RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2778
(409 letters)
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. 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. The N-terminal domain contains the
pfam00004 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.
Length = 395
Score = 571 bits (1475), Expect = 0.0
Identities = 230/368 (62%), Positives = 286/368 (77%), Gaps = 15/368 (4%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
MIK K+AGRA+L+AGPPGTGKTA+A+A+S ELG PFCP+ GSEV+S E+KKTE L +
Sbjct: 42 MIKEGKIAGRAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEVYSLEMKKTEALTQ 101
Query: 61 NFRRAIGLRIKESKEVYEGEVTELTPVETENPMGGYGKTVSHVIIGLKTAKGTKQLKLDP 120
FR+AIG+RIKE KEVYEGEV EL E ENP+ GYGKT+ H I LKT K K LKL P
Sbjct: 102 AFRKAIGVRIKEEKEVYEGEVVELEIEEAENPLSGYGKTIKHGKITLKTTKMEKTLKLGP 161
Query: 121 TIYESLQKEKVEVGDVIYIEANSGAVKRQGRSDTFAAEFDLEAEEYVPLPKGDVHKKKEV 180
IYE LQKEKV+ GDVIYI+ N+G VK+ GRS A +FDLEA E+VP PKG+VHK+KEV
Sbjct: 162 KIYEQLQKEKVQAGDVIYIDKNTGKVKKLGRSFARATDFDLEATEFVPCPKGEVHKRKEV 221
Query: 181 IQDVTLHDLDMANAKPQGGQDILSMVGQLIKSKKTEITDKLRKEINKVVNKYIDQGIAEL 240
+Q VTLHD+D+ANA+P Q ILS+ KK EIT +LR+EINK VNK+I++G AE+
Sbjct: 222 VQTVTLHDIDVANARP---QGILSLF----SPKKGEITSELREEINKKVNKWIEEGKAEI 274
Query: 241 VPGVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISP 300
VPGVLFIDEVHMLD +E F++L+RALES +APIVI ATNRG C +RGT DIISP
Sbjct: 275 VPGVLFIDEVHMLD-------IECFSFLNRALESELAPIVILATNRGICTIRGT-DIISP 326
Query: 301 HGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVV 360
HGIPLDLLDRLLII T PY +++++ I+++RA EG + +EAL L++IG ++LRY +
Sbjct: 327 HGIPLDLLDRLLIITTEPYTREEIKQILEIRAQEEGVEISEEALDLLAKIGEETSLRYAI 386
Query: 361 QLLTPAAL 368
QLLTPA++
Sbjct: 387 QLLTPASI 394
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 546 bits (1408), Expect = 0.0
Identities = 220/409 (53%), Positives = 284/409 (69%), Gaps = 16/409 (3%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
MIK KMAGR IL+ GPPGTGKTA+A+ ++ ELG VPF + GSE++S E+KKTE L +
Sbjct: 57 MIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLEVKKTEALTQ 116
Query: 61 NFRRAIGLRIKESKEVYEGEVTELTPVETENPMGGYGKTVSHVIIGLKTAKGTKQLKLDP 120
RRAIG+RIKE++EVYEGEV EL NP+ YGK S II LKT K L+L P
Sbjct: 117 ALRRAIGVRIKETREVYEGEVVELEIRRARNPLNPYGKVPSGAIITLKTKDEEKTLRLGP 176
Query: 121 TIYESLQKEKVEVGDVIYIEANSGAVKRQGRSDTFAA-EFDLEAEEYVPLPKGDVHKKKE 179
I E L KE VE GDVIYI+A +G VK+ GRS A +FDLE +VPLP+G+V K+KE
Sbjct: 177 EIAEQLVKEGVEEGDVIYIDAETGRVKKLGRSKARAREDFDLEDTRFVPLPEGEVQKRKE 236
Query: 180 VIQDVTLHDLDMANAKPQGGQDILSMVGQLIKSKKTEITDKLRKEINKVVNKYIDQGIAE 239
++Q VTLHDLD+ANA+ QG ILS+ EITD++R+E+N+ V K+I++G AE
Sbjct: 237 IVQTVTLHDLDVANARAQG---ILSLFSGGTG----EITDEVREEVNEKVKKWIEEGKAE 289
Query: 240 LVPGVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIIS 299
LVPGVLFIDEVHMLD +E F++L+RALES +API+I ATNRG +RGT DI S
Sbjct: 290 LVPGVLFIDEVHMLD-------IECFSFLNRALESELAPIIILATNRGMTKIRGT-DIES 341
Query: 300 PHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYV 359
PHGIPLDLLDRLLII T PY+++++ II++RA E L D+AL L++IG ++LRY
Sbjct: 342 PHGIPLDLLDRLLIISTRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYA 401
Query: 360 VQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFM 408
VQLLTPA++ AK G + +D+ LFLD K S + + + +
Sbjct: 402 VQLLTPASIIAKRRGSKRVEVEDVERAKELFLDVKRSVEYVEKYEGLLL 450
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 46.4 bits (111), Expect = 2e-06
Identities = 23/55 (41%), Positives = 34/55 (61%), Gaps = 3/55 (5%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMEN-FRRA 65
+L+ GPPGTGKT +A A++ ELG PF + GSE+ S + ++E + F A
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELG--APFIEISGSELVSKYVGESEKRLRELFEAA 53
Score = 30.3 bits (69), Expect = 0.77
Identities = 25/114 (21%), Positives = 40/114 (35%), Gaps = 30/114 (26%)
Query: 216 EITDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHML--------------DLETFMPH 261
E+ K E K + + + +L P V+FIDE+ L + +
Sbjct: 33 ELVSKYVGESEKRLRELFEA-AKKLAPCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTE 91
Query: 262 LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIR 315
L+ FT + IVI ATNR D + + DR++
Sbjct: 92 LDGFTSSLSKV------IVIAATNR-------PDKLDPA--LLRGRFDRIIEFP 130
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 43.5 bits (103), Expect = 2e-04
Identities = 18/35 (51%), Positives = 24/35 (68%), Gaps = 2/35 (5%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+L+ GPPGTGKT +A A++ E VPF + GSE
Sbjct: 219 VLLVGPPGTGKTLLAKAIAGEAE--VPFFSISGSE 251
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 42.1 bits (100), Expect = 3e-04
Identities = 18/35 (51%), Positives = 24/35 (68%), Gaps = 2/35 (5%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+L+ GPPGTGKT +A A++HE F +VGSE
Sbjct: 168 VLLYGPPGTGKTLLAKAVAHE--TNATFIRVVGSE 200
>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH.
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 [Cellular processes, Cell
division, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 495
Score = 42.3 bits (100), Expect = 4e-04
Identities = 18/37 (48%), Positives = 26/37 (70%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +L+ GPPGTGKT +A A++ E G VPF + GS+
Sbjct: 89 KGVLLVGPPGTGKTLLAKAVAGEAG--VPFFSISGSD 123
>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. 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
Score = 39.4 bits (92), Expect = 8e-04
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGN-KVPFCPMVGSEVFSSEIKKTEVLMENFRRAIG 67
+ +L+ GPPGTGKT +A A+++EL PF + S++ + R
Sbjct: 19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFE 78
Query: 68 LR 69
L
Sbjct: 79 LA 80
Score = 32.9 bits (75), Expect = 0.12
Identities = 25/76 (32%), Positives = 29/76 (38%), Gaps = 17/76 (22%)
Query: 242 PGVLFIDEVHMLDLE---TFMPHLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDII 298
PGVLFIDE+ L + LET L E+ VI ATNR
Sbjct: 85 PGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENV---RVIGATNR-----------P 130
Query: 299 SPHGIPLDLLDRLLII 314
+ L DRL I
Sbjct: 131 LLGDLDRALYDRLDIR 146
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 40.5 bits (95), Expect = 0.001
Identities = 18/37 (48%), Positives = 24/37 (64%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
R +L+ GPPGTGKT +A A++H F +VGSE
Sbjct: 180 RGVLLYGPPGTGKTMLAKAVAHH--TTATFIRVVGSE 214
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 40.2 bits (94), Expect = 0.002
Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 3/58 (5%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMEN-FRRAIGL 68
+L+ GPPGTGKT +A A++ E F + GSE+ S + ++E + F +A L
Sbjct: 279 VLLYGPPGTGKTLLAKAVALESR--SRFISVKGSELLSKWVGESEKNIRELFEKARKL 334
Score = 29.8 bits (67), Expect = 2.6
Identities = 35/156 (22%), Positives = 59/156 (37%), Gaps = 25/156 (16%)
Query: 242 PGVLFIDEVHMLDLETFMPHLETFTYLHRA----------LESAIAPIVIFATNRGRCLV 291
P ++FIDE+ L R +E A +VI ATNR
Sbjct: 336 PSIIFIDEIDSL---ASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNR----- 387
Query: 292 RGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEI 350
D + P + DRL+ + + ++ I K+ + L ++ L L+EI
Sbjct: 388 ---PDDLDPALLRPGRFDRLIYV--PLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEI 442
Query: 351 GTRSTLRYVVQLLTPAALTA-KTNGRTAISKQDILE 385
+ + L+ AAL A + R ++ D L+
Sbjct: 443 TEGYSGADIAALVREAALEALREARRREVTLDDFLD 478
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 39.5 bits (93), Expect = 0.002
Identities = 15/22 (68%), Positives = 18/22 (81%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL 33
+L AGPPGTGKT ALA++ EL
Sbjct: 41 LLFAGPPGTGKTTAALALAREL 62
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 39.1 bits (92), Expect = 0.003
Identities = 12/25 (48%), Positives = 21/25 (84%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
+A+L+ GPPG GKT++A A++++ G
Sbjct: 40 KALLLYGPPGVGKTSLAHALANDYG 64
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit
[DNA replication, recombination, and repair].
