RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780182|ref|YP_003064595.1| DNA gyrase subunit A
[Candidatus Liberibacter asiaticus str. psy62]
(910 letters)
>gnl|CDD|180128 PRK05560, PRK05560, DNA gyrase subunit A; Validated.
Length = 805
Score = 1313 bits (3402), Expect = 0.0
Identities = 450/890 (50%), Positives = 594/890 (66%), Gaps = 85/890 (9%)
Query: 12 EEKGITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKY 71
E I V+I DEM+ SYL YA++VI+GRA+PD+RDGLKPVHRRIL+ M ++G +K Y
Sbjct: 1 EGDRIIPVNIEDEMKRSYLDYAMSVIVGRALPDVRDGLKPVHRRILYAMNELGNTPDKPY 60
Query: 72 VKCARISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDGDPPAAERYT 131
K ARI G+VMGKYHPHG++A+YDAL RMAQD+S+R L++GQGNFGS+DGDP AA RYT
Sbjct: 61 KKSARIVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYT 120
Query: 132 ECRLQKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIP 191
E R+ K AH LL D+ K+TVDF PNYDGS QEP VL AR+PN+LVNG GIAVGMATNIP
Sbjct: 121 EARMSKIAHELLADIDKETVDFVPNYDGSEQEPTVLPARFPNLLVNGSSGIAVGMATNIP 180
Query: 192 THNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIR 251
HNLGEV+D C+A+IDNPDI ++ LMEII GPDFPTG +ILGR+GI+ AY TGRGSIV+R
Sbjct: 181 PHNLGEVIDACLALIDNPDITIEELMEIIPGPDFPTGGIILGRSGIREAYRTGRGSIVMR 240
Query: 252 GVSHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRVV 311
+ IE+ G RE I+VTEIPYQVNKA ++EKIAELV+EK+I I+DLRDESDR G R+V
Sbjct: 241 AKAEIEEIKG-REAIIVTEIPYQVNKARLIEKIAELVKEKKIEGISDLRDESDRDGMRIV 299
Query: 312 IELKRGASADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIGILKAFVAFREEVVVR 371
IELKR A +V+LN LY++T LQ+ F +NM+AL +P+ L IL+AF+ R+EV+ R
Sbjct: 300 IELKRDAVPEVVLNNLYKHTQLQTSFGINMLALVDGQPKLLNLKEILEAFLEHRKEVITR 359
Query: 372 RTKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQRSWNASDIKDLI 431
RT++ L KA +RAH+L GL IA+ N+DEV+ +IR SP P A+ LM+R
Sbjct: 360 RTRFELRKAEERAHILEGLLIALDNIDEVIALIRASPTPAEAKEGLMER----------- 408
Query: 432 DLIDDSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKECLDIL 491
LSE+Q +AIL++RL RLTGL RD I +E L I + DIL
Sbjct: 409 ---------------FGLSEIQAQAILDMRLQRLTGLERDKIEDEYKELLALIADLKDIL 453
Query: 492 SSRSRLLGIIKQELLSVKDELDTPRRTRIVEGLLDMEDEDCIVREDMVVTVSHLGYVKRV 551
+S RLL IIK+ELL +K++ PRRT I+EG D++DED I ED+VVT++H GY+KR
Sbjct: 454 ASPERLLEIIKEELLEIKEKFGDPRRTEIIEGEGDIDDEDLIPEEDVVVTLTHGGYIKRT 513
Query: 552 PLSVYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSVLFFSSLGFVYKEKVWRLPIGSP 611
PL YRAQRRGGKG SG +++DFV LF+ STH ++LFF++ G VY+ KV+ +P S
Sbjct: 514 PLDEYRAQRRGGKGVSGAKTKEDDFVEHLFVASTHDTLLFFTNRGRVYRLKVYEIPEASR 573
Query: 612 QARGKALINILSLNQGERITTIMPFPEDESSWNNLYVVFATKHGNVRRNKLSDFIQINRS 671
ARG+ ++N+L L GE+IT I+P E ++ Y+ FATK+G V++ LS+F I +
Sbjct: 574 TARGRPIVNLLPLEPGEKITAILPVREF---DDDKYLFFATKNGTVKKTSLSEFSNIRSN 630
Query: 672 GKIAMKLDSRDEILSVETCTQENDILLTTKLGQCVRFPISAIRVFAGRNSVGVRGISLAK 731
G IA+ LD DE++ V ++DILL TK G+ +RFP S +R GR + GVRGI L +
Sbjct: 631 GIIAINLDEGDELIGVRLTDGDDDILLATKNGKAIRFPESDVRPM-GRTARGVRGIKLRE 689
Query: 732 GDQVISMAIVLHADADYDERICYMKHMSAQRRLISGDTEEITSLKNDSSVEGNISEERCQ 791
GD+V+SM +V
Sbjct: 690 GDEVVSMDVVREDS---------------------------------------------- 703
Query: 792 ELKLKEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKINEIGALVAVFPVNDND 851
Q ILTV+E G+GKRT ++R+ R GKG+ +++ N G LV PV+D+D
Sbjct: 704 ------QEILTVTENGYGKRTPVSEYRLQGRGGKGVITIKITEKN--GKLVGALPVDDDD 755
Query: 852 QIILVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDERVVSVERIRESE 901
+I+L++D G LIR V+EI I R T+GV + + ++VVSV R+ E E
Sbjct: 756 EIMLITDSGKLIRTRVSEISITGRNTQGVRLIRLDEGDKVVSVARVAEEE 805
>gnl|CDD|162183 TIGR01063, gyrA, DNA gyrase, A subunit. This model describes the
common type II DNA topoisomerase (DNA gyrase). Two
apparently independently arising families, one in the
Proteobacteria and one in Gram-positive lineages, are
both designated toposisomerase IV.
Length = 800
Score = 1029 bits (2664), Expect = 0.0
Identities = 424/885 (47%), Positives = 586/885 (66%), Gaps = 86/885 (9%)
Query: 16 ITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCA 75
I V+I +EM+ SYL YA++VI+ RA+PD+RDGLKPVHRRIL+ M ++G+ +K Y K A
Sbjct: 1 IVPVNIEEEMKRSYLDYAMSVIVSRALPDVRDGLKPVHRRILYAMYELGLTPDKPYKKSA 60
Query: 76 RISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDGDPPAAERYTECRL 135
RI G+VMGKYHPHG++AIYD L RMAQD+SLR L++GQGNFGS+DGDPPAA RYTE RL
Sbjct: 61 RIVGDVMGKYHPHGDSAIYDTLVRMAQDFSLRYPLVDGQGNFGSIDGDPPAAMRYTEARL 120
Query: 136 QKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNL 195
K A LL D+ K+TVDF PNYDGS QEP VL +R+PN+LVNG GIAVGMATNIP HNL
Sbjct: 121 TKIAEELLRDIDKETVDFVPNYDGSEQEPTVLPSRFPNLLVNGSSGIAVGMATNIPPHNL 180
Query: 196 GEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIRGVSH 255
GE++D +A IDNPDI + L+E+I+GPDFPTG +ILGR+GI++AY TGRGSIVIR +
Sbjct: 181 GEIIDALLAYIDNPDISIQELLEVIKGPDFPTGGIILGRSGIRSAYETGRGSIVIRARAE 240
Query: 256 IEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRVVIELK 315
IE+ S RE I+VTEIPYQVNKA ++EKIAELVREK+I I+D+RDESDR+G R+VIELK
Sbjct: 241 IEEDSKGREAIIVTEIPYQVNKARLIEKIAELVREKKIEGISDIRDESDREGIRIVIELK 300
Query: 316 RGASADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIGILKAFVAFREEVVVRRTKY 375
R A A+V+LN LY+ T LQ F +NM+AL P+ L +L+AFV R++V+ RRT +
Sbjct: 301 RDAVAEVVLNNLYKQTQLQVSFGINMLALVKGLPKVLNLKELLEAFVEHRKDVITRRTIF 360
Query: 376 LLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQRSWNASDIKDLIDLID 435
L KA +RAH+L GL IA+ N+DEV+ +IR S N E A+ L++R
Sbjct: 361 ELRKAEERAHILEGLLIALDNIDEVIALIRASQNTEEAKTRLVER--------------- 405
Query: 436 DSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKECLDILSSRS 495
LSE+Q +AIL++RL RLTGL R+ ++ E L I + DIL+S
Sbjct: 406 -----------FSLSEIQAQAILDMRLQRLTGLEREKLQEEYKELLELIADLEDILASEE 454
Query: 496 RLLGIIKQELLSVKDELDTPRRTRIV-EGLLDMEDEDCIVREDMVVTVSHLGYVKRVPLS 554
R+L II++EL +K++ PRRT IV + D++ ED I RE++VVT+SH GYVKRVP+S
Sbjct: 455 RVLEIIREELEEIKEQFGDPRRTEIVYDESEDIDIEDLIARENVVVTLSHNGYVKRVPVS 514
Query: 555 VYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSVLFFSSLGFVYKEKVWRLPIGSPQAR 614
YR Q+RGGKG SG M+D+DF+ L + STH +LFF++ G VY KV+++P S A+
Sbjct: 515 AYRLQKRGGKGVSGADMKDDDFIEQLLVASTHDYLLFFTNRGKVYWLKVYQIPEASRTAK 574
Query: 615 GKALINILSLNQGERITTIMPFPEDESSWNNLYVVFATKHGNVRRNKLSDFIQINRSGKI 674
GK ++N+L L ERIT I+ E + + LY+ FATK+G V++ L++F I +G I
