGVGAARVRDLFETA-----KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATN  155 (247)
T ss_dssp             SCTTHHHHHHHHHHHHH-----TTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEES
T ss_pred             ccccHHHHHHHHHHHHH-----HHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCC
Confidence            11212222222222211     112268999999987631              124556777775433  445566789


Q ss_pred             CCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHh-----hcc
Q 021937          180 QVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTH-----MAS  250 (305)
Q Consensus       180 ~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~-----~~~  250 (305)
                      .++.+++++++  |+ ..++|++|+.+++.++++.++...... .+..+..+++.+.| ..+.+.++++.++     ...
T Consensus       156 ~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~-~~~~~~~la~~t~g~s~~di~~lv~~A~l~a~~~~~  234 (247)
T d1ixza_         156 RPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLA-EDVDLALLAKRTPGFVGADLENLLNEAALLAAREGR  234 (247)
T ss_dssp             CGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             CccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCc-cccCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcCC
Confidence            99999999984  77 689999999999999999888665533 33347788888876 3333333443322     233


Q ss_pred             CccCHHHHHhhh
Q 021937          251 QQITEEAVYLCT  262 (305)
Q Consensus       251 ~~i~~~~v~~~~  262 (305)
                      ..|+.+++++++
T Consensus       235 ~~i~~~d~~~A~  246 (247)
T d1ixza_         235 RKITMKDLEEAA  246 (247)
T ss_dssp             SSBCHHHHHHHT
T ss_pred             CCcCHHHHHHhh
Confidence            568988888775

>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=99.87  E-value=9e-21  Score=154.48  Aligned_cols=199  Identities=19%  Similarity=0.227  Sum_probs=139.8

Q ss_pred             CCCccccccchHHHHHHHHHHh------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           49 PQSLADVAAHRDIVDTIDRLTS------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        49 p~~~~~~~g~~~~~~~l~~~l~------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      +.+|++++|.+..+++|.+.+.            ...+.+++|+||||||||++|+++++++     ...++.++++...
T Consensus         8 ~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~-----~~~~~~i~~~~l~   82 (256)
T d1lv7a_           8 KTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFTISGSDFV   82 (256)
T ss_dssp             CCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH-----TCCEEEECSCSST
T ss_pred             CCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc-----CCCEEEEEhHHhh
Confidence            3478999999999998877643            1224459999999999999999999998     5667777776532


Q ss_pred             ------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--------------HHHHHHHHHHHHhc--CCceE
Q 021937          117 ------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT--KNTRF  174 (305)
Q Consensus       117 ------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~l~~~l~~~~--~~~~i  174 (305)
                            +...+++.+..+...         .++||+|||+|.+..              ...+.|+..++...  .++.+
T Consensus        83 ~~~~g~~~~~l~~~f~~A~~~---------~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~v  153 (256)
T d1lv7a_          83 EMFVGVGASRVRDMFEQAKKA---------APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIV  153 (256)
T ss_dssp             TSCCCCCHHHHHHHHHHHHTT---------CSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEE
T ss_pred             hcchhHHHHHHHHHHHHHHHc---------CCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEE
Confidence                  334455555554332         268999999987631              12355777777443  34566


Q ss_pred             EEEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHhh--
Q 021937          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM--  248 (305)
Q Consensus       175 il~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~--  248 (305)
                      |.+||.++.+++++++  |+ ..+.|++|+.+++.++++.+..+.+.. .+..+..+++.+.| +.+.+.++++.++.  
T Consensus       154 IatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G~s~adi~~l~~~A~~~a  232 (256)
T d1lv7a_         154 IAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADLANLVNEAALFA  232 (256)
T ss_dssp             EEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHHH
T ss_pred             EEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcC-cccCHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence            6788999999999986  77 789999999999999999888666543 33456778888776 44444444443332  


Q ss_pred             ---ccCccCHHHHHhhh
Q 021937          249 ---ASQQITEEAVYLCT  262 (305)
Q Consensus       249 ---~~~~i~~~~v~~~~  262 (305)
                         ....++.+++++++
T Consensus       233 ~~~~~~~i~~~d~~~Al  249 (256)
T d1lv7a_         233 ARGNKRVVSMVEFEKAK  249 (256)
T ss_dssp             HHTTCSSBCHHHHHHHH
T ss_pred             HHcCCCccCHHHHHHHH
Confidence               22347777776654

>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=99.84  E-value=4.9e-20  Score=144.45  Aligned_cols=137  Identities=17%  Similarity=0.210  Sum_probs=112.6

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-CcccEEEeecCC-CcChhHHHHHHHHhhhcccccCCC
Q 021937           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASD-DRGIDVVRQQIQDFASTQSFSFGV  138 (305)
Q Consensus        61 ~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~i~~~~~~~~~~~~~  138 (305)
                      .++.+++++..+.+++++|+||+|+|||++|..+++.+.... ....++.+.+.. .-+.+.++..+..+. ..++    
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~-~~~~----   76 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLN-YSPE----   76 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHT-SCCS----
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHh-hCcc----
Confidence            357788999999888999999999999999999999875432 234577776543 236788887655543 3332    


Q ss_pred             CCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcceeEEEecCCCH
Q 021937          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP  202 (305)
Q Consensus       139 ~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~~~i~~~~~~~  202 (305)
                      .++++|++|||+|.+..+++++|++.+|++|.++.|+++|+....+.+++++||+.+.|++|..
T Consensus        77 ~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p~~  140 (198)
T d2gnoa2          77 LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPKE  140 (198)
T ss_dssp             SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCHH
T ss_pred             cCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCchH
Confidence            3347899999999999999999999999999999999999999999999999999999987753

>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=1.7e-18  Score=143.20  Aligned_cols=221  Identities=19%  Similarity=0.232  Sum_probs=150.5

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      ...++...|.|+.   ++|++..++.+..++..      ..+++++|+||||+|||++++.+++.+... ....++.+++
T Consensus         5 ~~~~l~~~y~p~~---l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~-~~~~~~~~~~   80 (276)
T d1fnna2           5 DDSVFSPSYVPKR---LPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDK-TTARFVYING   80 (276)
T ss_dssp             CGGGGSTTCCCSC---CTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTS-CCCEEEEEET
T ss_pred             CcccCCCCCCCCC---CCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcc-cCCcEEEecc
Confidence            4566778888865   58999988888888753      344579999999999999999999998543 2345566665


Q ss_pred             CCCcChhHHHHHHHHhhhcccccC---------------CCCCceEEEEEeCCCcCCHHHHHHHHHHHHH---h-cCCce
Q 021937          113 SDDRGIDVVRQQIQDFASTQSFSF---------------GVKASVKLVLLDEADAMTKDAQFALRRVIEK---Y-TKNTR  173 (305)
Q Consensus       113 ~~~~~~~~~~~~i~~~~~~~~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~---~-~~~~~  173 (305)
                      ............+...........               .......++++|+++.+.......+..++..   . .....
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (276)
T d1fnna2          81 FIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIA  160 (276)
T ss_dssp             TTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEE
T ss_pred             hhhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceE
Confidence            544433333222222111110000               0113357889999999988776666555442   2 23345


Q ss_pred             EEEEecCC---cccchhhhcce--eEEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHc---------CCCHH
Q 021937          174 FALICNQV---NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLC---------NGDMR  237 (305)
Q Consensus       174 iil~~~~~---~~l~~~l~~r~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~l~~~~---------~g~~r  237 (305)
                      +|++++..   +.+.+.+.+|+  ..+.|++++.+++.+++.+++...  +..+++++++.|++.+         .||+|
T Consensus       161 ~i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~~~G~~R  240 (276)
T d1fnna2         161 LVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDAR  240 (276)
T ss_dssp             EEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHH
T ss_pred             EeecCCchhhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhhcCCCHH
Confidence            55566543   34566777775  568999999999999999988763  3458999999998764         69999


Q ss_pred             HHHHHHHHHhhc-----cCccCHHHHHhhhC
Q 021937          238 KALNILQSTHMA-----SQQITEEAVYLCTG  263 (305)
Q Consensus       238 ~~~~~l~~~~~~-----~~~i~~~~v~~~~~  263 (305)
                      .+++.|+.+...     ...|+.++|+++..
T Consensus       241 ~a~~ll~~a~~~A~~~~~~~I~~edv~~A~~  271 (276)
T d1fnna2         241 LAIDILYRSAYAAQQNGRKHIAPEDVRKSSK  271 (276)
T ss_dssp             HHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            999999876542     34699999887654

>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=99.82  E-value=3.8e-19  Score=145.62  Aligned_cols=181  Identities=20%  Similarity=0.271  Sum_probs=125.2

Q ss_pred             CccccccchHHHHHHHHHHh------------c-CCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC--
Q 021937           51 SLADVAAHRDIVDTIDRLTS------------E-NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~------------~-~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (305)
                      .|+++.|.+..++.|++.+.            + ..+..++|+||||||||++++++++++     ...++.+++...  
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            58899999999999888743            1 123459999999999999999999997     555666665421  


Q ss_pred             ----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH-----------HHHHHHHHHHHh--cCCceEEEEe
Q 021937          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKY--TKNTRFALIC  178 (305)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-----------~~~~l~~~l~~~--~~~~~iil~~  178 (305)
                          .....++..+..+...         .++||+|||+|.+...           ....++..++..  ..++.+|.+|
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                1123333333333222         2699999999999632           123344444432  2345667788


Q ss_pred             cCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q 021937          179 NQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQST  246 (305)
Q Consensus       179 ~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~  246 (305)
                      |.++.+++++++  |+ ..+++++|+.+++.++++..+.+.... ++..++.|++.+.| +.+.+.++++.+
T Consensus       148 n~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G~s~adl~~lv~~A  218 (258)
T d1e32a2         148 NRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAALCSEA  218 (258)
T ss_dssp             SCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBC-TTCCHHHHHHHCTTCCHHHHHHHHHHH
T ss_pred             CCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccc-cccchhhhhhcccCCCHHHHHHHHHHH
Confidence            999999999987  77 789999999999999999887654432 22247889999877 344444444443

>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=6.7e-18  Score=140.28  Aligned_cols=222  Identities=18%  Similarity=0.201  Sum_probs=141.7

Q ss_pred             CCcchhhhcCCCCccccccchHHHHHHHHHH----hcCCCC-----eEEEECCCCCcHHHHHHHHHHHHhCC----CCcc
Q 021937           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLT----SENRLP-----HLLLYGPPGTGKTSTILAVARKLYGA----QYHN  105 (305)
Q Consensus        39 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l----~~~~~~-----~~ll~G~~G~GKT~l~~~l~~~~~~~----~~~~  105 (305)
                      ...+|..+|+|..   +.|++..++.|..++    ..+..+     +++|+||||||||++++++++.+...    ....
T Consensus         5 ~~~~l~~~~~P~~---~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~   81 (287)
T d1w5sa2           5 DRRVFDENYIPPE---LRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTV   81 (287)
T ss_dssp             CGGGGSTTCCCSS---CSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCE
T ss_pred             ChhhcCCccCCCC---CCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCc
Confidence            3456888898865   568877777776654    233222     25778999999999999999987432    2234


Q ss_pred             cEEEeecCCCcChhHHHHHHHHhhhcccccC---------------CCCCceEEEEEeCCCcCC------HHHHHHHHHH
Q 021937          106 MILELNASDDRGIDVVRQQIQDFASTQSFSF---------------GVKASVKLVLLDEADAMT------KDAQFALRRV  164 (305)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~---------------~~~~~~~vliiDe~~~l~------~~~~~~l~~~  164 (305)
                      .+..+++........................               .......++++|+++.+.      .+....+..+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l  161 (287)
T d1w5sa2          82 KQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRV  161 (287)
T ss_dssp             EEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTH
T ss_pred             eeeeeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHH
Confidence            4555555443333222211111111000000               011236788999988773      3344455555


Q ss_pred             HHHhc-----CCceEEEEecCCc------ccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHH
Q 021937          165 IEKYT-----KNTRFALICNQVN------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVR  230 (305)
Q Consensus       165 l~~~~-----~~~~iil~~~~~~------~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~l~~  230 (305)
                      .+...     ....++++++...      ...+.+.+|+ ..++|++++.+++.+++..++...  ...+++++++.+++
T Consensus       162 ~~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~  241 (287)
T d1w5sa2         162 HEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISD  241 (287)
T ss_dssp             HHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHH
T ss_pred             HHhcchhhcccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHH
Confidence            55432     2334555554332      2235666664 889999999999999999988764  33589999999998


Q ss_pred             Hc------CCCHHHHHHHHHHHhh-----ccCccCHHHHHhhhC
Q 021937          231 LC------NGDMRKALNILQSTHM-----ASQQITEEAVYLCTG  263 (305)
Q Consensus       231 ~~------~g~~r~~~~~l~~~~~-----~~~~i~~~~v~~~~~  263 (305)
                      .+      .||+|.+++.|+.+..     ....|+.++|++++.
T Consensus       242 ~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~~  285 (287)
T d1w5sa2         242 VYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVS  285 (287)
T ss_dssp             HHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             HHhccccCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            76      6999999999987654     335799999988764

>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=99.78  E-value=6.3e-18  Score=134.01  Aligned_cols=184  Identities=16%  Similarity=0.257  Sum_probs=128.7

Q ss_pred             Cccccc-c--chHHHHHHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHH
Q 021937           51 SLADVA-A--HRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (305)
Q Consensus        51 ~~~~~~-g--~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (305)
                      +|++|+ |  +......+++++.....  +.++||||+|+|||+|++++++++...+...  +.++....  ...+...+
T Consensus         8 tFdnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~--~~~~~~~~--~~~~~~~~   83 (213)
T d1l8qa2           8 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRV--IYSSADDF--AQAMVEHL   83 (213)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCE--EEEEHHHH--HHHHHHHH
T ss_pred             ChhhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccce--EEechHHH--HHHHHHHH
Confidence            677765 4  56666777777765332  3399999999999999999999987665543  33332211  01111111


Q ss_pred             H-----HhhhcccccCCCCCceEEEEEeCCCcCC--HHHHHHHHHHHHHhc-CCceEEEEecCCc----ccchhhhcce-
Q 021937          126 Q-----DFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSRC-  192 (305)
Q Consensus       126 ~-----~~~~~~~~~~~~~~~~~vliiDe~~~l~--~~~~~~l~~~l~~~~-~~~~iil~~~~~~----~l~~~l~~r~-  192 (305)
                      .     .....  +.     ...+|+|||+|.+.  +..+..|+.+++... .+..+|++++...    ...+++.+|+ 
T Consensus        84 ~~~~~~~~~~~--~~-----~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~  156 (213)
T d1l8qa2          84 KKGTINEFRNM--YK-----SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFE  156 (213)
T ss_dssp             HHTCHHHHHHH--HH-----TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHH
T ss_pred             HccchhhHHHH--Hh-----hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhh
Confidence            0     00000  00     15899999999996  456778899988654 4567777775443    3567888885 


Q ss_pred             --eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHh
Q 021937          193 --TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (305)
Q Consensus       193 --~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~  247 (305)
                        .++.++ |+.++..+++++.+...|+.++++++++|++.+ .++|.+...+..+.
T Consensus       157 ~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~-~~~R~L~~~l~~l~  211 (213)
T d1l8qa2         157 GGILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIK  211 (213)
T ss_dssp             TSEEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHH
T ss_pred             CceEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc-CcHHHHHHHHHHhh
Confidence              667886 577889999999999999999999999999998 58998888886654

>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=99.75  E-value=6.3e-17  Score=131.35  Aligned_cols=201  Identities=13%  Similarity=0.148  Sum_probs=143.5

Q ss_pred             hhhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCCC--
Q 021937           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD--  115 (305)
Q Consensus        43 ~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~--  115 (305)
                      +.+.-+...++.++|+++.++++...+.....++++|+||||+|||++++.++..+....     ....++.++....  
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            445555667788999999999999999988888999999999999999999999886432     2234666555431  


Q ss_pred             --cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH-----HHHHHHHHHHHh--cCCceEEEEec-----CC
Q 021937          116 --RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----AQFALRRVIEKY--TKNTRFALICN-----QV  181 (305)
Q Consensus       116 --~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-----~~~~l~~~l~~~--~~~~~iil~~~-----~~  181 (305)
                        .....+.+.+........     ..+..++||||+|.+...     ....+.+++...  .....+|.+|+     ..
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 GTKYRGDFEKRFKALLKQLE-----QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNI  162 (268)
T ss_dssp             CCCCSSCHHHHHHHHHHHHS-----SSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHCC
T ss_pred             cCccchhHHHHHHHHHHHhh-----ccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCCCeEEEeCCHHHHHHH
Confidence              223344444444333221     122579999999999421     122344444432  23556776664     33


Q ss_pred             cccchhhhcceeEEEecCCCHHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHcC------CCHHHHHHHHHHHhh
Q 021937          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE----AEGLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (305)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~~~~l~~~~~------g~~r~~~~~l~~~~~  248 (305)
                      ..-+++|.+||+.+.+.+|+.++..+++.....    ..++.++++++..+++++.      .-|.+++..|+.++.
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            355789999999999999999999999877554    3589999999999988763      579999999987775

>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=99.74  E-value=1e-18  Score=143.47  Aligned_cols=181  Identities=19%  Similarity=0.261  Sum_probs=117.3

Q ss_pred             CccccccchHHHHHHHHHHh----------c-C--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC--
Q 021937           51 SLADVAAHRDIVDTIDRLTS----------E-N--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~----------~-~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~--  115 (305)
                      +|+++.|.++.+++|.+.+.          + +  ...+++|+||||||||+++++++.++     ...++.+++...  
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            78999998887777766542          1 1  23359999999999999999999998     556677665431  


Q ss_pred             ----cChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------------HHHHHHHHHHHh--cCCceEE
Q 021937          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKY--TKNTRFA  175 (305)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------------~~~~l~~~l~~~--~~~~~ii  175 (305)
                          .....++..+..+...         .+++|+|||+|.+...              ..+.|+..++..  ..++.+|
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                1223334444433222         2699999999988532              123444444322  2345677


Q ss_pred             EEecCCcccchhhhc--ce-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q 021937          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQST  246 (305)
Q Consensus       176 l~~~~~~~l~~~l~~--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~  246 (305)
                      .+||.++.+++++++  || ..++|++|+.+++.++++..+.+.... .+..++.|++.+.| +.+.+.++++.+
T Consensus       151 ~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~g~s~~di~~lv~~A  224 (265)
T d1r7ra3         151 GATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQRA  224 (265)
T ss_dssp             ECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC-----CCCCHHHHHHHCSSCCHHHHHHHHHH
T ss_pred             EeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCch-hhhhHHHHHhcCCCCCHHHHHHHHHHH
Confidence            778999999999986  66 679999999999999998776543221 12235677777654 333344444433

>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=99.67  E-value=4.2e-16  Score=133.39  Aligned_cols=197  Identities=15%  Similarity=0.180  Sum_probs=133.3

Q ss_pred             hcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCCCc----
Q 021937           46 KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDDR----  116 (305)
Q Consensus        46 ~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~~~----  116 (305)
                      .-+-..++.++|++..++++...+.....++.+|.|+||+|||++++.++..+....     ....++.++.....    
T Consensus        15 ~a~~g~ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~   94 (387)
T d1qvra2          15 LAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAK   94 (387)
T ss_dssp             HHHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------
T ss_pred             HHHcCCCCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccC
Confidence            334566788999999999999999988888899999999999999999999875432     22346666655321    


Q ss_pred             ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH--------HHHHHHHHHHHHhcCCceEEEEecCC----ccc
Q 021937          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------DAQFALRRVIEKYTKNTRFALICNQV----NKI  184 (305)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------~~~~~l~~~l~~~~~~~~iil~~~~~----~~l  184 (305)
                      ....+.+.+........-    ..+..|+||||+|.+..        +..+.|..++..+  ...+|.+|+..    ..-
T Consensus        95 ~~g~~e~r~~~i~~~~~~----~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg--~~~~I~~tT~~ey~~~e~  168 (387)
T d1qvra2          95 YRGEFEERLKAVIQEVVQ----SQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIGATTLDEYREIEK  168 (387)
T ss_dssp             ---CHHHHHHHHHHHHHT----TCSSEEEEECCC-------------------HHHHHTT--CCCEEEEECHHHHHHHTT
T ss_pred             cchhHHHHHHHHHHHhcc----CCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC--CcceeeecCHHHHHHhcc
Confidence            122333333332221110    11147899999999953        2234455555543  56677776421    123


Q ss_pred             chhhhcceeEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcC------CCHHHHHHHHHHHhh
Q 021937          185 IPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (305)
Q Consensus       185 ~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~------g~~r~~~~~l~~~~~  248 (305)
                      +++|.+||+.+.+.+|+.++...++......    .++.++++++..+++.+.      .-|..|+.+|+.++.
T Consensus       169 d~al~rrF~~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~a~a  242 (387)
T d1qvra2         169 DPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAA  242 (387)
T ss_dssp             CTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHH
T ss_pred             cHHHHHhcccccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccChhhHHHHHHHHHH
Confidence            7889999999999999999999998876654    488999999999998763      679999999988776