Length = 332
Score = 39.1 bits (92), Expect = 0.003
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 1 MIKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELG 34
IK+ K G A +L+ GPPG GKT +A +++ELG
Sbjct: 41 FIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELG 77
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 39.0 bits (92), Expect = 0.003
Identities = 15/37 (40%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 1 MIKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELG 34
I++ K G A +L+ GPPG GKT +A +++E+G
Sbjct: 40 FIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMG 76
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 39.2 bits (91), Expect = 0.004
Identities = 21/45 (46%), Positives = 30/45 (66%), Gaps = 5/45 (11%)
Query: 5 KKMAGR---AILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+K+ G+ +LM GPPGTGKT +A A++ E KVPF + GS+
Sbjct: 178 QKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA--KVPFFTISGSD 220
>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily. 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.
Length = 733
Score = 39.1 bits (91), Expect = 0.004
Identities = 22/57 (38%), Positives = 35/57 (61%), Gaps = 3/57 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTE-VLMENFRRA 65
+ +L+ GPPGTGKT +A A++ E G F + G E+ S + ++E + E FR+A
Sbjct: 488 KGVLLFGPPGTGKTLLAKAVATESGAN--FIAVRGPEILSKWVGESEKAIREIFRKA 542
Score = 35.7 bits (82), Expect = 0.042
Identities = 22/57 (38%), Positives = 34/57 (59%), Gaps = 3/57 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEV-LMENFRRA 65
+ +L+ GPPGTGKT +A A+++E G F + G E+ S ++E L E F+ A
Sbjct: 213 KGVLLYGPPGTGKTLLAKAVANEAGAY--FISINGPEIMSKYYGESEERLREIFKEA 267
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 38.6 bits (90), Expect = 0.004
Identities = 17/42 (40%), Positives = 26/42 (61%), Gaps = 2/42 (4%)
Query: 6 KMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEV 47
A + +L GPPGTGKT +A A+++E KVP + +E+
Sbjct: 148 DWAPKNVLFYGPPGTGKTMMAKALANEA--KVPLLLVKATEL 187
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 37.2 bits (86), Expect = 0.005
Identities = 13/86 (15%), Positives = 29/86 (33%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAIG 67
++L+ GP GTGKT++ + L C + + L+ R +
Sbjct: 23 GPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERNPPYAFSQALRELLRQLLRELA 82
Query: 68 LRIKESKEVYEGEVTELTPVETENPM 93
+ +E + ++ +
Sbjct: 83 AELLLLREALLAALGAELIEGLQDLV 108
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 37.7 bits (88), Expect = 0.007
Identities = 13/28 (46%), Positives = 20/28 (71%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPF 39
+L + PGTGKT +A A+ +E+G +V F
Sbjct: 46 LLHSPSPGTGKTTVAKALCNEVGAEVLF 73
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 37.2 bits (87), Expect = 0.012
Identities = 16/35 (45%), Positives = 24/35 (68%), Gaps = 2/35 (5%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+L+ GPPGTGKT +A A++++ F +VGSE
Sbjct: 188 VLLYGPPGTGKTLLAKAVANQT--DATFIRVVGSE 220
>gnl|CDD|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB
N-terminus. 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
Score = 36.7 bits (86), Expect = 0.014
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 3/36 (8%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELG 34
I++ K G A +L+ GPPG GKT +A +++E+G
Sbjct: 40 IEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMG 75
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 37.3 bits (87), Expect = 0.015
Identities = 18/37 (48%), Positives = 26/37 (70%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +L+ GPPGTGKT +A A++ E G VPF + GS+
Sbjct: 184 KGVLLVGPPGTGKTLLAKAVAGEAG--VPFFSISGSD 218
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 36.3 bits (84), Expect = 0.023
Identities = 18/37 (48%), Positives = 25/37 (67%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +L+ GPPGTGKT +A A++HE F +VGSE
Sbjct: 157 KGVLLYGPPGTGKTLLAKAVAHE--TNATFIRVVGSE 191
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 36.2 bits (85), Expect = 0.027
Identities = 11/34 (32%), Positives = 23/34 (67%), Gaps = 2/34 (5%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELG 34
MI++ +++ ++++ GPPGTGKT +A ++
Sbjct: 30 MIEAGRLS--SMILWGPPGTGKTTLARIIAGATD 61
Score = 33.5 bits (78), Expect = 0.18
Identities = 35/139 (25%), Positives = 61/139 (43%), Gaps = 39/139 (28%)
Query: 223 KEINKVVNKYIDQGIAELVPGVLFIDEVHMLD---LETFMPHLETFTYLHRALESAIAPI 279
K++ +V+ + + A +LFIDE+H + + +PH+E T
Sbjct: 75 KDLREVIEEARQRRSAGRRT-ILFIDEIHRFNKAQQDALLPHVEDGTI-----------T 122
Query: 280 VIFATNRGRCLVRGTDD----IISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTE 335
+I AT T++ + LL R + P +++D+E ++K RA +
Sbjct: 123 LIGAT---------TENPSFEVNPA------LLSRAQVFELKPLSEEDIEQLLK-RALED 166
Query: 336 ---GHV-LDDEALVTLSEI 350
G V LDDEAL L+ +
Sbjct: 167 KERGLVELDDEALDALARL 185
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. 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
Score = 34.3 bits (78), Expect = 0.038
Identities = 15/26 (57%), Positives = 20/26 (76%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELG 34
G IL+ GPPG+GKT +A A++ ELG
Sbjct: 2 GEVILIVGPPGSGKTTLARALARELG 27
Score = 27.7 bits (61), Expect = 7.5
Identities = 19/79 (24%), Positives = 27/79 (34%), Gaps = 2/79 (2%)
Query: 233 IDQGIAELVPGVLFIDEVH-MLDLETFMPHLETFTYLHRALESAIAPI-VIFATNRGRCL 290
+L P VL +DE+ +LD E L L + + VI TN + L
Sbjct: 70 ALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDL 129
Query: 291 VRGTDDIISPHGIPLDLLD 309
I L L+
Sbjct: 130 GPALLRRRFDRRIVLLLIL 148
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 35.5 bits (82), Expect = 0.038
Identities = 13/22 (59%), Positives = 19/22 (86%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL 33
++++GPPGTGKT LA++HEL
Sbjct: 37 LILSGPPGTGKTTSILALAHEL 58
>gnl|CDD|219014 pfam06414, Zeta_toxin, Zeta toxin. This family consists of
several bacterial zeta toxin proteins. Zeta toxin is
thought to be part of a postregulational killing system
in bacteria. It relies on antitoxin/toxin systems that
secure stable inheritance of low and medium copy number
plasmids during cell division and kill cells that have
lost the plasmid.
Length = 191
Score = 34.6 bits (80), Expect = 0.056
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGN 35
A+L+ G PG GKT +A A+ ELG
Sbjct: 13 VAVLLGGQPGAGKTELARALLEELGG 38
>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit.
All proteins in this family for which functions are
known are 5'-3' DNA helicases that, as part of a
complex with RuvA homologs serve as a 5'-3' Holliday
junction helicase. 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 [DNA metabolism, DNA replication,
recombination, and repair].