Sbjct: 575 GKPIVNLLPLQPDERITAILSVKEFD---DGLYLFFATKNGVVKKTSLTEFSNIRSNGII 631
Query: 675 AMKLDSRDEILSVETCTQENDILLTTKLGQCVRFPISAIRVFAGRNSVGVRGISLAKGDQ 734
A+KLD DE++SV + +++++L +K G+ VRFP +R GR + GVRGI L D
Sbjct: 632 AIKLDDGDELISVRLTSGDDEVMLGSKNGKAVRFPEEDVRPM-GRAARGVRGIKLKNEDF 690
Query: 735 VISMAIVLHADADYDERICYMKHMSAQRRLISGDTEEITSLKNDSSVEGNISEERCQELK 794
V+S+ +V SEE
Sbjct: 691 VVSLLVV--------------------------------------------SEE------ 700
Query: 795 LKEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKINEIGALVAVFPVNDNDQII 854
++L V+E G+GKRTS ++R ++R GKG+++ ++ N G +V V+D+D+++
Sbjct: 701 ---SYLLIVTENGYGKRTSIEEYRETSRGGKGVKSIKITDRN--GQVVGAIAVDDDDELM 755
Query: 855 LVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDERVVSVERIRE 899
L++ G LIR V ++ R T+GV + +D+++VSV ++ +
Sbjct: 756 LITSAGKLIRTSVQDVSEQGRNTQGVRLIRLDEDDKLVSVSKVAK 800
Score = 70.8 bits (174), Expect = 2e-12
Identities = 58/297 (19%), Positives = 110/297 (37%), Gaps = 68/297 (22%)
Query: 618 LINILSLNQGERITTIMPFPEDESSWNNL-----YVVFATKHGNVRRNKLSDFIQINRSG 672
L I R T I+ ++ +L VV + +G V+R +S + R G
Sbjct: 464 LEEIKEQFGDPRRTEIVYDESEDIDIEDLIARENVVVTLSHNGYVKRVPVSAYRLQKRGG 523
Query: 673 K--IAMKLDSRDEILSVETCTQENDILLTTKLGQCVRFPISAIRVF----AGRNSVGVRG 726
K + D I + + + +L T G+ ++V+ A R
Sbjct: 524 KGVSGADMKDDDFIEQLLVASTHDYLLFFTNRGKVYW-----LKVYQIPEASRT------ 572
Query: 727 ISLAKGDQVISMAIVLHADADYDERICYMKHMSAQRRLISGDTEEITSLKNDSSVEGNIS 786
AKG ++++ L E IT++ + +
Sbjct: 573 ---AKGKPIVNL-------------------------LPLQPDERITAILSVKEFD---- 600
Query: 787 EERCQELKLKEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKINEIGALVAVFP 846
++ ++ G K+TS +F + RS GI A K+++ L++V
Sbjct: 601 ---------DGLYLFFATKNGVVKKTSLTEF-SNIRS-NGIIAI---KLDDGDELISVRL 646
Query: 847 VNDNDQIILVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDERVVSVERIRESEIV 903
+ +D+++L S G +R P ++R RA +GV ++ VVS+ + E +
Sbjct: 647 TSGDDEVMLGSKNGKAVRFPEEDVRPMGRAARGVRGIKLKNEDFVVSLLVVSEESYL 703
>gnl|CDD|180129 PRK05561, PRK05561, DNA topoisomerase IV subunit A; Validated.
Length = 742
Score = 784 bits (2028), Expect = 0.0
Identities = 305/749 (40%), Positives = 432/749 (57%), Gaps = 59/749 (7%)
Query: 7 SSDEEEEKGITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVE 66
D +GI + + + ++ YL YA+ VI+ RA+PD+RDGLKPV RRIL+ M ++G+
Sbjct: 1 PPDMSMLEGIEDLPLEEFLEERYLRYAMYVIMDRALPDVRDGLKPVQRRILYAMSELGLT 60
Query: 67 WNKKYVKCARISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDGDPPA 126
+ K+ K AR+ G+V+GKYHPHG+++IYDA+ RMAQD+S R L++GQGNFGS+DGDP A
Sbjct: 61 PDAKFKKSARVVGDVLGKYHPHGDSSIYDAMVRMAQDFSYRYPLVDGQGNFGSIDGDPAA 120
Query: 127 AERYTECRLQKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGM 186
A RYTE RL A LL+++ + TVDF PN+DG+ +EP VL AR+PN+L+NG GIAVGM
Sbjct: 121 AMRYTEARLSPIAELLLEEIDEGTVDFVPNFDGTLKEPTVLPARFPNLLLNGATGIAVGM 180
Query: 187 ATNIPTHNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVIL-GRTGIKNAYATGR 245
AT+IP HNL EV+D + +IDNPD L+ LME + GPDFPTG I+ GR GI+ AY TGR
Sbjct: 181 ATDIPPHNLREVIDAAIHLIDNPDATLEELMEFVPGPDFPTGGEIITGRDGIRKAYETGR 240
Query: 246 GSIVIRGVSHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDR 305
GSI +R IE +G R QIV+TE+PYQV+KA ++E+IAEL+ K++ IAD+RDESDR
Sbjct: 241 GSIRVRARWEIEDLAGGRWQIVITELPYQVSKAKLIEQIAELMNAKKLPGIADVRDESDR 300
Query: 306 QGY-RVVIELK-RGASADVILNQLYRYTSLQSLFSVNMVAL-NGYKPERFTLIGILKAFV 362
+ R+VIE K + ++N L+ T L+S + VNM A+ +P L IL ++
Sbjct: 301 ENPVRIVIEPKSNRVDPEALMNHLFATTDLESSYRVNMNAIGLDGRPRVKGLKEILSEWL 360
Query: 363 AFREEVVVRRTKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQRSW 422
R EVV RR+++ L+K R H+L GL IA N+DEV+RIIR S P + LM R +
Sbjct: 361 DHRREVVTRRSQFRLDKVEKRLHILEGLLIAFLNIDEVIRIIRESDEP---KANLMAR-F 416
Query: 423 NASDIKDLIDLIDDSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGI 482
+ LSE+Q AILELRL RL L +IR E + L
Sbjct: 417 D-------------------------LSEIQAEAILELRLRRLAKLEEIEIRKEQDELRK 451
Query: 483 EIKECLDILSSRSRLLGIIKQELLSVKDELDTPRRTRIVEGLLDMED--EDCIVREDMVV 540
EI E IL+S +L +IK+EL + + PRRT I E + E I E + V
Sbjct: 452 EIAELEAILASERKLRKLIKKELKADAKKFGDPRRTPIEEAEEAIAIDEEALIPDEPVTV 511
Query: 541 TVSHLGYVKRVPLSVYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSVLFFSSLGFVYK 600
+S G+V+R A SG+ ++ D + F T +L F+S G
Sbjct: 512 VLSKKGWVRRAKGHSIDA--------SGLSFKEGDSLLFAFEARTTDKLLLFTSTG---- 559
Query: 601 EKVWRLPIGS-PQAR--GKALINILSLNQGERITTIMPFPEDESSWNNLYVVFATKHGNV 657
+V+ LP+ P AR G+ L ++ L GE I ++ F D+ ++ A+ G
Sbjct: 560 -RVYSLPVHELPSARGDGEPLTGLVDLAPGEEIVHVLAFDPDQ------KLLLASSAGYG 612
Query: 658 RRNKLSDFIQINRSGKIAMKLDSRDEILSVETCTQENDILLTTKLGQCVRFPISAIRVFA 717
L D + R+GK + L DE+L ++ + T G+ + FP+S +
Sbjct: 613 FVVTLEDLVARTRAGKAVINLKDGDEVLPPVPVEDDDHLAAITSNGRLLVFPLSELPELG 672
Query: 718 GRNSVGVRGISLAKGDQVISMAIVLHADA 746
GV+ I+L K D + VL+ +
Sbjct: 673 K--GKGVKLINLPKDDDGLVDLRVLNPED 699
Score = 47.4 bits (114), Expect = 2e-05
Identities = 23/97 (23%), Positives = 45/97 (46%), Gaps = 6/97 (6%)
Query: 797 EQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKINEIGALVAVFPVNDNDQIILV 856
+Q +L S G+G + D R+GK V + + ++ PV D+D + +
Sbjct: 600 DQKLLLASSAGYGFVVTLEDLVARTRAGK-----AVINLKDGDEVLPPVPVEDDDHLAAI 654
Query: 857 SDKGTLIRVPVNEIRIASRATKGVVIFSTAKDERVVS 893
+ G L+ P++E+ + KGV + + KD+ +
Sbjct: 655 TSNGRLLVFPLSELPELGKG-KGVKLINLPKDDDGLV 690
Score = 40.1 bits (95), Expect = 0.003
Identities = 24/121 (19%), Positives = 49/121 (40%), Gaps = 24/121 (19%)
Query: 759 SAQRRLISGDTEEI---------TSLKNDSSVEGNISEERCQELKLKEQFILTVSEKGFG 809
R+LI + + T ++ ++ I EE L E + +S+KG+
Sbjct: 464 RKLRKLIKKELKADAKKFGDPRRTPIE-EAEEAIAIDEE---ALIPDEPVTVVLSKKGWV 519
Query: 810 KRTSSYDFRISNRSGKGIRATDVSKINEIGALVAVFPVNDNDQIILVSDKGTLIRVPVNE 869
+R + + SG + D +L+ F D+++L + G + +PV+E
Sbjct: 520 RRAKGHSI---DASGLSFKEGD--------SLLFAFEARTTDKLLLFTSTGRVYSLPVHE 568
Query: 870 I 870
+
Sbjct: 569 L 569
Score = 30.1 bits (69), Expect = 2.6
Identities = 9/61 (14%), Positives = 26/61 (42%), Gaps = 2/61 (3%)
Query: 841 LVAVFPVNDNDQIILVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDERVVSVERIRES 900
+V V + + +++L S G V + + + +R G + + + V+ + +
Sbjct: 591 IVHVLAFDPDQKLLLASSAGYGFVVTLED--LVARTRAGKAVINLKDGDEVLPPVPVEDD 648
Query: 901 E 901
+
Sbjct: 649 D 649
>gnl|CDD|128711 smart00434, TOP4c, DNA Topoisomerase IV. Bacterial DNA
topoisomerase IV, GyrA, ParC.