>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=99.65  E-value=2.7e-15  Score=121.35  Aligned_cols=153  Identities=15%  Similarity=0.246  Sum_probs=97.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc---Ch----hHHHHHHHHhhhcccccCCCCCceEEEEEe
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---GI----DVVRQQIQDFASTQSFSFGVKASVKLVLLD  148 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~---~~----~~~~~~i~~~~~~~~~~~~~~~~~~vliiD  148 (305)
                      +++|+||||||||++|+++++++     ...++.+++++..   ..    ..+++.+..+..         ..++||+||
T Consensus        42 ~vLL~GppGtGKT~la~alA~~~-----~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~~---------~~p~il~iD  107 (246)
T d1d2na_          42 SVLLEGPPHSGKTALAAKIAEES-----NFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYK---------SQLSCVVVD  107 (246)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-----TCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHT---------SSEEEEEEC
T ss_pred             EEEEECcCCCCHHHHHHHHhhcc-----cccccccccccccccccccchhhhhhhhhhhhhh---------cccceeehh
Confidence            49999999999999999999998     5567777765321   11    223333333322         236999999


Q ss_pred             CCCcCC----------HHHHHHHHHHHHHhcC---CceEEEEecCCcccchh-hhcce-eEEEecCCCH-HHHHHHHHHH
Q 021937          149 EADAMT----------KDAQFALRRVIEKYTK---NTRFALICNQVNKIIPA-LQSRC-TRFRFAPLEP-VHVTERLKHV  212 (305)
Q Consensus       149 e~~~l~----------~~~~~~l~~~l~~~~~---~~~iil~~~~~~~l~~~-l~~r~-~~i~~~~~~~-~~~~~~l~~~  212 (305)
                      |+|.+.          ....+.|+..++....   ++.+|.+||.++.+++. +.+|| ..+.++.++. +++.+++.. 
T Consensus       108 Eid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~~rF~~~i~~P~~~~r~~il~~l~~-  186 (246)
T d1d2na_         108 DIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALEL-  186 (246)
T ss_dssp             CHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHH-
T ss_pred             hhhhHhhhcccccchhHHHHHHHHHHhcCCCccccceeeeeccCChhhccchhhcCccceEEecCCchhHHHHHHHHHh-
Confidence            998763          2334566666665432   23455677877777654 66777 5677755543 344443332 


Q ss_pred             HHHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHHHh
Q 021937          213 IEAEGLDVTEGGLAALVRLCNG-----DMRKALNILQSTH  247 (305)
Q Consensus       213 ~~~~~~~~~~~~~~~l~~~~~g-----~~r~~~~~l~~~~  247 (305)
                         .+ .++......+++.+.|     .++.+++.++.+.
T Consensus       187 ---~~-~~~~~~~~~i~~~~~g~~~~~~ik~ll~~ie~a~  222 (246)
T d1d2na_         187 ---LG-NFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSL  222 (246)
T ss_dssp             ---HT-CSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHT
T ss_pred             ---cc-CCChHHHHHHHHHcCCCccchhHHHHHHHHHHHH
Confidence               22 4677777888887766     3677777665543

>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=99.64  E-value=7.9e-15  Score=118.54  Aligned_cols=204  Identities=18%  Similarity=0.198  Sum_probs=136.5

Q ss_pred             ccccchHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhc
Q 021937           54 DVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (305)
                      ++||++..++.+.+.+...  ...+++|+|++|||||++|+++....  ......++.+++..... ......+.... .
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s--~~~~~~~~~~~~~~~~~-~~~~~~lfg~~-~   76 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS--DRSKEPFVALNVASIPR-DIFEAELFGYE-K   76 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS--TTTTSCEEEEETTTSCH-HHHHHHHHCBC-T
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc--CCcccccccchhhhhhh-cccHHHhcCcc-c
Confidence            5789988888887777652  23349999999999999999998753  33345677777765322 22222221111 1


Q ss_pred             ccccCC--------CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCCc-------ccc
Q 021937          132 QSFSFG--------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KII  185 (305)
Q Consensus       132 ~~~~~~--------~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~~-------~l~  185 (305)
                      ..+...        ..+.+++|+|||+|.++...+..|++++++..           .++++|++++...       .+.
T Consensus        77 ~~~~~~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~~l~~l~~~~~f~  156 (247)
T d1ny5a2          77 GAFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGKFR  156 (247)
T ss_dssp             TSSTTCCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTSSC
T ss_pred             CCcCCcccccCCHHHccCCCEEEEeChHhCCHHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCCCHHHHHHcCCCc
Confidence            111111        12345799999999999999999999998532           2456777775431       345


Q ss_pred             hhhhcce--eEEEecCCCH--HHHHHHHHHHH----HHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHhhcc--C
Q 021937          186 PALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--Q  251 (305)
Q Consensus       186 ~~l~~r~--~~i~~~~~~~--~~~~~~l~~~~----~~~~~---~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~--~  251 (305)
                      +.+..|+  ..+.+||+..  +++..++...+    .+.+.   .+++++++.+..+. +||++.+.+.++.++..+  .
T Consensus       157 ~~L~~~l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~~~~WPGNl~EL~~~l~~a~~~~~~~  236 (247)
T d1ny5a2         157 EDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSEGK  236 (247)
T ss_dssp             HHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCCSS
T ss_pred             HHHHhhcCeeeecCCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCC
Confidence            5666664  4578888753  56655444443    34443   37899999998876 899999999998877644  4


Q ss_pred             ccCHHHHHhh
Q 021937          252 QITEEAVYLC  261 (305)
Q Consensus       252 ~i~~~~v~~~  261 (305)
                      .|+.+++-++
T Consensus       237 ~I~~~dl~~l  246 (247)
T d1ny5a2         237 FIDRGELSCL  246 (247)
T ss_dssp             EECHHHHHHH
T ss_pred             eECHHHcccc
Confidence            5888887654

>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=99.60  E-value=1.2e-15  Score=127.76  Aligned_cols=152  Identities=21%  Similarity=0.303  Sum_probs=96.6

Q ss_pred             ccccchHHHHHHHHHHh--------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh-
Q 021937           54 DVAAHRDIVDTIDRLTS--------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI-  118 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~--------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-  118 (305)
                      .++||++.++.+...+.              ...+.+++|+||||||||.+|+++++.+     ...++.++.+..... 
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            36899999998876552              1134569999999999999999999998     345666666543211 


Q ss_pred             ---hHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH------------HHHHHHHHHHHhc----------CCce
Q 021937          119 ---DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD------------AQFALRRVIEKYT----------KNTR  173 (305)
Q Consensus       119 ---~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~------------~~~~l~~~l~~~~----------~~~~  173 (305)
                         ......+................++||+|||+|++.+.            .++.|+..++...          .+..
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               11111122221111100001123689999999998632            3455777777321          1223


Q ss_pred             EEEEe----cCCcccchhhhcce-eEEEecCCCHHHHHHHHH
Q 021937          174 FALIC----NQVNKIIPALQSRC-TRFRFAPLEPVHVTERLK  210 (305)
Q Consensus       174 iil~~----~~~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~  210 (305)
                      +++++    +....+.+.+..|+ ..+.+.+|+..++.+++.
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    45567889999998 678999999999988863

>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=99.59  E-value=2.1e-15  Score=126.44  Aligned_cols=167  Identities=20%  Similarity=0.262  Sum_probs=116.3

Q ss_pred             cccccchHHHHHHHHHHhc--------CCCC-eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChh----
Q 021937           53 ADVAAHRDIVDTIDRLTSE--------NRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID----  119 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~--------~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~----  119 (305)
                      ..++||++.++.+...+..        ..+. .++|+||+|+|||.+|+.+++.+     ...++.++.+......    
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l-----~~~~i~~d~s~~~~~~~~~~   96 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTVSR   96 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH-----TCEEEEEEGGGCSSSSCCSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc-----cCCeeEeccccccchhhhhh
Confidence            4689999999988776631        1222 48999999999999999999988     3456666655322110    


Q ss_pred             -------HH----HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEE
Q 021937          120 -------VV----RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALI  177 (305)
Q Consensus       120 -------~~----~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~  177 (305)
                             ..    ...+.....        ..+.+|+++||+|+.+++.++.|++++++..           .+..+|++
T Consensus        97 l~g~~~gy~g~~~~~~l~~~~~--------~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~T  168 (315)
T d1r6bx3          97 LIGAPPGYVGFDQGGLLTDAVI--------KHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMT  168 (315)
T ss_dssp             SCCCCSCSHHHHHTTHHHHHHH--------HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEE
T ss_pred             hcccCCCccccccCChhhHHHH--------hCccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEec
Confidence                   00    001111111        1236899999999999999999999998632           35567777


Q ss_pred             ecCC-------------------------cccchhhhcce-eEEEecCCCHHHHHHHHHHHHHHc-------C--CCCCH
Q 021937          178 CNQV-------------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE-------G--LDVTE  222 (305)
Q Consensus       178 ~~~~-------------------------~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~~-------~--~~~~~  222 (305)
                      +|-.                         ..+.|.+.+|+ .++.|.|++.+++.+++...+...       +  +.+++
T Consensus       169 snig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~ii~f~~l~~~~~~~I~~~~l~~~~~~l~~~~i~l~~~~  248 (315)
T d1r6bx3         169 TNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQ  248 (315)
T ss_dssp             ECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECH
T ss_pred             cchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhcCcchhhHH
Confidence            6521                         13567888898 679999999999888876555422       2  35789


Q ss_pred             HHHHHHHHHc
Q 021937          223 GGLAALVRLC  232 (305)
Q Consensus       223 ~~~~~l~~~~  232 (305)
                      ++++.|++.+
T Consensus       249 ~a~~~l~~~~  258 (315)
T d1r6bx3         249 EARNWLAEKG  258 (315)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            9999998764

>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=99.58  E-value=1.1e-14  Score=121.84  Aligned_cols=178  Identities=18%  Similarity=0.273  Sum_probs=117.9

Q ss_pred             cccccchHHHHHHHHHHhc--------CCCC-eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHH
Q 021937           53 ADVAAHRDIVDTIDRLTSE--------NRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (305)
Q Consensus        53 ~~~~g~~~~~~~l~~~l~~--------~~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (305)
                      ..++||++.++.+...+..        .++. .++|+||+|+|||.+|+.+++.+...  ...++.++.+..........
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            3578999999988666542        1222 37899999999999999999998543  34566666655433222111


Q ss_pred             HHHHhhhccccc-------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-----------CCceEEEEecCC----
Q 021937          124 QIQDFASTQSFS-------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV----  181 (305)
Q Consensus       124 ~i~~~~~~~~~~-------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-----------~~~~iil~~~~~----  181 (305)
                      .+.....+....       .-.+.+.+||++||+|+++++.++.|++++++..           .+..+|+++|-.    
T Consensus       101 L~g~~~gyvG~~~~~~l~~~~~~~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~tsnlG~~~i  180 (315)
T d1qvra3         101 LIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLI  180 (315)
T ss_dssp             C--------------CHHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCTTHHHH
T ss_pred             hcCCCCCCcCcccCChHHHHHHhCCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEEEecccChHHH
Confidence            111100000000       0011236899999999999999999999998642           344566666521    


Q ss_pred             ----------------------cccchhhhcce-eEEEecCCCHHHHHHHHHHHHHH-------cC--CCCCHHHHHHHH
Q 021937          182 ----------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------EG--LDVTEGGLAALV  229 (305)
Q Consensus       182 ----------------------~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~~~~~~~~~~l~  229 (305)
                                            ..+.+.+.+|+ .++.|.+++.+++.+++...+.+       .+  +.+++++++.|+
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~Ii~F~~L~~~~~~~I~~~~l~~l~~rl~~~~i~l~i~~~~~~~L~  260 (315)
T d1qvra3         181 LEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLA  260 (315)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHH
T ss_pred             hhhcccccchhhhhHHHHHHHHhhcCHHHHhcCCeeeeccchhhhhhHHHHHHHHHHHHHHHHhccccccccHHHHHHHH
Confidence                                  23678888898 56789999999998887654442       23  357899999999


Q ss_pred             HHc
Q 021937          230 RLC  232 (305)
Q Consensus       230 ~~~  232 (305)
                      +.+
T Consensus       261 ~~~  263 (315)
T d1qvra3         261 ERG  263 (315)
T ss_dssp             HHH
T ss_pred             HhC
Confidence            874

>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=99.57  E-value=1.3e-14  Score=111.13  Aligned_cols=160  Identities=14%  Similarity=0.166  Sum_probs=112.1

Q ss_pred             hhhcCCCCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC-----CcccEEEeecCC----
Q 021937           44 VEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD----  114 (305)
Q Consensus        44 ~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-----~~~~~~~~~~~~----  114 (305)
                      .++.+...++.++|++..++++...+.....++++|+||||+|||++++.++..+....     ....++.++...    
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            34445567788999999999999999998888999999999999999999999885432     234566666543    


Q ss_pred             CcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHH--------HHHHHHHHHHHhcCCceEEEEecCC-----
Q 021937          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICNQV-----  181 (305)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~--------~~~~l~~~l~~~~~~~~iil~~~~~-----  181 (305)
                      ......+.+.+........-.    .+..|+||||+|.+...        ..+.|..++...  ...+|.+|+..     
T Consensus        93 ~~~rG~~E~rl~~il~e~~~~----~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg--~l~~IgatT~eey~~~  166 (195)
T d1jbka_          93 AKYRGEFEERLKGVLNDLAKQ----EGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVGATTLDEYRQY  166 (195)
T ss_dssp             TCSHHHHHHHHHHHHHHHHHS----TTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT--SCCEEEEECHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHHhcC----CCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCC--CceEEecCCHHHHHHH
Confidence            223344544444433222100    11479999999999532        235566666643  56677766422     


Q ss_pred             cccchhhhcceeEEEecCCCHHHHHHHH
Q 021937          182 NKIIPALQSRCTRFRFAPLEPVHVTERL  209 (305)
Q Consensus       182 ~~l~~~l~~r~~~i~~~~~~~~~~~~~l  209 (305)
                      ..-+++|.+||+.+.+.+|+.++...++
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            2457899999999999999999887654

>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=99.50  E-value=2.6e-13  Score=114.85  Aligned_cols=210  Identities=15%  Similarity=0.173  Sum_probs=120.5

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC-------CC---------------------
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG-------AQ---------------------  102 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~-------~~---------------------  102 (305)
                      .|.+++||+..+..|.-.+.....+|++|.||||+|||++|+.++..+..       ..                     
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            68999999999987776555333457999999999999999999986510       00                     


Q ss_pred             CcccEEEeecCCCcChhHH------HHHHHHhhhcccccCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhc-------
Q 021937          103 YHNMILELNASDDRGIDVV------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------  169 (305)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~------~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~-------  169 (305)
                      ....+....  .......+      .............+.-..++.+|+++||++.+.++.++.|++.+++..       
T Consensus        85 ~~~~~~~~~--~~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~~~~~~aLl~~me~~~v~i~r~g  162 (333)
T d1g8pa_          85 KPTPVVDLP--LGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDG  162 (333)
T ss_dssp             ECCCEEEEC--TTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTT
T ss_pred             ccCceeecc--CCCCcccccCcchhhhccccCcceeeccccccccccEeecccHHHHHHHHHHHHhhhhcCCeEEecccC
Confidence            000111111  01111111      111111111110111122346899999999999999999999999642       


Q ss_pred             ------CCceEEEEecCC-cccchhhhcce-eEEEecCCCH-HHHHHHHHHH----------------------------
Q 021937          170 ------KNTRFALICNQV-NKIIPALQSRC-TRFRFAPLEP-VHVTERLKHV----------------------------  212 (305)
Q Consensus       170 ------~~~~iil~~~~~-~~l~~~l~~r~-~~i~~~~~~~-~~~~~~l~~~----------------------------  212 (305)
                            ....++.++|.. ..+.+.+.+|+ ..+.+..+.. ....+++...                            
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                  233444455544 35788999998 4566766543 2222221110                            


Q ss_pred             -HHHcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHh---h--ccCccCHHHHHhhh
Q 021937          213 -IEAEGLDVTEGGLAALVRLC---NG-DMRKALNILQSTH---M--ASQQITEEAVYLCT  262 (305)
Q Consensus       213 -~~~~~~~~~~~~~~~l~~~~---~g-~~r~~~~~l~~~~---~--~~~~i~~~~v~~~~  262 (305)
                       ..-..+.++++....++...   +. ++|....+++.+-   .  ....++.++|.+++
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             00113445666555554432   22 6777777764332   2  34679999988754

>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=99.48  E-value=5.6e-13  Score=113.26  Aligned_cols=183  Identities=19%  Similarity=0.213  Sum_probs=114.6

Q ss_pred             ccccchHHHHHHHHHHh------------------------------cCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           54 DVAAHRDIVDTIDRLTS------------------------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~------------------------------~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      -++||++.++.+...+.                              ...+.++++.||+|||||.+|+.+++.+     
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~-----   92 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL-----   92 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT-----
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc-----
Confidence            58899999887765542                              2244559999999999999999999886     


Q ss_pred             cccEEEeecCCCcC--------hhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCc--------------CCHHHHHHH
Q 021937          104 HNMILELNASDDRG--------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA--------------MTKDAQFAL  161 (305)
Q Consensus       104 ~~~~~~~~~~~~~~--------~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~--------------l~~~~~~~l  161 (305)
                      ...++.++.+....        ...+...+.......     ...+.+++++||+++              ..+..++.|
T Consensus        93 ~~~~ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v-----~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~l  167 (364)
T d1um8a_          93 DIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNV-----QKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQAL  167 (364)
T ss_dssp             TCCEEEEEGGGCC--------CTHHHHHHHHHTTTCH-----HHHTTSEEEEETGGGC--------------CHHHHHHH
T ss_pred             ccceeehhhhhcccchhhHhhhccchhhhhhhchhHH-----HHhhcccchhhhhhhhccccccccccccccchHHHHhh
Confidence            44566665554322        122233332221111     123368999999999              445678999


Q ss_pred             HHHHHHhc-------------CCceEEEEecC------------------------------------------------
Q 021937          162 RRVIEKYT-------------KNTRFALICNQ------------------------------------------------  180 (305)
Q Consensus       162 ~~~l~~~~-------------~~~~iil~~~~------------------------------------------------  180 (305)
                      +++++...             .+..++.+++-                                                
T Consensus       168 Lqild~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (364)
T d1um8a_         168 LKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDL  247 (364)
T ss_dssp             HHHHHCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHH
T ss_pred             hhhhcCceeccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHH
Confidence            99999421             11112211110                                                


Q ss_pred             -Ccccchhhhcce-eEEEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc---CCCHHHHHHH
Q 021937          181 -VNKIIPALQSRC-TRFRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLC---NGDMRKALNI  242 (305)
Q Consensus       181 -~~~l~~~l~~r~-~~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~~~~l~~~~---~g~~r~~~~~  242 (305)
                       ...+.|.|..|+ .++.|.+++.+++.+++..           .+...|+  .+++++++.|++..   .--.|.+...
T Consensus       248 ~~~~f~PEf~gRi~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~~~gi~L~~td~a~~~la~~g~d~~~GAR~L~ri  327 (364)
T d1um8a_         248 VTYGLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAI  327 (364)
T ss_dssp             HHTTCCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHH
T ss_pred             hhhhhHHHHHHHhcchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhccCCCCCchHHHHH
Confidence             012567888888 6789999999999988852           2223455  56899999999865   2225555555


Q ss_pred             HHHH
Q 021937          243 LQST  246 (305)
Q Consensus       243 l~~~  246 (305)
                      ++..
T Consensus       328 ie~~  331 (364)
T d1um8a_         328 IEDF  331 (364)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

>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=3.3e-12  Score=104.86  Aligned_cols=187  Identities=17%  Similarity=0.158  Sum_probs=112.0

Q ss_pred             CCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC---cChhHHHHHHH
Q 021937           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD---RGIDVVRQQIQ  126 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~i~  126 (305)
                      .+.++|+|+++.+++|.+.    ..++++|+||+|+|||++++.+++....   ...++.......   .....+...+.
T Consensus         9 ~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~---~~~~i~~~~~~~~~~~~~~~~~~~~~   81 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNL---PYIYLDLRKFEERNYISYKDFLLELQ   81 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTC---CEEEEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             CChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCC---CeEEEEeccccccccccHHHHHHHHH
Confidence            3468999999999988763    3456899999999999999999988732   222222222111   11222222222


Q ss_pred             Hhhhc----c-------c-------------cc----------------CCCCCceEEEEEeCCCcCCHHHH----HHHH
Q 021937          127 DFAST----Q-------S-------------FS----------------FGVKASVKLVLLDEADAMTKDAQ----FALR  162 (305)
Q Consensus       127 ~~~~~----~-------~-------------~~----------------~~~~~~~~vliiDe~~~l~~~~~----~~l~  162 (305)
                      .....    .       .             ..                .....++.++++||++.+.....    ..+.
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            11100    0       0             00                00124567899999988754332    2333