Length = 305
Score = 34.6 bits (80), Expect = 0.066
Identities = 15/39 (38%), Positives = 25/39 (64%), Gaps = 3/39 (7%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELGNKV 37
I++ KM A +L+ GPPG GKT +A +++E+G +
Sbjct: 20 IEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNL 58
>gnl|CDD|213965 TIGR04352, HprK_rel_A, HprK-related kinase A. A number of protein
families resemble HPr kinase (see TIGR00679) but do not
belong to that system. They include this family, which
appears instead to be the marker for a different type of
gene neighborhood, in which one of the conserved
neighboring proteins resembles (but is distinct from)
PqqD.
Length = 280
Score = 34.6 bits (80), Expect = 0.071
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 9 GRAILMAGPPGTGKTAIALAMSH 31
GRA+++ PPG+GK+ + A++
Sbjct: 108 GRALILPAPPGSGKSTLCAALAL 130
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyzes the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling
inter- mediates into the (bacterio)chlorophyll branch
in response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 34.0 bits (79), Expect = 0.080
Identities = 10/15 (66%), Positives = 13/15 (86%)
Query: 12 ILMAGPPGTGKTAIA 26
+LM GPPG+GKT +A
Sbjct: 25 LLMIGPPGSGKTMLA 39
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 34.5 bits (80), Expect = 0.097
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 7/71 (9%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+++ + IL GPPGTGKT +A ++ F + S V S +K ++E
Sbjct: 42 AVEAGHL-HSMILW-GPPGTGKTTLARLIAGTT--NAAFEAL--SAVTSG-VKDLREIIE 94
Query: 61 NFRRAIGLRIK 71
R+ L +
Sbjct: 95 EARKNRLLGRR 105
Score = 29.9 bits (68), Expect = 2.4
Identities = 8/23 (34%), Positives = 15/23 (65%), Gaps = 3/23 (13%)
Query: 244 VLFIDEVHMLD---LETFMPHLE 263
+LF+DE+H + + +PH+E
Sbjct: 107 ILFLDEIHRFNKAQQDALLPHVE 129
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This
Pfam entry includes some of the AAA proteins not
detected by the pfam00004 model.
Length = 135
Score = 32.7 bits (75), Expect = 0.11
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPF 39
+L+ GPPGTGK+ +A ++ L N+ F
Sbjct: 2 VLLVGPPGTGKSELAERLAAALSNRPVF 29
>gnl|CDD|233355 TIGR01313, therm_gnt_kin, carbohydrate kinase, thermoresistant
glucokinase family. This model represents a subfamily
of proteins that includes thermoresistant and
thermosensitve isozymes of gluconate kinase
(gluconokinase) in E. coli and other related proteins;
members of this family are often named by similarity to
the thermostable isozyme. These proteins show homology
to shikimate kinases and adenylate kinases but not to
gluconate kinases from the FGGY family of carbohydrate
kinases.
Length = 163
Score = 32.4 bits (74), Expect = 0.22
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 12 ILMAGPPGTGKTAIALAMSHELG 34
++ G G+GK+ IA A++H LG
Sbjct: 1 FVLMGVAGSGKSTIASALAHRLG 23
>gnl|CDD|233087 TIGR00678, holB, DNA polymerase III, delta' subunit. 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
Score = 32.6 bits (75), Expect = 0.25
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHEL 33
++ ++A A L AGP G GK +ALA++ L
Sbjct: 7 ALEKGRLAH-AYLFAGPEGVGKELLALALAKAL 38
>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase. 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
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 512
Score = 33.1 bits (76), Expect = 0.25
Identities = 12/28 (42%), Positives = 20/28 (71%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKV 37
+ +L+ GPPG GKT IA A+++ L ++
Sbjct: 217 KGVLLYGPPGCGKTLIAKAVANSLAARI 244
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 31.6 bits (72), Expect = 0.27
Identities = 16/79 (20%), Positives = 31/79 (39%), Gaps = 11/79 (13%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKV-----------PFCPMVGSEVFSSEIKKTEVLME 60
IL+ G PG+GKT +A ++ LG+ + + E + K L++
Sbjct: 1 ILITGTPGSGKTTLAKELAERLGDVLRDLAKENGLVLELDEEITDESKRLDEDKLAKLLD 60
Query: 61 NFRRAIGLRIKESKEVYEG 79
+ I + + +G
Sbjct: 61 KLEKIIEELAEGENVIIDG 79
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 32.6 bits (75), Expect = 0.28
Identities = 12/25 (48%), Positives = 20/25 (80%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
+ I++AGP +GKTA+A+A++ LG
Sbjct: 4 KLIVIAGPTASGKTALAIALAKRLG 28
>gnl|CDD|226459 COG3950, COG3950, Predicted ATP-binding protein involved in
virulence [General function prediction only].
Length = 440
Score = 33.0 bits (75), Expect = 0.29
Identities = 21/83 (25%), Positives = 38/83 (45%), Gaps = 12/83 (14%)
Query: 179 EVIQDVTLHDL---------DMANAKPQGGQDILSMVGQLIKSKKTEITDKLRKEINKVV 229
E I + +DL GG+ LS + ++K + D R+ + V+
Sbjct: 227 ENISSTSWNDLLIGSQRKHELFMK-HGNGGEIPLSELSDGPRTKFALVADIARRCV--VL 283
Query: 230 NKYIDQGIAELVPGVLFIDEVHM 252
N Y+ +A+L PG++ IDE+ +
Sbjct: 284 NPYLSDALAKLTPGIVLIDEIDL 306
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 33.1 bits (76), Expect = 0.30
Identities = 14/28 (50%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 5 KKMAG--RAILMAGPPGTGKTAIALAMS 30
KK A R ++M G PGTGK+ +A AM+
Sbjct: 44 KKAAKQRRHVMMIGSPGTGKSMLAKAMA 71
Score = 28.4 bits (64), Expect = 7.5
Identities = 11/15 (73%), Positives = 14/15 (93%)
Query: 243 GVLFIDEVHMLDLET 257
GVLFIDE++ LDLE+
Sbjct: 228 GVLFIDEINTLDLES 242
>gnl|CDD|225369 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA
replication, recombination, and repair].
Length = 515
Score = 32.8 bits (75), Expect = 0.32
Identities = 25/105 (23%), Positives = 43/105 (40%), Gaps = 21/105 (20%)
Query: 244 VLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIV-IFATNRGRCLVRGTDDIISPHG 302
V IDEVHML + + F L + LE + + I AT T+ P
Sbjct: 122 VYIIDEVHML---SK----QAFNALLKTLEEPPSHVKFILAT---------TE----PQK 161
Query: 303 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTL 347
IP +L R + +++ + + EG ++++AL +
Sbjct: 162 IPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLI 206
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 33.0 bits (75), Expect = 0.32
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 9/48 (18%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKV---------PFCPMVGSEV 47
G+ IL+ G PG GKT++ A++ + G K+ C + GS++
Sbjct: 1543 GKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQTDLCDLFGSDL 1590
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 32.5 bits (75), Expect = 0.34
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 6/76 (7%)
Query: 313 IIRTTPYNQKDMEAIIKLRAN---TEGHVLDDEALVTLSEIGTRST--LRYVVQLLTPAA 367
I PY ++ I+K R G V+DDE L ++++ R R + LL A
Sbjct: 201 EIYFPPYTADEIFDILKDRVEEGFYPG-VVDDEVLDLIADLTAREHGDARVAIDLLRRAG 259
Query: 368 LTAKTNGRTAISKQDI 383
L A+ G ++++D+
Sbjct: 260 LIAEREGSRKVTEEDV 275
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 31.5 bits (72), Expect = 0.34
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 12 ILMAGPPGTGKTAIALAMSHELG 34
I++ G G+GK+ + A++ LG
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLG 24
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 32.0 bits (73), Expect = 0.46
Identities = 14/28 (50%), Positives = 20/28 (71%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELG 34
+AG +L+ GPPG GKT +A A++ LG
Sbjct: 41 LAGGHVLLEGPPGVGKTLLARALARALG 68
>gnl|CDD|131688 TIGR02640, gas_vesic_GvpN, gas vesicle protein GvpN. 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) [Cellular processes,
Other].
Length = 262
Score = 32.1 bits (73), Expect = 0.47
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHELGNKV 37
+G + + GP GTGKT +A+ ++ + V
Sbjct: 20 SGYPVHLRGPAGTGKTTLAMHVARKRDRPV 49
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 31.8 bits (73), Expect = 0.50
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 8 AGRAIL-MAGPPGTGKTAIALAMSHELGNK 36
R I+ +AGPPG GK+ +A + L
Sbjct: 31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQD 60
>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional.