Length = 445
Score = 571 bits (1473), Expect = e-163
Identities = 245/486 (50%), Positives = 311/486 (63%), Gaps = 47/486 (9%)
Query: 19 VSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCARIS 78
+ I D + YL Y+++VI GRAIPD+RDGLKPV RRIL+ M + G+ ++ VK AR
Sbjct: 1 IDIEDFINKEYLDYSMSVINGRAIPDVRDGLKPVQRRILYAMFKRGLTPDEPKVKSARGV 60
Query: 79 GEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSV-DGDPPAAERYTECRLQK 137
G+VMGKYHPHG++++YDA+ RMAQD+S L++GQGNFGS DGD AA RYTE RL
Sbjct: 61 GDVMGKYHPHGDSSLYDAIVRMAQDFSNNYPLLDGQGNFGSRLDGDDAAAMRYTETRLSP 120
Query: 138 AAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNLGE 197
A LL D+ KDTVDF PNYDG EP VL PN+LVNG GIAVGMATNIP HNL E
Sbjct: 121 LARELLPDIDKDTVDFVPNYDGQEIEPTVLPPIIPNLLVNGSSGIAVGMATNIPPHNLRE 180
Query: 198 VVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIRGVSHIE 257
V+D +IDNP+ +D LM I GPDFPTG I+ G GS V+RG IE
Sbjct: 181 VIDAVRRLIDNPEASIDELMMIPWGPDFPTGGEII-----------GPGSYVVRGKIEIE 229
Query: 258 KTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDES-DRQGYRVVIELKR 316
R IV+TE+PYQVNKA ++EKIAELV++K+I I D+RDES DR G R+VIELKR
Sbjct: 230 D---GRNTIVITELPYQVNKAKLIEKIAELVKDKKIEGIIDVRDESHDRTGVRIVIELKR 286
Query: 317 GASADVILNQLYRYTSLQSLFSVNMVAL--NGYKPERFTLIGILKAFVAFREEVVVRRTK 374
GA A+V+LN LY+ T LQS FS+NM+AL NG KP+++ L ILK F+ R EV RR +
Sbjct: 287 GAMAEVVLNGLYKLTKLQSTFSINMLALFDNG-KPKKYNLKEILKEFLDHRLEVYTRRKE 345
Query: 375 YLLNKAR-DRAHVLVGLAIAVANLDEVVRIIRFSPNP-ETARRELMQRSWNASDIKDLID 432
YLL K +R H+L GL IA++ +DE++ +IR S + + A+ LM+R
Sbjct: 346 YLLGKLEAERLHILEGLFIALSIIDEIIVLIRSSKDLAKEAKELLMERF----------- 394
Query: 433 LIDDSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKECLDILS 492
LSE Q AIL++RL RLT L + + EL L EI++ IL+
Sbjct: 395 ---------------ELSEEQADAILDMRLRRLTKLEVEKLEKELKELEKEIEDLEKILA 439
Query: 493 SRSRLL 498
S L
Sbjct: 440 SELWLN 445
>gnl|CDD|162182 TIGR01061, parC_Gpos, DNA topoisomerase IV, A subunit,
Gram-positive. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation of
chromosome segregation. Not every bacterium has both a
topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason.
Length = 738
Score = 550 bits (1419), Expect = e-157
Identities = 274/729 (37%), Positives = 416/729 (57%), Gaps = 39/729 (5%)
Query: 16 ITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCA 75
I + + + S+ YA +I RA+PD+RDGLKPV RRIL+ M Q G ++K Y K A
Sbjct: 1 IFNKPLEEVFGESFGKYAKYIIQDRALPDIRDGLKPVQRRILYAMFQDGNTFDKPYKKSA 60
Query: 76 RISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDGDPPAAERYTECRL 135
R GE+MGKYHPHG+++IYDA+ RM+QDW L+E GN GS+DGD AA RYTE RL
Sbjct: 61 RTVGEIMGKYHPHGDSSIYDAMVRMSQDWKNNWTLVEMHGNNGSIDGDNAAAMRYTEARL 120
Query: 136 QKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNL 195
A LL D+ K TV F PN+D S +EP VL A +PN+L+NG GIA G ATNIP HNL
Sbjct: 121 SLIASELLKDIDKKTVSFIPNFDDSEKEPTVLPALFPNLLINGATGIAAGYATNIPPHNL 180
Query: 196 GEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIRGVSH 255
EV+D + ID+P+ +D LMEI++GPDFPTG +I G GI AY TG+G +IR
Sbjct: 181 NEVIDALIYRIDHPNCSVDKLMEIVKGPDFPTGGIIQGEDGISKAYETGKGKFIIRAKIE 240
Query: 256 IEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRVVIELK 315
IE QIV+TEIPY+ NKA +++KI E++ + ++ I ++RDESDR G R++IELK
Sbjct: 241 IEVNKNGLNQIVITEIPYETNKANIVKKIEEIIFDNKVAGIEEVRDESDRNGIRIIIELK 300
Query: 316 RGASADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIGILKAFVAFREEVVVRRTKY 375
+ A+A+ ILN L+++T LQ ++ NMVA+ P + L+ L A++ EV++ R+KY
Sbjct: 301 KDANAEKILNFLFKHTDLQINYNFNMVAIANRTPIQVGLLSYLDAYIKHCHEVIINRSKY 360
Query: 376 LLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQRSWNASDIKDLIDLID 435
L KA R ++ GL A++ +DE++++IR S + A+ +LID
Sbjct: 361 ELEKASKRLEIVEGLIKAISIIDEIIKLIRSSEDKSDAKE----------------NLID 404
Query: 436 DSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKECLDILSSRS 495
+ +T E Q AI+ LRL RLT +++ E N L +I I++S
Sbjct: 405 NFKFT----------ENQAEAIVSLRLYRLTNTDIFELKEEQNELEKKIISLEQIIASEK 454
Query: 496 RLLGIIKQELLSVKDELDTPRRTRIVEGL--LDMEDEDCIVREDMVVTVSHLGYVKRVPL 553
++K++L K + RR++I + + + + + + I ED V ++ GY+KR
Sbjct: 455 ARNKLLKKQLEEYKKQFAQQRRSQIEDFINQIKINESELIENEDYYVLITKAGYIKRTSN 514
Query: 554 SVYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSVLFFSSLGFVYKEKVWRLPIGSPQA 613
+ + + G +D+D + I +T +L F+SLG + V +L +
Sbjct: 515 RSFASSKYTDFG-----SKDDDILFAQTIANTTDQILIFTSLGNIINIPVHKLADIRWKD 569
Query: 614 RGKALINILSLNQGERITTIMPFPEDESSWNNLYVVFATKHGNVRRNKLSDFIQINRSGK 673
G+ L N ++ ++ E I + +E + +V A+K G V+R +L++ I R+ K
Sbjct: 570 LGEHLSNKITFDENETIVFVGTM--NEFDVDQPILVLASKLGMVKRIELTEL-NIKRNSK 626
Query: 674 --IAMKLDSRDEILSVETCTQENDILLTTKLGQCVRFPISAIRVFAGRNSVGVRGISLAK 731
+ +KL +D ++S ++ I L + LG + F + I V G + GV+G+ L +
Sbjct: 627 ATLCIKLKDKDHLISAFLQQKDKLICLVSDLGYALVFHTNEIPVV-GAKAAGVKGMKLKE 685
Query: 732 GDQVISMAI 740
DQV S I
Sbjct: 686 DDQVKSGVI 694
Score = 46.3 bits (110), Expect = 3e-05
Identities = 29/132 (21%), Positives = 61/132 (46%), Gaps = 19/132 (14%)
Query: 779 SSVEGNISEERCQELKL--KEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKIN 836
S +E I++ + E +L E + + +++ G+ KRTS+ F S + G + D+
Sbjct: 477 SQIEDFINQIKINESELIENEDYYVLITKAGYIKRTSNRSFASSKYTDFGSKDDDI---- 532