Q ss_pred             HHHHHhcCCceEEEEecCCcc---------cchhh-hcceeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Q 021937          163 RVIEKYTKNTRFALICNQVNK---------IIPAL-QSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC  232 (305)
Q Consensus       163 ~~l~~~~~~~~iil~~~~~~~---------l~~~l-~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~  232 (305)
                      ..... ......++++.....         ....+ .++...+.+++++.++..+++.+.+...++..+  .++.+++.+
T Consensus       162 ~~~~~-~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~--~~~~i~~~~  238 (283)
T d2fnaa2         162 YAYDN-LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFK--DYEVVYEKI  238 (283)
T ss_dssp             HHHHH-CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCC--CHHHHHHHH
T ss_pred             HHHHh-hhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHH--HHHHHHHHh
Confidence            33333 235555555533211         11112 223477899999999999999998888776554  468999999


Q ss_pred             CCCHHHHHHHHHHH
Q 021937          233 NGDMRKALNILQST  246 (305)
Q Consensus       233 ~g~~r~~~~~l~~~  246 (305)
                      +|.|..+.-....+
T Consensus       239 ~G~P~~L~~~~~~~  252 (283)
T d2fnaa2         239 GGIPGWLTYFGFIY  252 (283)
T ss_dssp             CSCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            99998655444433

>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=99.29  E-value=7.8e-11  Score=96.59  Aligned_cols=180  Identities=16%  Similarity=0.076  Sum_probs=108.7

Q ss_pred             ccccchHHHHHHHHHHhc---CCCCeEEEECCCCCcHHHHHHHHHHHHhC--CCCcccEEEeecCCCcChhHHHHHHHHh
Q 021937           54 DVAAHRDIVDTIDRLTSE---NRLPHLLLYGPPGTGKTSTILAVARKLYG--AQYHNMILELNASDDRGIDVVRQQIQDF  128 (305)
Q Consensus        54 ~~~g~~~~~~~l~~~l~~---~~~~~~ll~G~~G~GKT~l~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (305)
                      .+.|++..++.+...+..   .....+.|+|++|+||||+|+.+.+....  ......++.++.........+...+...
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            366999999999888754   22234789999999999999999887432  1112223333333333333333333332


Q ss_pred             hhcccc--------c--------------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccch
Q 021937          129 ASTQSF--------S--------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIP  186 (305)
Q Consensus       129 ~~~~~~--------~--------------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~  186 (305)
                      ......        .              .....++.++++||++...  ...    .+.  ....++++||+.. .+..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~--~~~----~~~--~~~srilvTTR~~-~v~~  171 (277)
T d2a5yb3         101 LMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEE--TIR----WAQ--ELRLRCLVTTRDV-EISN  171 (277)
T ss_dssp             HHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHH--HHH----HHH--HTTCEEEEEESBG-GGGG
T ss_pred             HHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHh--hhh----hhc--ccCceEEEEeehH-HHHH
Confidence            211100        0              0012457899999998532  222    222  2255677777654 3444


Q ss_pred             hhhcceeEEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHH
Q 021937          187 ALQSRCTRFRFAPLEPVHVTERLKHVIEAEGL-DVTEGGLAALVRLCNGDMRKALNI  242 (305)
Q Consensus       187 ~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~g~~r~~~~~  242 (305)
                      .+......+.+++++.++..+++...+..... ...++....|++.|+|.|-.+.-.
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            55556678999999999999998665322211 113456788999999998666554

>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=99.21  E-value=1.9e-11  Score=101.07  Aligned_cols=120  Identities=13%  Similarity=0.081  Sum_probs=74.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc------ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~  150 (305)
                      ++++||||||||.+|++++.++.   ....++.++.+...      ....++..+..+..           ++||||||+
T Consensus       126 ~l~~G~pG~GKT~la~ala~~~~---~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~-----------~~ilf~DEi  191 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEALG---GKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ-----------HRVIVIDSL  191 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHHHH---TTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH-----------CSEEEEECC
T ss_pred             EEEECCCCccHHHHHHHHHHHhc---CCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh-----------ccEEEeehh
Confidence            67799999999999999999983   23456666666532      23344444444321           479999999


Q ss_pred             CcCCHH------------HHHHHHHHHHHh--cCCceEEEEecCCcccchhhh------cce-eEEEecCCCHHHHHHHH
Q 021937          151 DAMTKD------------AQFALRRVIEKY--TKNTRFALICNQVNKIIPALQ------SRC-TRFRFAPLEPVHVTERL  209 (305)
Q Consensus       151 ~~l~~~------------~~~~l~~~l~~~--~~~~~iil~~~~~~~l~~~l~------~r~-~~i~~~~~~~~~~~~~l  209 (305)
                      |.+...            ..+.|+.-++..  ..++.+|.+|| +..+++.+.      .|+ ..+.+.+|+.++..+++
T Consensus       192 d~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN-~~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r~~il  270 (321)
T d1w44a_         192 KNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLN-PTSNDDKIVELVKEASRSNSTSLVISTDVDGEWQVL  270 (321)
T ss_dssp             TTTC-----------CCHHHHHHHHHHHHHHHHHTCEEEEECC-CCCCCHHHHHHHHHHHHHSCSEEEEECSSTTEEEEE
T ss_pred             hhhccccccCCCCCcchhhhhhhhhhccccccCCCeEEEEeCC-CcccccchhhhhhccCcccceeecCCCChHHHHHHH
Confidence            999532            234555555532  23456666666 433333332      233 66788888877766665


Q ss_pred             HH
Q 021937          210 KH  211 (305)
Q Consensus       210 ~~  211 (305)
                      ..
T Consensus       271 ~~  272 (321)
T d1w44a_         271 TR  272 (321)
T ss_dssp             EE
T ss_pred             HH
Confidence            43

>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=99.16  E-value=6.1e-13  Score=112.86  Aligned_cols=148  Identities=18%  Similarity=0.127  Sum_probs=82.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCCH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK  155 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~~  155 (305)
                      .++|+||||||||++++++++.+     ...++.+++++......+    .....           ..+.++|+++....
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~~~-----~~~~i~in~s~~rs~~~l----~~~~~-----------~~~~l~d~~~~~~~  215 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLELC-----GGKALNVNLPLDRLNFEL----GVAID-----------QFLVVFEDVKGTGG  215 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-----CCEEECCSSCTTTHHHHH----GGGTT-----------CSCEEETTCCCSTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc-----CCCEEEEECcchhhHHHH----HhHHH-----------HHHHHHHHHHHhhh
Confidence            49999999999999999999998     556888887764322111    11111           22334555433210


Q ss_pred             -----------HHHHHHHHHHHHhc--------------CCceEEEEecCCcccchhhhcce-eEEEecCCC-HHHHHHH
Q 021937          156 -----------DAQFALRRVIEKYT--------------KNTRFALICNQVNKIIPALQSRC-TRFRFAPLE-PVHVTER  208 (305)
Q Consensus       156 -----------~~~~~l~~~l~~~~--------------~~~~iil~~~~~~~l~~~l~~r~-~~i~~~~~~-~~~~~~~  208 (305)
                                 +..+.+...++...              ...++|++||..... .....|+ ..+.+.+++ .....++
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                       11122333333211              112477888864321 1122355 334444433 3444566


Q ss_pred             HHHHHHHcCCCCCHHHHHH-HHHHcCCCHHHHHHHHH
Q 021937          209 LKHVIEAEGLDVTEGGLAA-LVRLCNGDMRKALNILQ  244 (305)
Q Consensus       209 l~~~~~~~~~~~~~~~~~~-l~~~~~g~~r~~~~~l~  244 (305)
                      +...+.++....+.+.+.. +...+++|++.+++.+.
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            7777777777777666655 44566678887777654

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=98.94  E-value=7.9e-08  Score=83.07  Aligned_cols=124  Identities=20%  Similarity=0.279  Sum_probs=77.7

Q ss_pred             eEEEEEeCCCcCC------------HHHHHHHHHHHHHhc----------CCceEEEEe----cCCcccchhhhcce-eE
Q 021937          142 VKLVLLDEADAMT------------KDAQFALRRVIEKYT----------KNTRFALIC----NQVNKIIPALQSRC-TR  194 (305)
Q Consensus       142 ~~vliiDe~~~l~------------~~~~~~l~~~l~~~~----------~~~~iil~~----~~~~~l~~~l~~r~-~~  194 (305)
                      ..++++||++...            ...+..++.+++...          .+..++..+    ..+..+.|.|..|+ .+
T Consensus       250 ~~~~~~dei~k~~~~~~~~g~d~~~eg~~~~ll~~~e~~~v~~~~~~~~~~~~l~i~~~~~~~~~~~gliPEliGRlPi~  329 (443)
T d1g41a_         250 NGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIR  329 (443)
T ss_dssp             HCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCGGGSCHHHHTTCCEE
T ss_pred             cCccccchhhhhhhcccCCCCCcccchhhhhhhhhccccccccccccccccchhhccccchhhcccccchhhhccceEEE
Confidence            3478888887753            123455666665321          112232222    12346789999998 77


Q ss_pred             EEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHcC-------C-CHHHHHHHHHHHhhc----
Q 021937          195 FRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLCN-------G-DMRKALNILQSTHMA----  249 (305)
Q Consensus       195 i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~~~~l~~~~~-------g-~~r~~~~~l~~~~~~----  249 (305)
                      +.+.+++.+++.+++..           .+...|+  .+++++++.|++.+-       + -.|.+...++.+...    
T Consensus       330 v~L~~L~~~dL~rILtEPknsLikQy~~lf~~~gv~L~ft~~al~~iA~~A~~~n~~~~~~GAR~Lr~i~E~~l~~~~f~  409 (443)
T d1g41a_         330 VELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFS  409 (443)
T ss_dssp             EECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHHHHHH
T ss_pred             EEccCccHHHHHHHHHhhhhhHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhhhhcccCCchHHHHHHHHHHHHHhcc
Confidence            89999999999888742           2223465  458999999987652       1 367777766655431    


Q ss_pred             -c------CccCHHHHHhhhCCC
Q 021937          250 -S------QQITEEAVYLCTGNP  265 (305)
Q Consensus       250 -~------~~i~~~~v~~~~~~~  265 (305)
                       .      -.|+.+.|++.+...
T Consensus       410 ~p~~~~~~v~Id~~~v~~~l~~~  432 (443)
T d1g41a_         410 ASDMNGQTVNIDAAYVADALGEV  432 (443)
T ss_dssp             GGGCTTCEEEECHHHHHHHHTTT
T ss_pred             CCCCCCCEEEECHHHHHhhhhch
Confidence             1      128888887777543

>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=98.56  E-value=1.3e-07  Score=71.49  Aligned_cols=25  Identities=28%  Similarity=0.610  Sum_probs=22.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .++|+||+|+||||+++.++..+..
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            4899999999999999999998843

>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=98.52  E-value=5.1e-07  Score=68.24  Aligned_cols=118  Identities=19%  Similarity=0.267  Sum_probs=72.2

Q ss_pred             hHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCC
Q 021937           59 RDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG  137 (305)
Q Consensus        59 ~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  137 (305)
                      -..+..|..++.+.+..+ ++|+|||+||||.++.++++.+.     ..++....... .                |...
T Consensus        37 ~~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~-----G~vis~~N~~s-~----------------F~Lq   94 (205)
T d1tuea_          37 ITFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ-----GAVISFVNSTS-H----------------FWLE   94 (205)
T ss_dssp             HHHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT-----CEECCCCCSSS-C----------------GGGG
T ss_pred             HHHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhC-----CEEEeccCCCC-C----------------cccc
Confidence            355667788886654444 89999999999999999999872     22222221110 0                1111


Q ss_pred             CCCceEEEEEeCCCcCCHHHHHH-HHHHHHHhc-------------CCceEEEEecCC---cccchhhhcceeEEEec
Q 021937          138 VKASVKLVLLDEADAMTKDAQFA-LRRVIEKYT-------------KNTRFALICNQV---NKIIPALQSRCTRFRFA  198 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~~~~~~~-l~~~l~~~~-------------~~~~iil~~~~~---~~l~~~l~~r~~~i~~~  198 (305)
                      .-....++++||+.......... +..+++..+             ..+.+++++|..   +.-.+.|.+|...+.|+
T Consensus        95 ~l~~~kv~l~dD~t~~~~~~~d~~lK~ll~G~~vsvd~KhK~~vqi~~pPliITsN~~~~~~d~~~~L~sRi~~f~F~  172 (205)
T d1tuea_          95 PLTDTKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFEFP  172 (205)
T ss_dssp             GGTTCSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEECC
T ss_pred             cccCCeEEEEeccccchHHHHHHHHHhccCCCeeeeecccCCcccccCCCEEEEcCCCCCccccchhhhheEEEEECC
Confidence            11125799999987665444444 455555311             234577777643   23456788999888877

>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=98.33  E-value=2.5e-07  Score=74.79  Aligned_cols=56  Identities=25%  Similarity=0.431  Sum_probs=37.8

Q ss_pred             ccccccchHHHHHHHHHHhcC---CCC-eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           52 LADVAAHRDIVDTIDRLTSEN---RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        52 ~~~~~g~~~~~~~l~~~l~~~---~~~-~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      |.+.-++....+.+.....+.   ..| .++|+||||||||++|++++..+     ...++.++.
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            333444555555555554432   223 38999999999999999999997     345666654

>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=98.25  E-value=5e-06  Score=69.65  Aligned_cols=114  Identities=16%  Similarity=0.241  Sum_probs=64.2

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCC-CCcccEEEeecCCCcChhHHHHHHHHhhhcccc------
Q 021937           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNASDDRGIDVVRQQIQDFASTQSF------  134 (305)
Q Consensus        62 ~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~------  134 (305)
                      ...+...+.+   +..+|+||||||||+++..+...+... .....-+.+..+.......+.+.+.........      
T Consensus       154 ~~A~~~al~~---~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~~~~~~~~~~~~~~~  230 (359)
T d1w36d1         154 KVAAAVALTR---RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKK  230 (359)
T ss_dssp             HHHHHHHHTB---SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHTHHHHHSSCCSCCCC
T ss_pred             HHHHHHHHcC---CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHHHHHHhhcCchhhhhh
Confidence            3344444432   358999999999999987776655321 111222333444434444444433322111100      


Q ss_pred             ------------------------cCCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          135 ------------------------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       135 ------------------------~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                                              ......+..++||||+..++...   +..++...+...++|++++..
T Consensus       231 ~~~~~~~t~~~ll~~~~~~~~~~~~~~~~l~~d~lIIDEaSmv~~~l---~~~ll~~~~~~~~lILvGD~~  298 (359)
T d1w36d1         231 RIPEDASTLHRLLGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPM---MSRLIDALPDHARVIFLGDRD  298 (359)
T ss_dssp             SCSCCCBTTTSCC-----------CTTSCCSCSEEEECSGGGCBHHH---HHHHHHTCCTTCEEEEEECTT
T ss_pred             hhhhhhhHHHHHHhhhhcchHHHHhhhcccccceeeehhhhccCHHH---HHHHHHHhcCCCEEEEECChh
Confidence                                    00111245799999999998554   445555566678899998764

>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=98.19  E-value=1.8e-06  Score=64.75  Aligned_cols=77  Identities=14%  Similarity=0.101  Sum_probs=45.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l~  154 (305)
                      ..++++|+||+||||+++.++...     .  +..++.-.......+...+......          +..+|+|... ..
T Consensus        15 ~liil~G~pGsGKST~a~~l~~~~-----~--~~~i~~D~~~~~~~~~~~~~~~l~~----------g~~vIiD~t~-~~   76 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLVSA-----G--YVHVNRDTLGSWQRCVSSCQAALRQ----------GKRVVIDNTN-PD   76 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTGGG-----T--CEEEEHHHHCSHHHHHHHHHHHHHT----------TCCEEEESCC-CS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhc-----C--CEEEchHHHHHHHHHHHHHHHHHHC----------CCCceeeCcC-CC
Confidence            348999999999999999887653     2  2333322222233333333333222          2457778665 45


Q ss_pred             HHHHHHHHHHHHHhc
Q 021937          155 KDAQFALRRVIEKYT  169 (305)
Q Consensus       155 ~~~~~~l~~~l~~~~  169 (305)
                      ......+..+..+..
T Consensus        77 ~~~R~~~~~~a~~~~   91 (172)
T d1yj5a2          77 VPSRARYIQCAKDAG   91 (172)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcC
Confidence            566667777776654

>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=98.18  E-value=8e-06  Score=62.63  Aligned_cols=48  Identities=23%  Similarity=0.216  Sum_probs=35.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR  122 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (305)
                      ..++|+||+|+||||++..++..+...+....++..+..+....+.++
T Consensus         7 ~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~   54 (207)
T d1okkd2           7 RVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLS   54 (207)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhHh
Confidence            447899999999999999999988777766666666655544444443

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=98.17  E-value=7.7e-06  Score=62.80  Aligned_cols=96  Identities=19%  Similarity=0.216  Sum_probs=56.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccccc--CC--------------CCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS--FG--------------VKA  140 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--~~--------------~~~  140 (305)
                      ++|.||+|+||||++..+|..+...+....++..+..+....+.++..-... ......  .+              ...
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l-~v~~~~~~~~~~~~~~~~~~~~~~~~~   91 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKV-GVPVLEVMDGESPESIRRRVEEKARLE   91 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHH-TCCEEECCTTCCHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhc-CCccccccccchhhHHHHHHHHHHhhc
Confidence            7889999999999999999988777766666655554433233322222111 110000  00              013


Q ss_pred             ceEEEEEeCCCcCC--HHHHHHHHHHHHHhcCCce
Q 021937          141 SVKLVLLDEADAMT--KDAQFALRRVIEKYTKNTR  173 (305)
Q Consensus       141 ~~~vliiDe~~~l~--~~~~~~l~~~l~~~~~~~~  173 (305)
                      ...+|+||=+.+..  ......|.++.+...+...
T Consensus        92 ~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~  126 (207)
T d1ls1a2          92 ARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEV  126 (207)
T ss_dssp             TCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEE
T ss_pred             cCcceeecccccchhhhhhHHHHHHHHhhcCCceE
Confidence            35788898877664  3455666666665544433

>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=98.13  E-value=4.5e-06  Score=64.13  Aligned_cols=41  Identities=29%  Similarity=0.367  Sum_probs=31.6

Q ss_pred             CCe-EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           74 LPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        74 ~~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      .|+ ++|.||+|+||||++..+|..+...+....++..+..+
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R   49 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFR   49 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeccccc
Confidence            344 77999999999999999999887776665555555444

>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=98.11  E-value=1.5e-05  Score=61.38  Aligned_cols=89  Identities=17%  Similarity=0.243  Sum_probs=54.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCC----------------CCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG----------------VKA  140 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~----------------~~~  140 (305)
                      ++|+||+|+||||++..+|..+...+....++..+..+....+.++..-... ....+...                ...
T Consensus        14 i~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l-~i~~~~~~~~~d~~~~~~~~~~~~~~~   92 (213)
T d1vmaa2          14 IMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERV-GATVISHSEGADPAAVAFDAVAHALAR   92 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHH-TCEEECCSTTCCHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccccchhHHHHHHhhhc-CccccccCCCCcHHHHHHHHHHHHHHc
Confidence            7899999999999999999988777777777777766544344333322221 11000000                012


Q ss_pred             ceEEEEEeCCCcCCHH--HHHHHHHHHH
Q 021937          141 SVKLVLLDEADAMTKD--AQFALRRVIE  166 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~--~~~~l~~~l~  166 (305)
                      ...+|+||=+.+...+  ..+.+..+.+
T Consensus        93 ~~d~ilIDTaGr~~~d~~~~~el~~~~~  120 (213)
T d1vmaa2          93 NKDVVIIDTAGRLHTKKNLMEELRKVHR  120 (213)
T ss_dssp             TCSEEEEEECCCCSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEeccccccchHHHHHHHHHHHh
Confidence            4578999988776633  3344444444

>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=98.10  E-value=8.7e-06  Score=58.23  Aligned_cols=29  Identities=10%  Similarity=0.335  Sum_probs=22.1

Q ss_pred             CceEEEEEeCCCcCCHHHHHHHHHHHHHh
Q 021937          140 ASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~~~~~l~~~l~~~  168 (305)
                      .+.++||+||+|.+.......+..+++..
T Consensus        93 ~~~~~vIiDE~H~~~~~~~~~~~~~l~~~  121 (136)
T d1a1va1          93 GAYDIIICDECHSTDATSILGIGTVLDQA  121 (136)
T ss_dssp             CCCSEEEEETTTCCSHHHHHHHHHHHHHT
T ss_pred             hcCCEEEEecccccCHHHHHHHHHHHHHH
Confidence            34579999999999987766676666643

>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=98.07  E-value=1.2e-05  Score=61.76  Aligned_cols=142  Identities=12%  Similarity=0.129  Sum_probs=69.4

Q ss_pred             Ce-EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCC----------------
Q 021937           75 PH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG----------------  137 (305)
Q Consensus        75 ~~-~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~----------------  137 (305)
                      |+ ++|.||+|+||||++..+|..+...+....++..+..+....+.++..-. .....-+...                
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~-~l~v~~~~~~~~~~~~~~~~~a~~~~   90 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQ-QIGVPVYGEPGEKDVVGIAKRGVEKF   90 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHH-HHTCCEECCTTCCCHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHHHHhcc-ccCcceeecccchhhhHHHHHHHHHh
Confidence            44 78899999999999999999887777776666666555333333222211 1111100000                