Length = 584
Score = 32.3 bits (74), Expect = 0.50
Identities = 26/99 (26%), Positives = 37/99 (37%), Gaps = 11/99 (11%)
Query: 304 PLDLLDRL--------LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTR-- 353
P L DRL L +R D + I RA EA+ L
Sbjct: 153 PAALADRLAFHLDLDGLALRDAREIPIDADDIAAARARLPAVGPPPEAIAALCAAAAALG 212
Query: 354 -STLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL 391
++LR + L A A GRTA+ ++D+ + L L
Sbjct: 213 IASLRAPLLALRAARAAAALAGRTAVEEEDLALAARLVL 251
>gnl|CDD|130082 TIGR01009, rpsC_bact, ribosomal protein S3, bacterial type. This
model describes the bacterial type of ribosomal protein
S3. Chloroplast and mitochondrial forms have large,
variable inserts between conserved N-terminal and
C-terminal domains. This model recognizes all bacterial
forms and many chloroplast forms above the trusted
cutoff score. TIGRFAMs model TIGR01008 describes S3 of
the eukaryotic cytosol and of the archaea [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 211
Score = 31.5 bits (72), Expect = 0.52
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 207 GQLIKSKKTEITDKLRKEINKVVNKYIDQGIAE 239
G +I K +EI +KLRK++ K+ K + IAE
Sbjct: 74 GIVIGKKGSEI-EKLRKDLQKLTGKEVQINIAE 105
>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA. 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
Score = 32.1 bits (73), Expect = 0.53
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 6 KMAGRA--ILMAGPPGTGKTAIALAMS 30
+A + +L AGPPGTGKT IA ++
Sbjct: 307 PVAQTSNHMLFAGPPGTGKTTIARVVA 333
>gnl|CDD|222165 pfam13481, AAA_25, AAA domain. This AAA domain is found in a
wide variety of presumed DNA repair proteins.
Length = 154
Score = 31.1 bits (71), Expect = 0.53
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHELGNKVPF 39
G L+AG PGTGK+ +AL ++ + PF
Sbjct: 32 RGGLTLLAGAPGTGKSTLALDLAAAVATGRPF 63
>gnl|CDD|234626 PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate
transferase; Reviewed.
Length = 307
Score = 31.6 bits (73), Expect = 0.57
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELG 34
M + I++ GP +GKTA+A+ ++ L
Sbjct: 2 MKPKVIVIVGPTASGKTALAIELAKRLN 29
>gnl|CDD|223455 COG0378, HypB, Ni2+-binding GTPase involved in regulation of
expression and maturation of urease and hydrogenase
[Posttranslational modification, protein turnover,
chaperones / Transcription].
Length = 202
Score = 31.4 bits (72), Expect = 0.57
Identities = 12/40 (30%), Positives = 18/40 (45%)
Query: 5 KKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVG 44
K I + GPPG+GKTA+ L ++ + G
Sbjct: 9 KNRPMLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITG 48
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2;
Reviewed.
Length = 337
Score = 31.9 bits (73), Expect = 0.58
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 13 LMAGPPGTGKTAIALAMSHEL 33
L+ GPPG+GKTA A++ EL
Sbjct: 40 LVQGPPGSGKTAAVRALAREL 60
>gnl|CDD|110677 pfam01695, IstB_IS21, IstB-like ATP binding protein. This
protein contains an ATP/GTP binding P-loop motif. It is
found associated with IS21 family insertion sequences.
The function of this protein is unknown, but it may
perform a transposase function.
Length = 178
Score = 31.1 bits (71), Expect = 0.59
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 12 ILMAGPPGTGKTAIALAMSHE 32
+L+ GPPG GKT +A A+ H+
Sbjct: 50 LLLLGPPGVGKTHLACALGHQ 70
>gnl|CDD|190347 pfam02562, PhoH, PhoH-like protein. PhoH is a cytoplasmic
protein and predicted ATPase that is induced by
phosphate starvation.
Length = 205
Score = 31.3 bits (72), Expect = 0.60
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAM 29
I+ + + GP GTGKT +A+A
Sbjct: 15 AIRKNDI----VFGIGPAGTGKTYLAVAA 39
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 32.1 bits (74), Expect = 0.60
Identities = 13/33 (39%), Positives = 22/33 (66%)
Query: 4 SKKMAGRAILMAGPPGTGKTAIALAMSHELGNK 36
+KK+ G + + GPPG GKT++ +++ LG K
Sbjct: 345 TKKLKGPILCLVGPPGVGKTSLGKSIAKALGRK 377
>gnl|CDD|215451 PLN02840, PLN02840, tRNA dimethylallyltransferase.
Length = 421
Score = 31.7 bits (72), Expect = 0.77
Identities = 11/35 (31%), Positives = 21/35 (60%)
Query: 3 KSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKV 37
SK + I+++GP G GK+ +AL ++ L ++
Sbjct: 15 ASKTKKEKVIVISGPTGAGKSRLALELAKRLNGEI 49
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 31.7 bits (72), Expect = 0.81
Identities = 16/38 (42%), Positives = 26/38 (68%), Gaps = 2/38 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEV 47
+ +++ GPPGTGKT +A A+++E F +VGSE+
Sbjct: 218 KGVILYGPPGTGKTLLAKAVANE--TSATFLRVVGSEL 253
>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 472
Score = 31.7 bits (72), Expect = 0.82
Identities = 31/123 (25%), Positives = 50/123 (40%), Gaps = 24/123 (19%)
Query: 244 VLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIV-IFATNRGRCLVRGTDDIISPHG 302
V IDEVHML E F L+T LE + +V + AT +
Sbjct: 120 VYIIDEVHMLTKEAFNALLKT-------LEEPPSHVVFVLATT-------------NLEK 159
Query: 303 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLS---EIGTRSTLRYV 359
+P ++ R +I + + + ++ A EG +D EAL ++ G R L +
Sbjct: 160 VPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTML 219
Query: 360 VQL 362
Q+
Sbjct: 220 EQV 222
Score = 28.6 bits (64), Expect = 7.1
Identities = 23/92 (25%), Positives = 40/92 (43%), Gaps = 10/92 (10%)
Query: 177 KKEVIQDVTLHDLDMANAKPQGG-QDILSMVGQLIKSKKTEITDKLRKEI-----NKVVN 230
+ E I ++ L + GG +D L+M+ Q+ K + +IT + E +VV
Sbjct: 190 EAEGI-EIDREALSFIAKRASGGLRDALTMLEQVWKFSEGKITLETVHEALGLIPIEVVR 248
Query: 231 KYIDQGIAELVPGVL-FIDEVHM--LDLETFM 259
YI+ V V +D+V+ D E +
Sbjct: 249 DYINAIFNGDVKRVFTVLDDVYYSGKDYEVLI 280
>gnl|CDD|219158 pfam06745, KaiC, KaiC. This family represents a conserved region
within bacterial and archaeal proteins, most of which
are hypothetical. More than one copy is sometimes found
in each protein. This family includes KaiC, which is
one of the Kai proteins among which direct
protein-protein association may be a critical process
in the generation of circadian rhythms in
cyanobacteria.
Length = 231
Score = 30.7 bits (70), Expect = 1.1
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 9 GRAILMAGPPGTGKTAIAL 27
GR +L+ G PGTGKT L
Sbjct: 19 GRVVLITGGPGTGKTIFGL 37
>gnl|CDD|238977 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. 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.
Length = 69
Score = 28.5 bits (64), Expect = 1.2
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGN 35
I + G G+GK+ +A ++ +LG
Sbjct: 2 IAITGGSGSGKSTVAKKLAEQLGG 25
>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La. 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 [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 775
Score = 31.1 bits (71), Expect = 1.2
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 5 KKMAGRAILMAGPPGTGKTAIALAMSHELGNK 36
KM G + + GPPG GKT++ +++ L K
Sbjct: 343 GKMKGPILCLVGPPGVGKTSLGKSIAKALNRK 374
>gnl|CDD|181606 PRK08997, PRK08997, isocitrate dehydrogenase; Provisional.
Length = 334
Score = 30.8 bits (70), Expect = 1.4
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 12/77 (15%)
Query: 327 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVV------QLLTPAALTAKTNGR---TA 377
II +R NTEG + T+SE G + ++ +++ A A+ GR TA
Sbjct: 113 IITVRENTEGMYSGEGQ--TVSEDGETAEATSIITRKGAERIVRFAYELARKEGRKKVTA 170
Query: 378 ISKQDILE-VSTLFLDA 393
+ K +I++ S LFL
Sbjct: 171 VHKANIMKSTSGLFLKV 187
>gnl|CDD|133799 MTH00174, ATP6, ATP synthase F0 subunit 6; Provisional.