Query: 837 EIGALVAVFPVNDNDQIILVSDKGTLIRVPVNEI------RIASRATKGVVIFSTAKDER 890
L A N DQI++ + G +I +PV+++ + + + ++E
Sbjct: 533 ----LFAQTIANTTDQILIFTSLGNIINIPVHKLADIRWKDLGEHLSNKITF---DENET 585
Query: 891 VVSVERIRESEI 902
+V V + E ++
Sbjct: 586 IVFVGTMNEFDV 597
Score = 45.6 bits (108), Expect = 5e-05
Identities = 19/95 (20%), Positives = 46/95 (48%), Gaps = 3/95 (3%)
Query: 793 LKLKEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKINEIGALVAVFPVNDNDQ 852
L+ K++ I VS+ G+ + + + G++ K+ E + + N+
Sbjct: 644 LQQKDKLICLVSDLGYALVFHTNEIPVVGAKAAGVKGM---KLKEDDQVKSGVIFEANES 700
Query: 853 IILVSDKGTLIRVPVNEIRIASRATKGVVIFSTAK 887
++L++ +G++ R+ ++E+ + SRA G + K
Sbjct: 701 LVLLTQRGSVKRLSISELVVTSRAATGKKLLPLKK 735
Score = 42.9 bits (101), Expect = 4e-04
Identities = 27/112 (24%), Positives = 44/112 (39%), Gaps = 9/112 (8%)
Query: 795 LKEQFI-----LTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKINEIGALVAVFPVND 849
+ E + + S+ G KR + I S +AT K+ + L++ F
Sbjct: 592 MNEFDVDQPILVLASKLGMVKRIELTELNIKRNS----KATLCIKLKDKDHLISAFLQQK 647
Query: 850 NDQIILVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDERVVSVERIRESE 901
+ I LVSD G + NEI + GV +D++V S +E
Sbjct: 648 DKLICLVSDLGYALVFHTNEIPVVGAKAAGVKGMKLKEDDQVKSGVIFEANE 699
Score = 34.4 bits (79), Expect = 0.15
Identities = 28/130 (21%), Positives = 60/130 (46%), Gaps = 10/130 (7%)
Query: 498 LGIIKQELLSVKDELDTPRRTRIVEGLLDMEDEDCIV------REDMVVTVSHLGYVKRV 551
LG++K+ L+ EL+ R ++ + ++D+D ++ ++ ++ VS LGY
Sbjct: 608 LGMVKRIELT---ELNIKRNSKATL-CIKLKDKDHLISAFLQQKDKLICLVSDLGYALVF 663
Query: 552 PLSVYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSVLFFSSLGFVYKEKVWRLPIGSP 611
+ G G+ ++++D V I + S++ + G V + + L + S
Sbjct: 664 HTNEIPVVGAKAAGVKGMKLKEDDQVKSGVIFEANESLVLLTQRGSVKRLSISELVVTSR 723
Query: 612 QARGKALINI 621
A GK L+ +
Sbjct: 724 AATGKKLLPL 733
>gnl|CDD|184434 PRK13979, PRK13979, DNA topoisomerase IV subunit A; Provisional.
Length = 957
Score = 542 bits (1398), Expect = e-154
Identities = 316/931 (33%), Positives = 480/931 (51%), Gaps = 97/931 (10%)
Query: 16 ITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCA 75
I + + + M +YL YA+ V RA+PD+RDGLKPVHRRIL+G + +K Y K A
Sbjct: 13 IIKIPLEEAMPENYLPYAVEVAKDRALPDVRDGLKPVHRRILYGAYMLKAFPDKPYYKSA 72
Query: 76 RISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDGDPPAAERYTECRL 135
RI G+++GKYHPHG++++YDA+ +AQD++ R+ LI+G GN+GS+DGD AA RYTE RL
Sbjct: 73 RIVGDILGKYHPHGDSSVYDAMVILAQDFTTRMPLIDGHGNWGSIDGDSAAAMRYTEARL 132
Query: 136 QKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNL 195
A +L D+ KD V+ NY S +EP VL ARYPN+LVNG GIAVG+ATNIP HNL
Sbjct: 133 TPIAMEMLRDIDKDVVNMVDNYSDSEKEPEVLPARYPNLLVNGAFGIAVGLATNIPPHNL 192
Query: 196 GEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIRGVSH 255
EV+DG +A IDN +I LM I+GPD PTG +++G+ + +AY TG G + +R +
Sbjct: 193 KEVIDGTLAYIDNNEITTKELMNYIKGPDLPTGGILIGKKSLLSAYETGEGKVTLRAKTK 252
Query: 256 IEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKR----IVDIADLRDESDRQGYRVV 311
IEK R IV+TE PY+ NKA +L+ I+E+ +K+ + +I+D+RDESDR G R V
Sbjct: 253 IEKLENGRLGIVITEFPYRRNKAKLLQTISEMTADKKHSKALENISDIRDESDRNGIRAV 312
Query: 312 IELKRGA---SADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIGILKAFVAFREEV 368
IE K+ A A+ +L LY+ T LQ S NMVAL KPE L +LK +V ++EV
Sbjct: 313 IEFKKSADEDVAEKVLKYLYKKTDLQCNISFNMVALADGKPETMGLKTMLKHYVEHQKEV 372
Query: 369 VVRRTKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQRSWNASDIK 428
V RRTK L A R H++ G A+ +DE+++ IR S + + A L+++
Sbjct: 373 VTRRTKKELEIAEKRFHIVEGFIKAIGIMDEIIKTIRSSKSKKDASENLIEK-------- 424
Query: 429 DLIDLIDDSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKECL 488
++ Q AILEL L RLTGL E L IK+
Sbjct: 425 ------------------FGFTDEQAEAILELMLYRLTGLEIVAFEKEYKELEKLIKKLT 466
Query: 489 DILSSRSRLLGIIKQELLSVKDELDTPRRTRIVE----GLLDMEDEDCIVREDMVVTVSH 544
ILSS LL +IK+EL VK++ RRT I+E +D+ E+ IV ED+V+T+S+
Sbjct: 467 KILSSEKELLKVIKKELKEVKEKYGDERRTSIIEDDEKAKIDV--EELIVVEDVVITLSN 524
Query: 545 LGYVKRVPLSVYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSVLFFSSLGFVYKEKVW 604
G++KR+PL Y R + R+ DF L +T ++L F+ G +Y+ K
Sbjct: 525 EGFIKRIPLKSY---NRSNSNVEDIEYREGDFNKFLIQSNTKDTLLIFTDKGNMYQIKGI 581
Query: 605 RLPIGSPQARGKALINI---LSLNQGERITTIMPFPEDESSWNNLYVVFATKHGNVRRNK 661
+P + +G+ L I + L E+I ED + + +F T G +++
Sbjct: 582 NIPEFKWKEKGERLDEIIKGIDLES-EKIIEAYSI-EDFTPQKD--FIFITDSGGIKKTS 637
Query: 662 LSDFIQINRSGKIAMKLDSRDEILSVE--TCTQENDIL-LTTKLGQCVRFPISAIRV-FA 717
L F N + +A+KL ++++ V+ T+E + + TK G + F + +
Sbjct: 638 LDKF-VTNYTKLMALKLKKGEKLIKVKLVDRTREEKFIKIKTKKG--LSFTVEEPELEPV 694
Query: 718 GRNSVGVRGISLAKGDQVISMAIV-----------------LHADADYDERICYMKHMSA 760
RN +G + L D + + + ++ + S+
Sbjct: 695 DRNIIGYQLFDLLPNDSIKKVDFCDNYEYKEFYVNINKKGIIKISDKDNKSSISVFTNSS 754
Query: 761 QRRLISGDTEEITS-----LKNDSSVEGNISEERCQ----ELKLK---------EQFILT 802
+ LI D ++ L+N + NIS E +K + I
Sbjct: 755 KNLLIFSDEGKVYKIPAFMLQNIKNEGINISALTGDFEKDEKIIKIISIFEFEEDLSIYF 814
Query: 803 VSEKGFGKRTSSYDFRISNRSGKGIRATDVSKINEIGALVAV-FPVNDNDQIILVSDKGT 861
S+KG K+T +F+ S + + ++ LV V ++ I+L+++KG
Sbjct: 815 FSKKGLVKKTLLNEFKGEGNSTQAYKFK-----HKEDELVNVDIKEHEEKNILLITEKGM 869
Query: 862 LIRVPVNEIRIASRATKGVVIFSTAKDERVV 892
IR + + GV S +++V+