Q ss_pred             CCCceEEEEEeCCCcCCHH----HHHHHHHHHHHhcCCce-EEEEecCCcccchhhhcc-----eeEEEecCCCHHHHHH
Q 021937          138 VKASVKLVLLDEADAMTKD----AQFALRRVIEKYTKNTR-FALICNQVNKIIPALQSR-----CTRFRFAPLEPVHVTE  207 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~~~----~~~~l~~~l~~~~~~~~-iil~~~~~~~l~~~l~~r-----~~~i~~~~~~~~~~~~  207 (305)
                      ......+|+||=+.+...+    ....+.++.+...+... +++.++...........+     ...+-|-.+++.....
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            0133689999988764322    23455556665544333 333333222222222222     1334566666544444


Q ss_pred             HHHHHHHHcC
Q 021937          208 RLKHVIEAEG  217 (305)
Q Consensus       208 ~l~~~~~~~~  217 (305)
                      -+-..+...+
T Consensus       171 ~~l~~~~~~~  180 (211)
T d1j8yf2         171 GALSAVAATG  180 (211)
T ss_dssp             HHHHHHHTTT
T ss_pred             HHHHHHHHHC
Confidence            4444444433

>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=98.04  E-value=1.9e-05  Score=57.38  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++++|+||+||||+++.+.+..
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7899999999999999987753

>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=97.99  E-value=2.2e-05  Score=55.98  Aligned_cols=38  Identities=11%  Similarity=0.157  Sum_probs=23.3

Q ss_pred             CceEEEEEeCCCcCCHHHHH--HHHHHHHHhcCCceEEEEe
Q 021937          140 ASVKLVLLDEADAMTKDAQF--ALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~~~~--~l~~~l~~~~~~~~iil~~  178 (305)
                      .+.+++|+||+|.+++....  .+...+...+ +..+++.|
T Consensus        97 ~~~~lvIiDEaH~~~~~~~~~~~~~~~~~~~~-~~~~l~lT  136 (140)
T d1yksa1          97 VNWEVIIMDEAHFLDPASIAARGWAAHRARAN-ESATILMT  136 (140)
T ss_dssp             CCCSEEEETTTTCCSHHHHHHHHHHHHHHHTT-SCEEEEEC
T ss_pred             cceeEEEEccccccChhhHHHHHHHHHHhhCC-CCCEEEEE
Confidence            34679999999999866433  2333333333 55555554

>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=97.96  E-value=4.7e-06  Score=65.60  Aligned_cols=44  Identities=20%  Similarity=0.418  Sum_probs=34.1

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~  183 (305)
                      .++.++++||. -.++......+++.+.+..++..+|++|.+...
T Consensus       156 ~~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~~  200 (241)
T d2pmka1         156 NNPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIIIAHRLST  200 (241)
T ss_dssp             TCCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEECSSGGG
T ss_pred             cccchhhhhCCccccCHHHHHHHHHHHHHHhCCCEEEEEECCHHH
Confidence            56789999995 557788888888888877666677778877653

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.94  E-value=3.2e-06  Score=63.63  Aligned_cols=28  Identities=39%  Similarity=0.666  Sum_probs=24.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      .+++|+||||+||||+++.++..+...+
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            4699999999999999999999986443

>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=97.93  E-value=4.2e-06  Score=62.27  Aligned_cols=25  Identities=48%  Similarity=0.715  Sum_probs=22.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.++|+||||+||||+++.+++.+
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            3568999999999999999999988

>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=97.87  E-value=5e-06  Score=61.26  Aligned_cols=23  Identities=35%  Similarity=0.644  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++|+||+|+||||+++.+++.+
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

>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=97.86  E-value=3.7e-05  Score=60.01  Aligned_cols=43  Identities=16%  Similarity=0.280  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      ..+.++++|| .-.+++.....+.+++.+...  +..++++|.+..
T Consensus       153 ~~P~iLllDEPts~LD~~~~~~i~~ll~~l~~~~g~tii~vTHd~~  198 (239)
T d1v43a3         153 VEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQV  198 (239)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             cCCCceeecCCcccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCHH
Confidence            6688999999 567888888888888876532  456777776543

>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=97.86  E-value=7.3e-06  Score=60.77  Aligned_cols=38  Identities=21%  Similarity=0.250  Sum_probs=30.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      |.+.|+|++|+|||||++.+++.+...+....++..+.
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~~d~   40 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTH   40 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECC
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEecccc
Confidence            56899999999999999999999877766555554443

>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=97.82  E-value=8.5e-06  Score=64.67  Aligned_cols=43  Identities=21%  Similarity=0.433  Sum_probs=33.0

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .++.++++||. -.++......+++.+.+...+..+|++|.+..
T Consensus       169 ~~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~  212 (253)
T d3b60a1         169 RDSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLS  212 (253)
T ss_dssp             HCCSEEEEETTTSSCCHHHHHHHHHHHHHHHTTSEEEEECSCGG
T ss_pred             cCCCEEEeccccccCCHHHHHHHHHHHHHhccCCEEEEEECCHH
Confidence            45779999995 55778888888888887766667777776654

>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=97.82  E-value=0.0001  Score=57.28  Aligned_cols=43  Identities=16%  Similarity=0.234  Sum_probs=30.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc--CCceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT--KNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~--~~~~iil~~~~~~  182 (305)
                      .++.++++|| .-.+++.....+++++.+..  .+..+|++|.+..
T Consensus       147 ~~P~illlDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~  192 (232)
T d2awna2         147 AEPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLGRTMIYVTHDQV  192 (232)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHH
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            5678999999 56678887777887776542  2556667776543

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=97.80  E-value=5e-05  Score=60.65  Aligned_cols=126  Identities=14%  Similarity=0.181  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCC
Q 021937           60 DIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG  137 (305)
Q Consensus        60 ~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  137 (305)
                      .....+..++.+..  ...++|+||+++|||+++..+.+.+-      .+..++.....                 |...
T Consensus        88 ~f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg------~~~~~~~~~~~-----------------f~l~  144 (267)
T d1u0ja_          88 YAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP------FYGCVNWTNEN-----------------FPFN  144 (267)
T ss_dssp             HHHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS------CEEECCTTCSS-----------------CTTG
T ss_pred             HHHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHhc------chhhccccCCC-----------------cccc
Confidence            34456666675442  22389999999999999999998861      12222222111                 1111


Q ss_pred             CCCceEEEEEeCCCcCCHHHHHHHHHHHHHh--------------cCCceEEEEecCCcc----------cchhhhccee
Q 021937          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKY--------------TKNTRFALICNQVNK----------IIPALQSRCT  193 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~--------------~~~~~iil~~~~~~~----------l~~~l~~r~~  193 (305)
                      .-....++++||...-. ...+.+-.++..-              .+...+|+++++...          -...+.+|..
T Consensus       145 ~l~~k~~~~~~e~~~~~-~~~~~~K~l~gGd~i~v~~K~k~~~~~~~~p~li~s~n~i~~~~~~~~~~~~~~~~l~~R~~  223 (267)
T d1u0ja_         145 DCVDKMVIWWEEGKMTA-KVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDRMF  223 (267)
T ss_dssp             GGSSCSEEEECSCCEET-TTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHTTEE
T ss_pred             ccCCCEEEEEeCCCccc-cHHHHHHHhcCCCceEeecccCCCcEeeCCeEEEEeCCCcccccCCCccccccchHhhhhEE
Confidence            11226899999987544 3344555555421              123345555555432          2467899988


Q ss_pred             EEEecC--------CCHHHHHHHH
Q 021937          194 RFRFAP--------LEPVHVTERL  209 (305)
Q Consensus       194 ~i~~~~--------~~~~~~~~~l  209 (305)
                      .+.|..        ++.+++..++
T Consensus       224 ~~~F~~~~p~~~~~i~~~e~k~f~  247 (267)
T d1u0ja_         224 KFELTRRLDHDFGKVTKQEVKDFF  247 (267)
T ss_dssp             EEECCSCCCTTSCCCCHHHHHHHH
T ss_pred             EEECCCcCCCccCCCCHHHHHHHH
Confidence            877654        3445555555

>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=97.80  E-value=3.8e-05  Score=60.19  Aligned_cols=51  Identities=14%  Similarity=0.281  Sum_probs=33.9

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCC-ceEEEEecCCcccchhhhcc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKN-TRFALICNQVNKIIPALQSR  191 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~-~~iil~~~~~~~l~~~l~~r  191 (305)
                      ..+.++++|| ...+++.....+.+++.+.... ..+++++...+. ...+..|
T Consensus       150 ~~p~illLDEPt~gLD~~~~~~i~~~i~~~~~~g~tii~~tH~l~~-~~~~~dr  202 (238)
T d1vpla_         150 VNPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNMLE-VEFLCDR  202 (238)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCHHH-HTTTCSE
T ss_pred             cCCCEEEecCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH-HHHhCCE
Confidence            6678999999 5678888888888888765433 455566655432 2334444

>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=97.77  E-value=6.4e-06  Score=62.03  Aligned_cols=23  Identities=17%  Similarity=0.322  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+||+|+||||+++++++.+
T Consensus         9 ~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           9 TVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEEEECCTTSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>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=97.77  E-value=8.3e-06  Score=60.48  Aligned_cols=24  Identities=38%  Similarity=0.654  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      |.++|.|+||+||||+++.+++.+
T Consensus         2 p~IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHh
Confidence            558888999999999999999998

>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=97.76  E-value=8.7e-06  Score=60.90  Aligned_cols=27  Identities=22%  Similarity=0.241  Sum_probs=23.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      .++|+|+||+||||+++++++.+....
T Consensus         8 ~I~l~G~~GsGKTTia~~La~~L~~~~   34 (183)
T d1m8pa3           8 TIFLTGYMNSGKDAIARALQVTLNQQG   34 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            378999999999999999999985433

>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=97.74  E-value=1.1e-05  Score=61.27  Aligned_cols=27  Identities=30%  Similarity=0.382  Sum_probs=23.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      ++|+|+||+||||+++.++..+.....
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            679999999999999999999855443

>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=97.73  E-value=2.9e-05  Score=59.64  Aligned_cols=32  Identities=22%  Similarity=0.215  Sum_probs=25.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEE
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (305)
                      ++++|.||+||||+++.+++.+...+.....+
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~   36 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYLNFIGVPTREF   36 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCCCeEE
Confidence            78999999999999999999886554443333

>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=97.72  E-value=1.3e-05  Score=59.43  Aligned_cols=22  Identities=36%  Similarity=0.611  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++|+|+||+||||+++.+++.+
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            7899999999999999999998

>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=97.71  E-value=7.7e-06  Score=64.87  Aligned_cols=44  Identities=14%  Similarity=0.375  Sum_probs=33.6

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~  183 (305)
                      .++.++++||. -.++......+++.+.....+..+|++|.+...
T Consensus       171 ~~p~ililDEpts~LD~~t~~~i~~~l~~l~~~~TvI~itH~~~~  215 (255)
T d2hyda1         171 NNPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLST  215 (255)
T ss_dssp             HCCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGGG
T ss_pred             cCCCEEEEeCccccCCHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            45779999995 557788888899999877666667777766543

>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=97.70  E-value=4.4e-05  Score=59.55  Aligned_cols=43  Identities=16%  Similarity=0.206  Sum_probs=31.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| .-.+++.....+.+++.+...  +..+|++|.+..
T Consensus       143 ~~P~illlDEPts~LD~~~~~~i~~~i~~l~~~~g~tvi~vtHd~~  188 (240)
T d2onka1         143 IQPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPILHVTHDLI  188 (240)
T ss_dssp             TCCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCEEEEESCHH
T ss_pred             ccCCceEecCccccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCHH
Confidence            6688999999 567888888888888876532  455666776543

>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=97.70  E-value=5e-05  Score=59.36  Aligned_cols=43  Identities=16%  Similarity=0.346  Sum_probs=31.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.+|++|| ...+++.....+.+++.+...  ...++++|.+..
T Consensus       157 ~~P~lLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHdl~  202 (240)
T d3dhwc1         157 SNPKVLLCDEATSALDPATTRSILELLKDINRRLGLTILLITHEMD  202 (240)
T ss_dssp             TCCSEEEEESGGGSSCHHHHHHHHHHHHHHHHHHCCEEEEEBSCHH
T ss_pred             cCCCeEEeccccccCCHHHhhHHHHHHHHHHhccCCEEEEEcCCHH
Confidence            6678999999 566788888888888876532  455666665543

>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=97.70  E-value=1.9e-05  Score=61.31  Aligned_cols=43  Identities=21%  Similarity=0.271  Sum_probs=31.9

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhc--CCceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYT--KNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~--~~~~iil~~~~~~  182 (305)
                      .++.++++|| .-.+++.....+.+++.+..  .+..++++|.+..
T Consensus       144 ~~P~iLllDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vtHd~~  189 (229)
T d3d31a2         144 TNPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLHITHDQT  189 (229)
T ss_dssp             SCCSEEEEESSSTTSCHHHHHHHHHHHHHHHHHTTCEEEEEESCHH
T ss_pred             ccCCceeecCCCcCCCHHHHHHHHHHHHHHHhcCCcEEEEEcCCHH
Confidence            6788999999 56788888888888887653  2456777776543

>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=97.70  E-value=1.1e-05  Score=60.07  Aligned_cols=24  Identities=46%  Similarity=0.686  Sum_probs=22.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++|+||||+||||+++.+++.+
T Consensus         6 ~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           6 INILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHh
Confidence            459999999999999999999986

>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=97.66  E-value=1.1e-05  Score=59.98  Aligned_cols=22  Identities=36%  Similarity=0.688  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++|+||||+||||+++.+++.+
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            7899999999999999999986

>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=97.65  E-value=0.00011  Score=57.38  Aligned_cols=43  Identities=12%  Similarity=0.242  Sum_probs=31.7

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| .-.+++.....+++++.+...  +..+|++|.+.+
T Consensus       156 ~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHd~~  201 (240)
T d1g2912         156 RKPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQV  201 (240)
T ss_dssp             TCCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             cCCCEEEecCCCcccCHHHHHHHHHHHHHHHhccCCEEEEEcCCHH
Confidence            6688999999 566788888888888876532  566777776643

>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=97.65  E-value=0.00015  Score=56.19  Aligned_cols=43  Identities=12%  Similarity=0.329  Sum_probs=32.3

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.++++|| .-.+++.....+++++.+...  +..+|++|.+.+
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            6678999999 466788888888888887532  456777776643

>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=97.62  E-value=1.9e-05  Score=58.20  Aligned_cols=23  Identities=30%  Similarity=0.550  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++|.|+||+||||+++.+++.+
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh
Confidence            47889999999999999999998

>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=97.62  E-value=2.8e-05  Score=57.78  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+|+||+||||+++.+++.+
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            48899999999999999999997

>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=97.62  E-value=0.00077  Score=52.18  Aligned_cols=52  Identities=13%  Similarity=0.132  Sum_probs=41.4

Q ss_pred             CccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        51 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      .|..-..|....+.+...+....+...+|+|..|+|||.++-..+......+
T Consensus        53 P~~lt~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g  104 (233)
T d2eyqa3          53 PFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNH  104 (233)
T ss_dssp             CSCCCHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTTT
T ss_pred             ccccchhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHHcC
Confidence            3445556888888999999999888899999999999998877776654443

>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=97.61  E-value=1.3e-05  Score=59.64  Aligned_cols=31  Identities=32%  Similarity=0.404  Sum_probs=24.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      .++|.||||+||||+++.+++.+     ...++.++
T Consensus         6 iI~l~G~~GsGKSTia~~La~~l-----g~~~~~~~   36 (176)
T d1zp6a1           6 ILLLSGHPGSGKSTIAEALANLP-----GVPKVHFH   36 (176)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTCS-----SSCEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-----CCCEEEec
Confidence            47899999999999999998875     44455543

>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=97.60  E-value=2.1e-05  Score=58.48  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++|.|++|+||||+++.+++.+
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47889999999999999999998

>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=97.60  E-value=8.8e-05  Score=58.22  Aligned_cols=46  Identities=17%  Similarity=0.302  Sum_probs=32.7

Q ss_pred             HHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           64 TIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        64 ~l~~~l~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      .|.+.+.++-++  ..+|+|+||+|||+++..++......+....++.
T Consensus        14 ~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          14 RLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             HHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            345555554333  3899999999999999999998766555444444

>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=97.60  E-value=0.00013  Score=55.68  Aligned_cols=39  Identities=15%  Similarity=0.215  Sum_probs=26.9

Q ss_pred             ceEEEEEeCCCcCCHH----HHHHHHHHHHHhcCCceEEEEec
Q 021937          141 SVKLVLLDEADAMTKD----AQFALRRVIEKYTKNTRFALICN  179 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~----~~~~l~~~l~~~~~~~~iil~~~  179 (305)
                      ...+|++||+|.+..+    ....++..+...+++.++++.|.
T Consensus       138 ~~~~ii~DE~h~~~~~~r~~~~~~~l~~i~~~~~~~~~l~lSA  180 (202)
T d2p6ra3         138 AVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSA  180 (202)
T ss_dssp             GCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEEC
T ss_pred             hhhhccccHHHHhcccccchHHHHHHHHHHhcCCCCcEEEEcC
Confidence            4579999999988533    34456666666666777776653

>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=97.58  E-value=2.7e-05  Score=61.58  Aligned_cols=43  Identities=16%  Similarity=0.357  Sum_probs=31.6

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.|+++||. -.++......+.+.+.+...  +..+|+++.+..
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            56789999995 66778888888888876543  345666776643

>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=97.55  E-value=2.6e-05  Score=59.21  Aligned_cols=27  Identities=22%  Similarity=0.528  Sum_probs=23.3

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           72 NRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        72 ~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.++|.||||+||||+++.+++.+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            344458999999999999999999987

>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=97.54  E-value=4.1e-05  Score=57.42  Aligned_cols=32  Identities=19%  Similarity=0.292  Sum_probs=26.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccE
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMI  107 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~  107 (305)
                      .++|.|++|+||||+++.+++.+...+.....
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            47899999999999999999999766655443

>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=97.54  E-value=2.6e-05  Score=61.24  Aligned_cols=52  Identities=17%  Similarity=0.158  Sum_probs=36.2

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCC-ceEEEEecCCcccchhhhcce
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTKN-TRFALICNQVNKIIPALQSRC  192 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~-~~iil~~~~~~~l~~~l~~r~  192 (305)
                      .++.++++|| .-.+++.....+++++.+.... ..+++++.+.... ..+..|.
T Consensus       156 ~~P~lLllDEPt~gLD~~~~~~i~~~i~~l~~~g~til~~tH~l~~~-~~~~drv  209 (240)
T d1ji0a_         156 SRPKLLMMDEPSLGLAPILVSEVFEVIQKINQEGTTILLVEQNALGA-LKVAHYG  209 (240)
T ss_dssp             TCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHTTCCEEEEESCHHHH-HHHCSEE
T ss_pred             hCCCEeeecCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHH-HHhCCEE
Confidence            6688999999 5778888889999998876433 4566666654432 2444453

>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=2.8e-05  Score=58.85  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=22.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +..++|.||||+||||+++.+++.+
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            4458999999999999999999987

>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=97.51  E-value=0.00014  Score=61.66  Aligned_cols=92  Identities=20%  Similarity=0.294  Sum_probs=58.4

Q ss_pred             CCccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC-------------c
Q 021937           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-------------R  116 (305)
Q Consensus        50 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~-------------~  116 (305)
                      .+++++--.+...+.+++++.... ..++++||+|+||||++..+.+.+.....  .++.+..+-.             .
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            356676667777777777765543 34899999999999999999999865432  2333322211             0


Q ss_pred             ChhHHHHHHHHhhhcccccCCCCCceEEEEEeCCCcC
Q 021937          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (305)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDe~~~l  153 (305)
                      ........+..+.+         ..+++|+|.|+-..
T Consensus       212 ~~~~~~~~l~~~lR---------~dPDvi~igEiRd~  239 (401)
T d1p9ra_         212 VDMTFARGLRAILR---------QDPDVVMVGEIRDL  239 (401)
T ss_dssp             GTBCHHHHHHHHGG---------GCCSEEEESCCCSH
T ss_pred             cCCCHHHHHHHHHh---------hcCCEEEecCcCCh
Confidence            11123344444433         33799999998754

>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=97.49  E-value=6.4e-05  Score=58.69  Aligned_cols=43  Identities=14%  Similarity=0.258  Sum_probs=29.5

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC--CceEEEEecCCc
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~--~~~iil~~~~~~  182 (305)
                      .++.+|++|| .-.+++.....+.+++.+...  +..+|++|.+..
T Consensus       157 ~~P~llllDEPt~~LD~~~~~~i~~~i~~l~~~~g~tvi~vTHd~~  202 (242)
T d1oxxk2         157 KDPSLLLLDEPFSNLDARMRDSARALVKEVQSRLGVTLLVVSHDPA  202 (242)
T ss_dssp             TCCSEEEEESTTTTSCGGGHHHHHHHHHHHHHHHCCEEEEEESCHH
T ss_pred             hcccceeecCCccCCCHHHHHHHHHHHHHHHhccCCEEEEEECCHH
Confidence            6688999999 456777777777777765422  455667776543