Length = 252
Score = 30.3 bits (68), Expect = 1.5
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 297 IISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRAN-TEGHVL 339
I+ P G PL L L II T Y + + ++L AN + GH+L
Sbjct: 149 ILMPQGAPLALAPLLTIIETLSYISRAISLGVRLAANISSGHLL 192
>gnl|CDD|236093 PRK07773, PRK07773, replicative DNA helicase; Validated.
Length = 886
Score = 30.9 bits (70), Expect = 1.6
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 16/57 (28%)
Query: 9 GRAILMAGPPGTGKTAIAL------AMSHELGNKVPFCPMVGSEVFSSEIKKTEVLM 59
G+ I++A P GKT L A+ H L +FS E+ K +++M
Sbjct: 217 GQLIIVAARPSMGKTTFGLDFARNCAIRHRL----------AVAIFSLEMSKEQLVM 263
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 30.4 bits (69), Expect = 1.7
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 5 KKMAGRAILMAGPPGTGKTAIALAMSHELG 34
K IL+ G G GK+ IA ++ LG
Sbjct: 85 KMKRPLIILIGGASGVGKSTIAGELARRLG 114
>gnl|CDD|131484 TIGR02431, pcaR_pcaU, beta-ketoadipate pathway transcriptional
regulators, PcaR/PcaU/PobR family. Member of this
family are IclR-type transcriptional regulators with
similar DNA binding sites, able to bind at least three
different metabolites related to protocatechuate
metabolism. Beta-ketoadipate is the inducer for PcaR,
p-hydroxybenzoate for PobR, and protocatechuate for PcaU
[Regulatory functions, DNA interactions].
Length = 248
Score = 30.3 bits (69), Expect = 1.7
Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 11/75 (14%)
Query: 282 FATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIK--LRANTEGHVL 339
+ T+ GR L+ G DD + L R + TP D +A++ L +G+ L
Sbjct: 134 YCTSMGRVLLAGLDDEELD-----EYLARSTLQALTPRTITDRDALLAELLAVRAQGYAL 188
Query: 340 DDEALVTLSEIGTRS 354
D+ L E+G RS
Sbjct: 189 VDQEL----ELGLRS 199
>gnl|CDD|233761 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins
in this family are believed to be cytidylate kinase.
Members of this family are found in the archaea and in
spirochaetes, and differ considerably from the common
bacterial form of cytidylate kinase described by
TIGR00017.
Length = 171
Score = 29.7 bits (67), Expect = 1.8
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNK 36
I ++GPPG+GKT +A ++ +L K
Sbjct: 3 ITISGPPGSGKTTVAKILAEKLSLK 27
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 30.6 bits (70), Expect = 1.9
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 2 IKSKKMAGRAILMAGPPGTGKTAIA 26
IK K+ A L +GP GTGKT+ A
Sbjct: 32 IKQGKI-SHAYLFSGPRGTGKTSAA 55
>gnl|CDD|180177 PRK05636, PRK05636, replicative DNA helicase; Provisional.
Length = 505
Score = 30.2 bits (68), Expect = 2.1
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 16/58 (27%)
Query: 8 AGRAILMAGPPGTGKTAIAL------AMSHELGNKVPFCPMVGSEVFSSEIKKTEVLM 59
G+ I++A PG GK+ +AL ++ H S +FS E+ K+E++M
Sbjct: 264 GGQMIIVAARPGVGKSTLALDFMRSASIKHNK----------ASVIFSLEMSKSEIVM 311
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 28.8 bits (64), Expect = 2.1
Identities = 12/26 (46%), Positives = 19/26 (73%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKV 37
IL+ GPPG+GK+ +A ++ +LG V
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKLGIPV 27
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and
metabolism].
Length = 218
Score = 29.6 bits (67), Expect = 2.2
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNK 36
M K +K I +AG G+GKT +A +S +LG +
Sbjct: 2 MKKPEK--VIIIGIAGGSGSGKTTVAKELSEQLGVE 35
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 29.9 bits (68), Expect = 2.5
Identities = 25/100 (25%), Positives = 41/100 (41%), Gaps = 9/100 (9%)
Query: 307 LLDRL-------LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYV 359
L DRL L++ P + + AI++ +A G + DE L L++ R+ +R +
Sbjct: 225 LEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRN-VREL 283
Query: 360 VQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARI 399
L A R AI+ + E+ L A I
Sbjct: 284 EGALNRLDAFALFTKR-AITIDLVKEILKDLLRAGEKITI 322
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 29.7 bits (68), Expect = 2.7
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPF 39
IL+ GP G+GKT +A ++ L VPF
Sbjct: 111 ILLIGPTGSGKTLLAQTLARIL--DVPF 136
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 28.9 bits (65), Expect = 2.8
Identities = 17/84 (20%), Positives = 29/84 (34%), Gaps = 16/84 (19%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAIGL 68
GR +L+ G PG+GK+ +A ++ LG + S I+K +
Sbjct: 1 GRLVLVGGLPGSGKSTLARGLAELLG---------AIRLRSDVIRKR-------LFGVPE 44
Query: 69 RIKESKEVYEGEVTELTPVETENP 92
+ +Y T E
Sbjct: 45 ETRGPAGLYSPAATAAVYDELLGR 68
>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24. 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
Score = 29.9 bits (67), Expect = 2.9
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 3/57 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVP--FCPMVGSEVFSSEIKKTEVLMENFRR 64
R +L+ GP G GK+ +S ELG +V P + ++ K T L F
Sbjct: 111 RILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQ-KNDHKVTLSLESCFSN 166
>gnl|CDD|233793 TIGR02237, recomb_radB, DNA repair and recombination protein
RadB. This family consists exclusively of archaeal
RadB protein, a homolog of bacterial RecA (TIGR02012),
eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and
archaeal RadA (TIGR02236).
Length = 209
Score = 29.3 bits (66), Expect = 3.0
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 6/39 (15%)
Query: 16 GPPGTGKTAIALAMS---HELGNKVPFCPMVGSEVFSSE 51
GPPG+GKT I + ++ G KV + + +E S E
Sbjct: 19 GPPGSGKTNICMILAVNAARQGKKVVY---IDTEGLSPE 54
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 29.7 bits (68), Expect = 3.1
Identities = 11/15 (73%), Positives = 11/15 (73%)
Query: 12 ILMAGPPGTGKTAIA 26
ILM GP G GKT IA
Sbjct: 53 ILMIGPTGVGKTEIA 67
>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau.
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
Score = 29.5 bits (67), Expect = 3.2
Identities = 15/31 (48%), Positives = 21/31 (67%), Gaps = 3/31 (9%)
Query: 2 IKSKKMAGRAILMAGPPGTGKTAIA--LAMS 30
IK+ ++A A L +GP GTGKT+IA A +
Sbjct: 30 IKNGRIAH-AYLFSGPRGTGKTSIARIFAKA 59
Score = 28.3 bits (64), Expect = 8.5
Identities = 31/106 (29%), Positives = 43/106 (40%), Gaps = 21/106 (19%)
Query: 247 IDEVHMLDLETFMPHLETFTYLHRALESAIAPIV-IFATNRGRCLVRGTDDIISPHGIPL 305
IDEVHML F L+T LE +V I AT T+ PH IP
Sbjct: 123 IDEVHMLSKSAFNALLKT-------LEEPPEHVVFILAT---------TE----PHKIPA 162
Query: 306 DLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG 351
+L R +D+ +K + EG ++DEAL ++
Sbjct: 163 TILSRCQRFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAA 208
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 29.3 bits (66), Expect = 3.2
Identities = 11/22 (50%), Positives = 18/22 (81%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL 33
+++ GPPG GKT +A+A+ +EL
Sbjct: 108 LVLLGPPGVGKTHLAIAIGNEL 129
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 29.5 bits (67), Expect = 3.3
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 7 MAGRAILMAGPPGTGKTAIAL--AMSHEL 33
+ GR +L + P GTGKTA L A+ H L
Sbjct: 36 LDGRDVLGSAPTGTGKTAAFLLPALQHLL 64
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 27.3 bits (61), Expect = 3.3
Identities = 10/13 (76%), Positives = 10/13 (76%)
Query: 16 GPPGTGKTAIALA 28
G PGTGKTA A A
Sbjct: 17 GGPGTGKTATAAA 29
>gnl|CDD|214436 MTH00151, ND5, NADH dehydrogenase subunit 5; Provisional.