Sbjct: 870 AIRFKSEAVNPMGKIASGVTGISLKDEDKVI 900
Score = 63.6 bits (155), Expect = 2e-10
Identities = 53/197 (26%), Positives = 87/197 (44%), Gaps = 27/197 (13%)
Query: 583 VSTHTSVLFFSSLGFVYKEKVWRLPIGSPQARGKALINILSL----NQGERITTIMPFPE 638
++ ++L FS G VYK +P Q INI +L + E+I I+
Sbjct: 751 TNSSKNLLIFSDEGKVYK-----IPAFMLQNIKNEGINISALTGDFEKDEKIIKIISI-- 803
Query: 639 DESSWNNLYVVFATKHGNVRRNKLSDFIQINRSGKIAMKL-DSRDEILSVETC-TQENDI 696
+L + F +K G V++ L++F + + A K DE+++V+ +E +I
Sbjct: 804 -FEFEEDLSIYFFSKKGLVKKTLLNEF-KGEGNSTQAYKFKHKEDELVNVDIKEHEEKNI 861
Query: 697 LLTTKLGQCVRFPISAIRVFAGRNSVGVRGISLAKGDQVISMAIVLHADADYDERICYMK 756
LL T+ G +RF A+ G+ + GV GISL D+VI +I+ + +K
Sbjct: 862 LLITEKGMAIRFKSEAVNPM-GKIASGVTGISLKDEDKVIYGSII------DENDTRKIK 914
Query: 757 HMSAQRRLISGDTEEIT 773
S D EI
Sbjct: 915 LKSKA-----KDKGEIE 926
Score = 37.0 bits (86), Expect = 0.024
Identities = 40/245 (16%), Positives = 97/245 (39%), Gaps = 32/245 (13%)
Query: 666 IQINRSGKIAMKLDSRDEILSVETCTQENDILLTTKLGQCVRFPISAIRVFAGRNSVGVR 725
+ IN+ G I + +SV T + +N +L+ + G+ + P ++ ++
Sbjct: 728 VNINKKGIIKISDKDNKSSISVFTNSSKN-LLIFSDEGKVYKIPAFMLQ------NIKNE 780
Query: 726 GISL-------AKGDQVISMAIVLHADAD----YDERICYMKHMSAQRRLISGDTEEITS 774
GI++ K +++I + + + D + + +K G++ +
Sbjct: 781 GINISALTGDFEKDEKIIKIISIFEFEEDLSIYFFSKKGLVKKTLLNEFKGEGNSTQAYK 840
Query: 775 LKNDS----SVEGNISEERCQELKLKEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRAT 830
K+ +V+ + +E+ IL ++EKG R S + G+
Sbjct: 841 FKHKEDELVNVDIK---------EHEEKNILLITEKGMAIRFKSEAVNPMGKIASGVTGI 891
Query: 831 DVSKINEIGALVAVFPVNDNDQIILVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDER 890
+ +++ ++ ND +I L S + + +I++ +RA +G + ++
Sbjct: 892 SLKDEDKV-IYGSIIDENDTRKIKLKSKAKDKGEIEIKDIKLQNRAGRGNSLMPLLLNDF 950
Query: 891 VVSVE 895
+ VE
Sbjct: 951 IKDVE 955
>gnl|CDD|130134 TIGR01062, parC_Gneg, DNA topoisomerase IV, A subunit,
proteobacterial. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation of
chromosome segregation. Not every bacterium has both a
topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason.
Length = 735
Score = 463 bits (1192), Expect = e-130
Identities = 250/715 (34%), Positives = 386/715 (53%), Gaps = 76/715 (10%)
Query: 16 ITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCA 75
I ++ + + + +YL Y++ VI+ RA+P + DGLKPV RRI++ M ++G+ N KY K A
Sbjct: 1 IENIDLGNFTEEAYLNYSMYVIMDRALPFIGDGLKPVQRRIVYAMSELGLNANAKYKKSA 60
Query: 76 RISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDG-DPPAAERYTECR 134
R G+V+GKYHPHG++A Y+A+ MAQ +S R L++GQGN+G+ D AA RYTE R
Sbjct: 61 RTVGDVLGKYHPHGDSACYEAMVLMAQPFSYRYPLVDGQGNWGAPDDPKSFAAMRYTESR 120
Query: 135 LQKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHN 194
L K + LL++LG+ TVDFRPN+DG+ EPV+L AR PN+L+NG GIAVGMAT+IP HN
Sbjct: 121 LSKISELLLEELGQGTVDFRPNFDGTLLEPVILPARLPNILLNGTTGIAVGMATDIPPHN 180
Query: 195 LGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILG-RTGIKNAYATGRGSIVIRGV 253
L E+ D + +IDNP LD ++ I++GPDFPT A I+ I+ Y TGRGS +R
Sbjct: 181 LHELADAALYLIDNPKAGLDDILNIVQGPDFPTEAEIIDKAEEIRKIYETGRGSFRMRAR 240
Query: 254 SHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQG-YRVVI 312
+K G QIV++ +P+Q++K+ ++E+IA +++K++ I+D+RDESD + RVVI
Sbjct: 241 --WKKEDG---QIVISALPHQISKSKVIEQIAIQMKDKKLPMISDIRDESDHENPIRVVI 295
Query: 313 ELK-RGASADVILNQLYRYTSLQSLFSVNM--VALNGYKPERFTLIGILKAFVAFREEVV 369
+ D+++ L+ T L+ + +NM + L+ P L+ IL+ ++ FR V
Sbjct: 296 VPRSNRVDPDIVMEHLFATTDLEKSYRLNMNMIGLDN-VPAVKNLLEILQEWLVFRRNTV 354
Query: 370 VRRTKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQRSWNASDIKD 429
+RR Y LNK R H+L GL IA N+DEV+ IIR P+T LM+R
Sbjct: 355 IRRLTYRLNKVLQRLHILEGLRIAFLNIDEVIEIIREEDEPKT---ILMER--------- 402
Query: 430 LIDLIDDSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKECLD 489
LS +Q AIL LRL L L I +E + L E
Sbjct: 403 -----------------FKLSAIQAEAILNLRLRHLAKLEEHAIIDEQSELEKERAILEK 445
Query: 490 ILSSRSRLLGIIKQELLSVKDELDTPRRTRIVEGLL--DMEDEDCIVREDMVVTVSHLGY 547
IL S L ++K+E+ + + RR+ + E + + D I +E + + +S +G+
Sbjct: 446 ILKSERELNQLVKKEIQADATKYGLARRSSLEEREEAKQVSEIDMIPKEPVTIILSKMGW 505
Query: 548 VKRVPLSVYRAQRRGGKGR----SGVVMRDEDFVTDLFIVSTHTS--VLFFSSLGFVYKE 601
V R KG S + + D ++ I+ ++ V+F S G Y
Sbjct: 506 V------------RSAKGHDIDLSTLKYKAGD--SEKAIIEGKSNQKVVFIDSTGRSYA- 550
Query: 602 KVWRLPIGSPQARGKA--LINILSLNQGERITTIMPFPEDESSWNNLYVVFATKHGNVRR 659
P P ARG+ L L L G IT I+ + ++ ++ A+ G
Sbjct: 551 ---LDPDNLPSARGQGEPLTGKLLLPIGATITNILMYSPNQL------LLMASDAGYGFL 601
Query: 660 NKLSDFIQINRSGKIAMKLDSRDEILSVETCTQENDILLT-TKLGQCVRFPISAI 713
+D I N++GK + L +++ ++D++ T+ G+ + FPI +
Sbjct: 602 CNFNDLIARNKAGKALINLPENASVIAPLPVNGDSDMIAAITEAGRMLVFPIDDL 656
Score = 29.1 bits (65), Expect = 5.3
Identities = 22/87 (25%), Positives = 45/87 (51%), Gaps = 7/87 (8%)
Query: 797 EQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKINEIGALVAVFPVN-DNDQIIL 855
Q +L S+ G+G + D N++GK + + E +++A PVN D+D I
Sbjct: 587 NQLLLMASDAGYGFLCNFNDLIARNKAGKAL-----INLPENASVIAPLPVNGDSDMIAA 641
Query: 856 VSDKGTLIRVPVNEIRIASRATKGVVI 882
+++ G ++ P++++ S+ KG +
Sbjct: 642 ITEAGRMLVFPIDDLPELSKG-KGNKL 667
>gnl|CDD|182004 PRK09631, PRK09631, DNA topoisomerase IV subunit A; Provisional.