>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=97.49  E-value=9.6e-05  Score=58.00  Aligned_cols=43  Identities=16%  Similarity=0.405  Sum_probs=28.5

Q ss_pred             CceEEEEEeCC-CcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          140 ASVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       140 ~~~~vliiDe~-~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      .++.|+++||. -.++......+.+.+.+..++..+|+++.+..
T Consensus       156 ~~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~  199 (242)
T d1mv5a_         156 RNPKILMLDEATASLDSESESMVQKALDSLMKGRTTLVIAHRLS  199 (242)
T ss_dssp             HCCSEEEEECCSCSSCSSSCCHHHHHHHHHHTTSEEEEECCSHH
T ss_pred             cCCCEEEecCCccccCHHHHHHHHHHHHHHcCCCEEEEEECCHH
Confidence            55779999995 34444455566667766555666777776654

>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=97.47  E-value=0.00024  Score=54.29  Aligned_cols=39  Identities=21%  Similarity=0.275  Sum_probs=28.3

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      -++...+.+..++..   .+.++.+|+|+|||.++-.++..+
T Consensus        71 Lr~yQ~eav~~~~~~---~~~ll~~~tG~GKT~~a~~~~~~~  109 (206)
T d2fz4a1          71 LRDYQEKALERWLVD---KRGCIVLPTGSGKTHVAMAAINEL  109 (206)
T ss_dssp             CCHHHHHHHHHHTTT---SEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             cCHHHHHHHHHHHhC---CCcEEEeCCCCCceehHHhHHHHh
Confidence            455555666665543   346788999999999988888776

>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=97.44  E-value=0.00011  Score=55.88  Aligned_cols=24  Identities=29%  Similarity=0.483  Sum_probs=21.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..+.|.||.|+||||+++.++..+
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhccc
Confidence            348899999999999999998765

>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=5.8e-05  Score=56.80  Aligned_cols=30  Identities=27%  Similarity=0.382  Sum_probs=25.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcc
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~  105 (305)
                      .++|.|++|+||||+++.+++.+...+...
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            468999999999999999999996665544

>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=97.40  E-value=6e-05  Score=57.25  Aligned_cols=25  Identities=20%  Similarity=0.502  Sum_probs=22.3

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.++|.||||+||||.++.+++.+
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3458899999999999999999986

>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=97.40  E-value=0.00011  Score=58.24  Aligned_cols=52  Identities=10%  Similarity=0.208  Sum_probs=35.1

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCcccchhhhcce
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVNKIIPALQSRC  192 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~~l~~~l~~r~  192 (305)
                      .++.++++|| .-.++......+++++.+... ...+++++.+.+.. ..+..|.
T Consensus       167 ~~P~llilDEPt~gLD~~~~~~i~~~i~~l~~~g~til~vsHdl~~~-~~~~Drv  220 (254)
T d1g6ha_         167 TNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIV-LNYIDHL  220 (254)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCCSTT-GGGCSEE
T ss_pred             hCcCchhhcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCcHHHH-HHhCCEE
Confidence            5678999999 566888888888888876543 45566666655433 3344443

>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=97.39  E-value=7.7e-05  Score=54.99  Aligned_cols=37  Identities=11%  Similarity=0.044  Sum_probs=30.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      .+.++|.+|+||||++..+++.+...++...++..+.
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            3679999999999999999999987777666655443

>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=97.38  E-value=7.2e-05  Score=55.94  Aligned_cols=23  Identities=30%  Similarity=0.556  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||||+||||.++.+++.+
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            37899999999999999999987

>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=97.37  E-value=0.00075  Score=51.69  Aligned_cols=41  Identities=22%  Similarity=0.383  Sum_probs=29.5

Q ss_pred             ceEEEEEeCCCcCCHH-HHHHHHHHHHHhcCCceEEEEecCC
Q 021937          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~-~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      +...+++||+|.+... -.+.+.++++..+.+..+++.+...
T Consensus       151 ~l~~lVlDEad~lld~~f~~~v~~I~~~~~~~~Q~vl~SAT~  192 (212)
T d1qdea_         151 KIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATM  192 (212)
T ss_dssp             TCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESSC
T ss_pred             cceEEeehhhhhhcccchHHHHHHHHHhCCCCCeEEEEEeeC
Confidence            3578999999988653 3556777777777777777766443

>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=97.37  E-value=0.00015  Score=54.72  Aligned_cols=28  Identities=21%  Similarity=0.205  Sum_probs=23.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCc
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYH  104 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (305)
                      +-|+|++|+||||+++.++..+...+..
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~~~~~~   52 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLREQGIS   52 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcccccc
Confidence            5599999999999999999988654433

>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=97.36  E-value=8.1e-05  Score=56.35  Aligned_cols=24  Identities=25%  Similarity=0.490  Sum_probs=22.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.++|.||||+||||.++.+++.+
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            458999999999999999999987

>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=97.35  E-value=0.0001  Score=55.60  Aligned_cols=23  Identities=35%  Similarity=0.733  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||||+||||.++.+++.+
T Consensus         5 riil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           5 RAVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47889999999999999999987

>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=97.34  E-value=0.00093  Score=51.40  Aligned_cols=41  Identities=27%  Similarity=0.449  Sum_probs=30.5

Q ss_pred             ceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecCC
Q 021937          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      ....+++||+|.+.... .+.+..+++..+.+..+++++...
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            35799999999987542 566777777777788888877544

>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=97.31  E-value=0.00011  Score=55.55  Aligned_cols=26  Identities=27%  Similarity=0.571  Sum_probs=22.7

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +...++|.||||+||||+++.++..+
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHH
Confidence            34458899999999999999999986

>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=97.31  E-value=0.00013  Score=55.96  Aligned_cols=35  Identities=17%  Similarity=0.211  Sum_probs=27.8

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        65 l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      .+....+..+..++|+|.||+||||+++.+++.+.
T Consensus        15 ~r~~~~~~kg~vIwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          15 ERTELRNQRGLTIWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             HHHHHHTSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34445556655689999999999999999998763

>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=56.72  Aligned_cols=25  Identities=36%  Similarity=0.585  Sum_probs=22.6

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .|.+.+.||||+||+|.++.+++.+
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            3567888999999999999999998

>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=97.30  E-value=0.00011  Score=54.89  Aligned_cols=23  Identities=48%  Similarity=0.898  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||||+||||.++.+++.+
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            47899999999999999999987

>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=97.28  E-value=0.00071  Score=51.63  Aligned_cols=42  Identities=14%  Similarity=0.319  Sum_probs=29.9

Q ss_pred             CceEEEEEeCCCcCCHHH-HHHHHHHHHHhcCCceEEEEecCC
Q 021937          140 ASVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~~-~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .+-..+++||+|.+.... ...+..++...+++..+++.+...
T Consensus       146 ~~l~~lViDEad~ll~~~f~~~v~~I~~~~~~~~Q~il~SATl  188 (209)
T d1q0ua_         146 HTAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFSATI  188 (209)
T ss_dssp             GGCCEEEECSHHHHHHTTCHHHHHHHHHTSCTTCEEEEEESCC
T ss_pred             ccceEEEEeecccccccccHHHHHHHHHHCCCCCEEEEEEccC
Confidence            345689999999987543 455667777777778887776433

>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=97.28  E-value=0.00011  Score=54.94  Aligned_cols=23  Identities=30%  Similarity=0.585  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||||+||||.++.+++.+
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            37899999999999999999997

>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=97.27  E-value=0.00027  Score=51.82  Aligned_cols=20  Identities=25%  Similarity=0.446  Sum_probs=18.5

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +++.|++|+|||+|+..+..
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>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=97.25  E-value=0.00011  Score=55.56  Aligned_cols=24  Identities=25%  Similarity=0.517  Sum_probs=21.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.++|.||||+||||.++.+++.+
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            458899999999999999999986

>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=97.25  E-value=0.001  Score=50.71  Aligned_cols=42  Identities=24%  Similarity=0.359  Sum_probs=29.2

Q ss_pred             CceEEEEEeCCCcCCHH-HHHHHHHHHHHhcCCceEEEEecCC
Q 021937          140 ASVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~-~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .+-..+++||+|.+... -...+..+++..+++..+++.+...
T Consensus       145 ~~l~~lVlDEaD~ll~~~f~~~i~~I~~~~~~~~Q~~l~SAT~  187 (206)
T d1veca_         145 DHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSATF  187 (206)
T ss_dssp             TTCCEEEEETHHHHTSTTTHHHHHHHHHHSCTTCEEEEEESCC
T ss_pred             cccceEEEeccccccccchHHHHHHHHHhCCCCCEEEEEEecC
Confidence            34569999999988643 3455667777777777777766443

>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=97.24  E-value=0.00013  Score=54.51  Aligned_cols=23  Identities=30%  Similarity=0.739  Sum_probs=21.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||||+||||.++.+++.+
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            37888999999999999999987

>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=97.20  E-value=0.003  Score=45.97  Aligned_cols=21  Identities=19%  Similarity=0.452  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||+++..+...
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999998764

>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=97.20  E-value=0.00065  Score=49.31  Aligned_cols=41  Identities=12%  Similarity=0.180  Sum_probs=26.8

Q ss_pred             eEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCc
Q 021937          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (305)
Q Consensus       142 ~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~  182 (305)
                      ..++++|.-+.........+...+.....+..++++.|..+
T Consensus        83 ~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~D  123 (161)
T d2gj8a1          83 RVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKAD  123 (161)
T ss_dssp             EEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHH
T ss_pred             ccceeeccccccchhhhhhhhhhhhhcccccceeeccchhh
Confidence            46777776665554445555667776666777778877654

>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=97.20  E-value=0.0031  Score=47.37  Aligned_cols=21  Identities=33%  Similarity=0.490  Sum_probs=16.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +.++++|+|+|||.++..++.
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHHHHHH
Confidence            378999999999986665554

>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=97.19  E-value=0.00025  Score=56.04  Aligned_cols=52  Identities=12%  Similarity=0.270  Sum_probs=34.0

Q ss_pred             CceEEEEEeC-CCcCCHHHHHHHHHHHHHhcC-CceEEEEecCCcccchhhhcce
Q 021937          140 ASVKLVLLDE-ADAMTKDAQFALRRVIEKYTK-NTRFALICNQVNKIIPALQSRC  192 (305)
Q Consensus       140 ~~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~-~~~iil~~~~~~~l~~~l~~r~  192 (305)
                      ..+.+|++|| .-.++......+++++.+... ...++++|.+... ...+..|.
T Consensus       166 ~~P~llilDEPT~gLD~~~~~~i~~ll~~l~~~g~til~vtHdl~~-~~~~adri  219 (258)
T d1b0ua_         166 MEPDVLLFDEPTSALDPELVGEVLRIMQQLAEEGKTMVVVTHEMGF-ARHVSSHV  219 (258)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEECSCHHH-HHHHCSEE
T ss_pred             cCCCEEEeccccccCCHHHHHHHHHhhhhhcccCCceEEEeCCHHH-HHHhCCEE
Confidence            5678999999 566788888888888776543 3446666655432 23444553

>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=97.18  E-value=0.0011  Score=48.56  Aligned_cols=21  Identities=33%  Similarity=0.593  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||+|++.+...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998864

>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=97.17  E-value=0.0015  Score=49.64  Aligned_cols=41  Identities=17%  Similarity=0.277  Sum_probs=28.5

Q ss_pred             ceEEEEEeCCCcCCHH-HHHHHHHHHHHhcCCceEEEEecCC
Q 021937          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~-~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      +-..+++||+|.+... -...+..+++..+.+..+++++...
T Consensus       143 ~l~~lV~DEaD~l~~~~f~~~v~~I~~~l~~~~Q~il~SATl  184 (206)
T d1s2ma1         143 DCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSATF  184 (206)
T ss_dssp             TCCEEEEESHHHHSSHHHHHHHHHHHTTSCSSCEEEEEESCC
T ss_pred             cceEEEeechhhhhhhhhHHHHHHHHHhCCCCCEEEEEEEeC
Confidence            3568999999998754 3455666677777677777766443

>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=97.17  E-value=0.00015  Score=54.09  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.||||+||||.++.+++.+
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            37899999999999999999987

>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=97.17  E-value=0.00077  Score=55.11  Aligned_cols=39  Identities=18%  Similarity=0.342  Sum_probs=30.8

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        59 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ++....|..++..+.  +++++|++|+||||++++++..+.
T Consensus       153 ~~~~~~l~~~v~~~~--nili~G~tgSGKTT~l~al~~~i~  191 (323)
T d1g6oa_         153 EQAISAIKDGIAIGK--NVIVCGGTGSGKTTYIKSIMEFIP  191 (323)
T ss_dssp             HHHHHHHHHHHHHTC--CEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             HHHHHHHHHHHHhCC--CEEEEeeccccchHHHHHHhhhcc
Confidence            455566666666654  499999999999999999998763

>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=97.16  E-value=0.00081  Score=53.22  Aligned_cols=35  Identities=26%  Similarity=0.347  Sum_probs=26.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      ..|+||||+|||+++..++.....++.  .++.++..
T Consensus        57 tei~G~~gsGKTtl~l~~~~~~q~~g~--~~vyidtE   91 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQVIAAAQREGK--TCAFIDAE   91 (263)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEESS
T ss_pred             EEEecCCCcHHHHHHHHHHHHHHcCCC--EEEEEccc
Confidence            789999999999999999888765543  33444443

>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=97.15  E-value=0.0011  Score=48.79  Aligned_cols=21  Identities=29%  Similarity=0.525  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999998863

>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=97.14  E-value=0.0015  Score=50.58  Aligned_cols=41  Identities=20%  Similarity=0.368  Sum_probs=29.1

Q ss_pred             ceEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCc-eEEEEecCC
Q 021937          141 SVKLVLLDE-ADAMTKDAQFALRRVIEKYTKNT-RFALICNQV  181 (305)
Q Consensus       141 ~~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~-~iil~~~~~  181 (305)
                      .+.++++|| ...++......+.+++.+..... .+++++.+.
T Consensus       150 ~p~llllDEPt~gLD~~~~~~i~~~i~~l~~~g~tii~vtHdl  192 (231)
T d1l7vc_         150 AGQLLLLDEPMNSLDVAQQSALDKILSALCQQGLAIVMSSHDL  192 (231)
T ss_dssp             TCCEEEESSCSTTCCHHHHHHHHHHHHHHHHTTCEEEECCCCH
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCH
Confidence            458999999 56778888888888888754333 455555443

>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=97.13  E-value=0.00039  Score=56.98  Aligned_cols=44  Identities=20%  Similarity=0.284  Sum_probs=34.9

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      +...+-|+||||+|||||+..++..+...+....++.++++...
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~   96 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPV   96 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceee
Confidence            34448899999999999999999999887777788888776543

>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=97.11  E-value=0.002  Score=49.61  Aligned_cols=42  Identities=26%  Similarity=0.372  Sum_probs=29.6

Q ss_pred             CceEEEEEeCCCcCCHH-HHHHHHHHHHHhcCCceEEEEecCC
Q 021937          140 ASVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~-~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      ..-..+++||+|.+... -...+..+++..+.+..+++.+...
T Consensus       158 ~~l~~lVlDEaD~ll~~~f~~~i~~I~~~l~~~~Q~ilfSAT~  200 (222)
T d2j0sa1         158 RAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL  200 (222)
T ss_dssp             TTCCEEEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEESCC
T ss_pred             ccceeeeecchhHhhhcCcHHHHHHHHHhCCCCCEEEEEEEeC
Confidence            33569999999988643 3556777777777777777766443

>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=97.11  E-value=0.0024  Score=48.55  Aligned_cols=40  Identities=28%  Similarity=0.416  Sum_probs=28.4

Q ss_pred             ceEEEEEeCCCcCC-HHHHHHHHHHHHHhcCCceEEEEecC
Q 021937          141 SVKLVLLDEADAMT-KDAQFALRRVIEKYTKNTRFALICNQ  180 (305)
Q Consensus       141 ~~~vliiDe~~~l~-~~~~~~l~~~l~~~~~~~~iil~~~~  180 (305)
                      +-..++|||+|.+. ......+.++++..+++..+++.+..
T Consensus       145 ~l~~lViDEad~l~~~~~~~~i~~I~~~~~~~~Q~i~~SAT  185 (208)
T d1hv8a1         145 NVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSAT  185 (208)
T ss_dssp             SCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEECSS
T ss_pred             cCcEEEEEChHHhhcCCChHHHHHHHHhCCCCCeEEEEEcc
Confidence            35699999999763 33345677777777777777777643

>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=97.10  E-value=0.0002  Score=55.27  Aligned_cols=22  Identities=23%  Similarity=0.573  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.+.||||+||||.++.+++.+
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            5678999999999999999998

>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=97.09  E-value=0.0026  Score=46.33  Aligned_cols=21  Identities=24%  Similarity=0.479  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=97.07  E-value=0.0019  Score=46.95  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998753

>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=97.05  E-value=0.0026  Score=45.67  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|++|+|||++++.+...-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999987653

>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=97.04  E-value=0.00019  Score=54.14  Aligned_cols=22  Identities=27%  Similarity=0.600  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++|+||+|+||||+++.+++..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8899999999999999999986

>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=97.04  E-value=0.00018  Score=54.05  Aligned_cols=22  Identities=27%  Similarity=0.623  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++|+||+|+||||+++.+++..
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            8999999999999999999886

>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=97.02  E-value=0.00053  Score=56.07  Aligned_cols=40  Identities=30%  Similarity=0.390  Sum_probs=33.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      ..+-|+|+||+||||++..+...+...+....++.++.+.
T Consensus        52 ~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss   91 (323)
T d2qm8a1          52 IRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSS   91 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             eEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeeccccc
Confidence            3378999999999999999999887777777777776654

>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=97.01  E-value=0.003  Score=48.01  Aligned_cols=42  Identities=17%  Similarity=0.342  Sum_probs=28.8

Q ss_pred             CceEEEEEeCCCcCCH--HHHHHHHHHHHHhcCCceEEEEecCC
Q 021937          140 ASVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICNQV  181 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~--~~~~~l~~~l~~~~~~~~iil~~~~~  181 (305)
                      .+-..+++||+|.+..  .....+..+++..+.+..+++.+...
T Consensus       144 ~~l~~lVlDEaD~ll~~~~~~~~i~~I~~~~~~~~Q~il~SAT~  187 (207)
T d1t6na_         144 KHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATL  187 (207)
T ss_dssp             TTCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEESCC
T ss_pred             cccceeehhhhhhhhhcCCcHHHHHHHHHhCCCCCEEEEEeeeC
Confidence            3356999999998753  34455666777777777777766433

>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=97.00  E-value=0.00068  Score=53.15  Aligned_cols=52  Identities=15%  Similarity=0.248  Sum_probs=33.4

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHhCC----CCcccEEEeecCCC
Q 021937           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNASDD  115 (305)
Q Consensus        64 ~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~~----~~~~~~~~~~~~~~  115 (305)
                      .|..++.++-++.  ++|+||||+|||+++..++.....+    +.....+.+.....
T Consensus        24 ~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (254)
T d1pzna2          24 SLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENT   81 (254)
T ss_dssp             HHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSC
T ss_pred             HHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccch
Confidence            3455555543333  8999999999999999998876432    22334555555443

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=96.97  E-value=0.0043  Score=45.42  Aligned_cols=22  Identities=18%  Similarity=0.419  Sum_probs=19.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|.+|+|||+|+..+...
T Consensus        17 kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          17 KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4999999999999999988653

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=96.97  E-value=0.0043  Score=45.25  Aligned_cols=21  Identities=24%  Similarity=0.488  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998753

>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=96.96  E-value=0.003  Score=44.68  Aligned_cols=125  Identities=11%  Similarity=-0.004  Sum_probs=77.7

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceE
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVK  143 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~  143 (305)
                      +|...+..+-.+.++|+|+...-+......+.+.+...+......... .....   ..+.+... ...++...    +.
T Consensus         8 ~L~~~l~k~l~~vyll~G~E~~L~~~~~~~i~~~~~~~~~~~~~~~~~-~~~~~---~~~l~~~~-~t~slF~~----kr   78 (140)
T d1jqlb_           8 QLRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSI-DPNTD---WNAIFSLC-QAMSLFAS----RQ   78 (140)
T ss_dssp             GHHHHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEECCCC-STTCC---HHHHHHHH-HCCCTTCC----CE
T ss_pred             HHHHHHhcCCCcEEEEEcChHHHHHHHHHHHHHHHHhCCcceeeeecc-cccCC---HHHHHHHH-cCCCcccC----cE
Confidence            455666666566799999998888888888877775554432221111 12122   23333333 33333322    79