Length = 565
Score = 29.4 bits (67), Expect = 3.5
Identities = 9/48 (18%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 220 KLRKEINKVVNKYIDQGIAELV--PGVLFIDEVHMLDLETFMPHLETF 265
L +++ K +D G E++ GV ++ + E++ F
Sbjct: 502 SLSLKLSNSSMKSLDMGWLEILGGQGVFKANKSFSVLNESWPVKWFNF 549
>gnl|CDD|200217 TIGR02880, cbbX_cfxQ, probable Rubsico expression protein CbbX.
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.
Length = 284
Score = 29.4 bits (66), Expect = 3.6
Identities = 13/22 (59%), Positives = 15/22 (68%), Gaps = 3/22 (13%)
Query: 16 GPPGTGKTAIALAMS---HELG 34
G PGTGKT +AL M+ H LG
Sbjct: 65 GNPGTGKTTVALRMAQILHRLG 86
>gnl|CDD|183088 PRK11331, PRK11331, 5-methylcytosine-specific restriction enzyme
subunit McrB; Provisional.
Length = 459
Score = 29.3 bits (65), Expect = 3.7
Identities = 13/30 (43%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 10 RAILMAGPPGTGKTAIALAMSHEL-GNKVP 38
+ I++ GPPG GKT +A +++ L G K P
Sbjct: 195 KNIILQGPPGVGKTFVARRLAYLLTGEKAP 224
>gnl|CDD|238484 cd00984, DnaB_C, DnaB helicase C terminal domain. The hexameric
helicase DnaB unwinds the DNA duplex at the chromosome
replication fork. Although the mechanism by which DnaB
both couples ATP hydrolysis to translocation along DNA
and denatures the duplex is unknown, a change in the
quaternary structure of the protein involving
dimerization of the N-terminal domain has been observed
and may occur during the enzymatic cycle. This
C-terminal domain contains an ATP-binding site and is
therefore probably the site of ATP hydrolysis.
Length = 242
Score = 29.0 bits (66), Expect = 4.1
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLM 59
I++A P GKTA AL ++ + K V FS E+ K ++L
Sbjct: 16 IIIAARPSMGKTAFALNIAENIAKKQGKP--VL--FFSLEMSKEQLLQ 59
>gnl|CDD|226412 COG3896, COG3896, Chloramphenicol 3-O-phosphotransferase [Defense
mechanisms].
Length = 205
Score = 28.7 bits (64), Expect = 4.1
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 3 KSKKMAGRAILMAGPPGTGKTAIALAM 29
+ GR +L+ G GK++IALA
Sbjct: 17 MAGMPEGRIVLLNGGSSAGKSSIALAF 43
>gnl|CDD|181551 PRK08769, PRK08769, DNA polymerase III subunit delta'; Validated.
Length = 319
Score = 29.2 bits (65), Expect = 4.3
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 9 GRAILMAGPPGTGKTAIALAMS-HELG 34
G +L+ GP G GK A+ALA++ H L
Sbjct: 26 GHGLLICGPEGLGKRAVALALAEHVLA 52
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 28.6 bits (64), Expect = 4.3
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCP 41
+++A P G+GKT AL + E +
Sbjct: 27 VILAAPTGSGKTLAALLPALEALKRGKGGR 56
>gnl|CDD|181681 PRK09183, PRK09183, transposase/IS protein; Provisional.
Length = 259
Score = 28.9 bits (65), Expect = 4.3
Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 3/31 (9%)
Query: 12 ILMAGPPGTGKTAIALAMSHE---LGNKVPF 39
I++ GP G GKT +A+A+ +E G KV F
Sbjct: 105 IVLLGPSGVGKTHLAIALGYEAVRAGIKVRF 135
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 29.4 bits (67), Expect = 4.5
Identities = 12/21 (57%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 10 RAILMAGPPGTGKT--AIALA 28
IL+AG PG GK+ A ALA
Sbjct: 258 EGILIAGAPGAGKSTFAQALA 278
>gnl|CDD|184925 PRK14961, PRK14961, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 363
Score = 29.0 bits (65), Expect = 4.6
Identities = 36/131 (27%), Positives = 50/131 (38%), Gaps = 22/131 (16%)
Query: 244 VLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPI-VIFATNRGRCLVRGTDDIISPHG 302
V IDEVHML +F L+T LE I I AT TD
Sbjct: 122 VYLIDEVHMLSRHSFNALLKT-------LEEPPQHIKFILAT---------TD----VEK 161
Query: 303 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQL 362
IP +L R L + +++ + +K E D+ AL ++ S +R + L
Sbjct: 162 IPKTILSRCLQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGS-MRDALNL 220
Query: 363 LTPAALTAKTN 373
L A K N
Sbjct: 221 LEHAINLGKGN 231
>gnl|CDD|237536 PRK13873, PRK13873, conjugal transfer ATPase TrbE; Provisional.
Length = 811
Score = 29.1 bits (66), Expect = 4.7
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 8/32 (25%)
Query: 246 FIDEV-HMLDL-ETFMPHL------ETFTYLH 269
F+D +LDL + FMP + ET TYLH
Sbjct: 157 FVDRTDRVLDLLDGFMPEIAWLDDAETLTYLH 188
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 29.3 bits (66), Expect = 4.7
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 10 RAILMAGPPGTGKTAIALAMS 30
IL+AG PG GK+ A A++
Sbjct: 264 EGILIAGAPGAGKSTFAQALA 284
>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB. 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
Score = 29.0 bits (65), Expect = 4.7
Identities = 26/87 (29%), Positives = 37/87 (42%), Gaps = 2/87 (2%)
Query: 300 PHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYV 359
P IP L R + I P ++++ I K A G L+ AL + + S R
Sbjct: 244 PEEIPPALRSRCVEIFFRPLLDEEIKEIAKNAAEKIGINLEKHALELIVKYA--SNGREA 301
Query: 360 VQLLTPAALTAKTNGRTAISKQDILEV 386
V ++ AA A GR I +DI V
Sbjct: 302 VNIVQLAAGIALGEGRKRILAEDIEWV 328
>gnl|CDD|116340 pfam07726, AAA_3, ATPase family associated with various cellular
activities (AAA). This Pfam entry includes some of the
AAA proteins not detected by the pfam00004 model.
Length = 131
Score = 27.9 bits (63), Expect = 4.8
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 9/46 (19%)
Query: 12 ILMAGPPGTGKTAIALAMSHELG---NKVPFCP------MVGSEVF 48
+L+ G PG KT +A ++ LG ++ F P + G+EV+
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDFRRIQFTPDLLPSDITGTEVY 47
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 29.2 bits (65), Expect = 4.9
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 9 GRAILMAGPPGTGKTAIALAMS 30
G +L+ GPPGTGKT +A ++
Sbjct: 210 GHNLLLIGPPGTGKTMLASRIN 231
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 29.1 bits (66), Expect = 5.0
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 9 GRAILMAGPPGTGKTAIA 26
G +L+ GPPGTGKT +A
Sbjct: 198 GHNLLLVGPPGTGKTMLA 215
>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily). This Pfam entry
includes some of the AAA proteins not detected by the
pfam00004 model.
Length = 168
Score = 28.3 bits (64), Expect = 5.1
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL-GNKVPFC 40
L GP G GKT +A A++ L G++
Sbjct: 6 FLFLGPTGVGKTELAKALAELLFGDERALI 35
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 28.6 bits (64), Expect = 5.1
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHEL 33
G +L+ GPPGTGKT AL +E
Sbjct: 22 RGSVVLITGPPGTGKTIFALQFLYEG 47
>gnl|CDD|185539 PTZ00286, PTZ00286, 6-phospho-1-fructokinase; Provisional.
Length = 459
Score = 28.9 bits (65), Expect = 5.2
Identities = 35/139 (25%), Positives = 52/139 (37%), Gaps = 30/139 (21%)
Query: 123 YESLQKEKVEVGDVIYIEANS-----GAVKRQGRSDTFAA----------------EFDL 161
+++ +E Y+EA S G VK GR F A EFD+
Sbjct: 228 FQTAVEEAQNAIRAAYVEAKSAKNGVGIVKLMGRDSGFIALHASVASADVNVCLIPEFDI 287
Query: 162 EAEEYVPLPKGDVHKKKEVIQDV------TLHDLDMANAKPQGGQDILSMVGQLIKSKKT 215
E + + + KK + V +L D D+ G L +G +K
Sbjct: 288 PLEGVLEYIEQRLQKKGHCVIVVAEGAGQSLKDADLDLGTDASGNKKLWDIGVYLKD--- 344
Query: 216 EITDKLRKEINKVVNKYID 234
EIT L+K+ + KYID
Sbjct: 345 EITKYLKKKKPEHTVKYID 363
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 28.9 bits (65), Expect = 5.2
Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKV 37
++K+++ R +++ P G GKT +A EL
Sbjct: 48 LVKNRRTERRGVIVL-PTGAGKTVVAAEAIAELKRST 83
>gnl|CDD|216270 pfam01057, Parvo_NS1, Parvovirus non-structural protein NS1. This
family also contains the NS2 protein. Parvoviruses
encode two non-structural proteins, NS1 and NS2. The
mRNA for NS2 contains the coding sequence for the first
87 amino acids of NS1, then by an alternative splicing
mechanism mRNA from a different reading frame, encoding
the last 78 amino acids, makes up the full length of the
NS2 mRNA. NS1, is the major non-structural protein. It
is essential for DNA replication. It is an 83-kDa
nuclear phosphoprotein. It has DNA helicase and ATPase
activity.