Length = 635
Score = 211 bits (540), Expect = 5e-55
Identities = 125/340 (36%), Positives = 183/340 (53%), Gaps = 38/340 (11%)
Query: 25 MQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCARISGEVMGK 84
++++L YA VI RAIPD+ DGLKPV RRIL + +M + K+ K A + G M K
Sbjct: 8 FKDNFLQYASYVIKDRAIPDVIDGLKPVQRRILHSLFEMH---DGKFHKVANVVGNTM-K 63
Query: 85 YHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSV-DGDPPAAERYTECRLQKAAHFLL 143
YHPHG+A+IY+AL +A + L I+ QGNFG++ GDP +A RY ECRL A +L
Sbjct: 64 YHPHGDASIYEALVNLAN----KDLFIDKQGNFGNLFTGDPASAARYIECRLTPLAKEVL 119
Query: 144 DDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNLGEVVDGCV 203
K+ ++ P+YDG EP+ L A+ P +L+ G GIAVGMAT I HN E++
Sbjct: 120 --YNKEITEYEPSYDGRNNEPLCLPAKIPVILIQGAEGIAVGMATKILPHNFNEILQAVK 177
Query: 204 AVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIRGVSHIEKTSGDR 263
+ + L PDFPTG ++ + YA G G +++R + IE D
Sbjct: 178 SELLGESFAL--------YPDFPTGGIV-----DVSEYADGNGKVLVR--AKIETK--DE 220
Query: 264 EQIVVTEIPYQVNKAAMLEKIAELVREKR--IVDIADLRDESDRQGYRVVIELK--RGAS 319
+ IV+ EIP+ +++ I + R+ + I I D E V IE+K RG
Sbjct: 221 KTIVIREIPFGTTTESLIASIEKAARKGKIKISSINDYTAE------NVEIEIKLPRGVY 274
Query: 320 ADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIGILK 359
A ++ LY YT + SVN++ + P +T+ I+K
Sbjct: 275 ASEVIEALYAYTDCEVSISVNLLVIKDRYPVIYTVTDIIK 314
>gnl|CDD|183728 PRK12758, PRK12758, DNA topoisomerase IV subunit A; Provisional.
Length = 869
Score = 190 bits (484), Expect = 2e-48
Identities = 125/363 (34%), Positives = 193/363 (53%), Gaps = 32/363 (8%)
Query: 1 MTEHIISSDEEEEKGITSV--SITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILF 58
M+E I ++ EEE ++ +N +L YA VIL RA+P + DGLKPV RRIL
Sbjct: 1 MSEEIENNQPEEESSEDEALTHVSGMYKNWFLDYASYVILERAVPHIEDGLKPVQRRILH 60
Query: 59 GMMQMGVEWNKKYVKCARISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFG 118
M +M + +Y K A + G M +YHPHG+A+I DAL ++ Q + LLI+ QGN+G
Sbjct: 61 SMKEMD---DGRYNKVANVVGHTM-QYHPHGDASIGDALVQLGQ----KDLLIDTQGNWG 112
Query: 119 SV-DGDPPAAERYTECRLQKAAHFLLDDL-GKDTVDFRPNYDGSFQEPVVLCARYPNVLV 176
++ GD AA RY E RL K F L+ + T +++ +YDG +EPV L ++P +L
Sbjct: 113 NILTGDGAAAPRYIEARLSK---FALEVVFNPKTTEWQLSYDGRKKEPVTLPVKFPLLLA 169
Query: 177 NGGGGIAVGMATNIPTHNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTG 236
G GIAVG++T I HN E++D +A + + L PDFPTG +I
Sbjct: 170 QGAEGIAVGLSTKILPHNFNELIDASIAYLKGKEFKL--------YPDFPTGGII----D 217
Query: 237 IKNAYATGRGSIVIRGVSHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDI 296
+ N Y G +R + IEK D++ +V+TEIPY +++++ I + +K + I
Sbjct: 218 VSN-YNDGERGGRVRVRAKIEKL--DKKTLVITEIPYGTTTSSLIDSILKAN-DKGKIKI 273
Query: 297 ADLRDESDRQGYRVVIELKRGASADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIG 356
+ D + +++ L G S D ++ LY +T + S N + KP +
Sbjct: 274 KKVEDNT-AADVEILVHLAPGVSPDKTIDALYAFTDCEVSISPNACVIIDNKPHFLGVSD 332
Query: 357 ILK 359
IL+
Sbjct: 333 ILR 335
>gnl|CDD|170022 PRK09630, PRK09630, DNA topoisomerase IV subunit A; Provisional.
Length = 479
Score = 172 bits (438), Expect = 3e-43
Identities = 112/340 (32%), Positives = 177/340 (52%), Gaps = 30/340 (8%)
Query: 21 ITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCARISGE 80
++D + ++ YA VIL RAIP + DGLKPV RR+L+ + +M + K K A I+G
Sbjct: 4 VSDLFKTHFMHYASYVILERAIPHILDGLKPVQRRLLWTLFRMD---DGKMHKVANIAGR 60
Query: 81 VMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGS-VDGDPPAAERYTECRLQKAA 139
M HPHG+A I +AL +A + LI+ QGNFG+ + GDP AA RY E RL A
Sbjct: 61 TMA-LHPHGDAPIVEALVVLAN----KGYLIDTQGNFGNPLTGDPHAAARYIEARLSPLA 115
Query: 140 HFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNLGEVV 199
+L D + F +YDG +EP +L A+ P +L++G GIAVGM T I HN E++
Sbjct: 116 KEVL--FNTDLMTFHDSYDGREKEPDILPAKLPLLLLHGVDGIAVGMTTKIFPHNFCELL 173
Query: 200 DGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIRGVSHIEKT 259
+ +A++++ L PDFP+G + + Y G GSI +R I
Sbjct: 174 EAQIAILNDQPFTL--------LPDFPSGGTMDA-----SEYQDGLGSITLRASIDII-- 218
Query: 260 SGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRVVIELKRGAS 319
+ + +++ EI ++ I E ++ I+ I ++D S + + I+L +G
Sbjct: 219 --NDKTLLIKEICPSTTTETLIRSI-ENAAKRGIIKIDSIQDFSTDLPH-IEIKLPKGIY 274
Query: 320 ADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIGILK 359
A +L L+ +T Q + + A+ KP ++ IL+
Sbjct: 275 AKDLLRPLFTHTECQVILTSRPTAIYQNKPVETSISEILR 314
>gnl|CDD|177419 PHA02592, 52, DNA topisomerase II medium subunit; Provisional.