Q ss_pred             EEEEeCCCcCC-HHHHHHHHHHHHHhcCCceEEEEecCCc------ccchhhhcceeEEEe
Q 021937          144 LVLLDEADAMT-KDAQFALRRVIEKYTKNTRFALICNQVN------KIIPALQSRCTRFRF  197 (305)
Q Consensus       144 vliiDe~~~l~-~~~~~~l~~~l~~~~~~~~iil~~~~~~------~l~~~l~~r~~~i~~  197 (305)
                      +|+|++.+... +...+.|.++++.++....+|+.+...+      ...+.+..++.++.+
T Consensus        79 li~i~~~~~~~~k~~~~~L~~~~~~~~~~~~lii~~~~~~k~~~~~k~~K~l~k~g~vI~C  139 (140)
T d1jqlb_          79 TLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTC  139 (140)
T ss_dssp             EEEEECCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSSCCTTGGGSHHHHHHGGGCEEEEC
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHhCCCCCEEEEEEcCCCCchhhhhHHHHHHHhCCeEEeC
Confidence            99999887655 5566789999999988888888875433      234455555555544

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.96  E-value=0.0012  Score=52.67  Aligned_cols=26  Identities=31%  Similarity=0.433  Sum_probs=22.2

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ...+.|.||+|+||||+++.++..+.
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHhCCCc
Confidence            34488999999999999999988663

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.94  E-value=0.0072  Score=45.49  Aligned_cols=23  Identities=30%  Similarity=0.663  Sum_probs=21.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      |.++|.|+||+|||||+..+...
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            56999999999999999999865

>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=96.93  E-value=0.0003  Score=52.58  Aligned_cols=23  Identities=22%  Similarity=0.582  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+||+|+||||+++.+.+..
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            48899999999999999998875

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.91  E-value=0.0021  Score=47.20  Aligned_cols=21  Identities=29%  Similarity=0.600  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+++..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999998754

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.89  E-value=0.0029  Score=46.02  Aligned_cols=21  Identities=24%  Similarity=0.553  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+++..+...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998764

>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=96.87  E-value=0.00076  Score=51.48  Aligned_cols=33  Identities=24%  Similarity=0.367  Sum_probs=27.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEE
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~  108 (305)
                      .++|.|+.|+||||.++.+.+.+...+.....+
T Consensus         4 fIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~   36 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVETLEQLGIRDMVF   36 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEE
Confidence            478999999999999999999987766554333

>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=96.84  E-value=0.002  Score=47.16  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+++..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            799999999999999998764

>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=96.81  E-value=0.00056  Score=52.13  Aligned_cols=24  Identities=29%  Similarity=0.493  Sum_probs=21.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ..++|+||+|+||||+.+.+.+..
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            348999999999999999999875

>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=96.78  E-value=0.0012  Score=48.65  Aligned_cols=21  Identities=24%  Similarity=0.485  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||+|++.+...
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988763

>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=96.77  E-value=0.037  Score=39.99  Aligned_cols=21  Identities=24%  Similarity=0.550  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .+.+.|++|+|||||++++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999999974

>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=96.77  E-value=0.00078  Score=51.48  Aligned_cols=31  Identities=19%  Similarity=0.212  Sum_probs=26.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCccc
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNM  106 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~  106 (305)
                      .+.|.|+.|+||||.++.+.+.+...+....
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            3788899999999999999999977666443

>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=96.76  E-value=0.0055  Score=48.57  Aligned_cols=34  Identities=12%  Similarity=0.089  Sum_probs=25.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH-hCCCCcccEEE
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL-YGAQYHNMILE  109 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~-~~~~~~~~~~~  109 (305)
                      .++|.|+||+|||+++..++..+ ...+.+..++.
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            37999999999999999988654 34455444444

>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=96.75  E-value=0.00098  Score=48.10  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHh
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      .++|.|+=|+||||+++.+++.+.
T Consensus        35 ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          35 MVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEEecCCCccHHHHHHHHHhhcc
Confidence            378999999999999999999983

>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=96.75  E-value=0.0021  Score=50.20  Aligned_cols=37  Identities=19%  Similarity=0.090  Sum_probs=27.7

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHHhC
Q 021937           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        64 ~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .|..++.++-++.  ++|+|+||+|||+++..++.....
T Consensus        25 ~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~   63 (258)
T d1v5wa_          25 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQL   63 (258)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTS
T ss_pred             HHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4455555554444  799999999999999999886543

>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=96.74  E-value=0.0005  Score=52.60  Aligned_cols=38  Identities=21%  Similarity=0.157  Sum_probs=27.4

Q ss_pred             HHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           64 TIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        64 ~l~~~l~~~~~--~~~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      .|...+.++-+  ..++|+||||+|||+++..++......
T Consensus        11 ~LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          11 ELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             HHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             HHHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            34455555422  238999999999999999998876443

>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=96.73  E-value=0.0036  Score=45.40  Aligned_cols=21  Identities=33%  Similarity=0.369  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+++..+...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999988664

>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=96.73  E-value=0.0013  Score=47.86  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .+++.|++|+|||+|++.+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3899999999999999998653

>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=96.72  E-value=0.00077  Score=52.50  Aligned_cols=54  Identities=17%  Similarity=0.073  Sum_probs=33.1

Q ss_pred             HHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHhCC----CCcccEEEeecCCCcC
Q 021937           64 TIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNASDDRG  117 (305)
Q Consensus        64 ~l~~~l~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~~----~~~~~~~~~~~~~~~~  117 (305)
                      .|...+.++-++  .++|+||||+|||+++..++......    .....++.++......
T Consensus        22 ~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~   81 (251)
T d1szpa2          22 NLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFR   81 (251)
T ss_dssp             HHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCC
T ss_pred             HHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHH
Confidence            445555554333  38999999999999999887654221    1233455555544333

>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=96.71  E-value=0.0048  Score=45.40  Aligned_cols=103  Identities=12%  Similarity=0.161  Sum_probs=53.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC-----CC------------CcccEEEeecCCCc-ChhHHHHHHHHhhhcccccCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG-----AQ------------YHNMILELNASDDR-GIDVVRQQIQDFASTQSFSFG  137 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~-----~~------------~~~~~~~~~~~~~~-~~~~~~~~i~~~~~~~~~~~~  137 (305)
                      .+.|.|.+|+|||++++.+...-..     .+            ....+.-++.+... ........+.......    -
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            3899999999999999999754210     00            01122223333221 1111112111111100    0


Q ss_pred             CCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcc
Q 021937          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (305)
Q Consensus       138 ~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~  183 (305)
                      ..+...++++|--+..... ...+.+.+.....+..++++.|..+.
T Consensus        83 ~~ad~il~v~D~~~~~~~~-~~~i~~~l~~~~~~~piilv~NK~Dl  127 (178)
T d1wf3a1          83 ADVNAVVWVVDLRHPPTPE-DELVARALKPLVGKVPILLVGNKLDA  127 (178)
T ss_dssp             SSCSEEEEEEETTSCCCHH-HHHHHHHHGGGTTTSCEEEEEECGGG
T ss_pred             ccccceeeeechhhhhccc-ccchhhheeccccchhhhhhhccccc
Confidence            1223567778865555543 35566777766556677777776543

>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=96.71  E-value=0.00055  Score=50.91  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+||+|+||||+++.+.+..
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            48999999999999999998764

>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=96.71  E-value=0.0011  Score=48.61  Aligned_cols=21  Identities=38%  Similarity=0.471  Sum_probs=17.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+++..+...
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999987654

>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=96.69  E-value=0.007  Score=47.72  Aligned_cols=36  Identities=28%  Similarity=0.337  Sum_probs=27.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~  114 (305)
                      ..++||+|+|||+++..++......+.  .+++++...
T Consensus        60 tei~G~~~sGKT~l~l~~~~~aqk~g~--~v~yiDtE~   95 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAIVAQAQKAGG--TCAFIDAEH   95 (268)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTC--CEEEEESSC
T ss_pred             EEEecCCccchHHHHHHHHHHHHhCCC--EEEEEECCc
Confidence            689999999999999999888755443  345555544

>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=96.69  E-value=0.0054  Score=48.18  Aligned_cols=48  Identities=21%  Similarity=0.180  Sum_probs=38.4

Q ss_pred             ccccccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        52 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      |+---.|...++++..-+.++.+..-+|.|..|+|||-.+-..+....
T Consensus        82 FeLT~~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~  129 (264)
T d1gm5a3          82 FKLTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNY  129 (264)
T ss_dssp             SCCCHHHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHH
T ss_pred             ccCCchHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHHH
Confidence            333345888888998889888887889999999999988777766553

>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=96.69  E-value=0.0013  Score=48.43  Aligned_cols=21  Identities=29%  Similarity=0.588  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998763

>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=96.67  E-value=0.0046  Score=46.24  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=20.4

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .|.+.|.|+||+||||+++.+..
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

>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=96.67  E-value=0.0079  Score=46.09  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|+||...|||++++.++-..
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            48999999999999999887654

>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=96.65  E-value=0.01  Score=45.83  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=21.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.++|+||..+|||++++.++-..
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            448999999999999999997755

>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=96.63  E-value=0.0047  Score=44.92  Aligned_cols=21  Identities=33%  Similarity=0.483  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ++|.|.+|+|||++++.+...
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>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=96.62  E-value=0.0033  Score=45.87  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            789999999999999988653

>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=96.60  E-value=0.0033  Score=46.00  Aligned_cols=21  Identities=24%  Similarity=0.485  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ++|.|.+|+|||+|++.+...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998764

>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=96.60  E-value=0.00081  Score=51.12  Aligned_cols=30  Identities=17%  Similarity=0.239  Sum_probs=25.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCccc
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNM  106 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~  106 (305)
                      +.|.|+.|+||||+++.+.+.+...+....
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~   32 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVA   32 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEE
Confidence            678999999999999999999876665443

>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=96.59  E-value=0.0025  Score=47.77  Aligned_cols=21  Identities=38%  Similarity=0.662  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+++..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            789999999999999998764

>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=96.59  E-value=0.0051  Score=48.52  Aligned_cols=38  Identities=24%  Similarity=0.343  Sum_probs=27.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCc
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~  116 (305)
                      ..|+||+|+|||+++..++......+.  .++.++.....
T Consensus        63 ~e~~G~~~~GKT~l~l~~~~~~q~~g~--~~vyIDtE~~~  100 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALHAVANAQAAGG--VAAFIDAEHAL  100 (269)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHHTTC--EEEEEESSCCC
T ss_pred             EEEecCCCcHHHHHHHHHHHHHhcCCC--EEEEEECCccC
Confidence            689999999999998887776644433  45566655533

>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=96.58  E-value=0.006  Score=46.03  Aligned_cols=22  Identities=23%  Similarity=0.291  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .++|.|++|+|||++++.+...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999999874

>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=96.57  E-value=0.0067  Score=44.03  Aligned_cols=21  Identities=29%  Similarity=0.510  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=96.57  E-value=0.0067  Score=48.61  Aligned_cols=18  Identities=22%  Similarity=0.408  Sum_probs=14.5

Q ss_pred             CceEEEEEeCCCcCCHHH
Q 021937          140 ASVKLVLLDEADAMTKDA  157 (305)
Q Consensus       140 ~~~~vliiDe~~~l~~~~  157 (305)
                      .+..++++||+|.+....
T Consensus        99 ~~~~~vViDE~H~~~~~~  116 (305)
T d2bmfa2          99 PNYNLIIMDEAHFTDPAS  116 (305)
T ss_dssp             CCCSEEEEESTTCCSHHH
T ss_pred             cceeEEEeeeeeecchhh
Confidence            346799999999998654

>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=96.57  E-value=0.0055  Score=44.66  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988763

>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=96.56  E-value=0.0074  Score=43.78  Aligned_cols=21  Identities=24%  Similarity=0.514  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999998764

>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=96.54  E-value=0.0029  Score=46.43  Aligned_cols=21  Identities=33%  Similarity=0.570  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988753

>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=96.54  E-value=0.0032  Score=46.14  Aligned_cols=20  Identities=30%  Similarity=0.547  Sum_probs=18.6

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +++.|++|+|||++++.+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999999875

>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=96.51  E-value=0.0025  Score=46.60  Aligned_cols=20  Identities=30%  Similarity=0.684  Sum_probs=18.3

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +++.|.+|+|||+++..+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999998875

>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=96.49  E-value=0.0052  Score=44.99  Aligned_cols=20  Identities=30%  Similarity=0.491  Sum_probs=18.6

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +++.|++|+|||+++..+..
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            89999999999999988876

>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=96.48  E-value=0.00076  Score=51.58  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      +-|+|++|+||||+++.++..+..
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            459999999999999999998743

>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=96.47  E-value=0.0083  Score=43.61  Aligned_cols=21  Identities=29%  Similarity=0.645  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||++++.+...
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998864

>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=96.47  E-value=0.0014  Score=48.36  Aligned_cols=21  Identities=24%  Similarity=0.488  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+++..+...
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>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=96.46  E-value=0.0034  Score=45.88  Aligned_cols=21  Identities=29%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||+++..+...
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=96.45  E-value=0.00085  Score=53.53  Aligned_cols=41  Identities=15%  Similarity=0.229  Sum_probs=28.2

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      +.|.+-++|++|+||||+++.+.+.+...+....++..+..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsf   43 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   43 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCC
Confidence            44568899999999999999999988655555455555543

>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=96.41  E-value=0.004  Score=50.15  Aligned_cols=36  Identities=14%  Similarity=0.173  Sum_probs=26.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCC--CCcccEEEeec
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGA--QYHNMILELNA  112 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~--~~~~~~~~~~~  112 (305)
                      +-|.|++|+||||+++.+...+...  +....++..+.
T Consensus        83 IGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~  120 (308)
T d1sq5a_          83 ISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDG  120 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGG
T ss_pred             EEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeee
Confidence            5699999999999999999998643  33344444443

>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=96.38  E-value=0.0066  Score=44.06  Aligned_cols=21  Identities=19%  Similarity=0.336  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+|++.+...
T Consensus         7 v~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999998753

>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=96.36  E-value=0.0031  Score=51.13  Aligned_cols=26  Identities=27%  Similarity=0.373  Sum_probs=18.5

Q ss_pred             CeEEEECCCCCcHHHHH-HHHHHHHhC
Q 021937           75 PHLLLYGPPGTGKTSTI-LAVARKLYG  100 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~-~~l~~~~~~  100 (305)
                      .++++.|+||||||+++ ..++..+..
T Consensus        25 g~~lV~g~aGSGKTt~l~~ri~~ll~~   51 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTHRIAYLMAE   51 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEecCCccHHHHHHHHHHHHHHc
Confidence            34889999999999765 445555443

>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=96.36  E-value=0.0038  Score=46.22  Aligned_cols=21  Identities=19%  Similarity=0.377  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         8 ivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998764

>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=96.34  E-value=0.0027  Score=50.44  Aligned_cols=49  Identities=20%  Similarity=0.274  Sum_probs=36.7

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      .+...+.......++++|.-|+||||++-.++..+...+....++..+.
T Consensus        10 ~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp   58 (279)
T d1ihua2          10 ALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDP   58 (279)
T ss_dssp             HHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCC
T ss_pred             HHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCC
Confidence            4445555555555889999999999999999998877776665665553

>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=96.30  E-value=0.0027  Score=47.19  Aligned_cols=21  Identities=24%  Similarity=0.409  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+.+.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            799999999999999998764

>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=96.28  E-value=0.0022  Score=49.79  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHh
Q 021937           77 LLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +++.|++|+|||||+..+.+...
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            68999999999999999998763

>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=96.26  E-value=0.0035  Score=45.95  Aligned_cols=20  Identities=35%  Similarity=0.541  Sum_probs=18.2

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +++.|++|+|||++++.+..
T Consensus        19 I~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          19 ILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEESTTSSHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            89999999999999988854

>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=96.22  E-value=0.017  Score=41.91  Aligned_cols=21  Identities=33%  Similarity=0.586  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||+|+..+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>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=96.22  E-value=0.0023  Score=51.45  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=17.4

Q ss_pred             CeEEEECCCCCcHHHHH-HHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTI-LAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~-~~l~~~~   98 (305)
                      .++++.|+||||||+++ ..++..+
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~ll   39 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAHLI   39 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHHHH
Confidence            45889999999999764 4444443

>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=96.20  E-value=0.0031  Score=46.64  Aligned_cols=21  Identities=24%  Similarity=0.460  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988774

>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=96.20  E-value=0.0018  Score=47.83  Aligned_cols=21  Identities=24%  Similarity=0.426  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .++|.|++|+|||||+..+..
T Consensus        15 kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          15 KLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEEETTSSHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            399999999999999999854

>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=96.16  E-value=0.0029  Score=46.37  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=19.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      -.+++.|++|+|||++++.+..
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3489999999999999998864

>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=96.13  E-value=0.0029  Score=48.42  Aligned_cols=33  Identities=18%  Similarity=0.287  Sum_probs=25.1

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q 021937           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        62 ~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ++.|+.++.+   ...+|.|++|+|||||++++...
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            4566666632   35799999999999999998643

>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=96.03  E-value=0.0017  Score=50.51  Aligned_cols=37  Identities=19%  Similarity=0.175  Sum_probs=27.3

Q ss_pred             HHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           64 TIDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        64 ~l~~~l~~~~~~--~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .|...+.++-++  .++|.|+||+|||+++..++..+..
T Consensus        22 ~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~~   60 (258)
T d2i1qa2          22 ELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQN   60 (258)
T ss_dssp             HHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTC
T ss_pred             HHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            445555554333  3799999999999999999987643

>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=96.01  E-value=0.0023  Score=48.92  Aligned_cols=28  Identities=32%  Similarity=0.298  Sum_probs=23.9

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ++..+.|.|+.|+||||.++.+++.+..
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

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.01  E-value=0.0041  Score=49.75  Aligned_cols=39  Identities=28%  Similarity=0.350  Sum_probs=32.1

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      +..++++|..|+||||++..++..+...+.....+..+.
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            344789999999999999999999988777766666664

>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=96.00  E-value=0.002  Score=46.68  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ++|.|.+|+|||||++.+...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998764

>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=95.98  E-value=0.00097  Score=50.19  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=21.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++|.|+.|+||||+++.+++.+
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            37899999999999999999876

>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=95.95  E-value=0.0056  Score=44.40  Aligned_cols=21  Identities=29%  Similarity=0.607  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.94  E-value=0.0022  Score=46.12  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ++|.|++|+|||+|+..+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998764

>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=95.93  E-value=0.018  Score=45.69  Aligned_cols=42  Identities=17%  Similarity=0.152  Sum_probs=31.3

Q ss_pred             cccchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           55 VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +.-++...+.+..++..+   ..++.-|+|+|||.++..++..+.
T Consensus       112 ~~~rdyQ~~av~~~l~~~---~~il~~pTGsGKT~i~~~i~~~~~  153 (282)
T d1rifa_         112 IEPHWYQKDAVFEGLVNR---RRILNLPTSAGRSLIQALLARYYL  153 (282)
T ss_dssp             CCCCHHHHHHHHHHHHHS---EEEECCCTTSCHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHhcC---CceeEEEcccCccHHHHHHHHHhh
Confidence            344666677777777755   368888999999998888876553

>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=95.91  E-value=0.0049  Score=45.14  Aligned_cols=21  Identities=38%  Similarity=0.681  Sum_probs=8.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988753

>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=95.90  E-value=0.0066  Score=48.26  Aligned_cols=24  Identities=29%  Similarity=0.606  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      +-|.|++|+||||++..+...+..
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            458999999999999998877643

>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=95.90  E-value=0.0021  Score=49.55  Aligned_cols=33  Identities=24%  Similarity=0.273  Sum_probs=23.3

Q ss_pred             HHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHH
Q 021937           65 IDRLTSENR--LPHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        65 l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      |.+.+.++-  ...++|+|+||+|||+++..++..
T Consensus        15 LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1          15 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             HHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            445555442  233899999999999999776543

>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=95.66  E-value=0.003  Score=49.04  Aligned_cols=25  Identities=16%  Similarity=0.240  Sum_probs=22.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      -++|.|+.|+||||+++.+++.+..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhh
Confidence            4889999999999999999998744

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=95.65  E-value=0.0099  Score=46.85  Aligned_cols=24  Identities=29%  Similarity=0.365  Sum_probs=21.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHh
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..+|+|++|+|||+++..++..+.
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            378999999999999999988764

>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=95.64  E-value=0.054  Score=37.52  Aligned_cols=96  Identities=16%  Similarity=0.205  Sum_probs=45.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCC-cChhHHHHHHHHhhhccccc-----CCCCCceEEEEEeCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-RGIDVVRQQIQDFASTQSFS-----FGVKASVKLVLLDEA  150 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~i~~~~~~~~~~-----~~~~~~~~vliiDe~  150 (305)
                      -+++||=.+|||+-+-..++.....+..  ++-+++... +........-..........     ........+|+|||+
T Consensus         5 ~li~GpMfsGKTt~Li~~~~~~~~~g~~--v~~ikp~~D~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~I~IDEa   82 (133)
T d1xbta1           5 QVILGPMFSGKSTELMRRVRRFQIAQYK--CLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEALGVAVIGIDEG   82 (133)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCC--EEEEEETTCCC--------------CEEESSGGGGHHHHHTCSEEEESSG
T ss_pred             EEEEecccCHHHHHHHHHHHHHHHcCCc--EEEEecccccCCcceeeecCCCcceeeeeechhhhhhhhcccceEEeehh
Confidence            4789999999998777776666544443  333333321 11111100000000000000     000123579999999