Length = 271
Score = 28.8 bits (65), Expect = 5.5
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 11 AILMAGPPGTGKTAIALAMSH 31
+ GP TGKT +A A++H
Sbjct: 115 TVWFYGPASTGKTNLAQAIAH 135
>gnl|CDD|220335 pfam09666, Sororin, Sororin protein. Sororin is an essential, cell
cycle-dependent mediator of sister chromatid cohesion.
The protein is nuclear in interphase cells, dispersed
from the chromatin in mitosis, and interacts with the
cohesin complex.
Length = 157
Score = 28.3 bits (63), Expect = 5.5
Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 148 RQGRSDTFAAEFDLEAEEYVPLPKGDVHKKKEVIQDVTLHDLDMANAKP 196
+QGR F E L E+ + K QDVTLH+ KP
Sbjct: 93 QQGRRSLFGFEGLLNPED-LSGVSPVTRSKTASEQDVTLHEKLQRLKKP 140
>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family.
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
Score = 29.1 bits (66), Expect = 5.6
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 13 LMAGPPGTGKTAIALAMSHEL 33
L+ GP G GKT ALA++ L
Sbjct: 600 LLVGPSGVGKTETALALAELL 620
Score = 28.8 bits (65), Expect = 6.6
Identities = 26/82 (31%), Positives = 34/82 (41%), Gaps = 24/82 (29%)
Query: 172 GDVHKKKEVIQDVTLHDLDMANAKPQGGQDILSMVGQLIKSKKTEITDKLRKEINKVVNK 231
GDV +++V L LD+ Q G S K E ++L K V
Sbjct: 235 GDV---PPALRNVRLLSLDLGLL--QAG-----------ASVKGEFENRL-----KSV-- 271
Query: 232 YIDQGIAELVPGVLFIDEVHML 253
ID+ A P +LFIDE H L
Sbjct: 272 -IDEVKASPQPIILFIDEAHTL 292
>gnl|CDD|218417 pfam05075, DUF684, Protein of unknown function (DUF684). This
family contains several uncharacterized proteins from
Caenorhabditis elegans. The GO annotation suggests that
the protein is involved in nematode larval development
and has a positive regulation on growth rate.
Length = 346
Score = 28.6 bits (64), Expect = 5.7
Identities = 14/61 (22%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 28 AMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAIGLRIKESKEVYEGEVTELTPV 87
MS E + F +V E +++E LM+ + + K++KE++ + +P+
Sbjct: 17 KMSSEFDDLKAF--IVEHEFYNNEAATASTLMKYMQDTVKHPDKKTKEIFREVYQKHSPL 74
Query: 88 E 88
E
Sbjct: 75 E 75
>gnl|CDD|185186 PRK15286, PRK15286, putative minor fimbrial subunit StfE;
Provisional.
Length = 170
Score = 28.2 bits (62), Expect = 5.9
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 35 NKVPFCPMVGSEVFSSEIKKTEVLMENFRRAIGLRI 70
N P C + G EV + T+V N+R+A+G R+
Sbjct: 40 NAAPPCTVTGGEVEFGNVLTTKVDGVNYRQAVGYRL 75
>gnl|CDD|238544 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. A related protein is
found in archaea.
Length = 187
Score = 28.1 bits (63), Expect = 5.9
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 12 ILMAGPPGTGKTAIALAMSHE 32
L++G PGTGKT AL +
Sbjct: 2 TLLSGGPGTGKTTFALQFLYA 22
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 27.6 bits (62), Expect = 6.0
Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 5/44 (11%)
Query: 243 GVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFATNR 286
+L IDE L LE LE L+ E I +++ T
Sbjct: 81 PLLIIDEAQHLSLE----ALEELRDLYDLSEKGI-QVILVGTPE 119
>gnl|CDD|177083 CHL00181, cbbX, CbbX; Provisional.
Length = 287
Score = 28.5 bits (64), Expect = 6.1
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 16 GPPGTGKTAIALAMS 30
G PGTGKT +AL M+
Sbjct: 66 GSPGTGKTTVALKMA 80
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 28.7 bits (65), Expect = 6.2
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPF 39
IL+ GP G+GKT +A ++ L VPF
Sbjct: 100 ILLIGPTGSGKTLLAQTLAKIL--NVPF 125
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 27.9 bits (63), Expect = 6.3
Identities = 16/62 (25%), Positives = 23/62 (37%), Gaps = 4/62 (6%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTE-VLMENFRRAIGLRI 70
I++ G P TGKT + A+ G P P G E ++ L A +
Sbjct: 2 IVITGGPSTGKTTLLEAL-AARG--YPVVPEYGREYIEEQLADGGDALPWADLLAFAELM 58
Query: 71 KE 72
E
Sbjct: 59 LE 60
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 29.0 bits (65), Expect = 6.5
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 4/33 (12%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHEL 33
+IK +M L+ GPP +GKT + LA++ +L
Sbjct: 187 IIKPSRMT----LLLGPPSSGKTTLLLALAGKL 215
>gnl|CDD|220440 pfam09848, DUF2075, Uncharacterized conserved protein (DUF2075).
This domain, found in various prokaryotic proteins
(including putative ATP/GTP binding proteins), has no
known function.
Length = 348
Score = 28.3 bits (64), Expect = 6.6
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 16 GPPGTGKTAIALAMSHELGNK 36
G PGTGKT +AL + EL +
Sbjct: 8 GGPGTGKTVVALNLFAELSDS 28
>gnl|CDD|184921 PRK14957, PRK14957, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 546
Score = 28.5 bits (63), Expect = 6.8
Identities = 33/123 (26%), Positives = 53/123 (43%), Gaps = 20/123 (16%)
Query: 244 VLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGI 303
V IDEVHML ++F L+T E I AT TD H I
Sbjct: 122 VYLIDEVHMLSKQSFNALLKTLE------EPPEYVKFILAT---------TD----YHKI 162
Query: 304 PLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLL 363
P+ +L R + + +Q D++ +K+ E D+++L ++ + +LR + LL
Sbjct: 163 PVTILSRCIQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIA-YHAKGSLRDALSLL 221
Query: 364 TPA 366
A
Sbjct: 222 DQA 224
>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation
protein. 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
Score = 28.4 bits (64), Expect = 6.8
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL 33
+ + G GTGKTA+ + EL
Sbjct: 43 VFIYGKTGTGKTAVTKYVMKEL 64
>gnl|CDD|224142 COG1221, PspF, Transcriptional regulators containing an AAA-type
ATPase domain and a DNA-binding domain [Transcription /
Signal transduction mechanisms].
Length = 403
Score = 28.5 bits (64), Expect = 6.8
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMV 43
G +L+ G GTGK A + H L + P +
Sbjct: 101 GLPVLIIGETGTGKELFARLI-HALSARRAEAPFI 134
>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed.
Length = 509
Score = 28.7 bits (65), Expect = 7.0
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 9 GRAILMAGPPGTGKTAIAL 27
GR L++G GTGKT AL
Sbjct: 31 GRPTLVSGTAGTGKTLFAL 49
>gnl|CDD|238713 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible
phosphoryl transfer from adenosine triphosphates (ATP)
to adenosine monophosphates (AMP) and to yield
adenosine diphosphates (ADP). This enzyme is required
for the biosynthesis of ADP and is essential for
homeostasis of adenosine phosphates.