Length = 439
Score = 164 bits (416), Expect = 1e-40
Identities = 105/375 (28%), Positives = 167/375 (44%), Gaps = 39/375 (10%)
Query: 16 ITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCA 75
+ S+ + N L YA+ + RAIP+L DGLKPV R ++ ++ +K+ K A
Sbjct: 3 LKERSLKSIVNNEALEYAMYTVEERAIPNLIDGLKPVQRFVIHRALEYAKGNKEKFDKVA 62
Query: 76 RISGEV-MGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDGDPPAAERYTECR 134
I+G V YH HG + DA A MA W+ + L++GQGNFGS AA RY R
Sbjct: 63 AIAGGVADLGYH-HGETSAQDAGALMANTWNNNIPLLDGQGNFGSRLVQKAAAARYIFAR 121
Query: 135 LQKAAHFLLDDLGKDTVDFRPNY-DGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTH 193
+ H + KD D P + D P P VL+NG GIA G ATNI H
Sbjct: 122 V----HDNFRKIYKDE-DLAPVHEDPEHIPPAFYLPIIPMVLLNGVSGIATGYATNILPH 176
Query: 194 NLGEVVDGCVAVIDNPDI-DLDALMEIIRGPDFP--TGAVILGRTGIKNAYATGRGSIVI 250
+ V+ +A ++ DI + FP G V+ GS I
Sbjct: 177 SPKSVIKAVLAALNGKDITEPK--------VQFPEFKGEVV----------EIEPGSYEI 218
Query: 251 RGVSHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRV 310
RG E + ++ +TEIP + ++ + + L + +IV D ++ G+R
Sbjct: 219 RGT--YELNG--KTKLHITEIPVKYDRETYVAVLDPLEEKGKIVSYDDCTED----GFRF 270
Query: 311 VIELKRGASADVILNQLYRYTSLQSLFSVNMVALN-GYKPERF-TLIGILKAFVAFREEV 368
+ LKR + + ++ + L S N+ +N K + + +++ FV R+
Sbjct: 271 KVTLKREENEEATHEKIMKDFGLIERVSQNITVINENGKLKVYENAEDLIRDFVEIRKTY 330
Query: 369 VVRRTKYLLNKARDR 383
V +R +Y + + +
Sbjct: 331 VQKRIQYEIKETEEA 345
>gnl|CDD|185451 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 97.0 bits (242), Expect = 2e-20
Identities = 99/368 (26%), Positives = 151/368 (41%), Gaps = 56/368 (15%)
Query: 40 RAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCARISGEVMGK--YHPHGNAAIYDAL 97
R+IP L DGLKP R+ILF + K +K A++SG V YH HG ++ +
Sbjct: 680 RSIPSLVDGLKPGQRKILFACFKRN---LKNEIKVAQLSGYVSEHSAYH-HGEQSLQQTI 735
Query: 98 ARMAQDW----SLRLLLIEGQGNFGS--VDGDPPAAERYTECRLQKAAH--FLLDDLGKD 149
MAQ++ ++ LL GQ FGS G AA RY +L K F +D
Sbjct: 736 VGMAQNFVGSNNINLLYPCGQ--FGSRLQGGKDHAAARYIFTKLSKITRYIFPEED---- 789
Query: 150 TVDFRPNY---DGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNLGEVVDGCVAVI 206
D +Y DG EP P VLVNG GI G +T+IP +N +++D +
Sbjct: 790 --DPILDYLEDDGQSVEPFYYVPIIPMVLVNGAEGIGTGFSTSIPNYNPLDIIDNLRRRL 847
Query: 207 DNPDIDLDALMEII---RGPDFPTGAVILGRTGIKNAY-ATGRGSIVIRGVSHIEKTSGD 262
+ + + ++ RG F G + K + + G V
Sbjct: 848 NG-----EEVRPLVPWYRG--F-KGTI---ERNPKGKFISKGIYEKV------------P 884
Query: 263 REQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRVVIELKRGASADV 322
+ +TE+P E + +++ V I D RD S ++L G
Sbjct: 885 DGTVEITELPIGKWTEDYKEFLESETLKEKDV-IVDYRDYSTANTVHFTVKLNDGVLEQW 943
Query: 323 ILNQLYRYTSLQSLFSV-NMVALN-GYKPERF-TLIGILKAFVAFREEVVVRRTKYLLNK 379
+ + L+S S NMV + K +++ + ILK F R ++ +R +YLL K
Sbjct: 944 EEEGIEKVFKLKSTISTTNMVLFDENGKIKKYSDALDILKEFYLVRLDLYKKRKEYLLGK 1003
Query: 380 ARDRAHVL 387
L
Sbjct: 1004 LERELARL 1011
>gnl|CDD|178674 PLN03128, PLN03128, DNA topoisomerase 2; Provisional.
Length = 1135
Score = 92.9 bits (231), Expect = 3e-19
Identities = 109/400 (27%), Positives = 162/400 (40%), Gaps = 55/400 (13%)
Query: 27 NSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCARISGEVM--GK 84
N L L R+IP + DGLKP R++LF + + K +K A++SG V
Sbjct: 660 NKELILFSQADLARSIPSMVDGLKPSQRKVLFACFKRNL---KSEIKVAQLSGYVAEHSA 716
Query: 85 YHPHGNAAIYDALARMAQDW----SLRLLLIEGQGNFGS--VDGDPPAAERYTECRLQKA 138
YH HG A++ + MAQD+ ++ LL GQ FG+ G A+ RY RL
Sbjct: 717 YH-HGEASLASTIIGMAQDFVGSNNINLLTPSGQ--FGTRLQGGKDAASARYIFTRLSPI 773
Query: 139 AHFLL--DDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNLG 196
L DD D + N DG EP C P VLVNG GI G +T IP +N
Sbjct: 774 TRALFPKDD---DVLLNYLNEDGQSIEPEWYCPIIPMVLVNGSEGIGTGWSTFIPNYNPR 830
Query: 197 EVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIRGVSHI 256
+++ ++ +L+ + RG F G I + GS + G+ I
Sbjct: 831 DIIANIRRLLR--GEELEPMHPWYRG--F-KG-------TITEVSTSRSGSYTVTGI--I 876
Query: 257 EKTSGDREQIVVTEIPYQV---NKAAMLEKIAELVREKRIVDIADLRDESDRQGYRVVIE 313
E+ GD I +TE+P + + LE + ++K I D ++ +
Sbjct: 877 EQI-GDT-TIRITELPVRKWTQDYKEFLEALLTGTKKKEPE-IKDFKENHTDTTVHFTVT 933
Query: 314 LKRGASADVILNQLYRYTSLQSLFSV-NMVALNG------YK-PERFTLIGILKAFVAFR 365
L A + L + L + S NM + Y PE IL+ F R
Sbjct: 934 LSEEKMARALAEGLEKKFKLSTTISTSNMHLFDKDGKIKKYDSPED-----ILEEFFHLR 988
Query: 366 EEVVVRRTKYLLNKARDRAHVL---VGLAIAVANLDEVVR 402
++ V+R + LL L +AV + VV
Sbjct: 989 LDLYVKRKEVLLENLEYELKKLDNKARFILAVVKGEIVVN 1028
>gnl|CDD|178775 PLN03237, PLN03237, DNA topoisomerase 2; Provisional.
Length = 1465
Score = 83.0 bits (205), Expect = 3e-16
Identities = 121/448 (27%), Positives = 179/448 (39%), Gaps = 68/448 (15%)
Query: 38 LGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCARISGEV--MGKYHPHGNAAIYD 95
L R+IP + DGLKP R+ILF + K K A++SG V YH HG ++
Sbjct: 696 LQRSIPSMVDGLKPGQRKILFCSFKRNF---VKEAKVAQLSGYVSEHSAYH-HGEQSLAS 751
Query: 96 ALARMAQDW----SLRLLLIEGQGNFGSVDGDPPAAERYTECRLQKAAHFLL---DDLGK 148
+ MAQD+ ++ LLL GQ G A+ RY RL FL DD+
Sbjct: 752 TIIGMAQDFVGSNNINLLLPNGQFGTRLQGGKDHASARYIFTRLSPITRFLFPKDDDILL 811
Query: 149 DTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNLGEVVDGCVAVIDN 208
D + N DG EP P VLVNG GI G +T IP +N ++V +++
Sbjct: 812 DYL----NEDGQSIEPTWYMPIIPTVLVNGAEGIGTGWSTFIPNYNPRDIVANIRRLLN- 866
Query: 209 PDIDLDALMEIIRGPDFPTGAVILGRTGI--KNAYATGRGSIVIRGVSHIEKTSGDREQI 266
ME P G G K A G + I G+ E+ D +
Sbjct: 867 -----GESME-------PMHPWYRGFKGTIEKTASKEGGCTYTITGL--YEEV--DETTL 910
Query: 267 VVTEIP---YQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRVVIELKRG----AS 319
+TE+P + + LE + + + I D++ +D + L A
Sbjct: 911 RITELPIRRWTDDYKEFLESLKTDNNKNKDPFIKDVKAYNDDTTVHFEVILSEENMLAAK 970
Query: 320 ADVILNQLYRYTSLQS----LFSVNMVALNGYKPERFTLIGILKAFVAFREEVVVRRTKY 375
+ +L + T++ + LF V PE+ IL+ F R E +R +
Sbjct: 971 QEGLLKKFKLTTTISTSNMHLFDSKGVIKKYDTPEQ-----ILEEFFHLRLEYYEKRKEV 1025
Query: 376 LL-----------NKARDRAHVLVGLAIA----VANLDEVVRIIRFSPNPETARRELMQR 420
LL NK R V+ G I A+L E +R F+P P+ A+
Sbjct: 1026 LLKNLEFELLKLENKVRFILAVVDGEIIVNNRKKADLVEELRQKGFTPFPKKAKSVEAAV 1085
Query: 421 SWNASDIKDLIDLIDDSSYTIGSDGTMY 448
+ D + + ID SS + G G+ Y
Sbjct: 1086 AGATDDAAEEEEEIDVSSSS-GVRGSDY 1112
>gnl|CDD|182673 PRK10718, PRK10718, RpoE-regulated lipoprotein; Provisional.