Q ss_pred             CcCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021937          151 DAMTKDAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       151 ~~l~~~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                      |.+. + ...+...+.+.  +..+++.+
T Consensus        83 QFf~-d-l~~~~~~~~~~--~~~Viv~G  106 (133)
T d1xbta1          83 QFFP-D-IVEFCEAMANA--GKTVIVAA  106 (133)
T ss_dssp             GGCT-T-HHHHHHHHHHT--TCEEEEEC
T ss_pred             HHHH-H-HHHHHHHHHhc--CCcEEEEE
Confidence            9996 2 33444444443  44455554

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=95.63  E-value=0.043  Score=38.32  Aligned_cols=35  Identities=9%  Similarity=0.137  Sum_probs=23.2

Q ss_pred             ceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEe
Q 021937          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~  178 (305)
                      ...+|+|||+|.+.. ....+...+...  +..+++.+
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            368999999999974 445556655543  34455554

>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=95.61  E-value=0.0041  Score=45.62  Aligned_cols=23  Identities=30%  Similarity=0.569  Sum_probs=19.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..++|.|++|+|||+++..+...
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            34999999999999999887764

>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=95.41  E-value=0.02  Score=42.93  Aligned_cols=20  Identities=30%  Similarity=0.326  Sum_probs=16.0

Q ss_pred             eEEEECCCCCcHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVA   95 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~   95 (305)
                      ++++.-|+|+|||.......
T Consensus        42 ~vlv~apTGsGKT~~~~~~~   61 (206)
T d1oywa2          42 DCLVVMPTGGGKSLCYQIPA   61 (206)
T ss_dssp             CEEEECSCHHHHHHHHHHHH
T ss_pred             CEEEEcCCCCCCcchhhhhh
Confidence            58999999999997764443

>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=95.41  E-value=0.0048  Score=44.66  Aligned_cols=21  Identities=19%  Similarity=0.354  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=95.39  E-value=0.0045  Score=45.87  Aligned_cols=20  Identities=35%  Similarity=0.546  Sum_probs=18.2

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +++.|++|+|||++++.+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            78999999999999998864

>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=95.38  E-value=0.19  Score=39.29  Aligned_cols=87  Identities=13%  Similarity=0.135  Sum_probs=47.7

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhcccccCCCCCceE
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVK  143 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~  143 (305)
                      .+..++--++.+.+.|.|++|+|||+++..+++.....+...+++..-+.   ...+..+.+..+.....+.......+.
T Consensus        58 aID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~iGe---r~~ev~~~~~~~~~~~~~~~~~~~~~t  134 (276)
T d2jdid3          58 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGE---RTREGNDLYHEMIESGVINLKDATSKV  134 (276)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEEESC---CHHHHHHHHHHHHHHTSSCSSSSCCCE
T ss_pred             eeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEEEecc---ChHHHHHHHHHHHhcCccccccccceE
Confidence            34444444555669999999999999999998875433323333333322   334444444444332222112223367


Q ss_pred             EEEEeCCCcC
Q 021937          144 LVLLDEADAM  153 (305)
Q Consensus       144 vliiDe~~~l  153 (305)
                      +++.--.+.-
T Consensus       135 vvv~~~s~~~  144 (276)
T d2jdid3         135 ALVYGQMNEP  144 (276)
T ss_dssp             EEEEECTTSC
T ss_pred             EEEEECCCCC
Confidence            7777544443

>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=95.37  E-value=0.0016  Score=50.58  Aligned_cols=25  Identities=12%  Similarity=0.155  Sum_probs=22.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ..++|.|+.|+||||+++.+++.+.
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            3489999999999999999999874

>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=95.35  E-value=0.0051  Score=45.52  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||+++..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>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=95.28  E-value=0.0041  Score=45.65  Aligned_cols=23  Identities=35%  Similarity=0.511  Sum_probs=19.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..++|.|++|+|||+++..+...
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            34899999999999999887653

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=95.25  E-value=0.0049  Score=45.92  Aligned_cols=20  Identities=20%  Similarity=0.353  Sum_probs=17.3

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +-|+|++|+||||+++.+.+
T Consensus         6 IgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            45999999999999998843

>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=95.24  E-value=0.0057  Score=44.94  Aligned_cols=21  Identities=33%  Similarity=0.656  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||++++.+...
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998763

>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=95.20  E-value=0.0097  Score=46.87  Aligned_cols=38  Identities=21%  Similarity=0.366  Sum_probs=32.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      .+.++|.-|+||||++-.++..+...++...++..+..
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            36689999999999999999999888888777777753

>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=95.19  E-value=0.032  Score=39.84  Aligned_cols=111  Identities=11%  Similarity=0.099  Sum_probs=61.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcCh--------------------------hHHHHHHHHhhh
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI--------------------------DVVRQQIQDFAS  130 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~--------------------------~~~~~~i~~~~~  130 (305)
                      .+.+|+ |=||||.|-.++-+....+....++.+--......                          +...........
T Consensus         6 ~vytG~-GKGKTTAAlG~alRA~G~G~rV~ivQFlKg~~~~ge~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~   84 (157)
T d1g5ta_           6 IVFTGN-GKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMAVWQ   84 (157)
T ss_dssp             EEEESS-SSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHHHHH
T ss_pred             EEEeCC-CCCcHHHHHHHHHHHhcCCCEEEEEEEecCCcccchhhhhcccCcEEEEecCCCcccCCChHHHHHHHHHHHH
Confidence            455665 99999999998887766665555554433221110                          000010000000


Q ss_pred             cccccCCCCCceEEEEEeCCCcCCHH---HHHHHHHHHHHhcCCceEEEEecCCcccchhhhcce
Q 021937          131 TQSFSFGVKASVKLVLLDEADAMTKD---AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (305)
Q Consensus       131 ~~~~~~~~~~~~~vliiDe~~~l~~~---~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~  192 (305)
                      ... ..-....+.+||+||+.....-   ..+.+..+++..|...-+|+|++..+   +.+..+.
T Consensus        85 ~a~-~~~~~~~~dllILDEi~~Ai~~gli~~~~v~~ll~~rp~~~evVlTGr~~p---~~L~e~A  145 (157)
T d1g5ta_          85 HGK-RMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCH---RDILDLA  145 (157)
T ss_dssp             HHH-HHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCC---HHHHHHC
T ss_pred             HHH-HHhhcCccCEEeHHHHHHHHHcCCCCHHHHHHHHHhCCCCCEEEEECCCCC---HHHHHhc
Confidence            000 0012244789999996433211   14578888888888999999987653   4444443

>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=95.07  E-value=0.0062  Score=44.37  Aligned_cols=23  Identities=30%  Similarity=0.572  Sum_probs=19.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..++|.|++|+|||+++..+.+.
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            34999999999999999887765

>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=94.99  E-value=0.0065  Score=44.77  Aligned_cols=20  Identities=30%  Similarity=0.634  Sum_probs=18.0

Q ss_pred             eEEEECCCCCcHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVA   95 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~   95 (305)
                      .+++.|++|+|||++++.+.
T Consensus        19 KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          19 RILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             EEEEEEETTSSHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            39999999999999998874

>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=94.99  E-value=0.0054  Score=45.18  Aligned_cols=22  Identities=23%  Similarity=0.472  Sum_probs=19.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .++|.|+||+|||||++++...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999753

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=94.98  E-value=0.014  Score=45.66  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .++|.|.+|+||||+++.+...
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            3899999999999999999864

>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=94.96  E-value=0.0076  Score=42.50  Aligned_cols=27  Identities=22%  Similarity=0.315  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~  103 (305)
                      =+++||=.+||||-+-..++.....+.
T Consensus        10 ~lI~GpMfSGKTteLi~~~~~~~~~g~   36 (141)
T d1xx6a1          10 EVIVGPMYSGKSEELIRRIRRAKIAKQ   36 (141)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEEeccccHHHHHHHHHHHHhhhcCC
Confidence            378999999999887777766544433

>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=94.85  E-value=0.0082  Score=43.85  Aligned_cols=20  Identities=30%  Similarity=0.464  Sum_probs=18.2

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +++.|.+|+|||+|++.+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            79999999999999998864

>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=94.79  E-value=0.046  Score=43.13  Aligned_cols=37  Identities=24%  Similarity=0.318  Sum_probs=28.4

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHhC
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      .+..++--++++..+|.|++|+|||+++..+++....
T Consensus        33 ~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~   69 (289)
T d1xpua3          33 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAY   69 (289)
T ss_dssp             HHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHH
T ss_pred             eeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhh
Confidence            3444444456667999999999999999999987643

>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=94.74  E-value=0.012  Score=46.82  Aligned_cols=38  Identities=24%  Similarity=0.345  Sum_probs=31.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~  113 (305)
                      .+.++|.-|+||||++-.++..+...++....+.++..
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            46779999999999999999999888877777777653

>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=94.73  E-value=0.0054  Score=47.05  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.3

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .|..+|+|.-|+||||+++.+.+.
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhc
Confidence            456899999999999999999875

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.69  E-value=0.0084  Score=44.61  Aligned_cols=21  Identities=19%  Similarity=0.377  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|++|+|||+++..+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>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=94.60  E-value=0.011  Score=49.99  Aligned_cols=30  Identities=30%  Similarity=0.325  Sum_probs=24.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhCCCCc
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~  104 (305)
                      .|+++.|++|+|||++++.+...+...+..
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~g~~   80 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLRGDR   80 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTCE
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhCCCC
Confidence            479999999999999998877776555443

>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=94.40  E-value=0.026  Score=42.91  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+++.|++|+|||++++.+...-
T Consensus         8 KilllG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            38999999999999999986543

>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=94.31  E-value=0.15  Score=36.99  Aligned_cols=20  Identities=25%  Similarity=0.363  Sum_probs=18.4

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +-+.|.+++|||||++++..
T Consensus         8 IaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           8 LGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEeCCCCcHHHHHHHHHH
Confidence            78999999999999999974

>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=94.30  E-value=0.012  Score=43.89  Aligned_cols=18  Identities=28%  Similarity=0.547  Sum_probs=17.4

Q ss_pred             EEEECCCCCcHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAV   94 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l   94 (305)
                      +++.|.+|+|||++++.+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            799999999999999999

>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=94.29  E-value=0.014  Score=44.13  Aligned_cols=20  Identities=35%  Similarity=0.448  Sum_probs=17.3

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +.|+|++|+||||+++.+..
T Consensus         6 IgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCcCCHHHHHHHHHH
Confidence            56899999999999997753

>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=94.28  E-value=0.12  Score=39.11  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=20.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      |.+.+.|.+++|||||+.++....
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhc
Confidence            558899999999999999997754

>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=94.19  E-value=0.012  Score=43.02  Aligned_cols=21  Identities=19%  Similarity=0.461  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +.|.|.+|+|||||++++.+.
T Consensus         8 I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999753

>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=94.06  E-value=0.0076  Score=44.28  Aligned_cols=23  Identities=17%  Similarity=0.264  Sum_probs=19.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .+.+.|.|.|++|||+|++++..
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35599999999999999998844

>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=94.03  E-value=0.0064  Score=46.61  Aligned_cols=24  Identities=29%  Similarity=0.497  Sum_probs=19.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ...+|.|++|+|||||++++....
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            347899999999999999997543

>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=94.01  E-value=0.044  Score=49.09  Aligned_cols=35  Identities=17%  Similarity=0.302  Sum_probs=29.6

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +...+...+....+++.|.+|+|||..++.+.+.+
T Consensus        76 Ay~~l~~~~~~QsIiisGeSGsGKTe~~k~il~yL  110 (684)
T d1lkxa_          76 AYRSMRQSQENQCVIISGESGAGKTEASKKIMQFL  110 (684)
T ss_dssp             HHHHHHHHCCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            55556666777779999999999999999999987

>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=93.99  E-value=0.014  Score=44.00  Aligned_cols=19  Identities=32%  Similarity=0.333  Sum_probs=16.6

Q ss_pred             EEEECCCCCcHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVA   95 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~   95 (305)
                      +-|+|+.|+||||+++.+.
T Consensus         5 IgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4589999999999998775

>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=93.97  E-value=0.018  Score=42.15  Aligned_cols=21  Identities=29%  Similarity=0.309  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|.+|+|||+++..+...
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999988764

>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=93.93  E-value=0.27  Score=37.17  Aligned_cols=114  Identities=18%  Similarity=0.190  Sum_probs=59.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeecCCCcChhHHHHHHHHhhhccccc--------------------
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS--------------------  135 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--------------------  135 (305)
                      ..+|.=+.|.|||..+-+++..+...+....++-+.....  .......+..........                    
T Consensus        33 g~iLaDe~GlGKT~~~i~~~~~~~~~~~~~~~LIv~p~~l--~~~W~~e~~~~~~~~~~~~~~~~~~~~~~~~~~vvi~~  110 (230)
T d1z63a1          33 GICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLSV--LKNWEEELSKFAPHLRFAVFHEDRSKIKLEDYDIILTT  110 (230)
T ss_dssp             CEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECSTT--HHHHHHHHHHHCTTSCEEECSSSTTSCCGGGSSEEEEE
T ss_pred             CEEEEeCCCCChHHHHHHhhhhhhhcccccccceecchhh--hhHHHHHHHhhcccccceeeccccchhhccCcCEEEee
Confidence            4778889999999988888776644332223333333221  122222222221110000                    


Q ss_pred             --------CCCCCceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhcce
Q 021937          136 --------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (305)
Q Consensus       136 --------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~r~  192 (305)
                              ....-+..++++||+|.+..... .-...+.......+++++++....-..++.+.+
T Consensus       111 ~~~~~~~~~l~~~~~~~vI~DEah~~k~~~s-~~~~~~~~l~a~~r~~LTgTPi~n~~~dl~~ll  174 (230)
T d1z63a1         111 YAVLLRDTRLKEVEWKYIVIDEAQNIKNPQT-KIFKAVKELKSKYRIALTGTPIENKVDDLWSIM  174 (230)
T ss_dssp             HHHHTTCHHHHTCCEEEEEEETGGGGSCTTS-HHHHHHHTSCEEEEEEECSSCSTTCHHHHHHHH
T ss_pred             HHHHHhHHHHhcccceEEEEEhhhcccccch-hhhhhhhhhccceEEEEecchHHhHHHHHHHHH
Confidence                    00112457899999999963221 122333444445667777766655455554443

>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=93.91  E-value=0.017  Score=42.49  Aligned_cols=21  Identities=29%  Similarity=0.529  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +.+.|.+|+|||||+.++...
T Consensus        11 V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          11 VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
Confidence            789999999999999998753

>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=93.90  E-value=0.019  Score=43.30  Aligned_cols=34  Identities=21%  Similarity=0.236  Sum_probs=29.1

Q ss_pred             eEEEECCC-CCcHHHHHHHHHHHHhCCCCcccEEE
Q 021937           76 HLLLYGPP-GTGKTSTILAVARKLYGAQYHNMILE  109 (305)
Q Consensus        76 ~~ll~G~~-G~GKT~l~~~l~~~~~~~~~~~~~~~  109 (305)
                      .++++|-. |+||||++-.++..+.+.++...++.
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            48999995 99999999999999988887766654

>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=93.87  E-value=0.014  Score=43.01  Aligned_cols=21  Identities=29%  Similarity=0.447  Sum_probs=18.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      .+.|.|+||+|||||++++..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998853

>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=93.82  E-value=0.013  Score=42.94  Aligned_cols=22  Identities=36%  Similarity=0.549  Sum_probs=19.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +.+.|.|.+|+||||+++.+..
T Consensus         2 ~~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           2 ADVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3478999999999999999864

>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=93.75  E-value=0.011  Score=48.14  Aligned_cols=26  Identities=23%  Similarity=0.263  Sum_probs=22.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      +.|.|+-|+||||+++.+++.+...+
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            78999999999999999999875443

>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=93.71  E-value=0.018  Score=42.75  Aligned_cols=22  Identities=32%  Similarity=0.375  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +++.|.+|+|||++++.+...-
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8999999999999999996653

>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=93.70  E-value=0.021  Score=43.93  Aligned_cols=23  Identities=22%  Similarity=0.283  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.|+|+.||||||+++.+.+..
T Consensus         3 iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            36799999999999999998764

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=93.49  E-value=0.0064  Score=45.39  Aligned_cols=23  Identities=35%  Similarity=0.475  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHh
Q 021937           77 LLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      -+|+||.|+|||+++.++.-.+.
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            47899999999999999988774

>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=93.45  E-value=0.0065  Score=43.60  Aligned_cols=22  Identities=18%  Similarity=0.442  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.|.|.||+||||+++++...-
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999998653

>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=93.44  E-value=0.022  Score=43.80  Aligned_cols=27  Identities=33%  Similarity=0.245  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHHhCCC
Q 021937           76 HLLLYGPPGTGKTSTILAVARKLYGAQ  102 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~~~~~  102 (305)
                      .+++.+|+|+|||..+...+......+
T Consensus        60 ~~~i~apTGsGKT~~~~~~~~~~~~~~   86 (237)
T d1gkub1          60 SFAATAPTGVGKTSFGLAMSLFLALKG   86 (237)
T ss_dssp             CEECCCCBTSCSHHHHHHHHHHHHTTS
T ss_pred             CEEEEecCCChHHHHHHHHHHHHHHhc
Confidence            489999999999987665555443333

>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=93.34  E-value=0.039  Score=49.56  Aligned_cols=35  Identities=26%  Similarity=0.392  Sum_probs=29.2

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.+.++..+....++++|.+|+|||...+.+.+.+
T Consensus       115 Ay~~m~~~~~nQsIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2         115 AYRSMLDDRQNQSLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             HHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCceEEEeCCCCCCHHHHHHHHHHHH
Confidence            44555666666779999999999999999999877

>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=93.31  E-value=0.021  Score=46.40  Aligned_cols=24  Identities=33%  Similarity=0.380  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYG  100 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~  100 (305)
                      ++|.|+-|+||||+++.+++.+..
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            789999999999999999998743

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.21  E-value=0.028  Score=41.41  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +++.|..|+|||++++.+...
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            799999999999999988654

>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=93.12  E-value=0.11  Score=34.94  Aligned_cols=25  Identities=8%  Similarity=0.089  Sum_probs=23.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCC
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~  101 (305)
                      ++++|-+|+||+++++++...+.+.
T Consensus         9 i~~tg~~~~gk~~ia~al~~~l~q~   33 (122)
T d1g8fa3           9 IVLGNSLTVSREQLSIALLSTFLQF   33 (122)
T ss_dssp             EEECTTCCSCHHHHHHHHHHHHTTS
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            8999999999999999999998773

>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=93.11  E-value=0.044  Score=49.29  Aligned_cols=36  Identities=22%  Similarity=0.288  Sum_probs=29.8

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +.+.+...+....+++.|.+|+|||...+.+.+.+.
T Consensus        81 Ay~~m~~~~~~Q~IiisGeSGaGKTe~~k~il~yL~  116 (710)
T d1br2a2          81 AYRSMLQDREDQSILCTGESGAGKTENTKKVIQYLA  116 (710)
T ss_dssp             HHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            455556667667799999999999999999999873

>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=93.01  E-value=0.24  Score=38.48  Aligned_cols=23  Identities=35%  Similarity=0.426  Sum_probs=20.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      ++.+.|..|+|||||+.++....
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            57899999999999999997543

>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=92.87  E-value=0.045  Score=49.89  Aligned_cols=36  Identities=19%  Similarity=0.301  Sum_probs=29.8

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +...+...+....++++|.+|+|||...+.+.+.+.
T Consensus       113 Ay~~m~~~~~~QsIiisGeSGaGKTe~~K~il~yL~  148 (794)
T d2mysa2         113 AYQFMLTDRENQSILITGESGAGKTVNTKRVIQYFA  148 (794)
T ss_dssp             HHHHHHHHTCCEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            455566667777799999999999999999998873

>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=92.67  E-value=0.055  Score=41.05  Aligned_cols=36  Identities=22%  Similarity=0.230  Sum_probs=28.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHhCCCCcccEEEeec
Q 021937           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~  112 (305)
                      .+..|..|+||||++..++..+...+....++..+.
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            356699999999999999999987766665665554

>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=92.50  E-value=0.06  Score=48.59  Aligned_cols=35  Identities=20%  Similarity=0.391  Sum_probs=29.3

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +...+...+....+++.|++|+|||...+.+.+.+
T Consensus        84 Ay~~l~~~~~~Q~IiisGeSGsGKTe~~k~il~~l  118 (730)
T d1w7ja2          84 AYKQMARDERNQSIIVSGESGAGKTVSAKYAMRYF  118 (730)
T ss_dssp             HHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            55555666777779999999999999999999887

>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=92.40  E-value=0.052  Score=49.42  Aligned_cols=36  Identities=22%  Similarity=0.307  Sum_probs=29.5