Length = 194
Score = 28.0 bits (63), Expect = 7.0
Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKK-TEVLME 60
IL+ GPPG+GK A ++ + G + ++ EI TE+ +
Sbjct: 2 ILLLGPPGSGKGTQAERLAKKYG----LPHISTGDLLREEIASGTELGKK 47
>gnl|CDD|184919 PRK14955, PRK14955, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 397
Score = 28.3 bits (63), Expect = 7.1
Identities = 17/41 (41%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 244 VLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFAT 284
V IDEVHML + F L+T E I IFAT
Sbjct: 130 VYIIDEVHMLSIAAFNAFLKTLE------EPPPHAIFIFAT 164
>gnl|CDD|110723 pfam01745, IPT, Isopentenyl transferase. Isopentenyl transferase
/ dimethylallyl transferase synthesises
isopentenyladensosine 5'-monophosphate, a cytokinin
that induces shoot formation on host plants infected
with the Ti plasmid.
Length = 232
Score = 28.1 bits (63), Expect = 7.3
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 9/57 (15%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELG------NKVPFCP--MVGS-EVFSSEIKKTE 56
L+ G TGKTA A+A++ E G ++V C GS +E++ T
Sbjct: 1 MGLYLIWGATCTGKTAEAIALAKETGWPVIVLDRVQCCSQLATGSGRPLPAELQGTR 57
>gnl|CDD|223204 COG0126, Pgk, 3-phosphoglycerate kinase [Carbohydrate transport and
metabolism].
Length = 395
Score = 28.3 bits (64), Expect = 7.3
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 11/66 (16%)
Query: 9 GRAILMA--GPPGTGK-----TAIALAMSHELGNKVPFCP-MVGSEVFS--SEIKKTEVL 58
+ +L++ G P +A +S LG +V F VG E +E+K EVL
Sbjct: 53 AKVVLLSHLGRPKEYSDKTSLEPVAKRLSELLGKEVKFVDDCVGPEARQAVAELKDGEVL 112
Query: 59 M-ENFR 63
+ EN R
Sbjct: 113 LLENVR 118
>gnl|CDD|105560 PRK12339, PRK12339, 2-phosphoglycerate kinase; Provisional.
Length = 197
Score = 27.8 bits (62), Expect = 7.8
Identities = 8/28 (28%), Positives = 13/28 (46%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELG 34
M + G PG GKT+I+ ++
Sbjct: 1 MESTIHFIGGIPGVGKTSISGYIARHRA 28
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase
subunit [Posttranslational modification, protein
turnover, chaperones].
Length = 444
Score = 28.4 bits (64), Expect = 7.9
Identities = 11/15 (73%), Positives = 11/15 (73%)
Query: 12 ILMAGPPGTGKTAIA 26
ILM GP G GKT IA
Sbjct: 53 ILMIGPTGVGKTEIA 67
>gnl|CDD|201353 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 183
Score = 27.7 bits (62), Expect = 8.2
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKVPFC 40
R I+++GP G GK+ I A+ E K +
Sbjct: 2 RRPIVLSGPSGVGKSHIKKALLDEYPEKFGYS 33
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau;
Validated.
Length = 830
Score = 28.7 bits (64), Expect = 8.3
Identities = 28/84 (33%), Positives = 33/84 (39%), Gaps = 26/84 (30%)
Query: 244 VLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPI-VIFATNRGRCLVRGTDDIISPHG 302
V IDEVHML F L+T LE + I AT TD P
Sbjct: 122 VYMIDEVHMLTNHAFNAMLKT-------LEEPPPHVKFILAT---------TD----PQK 161
Query: 303 IPLDLLDRLLIIRTTPYNQKDMEA 326
IP+ +L R L +N K M A
Sbjct: 162 IPVTVLSRCL-----QFNLKQMPA 180
>gnl|CDD|215930 pfam00459, Inositol_P, Inositol monophosphatase family.
Length = 269
Score = 28.1 bits (63), Expect = 8.5
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 224 EINKVVNKYIDQGIAELVPGVLFIDE 249
+K + I + +A L PG I E
Sbjct: 43 AADKAAEELILEALAALFPGHPIIGE 68
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 28.5 bits (64), Expect = 8.8
Identities = 13/25 (52%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 2 IKSKKMAGRAILMAGPPGTGKTAIA 26
IK+ ++ G IL GPPG GKT +A
Sbjct: 47 IKADRV-GSLILY-GPPGVGKTTLA 69
>gnl|CDD|105853 PRK12687, PRK12687, flagellin; Reviewed.
Length = 311
Score = 28.1 bits (62), Expect = 8.9
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 4/61 (6%)
Query: 94 GGYGKTVSHVIIGLKTAKGTKQLKLDPTIYESLQKEKVEVGDVIYIEANSGAVKRQGRSD 153
G +VS + I L T T KLD I Q +G V A+ GA K + S+
Sbjct: 197 GTATASVSSIDIHLLTDSATDLTKLDGYIGIVDQA----LGSVTQASADLGATKTRIDSN 252
Query: 154 T 154
+
Sbjct: 253 S 253
>gnl|CDD|181541 PRK08727, PRK08727, hypothetical protein; Validated.
Length = 233
Score = 27.9 bits (62), Expect = 9.2
Identities = 12/34 (35%), Positives = 21/34 (61%), Gaps = 3/34 (8%)
Query: 12 ILMAGPPGTGKTAIALAM---SHELGNKVPFCPM 42
+ ++GP GTGKT +ALA+ + + G + P+
Sbjct: 44 LYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPL 77
>gnl|CDD|183521 PRK12422, PRK12422, chromosomal replication initiation protein;
Provisional.
Length = 445
Score = 28.3 bits (63), Expect = 9.3
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 12/61 (19%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL---GNKVPFCPMVGSEVFS----SEIKKTEVLMENFRR 64
I + GP G+GKT + A H L G K+ + V SE+F+ S I+ E M+ FR+
Sbjct: 144 IYLFGPEGSGKTHLMQAAVHALRESGGKILY---VRSELFTEHLVSAIRSGE--MQRFRQ 198
Query: 65 A 65
Sbjct: 199 F 199
>gnl|CDD|215593 PLN03128, PLN03128, DNA topoisomerase 2; Provisional.
Length = 1135
Score = 28.5 bits (64), Expect = 9.4
Identities = 24/125 (19%), Positives = 46/125 (36%), Gaps = 23/125 (18%)
Query: 146 VKRQGRSDTFAAEFDLEAEEYVPLPKGDVHKKKEVIQDVTLHDLDMANAKPQGGQDILSM 205
V + R++ +LE + + PK + V+ D A+ + + + L+
Sbjct: 1027 VNNRKRAEL---LAELEEKGFDKFPKTAKISETNVVGD----RDGEASEEEEASDNELAK 1079
Query: 206 -----VGQLIKSKKTEITDKLRKEINKVVNK--YIDQGIAELVPGVLFIDEVHMLDLETF 258
+G I S E D+LR E K + + + E ++ DL+ F
Sbjct: 1080 SYDYLLGMPISSLTLEKVDELRAERAKKETEVEELKKTTPE---------DLWRKDLDAF 1130
Query: 259 MPHLE 263
L+
Sbjct: 1131 EEALD 1135
>gnl|CDD|181642 PRK09082, PRK09082, methionine aminotransferase; Validated.
Length = 386
Score = 28.0 bits (63), Expect = 9.4
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 8/40 (20%)
Query: 310 RLLIIRTTPYN-------QKDMEAIIKLRANTEGHVLDDE 342
RL+I+ TP+N DM A+ +L A T+ +VL DE
Sbjct: 165 RLIIL-NTPHNPSGTVWSAADMRALWQLIAGTDIYVLSDE 203
>gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 28.4 bits (63), Expect = 9.5
Identities = 17/41 (41%), Positives = 18/41 (43%), Gaps = 6/41 (14%)
Query: 244 VLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFAT 284
V IDEVHML F L+T E I IFAT
Sbjct: 130 VYIIDEVHMLSTAAFNAFLKTLE------EPPPHAIFIFAT 164
>gnl|CDD|236482 PRK09361, radB, DNA repair and recombination protein RadB;
Provisional.
Length = 225
Score = 27.9 bits (63), Expect = 9.7
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 6/39 (15%)
Query: 16 GPPGTGKTAIALAMSHE---LGNKVPFCPMVGSEVFSSE 51
GPPG+GKT I L ++ E G KV + + +E S E
Sbjct: 30 GPPGSGKTNICLQLAVEAAKNGKKVIY---IDTEGLSPE 65
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.135 0.369
Gapped
Lambda K H
0.267 0.0889 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,788,615
Number of extensions: 2089229
Number of successful extensions: 2814
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2801
Number of HSP's successfully gapped: 226
Length of query: 409
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 310
Effective length of database: 6,546,556
Effective search space: 2029432360
Effective search space used: 2029432360
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (26.6 bits)