Length = 191
Score = 30.7 bits (70), Expect = 1.5
Identities = 24/89 (26%), Positives = 36/89 (40%), Gaps = 26/89 (29%)
Query: 801 LTVSEKGFGKRTSSY-------------DFRISNRSGKGIRATDVSKINEIGALVAVFPV 847
L VSE+G G T+S D+R+ RSG G +V F
Sbjct: 39 LEVSEQGVGGITASTPLQEQAIADALDGDYRL--RSGMKTAN---------GNVVRFFQA 87
Query: 848 NDNDQIILV--SDKGTLIRVPVNEIRIAS 874
DQ+ +V +GT+ R+ V + I +
Sbjct: 88 MKGDQVAMVINGQQGTVSRIDVLDSDIPT 116
>gnl|CDD|183746 PRK12789, flgI, flagellar basal body P-ring protein; Reviewed.
Length = 367
Score = 30.5 bits (69), Expect = 2.2
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 292 RIVDIADLRDESDRQ--GYRVVIELKRGASADVILNQLYRYTSLQSL 336
RI DIA L+ D Q GY +V L+ + D + N + SLQS+
Sbjct: 24 RIKDIATLKGVRDNQLVGYGLVTGLQ--GTGDTLRNAQFTEQSLQSM 68
>gnl|CDD|130682 TIGR01621, RluA-like, pseudouridine synthase Rlu family protein,
TIGR01621. This model represents a clade of sequences
within the pseudouridine synthase superfamily
(pfam00849). The superfamily includes E. coli proteins:
RluA, RluB, RluC, RluD, and RsuA. The sequences modeled
here are most closely related to RluA. Neisseria, among
those species hitting this model, does not appear to
have an RluA homolog. It is presumed that these
sequences function as pseudouridine synthases, although
perhaps with different specificity.
Length = 217
Score = 29.9 bits (67), Expect = 3.2
Identities = 10/33 (30%), Positives = 15/33 (45%)
Query: 663 SDFIQINRSGKIAMKLDSRDEILSVETCTQEND 695
DF+ IN+ I++ D + L E TQ
Sbjct: 9 PDFLLINKHPGISVHKDDGETGLLQEVATQLGV 41
>gnl|CDD|178951 PRK00260, cysS, cysteinyl-tRNA synthetase; Validated.
Length = 463
Score = 29.7 bits (68), Expect = 3.4
Identities = 24/103 (23%), Positives = 45/103 (43%), Gaps = 15/103 (14%)
Query: 391 AIAVANLDEVVRIIRFSPNPETARRELMQRSWNASDIKDLIDL--IDDSSYTIGSDGTMY 448
A+A L E+ R I N ++ + A+ ++ L D+ ++ +
Sbjct: 357 PEALAVLFELAREI----NRALETKDKEAAAALAALLRALADVLGLEQDEEALFEAAADE 412
Query: 449 LSEVQTRAILELRL-ARLTGLGR-----DDIRNELNSLGIEIK 485
L + + A++E R AR + D IR+EL +LGI ++
Sbjct: 413 LLDAEIEALIEERQEARKA---KDFALADAIRDELAALGIVLE 452
>gnl|CDD|183048 PRK11239, PRK11239, hypothetical protein; Provisional.
Length = 215
Score = 29.3 bits (66), Expect = 4.1
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 784 NISEERCQE---LKLKEQFILTVSEKGFGKRTSSYDFRISN 821
N+SE QE +K ++ TVS GFG R + Y+ R N
Sbjct: 49 NLSESEVQEQLDNLVKRHYLRTVS--GFGNRVTKYEQRFCN 87
>gnl|CDD|180910 PRK07260, PRK07260, enoyl-CoA hydratase; Provisional.
Length = 255
Score = 29.3 bits (66), Expect = 4.6
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 93 IYDALARMAQDWSLRLLLIEGQGNFGSVDGD 123
I +AL +D S+R LLI G SV GD
Sbjct: 34 ILEALRLAEEDPSVRFLLINANGKVFSVGGD 64
>gnl|CDD|179098 PRK00724, PRK00724, formate dehydrogenase accessory protein;
Reviewed.
Length = 263
Score = 29.0 bits (66), Expect = 5.6
Identities = 16/91 (17%), Positives = 29/91 (31%), Gaps = 9/91 (9%)
Query: 679 DSRDEILSVETCTQENDILLTTKLGQCVRFPISAI---RVFAGRNSVGVRGISLAKGDQV 735
S ++I S++ N + + +L R R AGR GV G+ +
Sbjct: 66 RSPEDIESIDIVESCNGVEVQLELS--SRRFAGLKARRRNIAGRCGCGVCGV--ESLEDA 121
Query: 736 ISMAIVLHADADYDERIC--YMKHMSAQRRL 764
+ L + M + + L
Sbjct: 122 LKPVAPLPFTQTFTAEDLDRAMAQLQDAQPL 152
>gnl|CDD|179800 PRK04247, PRK04247, hypothetical protein; Provisional.
Length = 238
Score = 28.7 bits (65), Expect = 7.2
Identities = 20/48 (41%), Positives = 25/48 (52%), Gaps = 8/48 (16%)
Query: 287 LVREKRI-VDIADLRDESDRQGYRVVIELKR---GASADVILNQLYRY 330
L RE I D+ D+ G VV+ELKR G SA ++QL RY
Sbjct: 151 LAREYPTPAGIIDILGR-DKDGNLVVLELKRRRAGLSA---VSQLKRY 194
>gnl|CDD|178302 PLN02699, PLN02699, Bifunctional molybdopterin
adenylyltransferase/molybdopterin molybdenumtransferase.
Length = 659
Score = 28.2 bits (63), Expect = 8.8
Identities = 21/65 (32%), Positives = 28/65 (43%), Gaps = 12/65 (18%)
Query: 843 AVFPVNDNDQIILVSDKGTLIRVPVNEIRIASRATKGVVI----FSTAKDERVVSV-ERI 897
AV V D + V D +RI S+A+KG I KD +V+ ER+
Sbjct: 108 AVVQVEDTEV---VEDP----LDGSKRVRILSQASKGQDIRPVGCDIEKDAKVLKAGERL 160
Query: 898 RESEI 902
SEI
Sbjct: 161 GASEI 165
>gnl|CDD|163524 TIGR03812, tyr_de_CO2_Arch, tyrosine decarboxylase MnfA. Members
of this protein family are the archaeal form, MnfA, of
tyrosine decarboxylase, and are involved in methanofuran
biosynthesis. Members show clear homology to the
Enterococcus form, Tdc, that is involved in tyrosine
decarboxylation for resistance to acidic conditions.
Length = 373
Score = 28.5 bits (64), Expect = 9.1
Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 9/54 (16%)
Query: 373 TKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRF-SPNPETARRELMQRSWNAS 425
T+YL+ + + V ++ V+ I+ F +PE R++L R W S
Sbjct: 297 TRYLVEELKKIGFEPV--------IEPVLNIVAFEVDDPEEVRKKLRDRGWYVS 342
>gnl|CDD|161880 TIGR00440, glnS, glutaminyl-tRNA synthetase. This protein is a
relatively rare aminoacyl-tRNA synthetase, found in the
cytosolic compartment of eukaryotes, in E. coli and a
number of other Gram-negative Bacteria, and in
Deinococcus radiodurans. In contrast, the pathway to
Gln-tRNA in mitochondria, Archaea, Gram-positive
Bacteria, and a number of other lineages is by
misacylation with Glu followed by transamidation to
correct the aminoacylation to Gln. This enzyme is a
class I tRNA synthetase (hit by the pfam model
tRNA-synt_1c) and is quite closely related to
glutamyl-tRNA synthetases.
Length = 522
Score = 28.3 bits (63), Expect = 9.4
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 256 IEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRVVI 312
IE S + E + IP N E+ E I D AD R+E+++Q R+V+
Sbjct: 327 IENLSDEYE---LATIPNHPNTPEFGERQVPFTNEFYI-DRADFREEANKQYKRLVL 379
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.320 0.137 0.386
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 15,200,001
Number of extensions: 1060440
Number of successful extensions: 2234
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2134
Number of HSP's successfully gapped: 54
Length of query: 910
Length of database: 5,994,473
Length adjustment: 102
Effective length of query: 808
Effective length of database: 3,790,457
Effective search space: 3062689256
Effective search space used: 3062689256
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 62 (27.7 bits)