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHHh
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      ++..+...+....++++|.+|+|||..++.+.+.+.
T Consensus       111 Ay~~m~~~~~nQ~IiisGESGaGKTe~~K~il~yL~  146 (789)
T d1kk8a2         111 AYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLA  146 (789)
T ss_dssp             HHHHHHHHTSEEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            555556666666799999999999999999998874

>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=92.17  E-value=1.5  Score=32.11  Aligned_cols=21  Identities=24%  Similarity=0.175  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +.+.|-+++|||||+.++...
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHH
Confidence            789999999999999999754

>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=92.17  E-value=0.079  Score=33.20  Aligned_cols=34  Identities=6%  Similarity=-0.055  Sum_probs=29.7

Q ss_pred             hhHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHh
Q 021937          268 KDIEQISYWLLNESFADSFKRIQNLSFIIRLVLFV  302 (305)
Q Consensus       268 ~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  302 (305)
                      +.++.+.+.++++|+++|+.++..|...+ ++.++
T Consensus         2 d~iSA~~KSiRgSD~dAAlywlarml~~G-D~~~i   35 (88)
T d2qw6a1           2 DVISAFQKSIRGSDVDAALHYLARLVEAG-DLASI   35 (88)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CHHHH
T ss_pred             cHHHHHHHHHHcCCccHHHHHHHHHHHcC-ChhHH
Confidence            46889999999999999999999999987 66553

>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=91.67  E-value=0.03  Score=45.29  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHHh
Q 021937           77 LLLYGPPGTGKTSTILAVARKLY   99 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~~   99 (305)
                      +.|.|+-|+||||+++.+++.+.
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            78899999999999999988763

>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=91.56  E-value=0.89  Score=35.45  Aligned_cols=35  Identities=29%  Similarity=0.310  Sum_probs=24.8

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        64 ~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .+.-++--++.+.+.|.|++|+|||+++..++...
T Consensus        58 aID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          58 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEecccCccCCCEEEeecCCCCChHHHHHHHHHhH
Confidence            33334444455568999999999999988777543

>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=91.47  E-value=0.35  Score=37.74  Aligned_cols=25  Identities=28%  Similarity=0.259  Sum_probs=19.8

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +...+.|.|++|+|||+++..+...
T Consensus        66 ~GQr~~Ifg~~g~GKt~l~~~~~~~   90 (276)
T d1fx0a3          66 RGQRELIIGDRQTGKTAVATDTILN   90 (276)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHT
T ss_pred             CCceEeeccCCCCChHHHHHHHHhh
Confidence            3445889999999999999876544

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=91.43  E-value=0.78  Score=35.65  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=21.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .++.+.|..|+|||||+.++....
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            458999999999999999998765

>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=91.30  E-value=0.033  Score=44.41  Aligned_cols=21  Identities=33%  Similarity=0.540  Sum_probs=18.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      -+|+||.|+|||+++.++.-.
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~   47 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWV   47 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            589999999999999999553

>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=91.29  E-value=1  Score=32.96  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +.+.|-.+.|||||+.++...+
T Consensus         6 i~iiGHvd~GKSTL~~~l~~~~   27 (196)
T d1d2ea3           6 VGTIGHVDHGKTTLTAAITKIL   27 (196)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHHH
Confidence            7899999999999999997643

>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=91.08  E-value=0.054  Score=45.15  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      -+|+||.|+|||+++.++.-.+
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            4899999999999999997443

>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=91.03  E-value=0.064  Score=43.42  Aligned_cols=26  Identities=35%  Similarity=0.522  Sum_probs=19.3

Q ss_pred             HHHhcCCCCeEEEECCCCCcHHHHHH
Q 021937           67 RLTSENRLPHLLLYGPPGTGKTSTIL   92 (305)
Q Consensus        67 ~~l~~~~~~~~ll~G~~G~GKT~l~~   92 (305)
                      ..+..+....++-||.+|+|||+++.
T Consensus        78 ~~~~~G~n~~i~aYGqTGSGKTyTm~  103 (330)
T d1ry6a_          78 DLYENGCVCSCFAYGQTGSGKTYTML  103 (330)
T ss_dssp             HHHHHCCEEEEEEECCTTSSHHHHHH
T ss_pred             HHHhcCCCeEEEeeeccccccceeee
Confidence            44444544458999999999999874

>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=90.81  E-value=0.06  Score=44.86  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=19.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~l~~   96 (305)
                      -++.+.|.+|+||||+++++..
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            3499999999999999999974

>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=90.59  E-value=0.11  Score=39.42  Aligned_cols=34  Identities=21%  Similarity=0.274  Sum_probs=26.9

Q ss_pred             EEECCCCCcHHHHHHHHHHHHhCCCCcccEEEee
Q 021937           78 LLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (305)
Q Consensus        78 ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~  111 (305)
                      +..+..|+||||++..++..+...+....++..+
T Consensus         7 v~~~kGGvGKTtia~nLA~~la~~g~~VlliD~D   40 (237)
T d1g3qa_           7 IVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGD   40 (237)
T ss_dssp             EECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            4448899999999999999998777665555554

>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=90.57  E-value=0.07  Score=43.65  Aligned_cols=21  Identities=29%  Similarity=0.526  Sum_probs=16.5

Q ss_pred             cCCCCeEEEECCCCCcHHHHH
Q 021937           71 ENRLPHLLLYGPPGTGKTSTI   91 (305)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~   91 (305)
                      .+....++-||++|+|||+++
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            344445899999999999876

>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=89.99  E-value=0.3  Score=35.45  Aligned_cols=19  Identities=26%  Similarity=0.406  Sum_probs=17.3

Q ss_pred             EEEECCCCCcHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVA   95 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~   95 (305)
                      ++++|++++|||..|..++
T Consensus         2 iLVtGGarSGKS~~AE~l~   20 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALI   20 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHH
Confidence            6899999999999999875

>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=89.94  E-value=0.13  Score=41.30  Aligned_cols=22  Identities=32%  Similarity=0.477  Sum_probs=17.7

Q ss_pred             cCCCCeEEEECCCCCcHHHHHH
Q 021937           71 ENRLPHLLLYGPPGTGKTSTIL   92 (305)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~~   92 (305)
                      .+....++-||++|+|||+++.
T Consensus        73 ~G~n~~i~aYGqtgSGKTyT~~   94 (323)
T d1bg2a_          73 EGYNGTIFAYGQTSSGKTHTME   94 (323)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHT
T ss_pred             cCCCcceeeecccCCCCceecc
Confidence            4444559999999999999874

>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=89.35  E-value=1  Score=36.07  Aligned_cols=34  Identities=9%  Similarity=0.218  Sum_probs=24.9

Q ss_pred             HHHHHhc-CCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           65 IDRLTSE-NRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        65 l~~~l~~-~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      +...... ....++.+.|..|.|||||+.++....
T Consensus         7 ~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~~~   41 (341)
T d1n0ua2           7 MRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRA   41 (341)
T ss_dssp             HHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHHHH
T ss_pred             HHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHHHC
Confidence            3444433 234459999999999999999997654

>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=89.22  E-value=0.066  Score=42.71  Aligned_cols=19  Identities=32%  Similarity=0.490  Sum_probs=15.8

Q ss_pred             CeEEEECCCCCcHHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTILA   93 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~~   93 (305)
                      ...++.|.+|||||||...
T Consensus        15 ~valffGLSGTGKTTLs~~   33 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLSTD   33 (318)
T ss_dssp             CEEEEEECTTSCHHHHTCB
T ss_pred             CEEEEEccCCCCccccccC
Confidence            3479999999999997654

>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=88.74  E-value=0.37  Score=37.96  Aligned_cols=49  Identities=14%  Similarity=0.185  Sum_probs=29.0

Q ss_pred             ceEEEEEeCCCcCCHHHHHHHHHHHHHhcCCceEEEEecCCcccchhhhc
Q 021937          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQS  190 (305)
Q Consensus       141 ~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l~~~l~~  190 (305)
                      +..+||+||+|.+..... ...+.+.......+++++++....-...+.+
T Consensus       192 ~~~~vI~DEaH~ikn~~s-~~~~a~~~l~~~~rllLTGTPi~N~~~dl~~  240 (298)
T d1z3ix2         192 KVGLVICDEGHRLKNSDN-QTYLALNSMNAQRRVLISGTPIQNDLLEYFS  240 (298)
T ss_dssp             CCCEEEETTGGGCCTTCH-HHHHHHHHHCCSEEEEECSSCSGGGGGGCHH
T ss_pred             ceeeeecccccccccccc-hhhhhhhccccceeeeecchHHhhhhHHHHH
Confidence            356899999999964321 2223333445566777777665544444433

>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=88.67  E-value=0.086  Score=41.85  Aligned_cols=18  Identities=33%  Similarity=0.523  Sum_probs=15.2

Q ss_pred             CeEEEECCCCCcHHHHHH
Q 021937           75 PHLLLYGPPGTGKTSTIL   92 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~l~~   92 (305)
                      ...++.|.+|||||||..
T Consensus        15 ~~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          15 DVAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             CEEEEECSTTSSHHHHHC
T ss_pred             CEEEEEccCCCCccccee
Confidence            347899999999999764

>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=88.54  E-value=0.62  Score=38.55  Aligned_cols=41  Identities=27%  Similarity=0.302  Sum_probs=35.1

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .|++.++.|...+..+. ...+|.|.+|+|||.++..+++..
T Consensus        15 DQP~aI~~l~~~l~~g~-~~q~l~GltGS~ka~~iA~l~~~~   55 (413)
T d1t5la1          15 DQPQAIAKLVDGLRRGV-KHQTLLGATGTGKTFTISNVIAQV   55 (413)
T ss_dssp             THHHHHHHHHHHHHHTC-SEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhcCC-CcEEEeCCCCcHHHHHHHHHHHHh
Confidence            47888999999887664 457899999999999999998887

>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=87.51  E-value=0.29  Score=39.57  Aligned_cols=35  Identities=29%  Similarity=0.535  Sum_probs=23.5

Q ss_pred             chHHHHHHHHHHh---cCCCCeEEEECCCCCcHHHHHH
Q 021937           58 HRDIVDTIDRLTS---ENRLPHLLLYGPPGTGKTSTIL   92 (305)
Q Consensus        58 ~~~~~~~l~~~l~---~~~~~~~ll~G~~G~GKT~l~~   92 (305)
                      |+++.+.+...+.   .+....++-||.+|+|||+++.
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            5555555554443   2333348899999999998874

>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=87.47  E-value=0.22  Score=40.39  Aligned_cols=21  Identities=38%  Similarity=0.504  Sum_probs=16.6

Q ss_pred             cCCCCeEEEECCCCCcHHHHH
Q 021937           71 ENRLPHLLLYGPPGTGKTSTI   91 (305)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~   91 (305)
                      .+....++-||++|+|||+++
T Consensus        78 ~G~n~~i~aYGqtgSGKTyTm   98 (345)
T d1x88a1          78 MGYNCTIFAYGQTGTGKTFTM   98 (345)
T ss_dssp             TTCEEEEEEEECTTSSHHHHH
T ss_pred             ccCCceEEeeeeccccceEEe
Confidence            344445899999999999876

>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=87.28  E-value=0.18  Score=40.18  Aligned_cols=18  Identities=33%  Similarity=0.530  Sum_probs=15.4

Q ss_pred             eEEEECCCCCcHHHHHHH
Q 021937           76 HLLLYGPPGTGKTSTILA   93 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l~~~   93 (305)
                      ..++.|.+|||||||...
T Consensus        16 ~alfFGLSGTGKTTLs~d   33 (323)
T d1ii2a1          16 VTVFFGLSGTGKTTLSAD   33 (323)
T ss_dssp             EEEEECCTTSSHHHHHCC
T ss_pred             EEEEEccCCCCcccceeC
Confidence            478999999999999843

>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=87.26  E-value=0.26  Score=40.03  Aligned_cols=21  Identities=33%  Similarity=0.566  Sum_probs=17.1

Q ss_pred             cCCCCeEEEECCCCCcHHHHH
Q 021937           71 ENRLPHLLLYGPPGTGKTSTI   91 (305)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~   91 (305)
                      .+....++-||++|+|||+++
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            344455899999999999987

>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=86.15  E-value=3.6  Score=29.49  Aligned_cols=20  Identities=25%  Similarity=0.288  Sum_probs=18.2

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +.+.|-...|||||+.++..
T Consensus         8 IaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           8 IGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEeccCCcHHHHHHHHHh
Confidence            68999999999999999964

>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=86.00  E-value=0.15  Score=41.81  Aligned_cols=21  Identities=38%  Similarity=0.591  Sum_probs=16.5

Q ss_pred             cCCCCeEEEECCCCCcHHHHH
Q 021937           71 ENRLPHLLLYGPPGTGKTSTI   91 (305)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~   91 (305)
                      .|....++-||++|+|||+++
T Consensus        72 ~G~n~~i~aYGqTGSGKTyTm   92 (364)
T d1sdma_          72 DGYNVCIFAYGQTGSGKTFTI   92 (364)
T ss_dssp             TTCEEEEEEECSTTSSHHHHH
T ss_pred             cCCceeeeccccCCCCccccc
Confidence            343344899999999999986

>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=85.93  E-value=4.6  Score=29.22  Aligned_cols=20  Identities=25%  Similarity=0.363  Sum_probs=18.3

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 021937           77 LLLYGPPGTGKTSTILAVAR   96 (305)
Q Consensus        77 ~ll~G~~G~GKT~l~~~l~~   96 (305)
                      +.+.|....|||||+.++..
T Consensus        11 i~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3          11 IGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             EEEECSTTSSHHHHHHHHHS
T ss_pred             EEEEEccCCcHHHHHHHHHh
Confidence            88999999999999999964

>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=85.87  E-value=0.2  Score=40.93  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=17.1

Q ss_pred             cCCCCeEEEECCCCCcHHHHHH
Q 021937           71 ENRLPHLLLYGPPGTGKTSTIL   92 (305)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~~   92 (305)
                      .+....++-||++|+|||+++.
T Consensus       111 ~G~n~tifaYGqTGSGKTyTm~  132 (362)
T d1v8ka_         111 EGGKATCFAYGQTGSGKTHTMG  132 (362)
T ss_dssp             TTCEEEEEEEESTTSSHHHHHH
T ss_pred             hccCceEEeeccCCCCCceeee
Confidence            3443458999999999998874

>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=84.53  E-value=0.23  Score=40.67  Aligned_cols=21  Identities=33%  Similarity=0.569  Sum_probs=16.4

Q ss_pred             cCCCCeEEEECCCCCcHHHHH
Q 021937           71 ENRLPHLLLYGPPGTGKTSTI   91 (305)
Q Consensus        71 ~~~~~~~ll~G~~G~GKT~l~   91 (305)
                      .+....++-||++|+|||+++
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            343344899999999999875

>d2akab1 c.37.1.8 (B:6-304) Dynamin G 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: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=84.50  E-value=0.57  Score=36.73  Aligned_cols=25  Identities=24%  Similarity=0.477  Sum_probs=21.6

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH
Q 021937           73 RLPHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        73 ~~~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      ..|.++++|.-++||||+++++...
T Consensus        25 ~~P~ivvvG~~SsGKSsliNaLlg~   49 (299)
T d2akab1          25 DLPQIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTS
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHhCC
Confidence            3455899999999999999999864

>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=84.22  E-value=1.2  Score=36.79  Aligned_cols=41  Identities=24%  Similarity=0.354  Sum_probs=34.7

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHH
Q 021937           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (305)
Q Consensus        57 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   98 (305)
                      .|++.++.|...+..+. ....|.|.+|++|+.++.++++..
T Consensus        12 dqp~aI~~l~~~L~~g~-~~~~L~GlsgS~ka~~~A~l~~~~   52 (408)
T d1c4oa1          12 DQPKAIAGLVEALRDGE-RFVTLLGATGTGKTVTMAKVIEAL   52 (408)
T ss_dssp             THHHHHHHHHHHHHTTC-SEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhcCC-CcEEEecCCCCHHHHHHHHHHHHh
Confidence            36778899999998654 347999999999999999999887

>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=83.85  E-value=2.1  Score=28.32  Aligned_cols=72  Identities=8%  Similarity=0.252  Sum_probs=44.1

Q ss_pred             eEEEEEeC-CCcCCHHHHHHHHHHHHHhcCCceEEEEecCC--cccchhhhcceeEEEecCCCHHHHHHHHHHHHHHc
Q 021937          142 VKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTRFALICNQV--NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE  216 (305)
Q Consensus       142 ~~vliiDe-~~~l~~~~~~~l~~~l~~~~~~~~iil~~~~~--~~l~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~  216 (305)
                      +.++++|- ...++  .. .+.+.+.....+..+|++|...  ......+..-+.-+-.+|++.+++...++..+++.
T Consensus        46 ~dlvl~D~~mP~~~--G~-el~~~ir~~~~~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~rr  120 (121)
T d1ys7a2          46 PDAIVLDINMPVLD--GV-SVVTALRAMDNDVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRR  120 (121)
T ss_dssp             CSEEEEESSCSSSC--HH-HHHHHHHHTTCCCCEEEEECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeeccCcc--cH-HHHHHHHhcCCCCEEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHcC
Confidence            68999994 33333  22 3334444444466666666332  22334444445667888999999999988877654

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=82.13  E-value=1.3  Score=33.39  Aligned_cols=15  Identities=27%  Similarity=0.563  Sum_probs=13.4

Q ss_pred             CeEEEECCCCCcHHH
Q 021937           75 PHLLLYGPPGTGKTS   89 (305)
Q Consensus        75 ~~~ll~G~~G~GKT~   89 (305)
                      ..+++..|+|+|||.
T Consensus        59 ~dvvi~a~TGsGKTl   73 (238)
T d1wrba1          59 RDIMACAQTGSGKTA   73 (238)
T ss_dssp             CCEEEECCTTSSHHH
T ss_pred             CCEEEECCCCCCcce
Confidence            359999999999996

>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=82.02  E-value=0.6  Score=36.39  Aligned_cols=39  Identities=21%  Similarity=0.261  Sum_probs=26.3

Q ss_pred             cccchHHHHHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHH
Q 021937           55 VAAHRDIVDTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        55 ~~g~~~~~~~l~~~l~~~~~~~--~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      +.-.++.++.|..    -..|.  +-+.||.++|||+|+..++..
T Consensus        15 l~~~~e~l~~l~~----~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          15 LMANPEALKILSA----ITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             EEECHHHHHHHHT----CCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             EEECHHHHHHHHc----CCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            3445555554433    33333  678999999999999988753

>d1jwyb_ c.37.1.8 (B:) Dynamin G 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: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=81.68  E-value=0.83  Score=35.90  Aligned_cols=24  Identities=25%  Similarity=0.624  Sum_probs=21.1

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q 021937           74 LPHLLLYGPPGTGKTSTILAVARK   97 (305)
Q Consensus        74 ~~~~ll~G~~G~GKT~l~~~l~~~   97 (305)
                      .|.+++.|..++||||+++++...
T Consensus        24 lP~ivVvG~~ssGKSSliNaLlG~   47 (306)
T d1jwyb_          24 LPQIVVVGSQSSGKSSVLENIVGR   47 (306)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHTS
T ss_pred             CCeEEEEeCCCCCHHHHHHHHhCC
Confidence            456999999999999999999863

>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=81.28  E-value=1.5  Score=34.18  Aligned_cols=43  Identities=21%  Similarity=0.384  Sum_probs=35.7

Q ss_pred             eEEEEEeCCCc-CCHHHHHHHHHHHHHhcCCceEEEEecCCccc
Q 021937          142 VKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (305)
Q Consensus       142 ~~vliiDe~~~-l~~~~~~~l~~~l~~~~~~~~iil~~~~~~~l  184 (305)
                      +.+++|||.+. +++..+..+..++++...+..+|++|.++.-+
T Consensus       242 ~~~~~iDEpe~~Lhp~~~~~l~~~l~~~~~~~QviitTHsp~~~  285 (308)
T d1e69a_         242 SPFYVLDEVDSPLDDYNAERFKRLLKENSKHTQFIVITHNKIVM  285 (308)
T ss_dssp             CSEEEEESCCSSCCHHHHHHHHHHHHHHTTTSEEEEECCCTTGG
T ss_pred             CchhhhhhccccCCHHHHHHHHHHHHHhccCCEEEEEECCHHHH
Confidence            57999999985 67888999999999888888999888775443

>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=80.81  E-value=1.1  Score=37.29  Aligned_cols=24  Identities=38%  Similarity=0.358  Sum_probs=18.4

Q ss_pred             eEEEECCCCCcHHHH-HHHHHHHHh
Q 021937           76 HLLLYGPPGTGKTST-ILAVARKLY   99 (305)
Q Consensus        76 ~~ll~G~~G~GKT~l-~~~l~~~~~   99 (305)
                      +.++.+.+|||||++ +..++..+.
T Consensus        18 ~~lv~A~AGsGKT~~l~~r~~~ll~   42 (485)
T d1w36b1          18 ERLIEASAGTGKTFTIAALYLRLLL   42 (485)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CeEEEEcCchHHHHHHHHHHHHHHh
Confidence            489999999999966 555666653