RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 005193
(709 letters)
>1kij_A DNA gyrase subunit B; topoisomerase, gyrase B-coumarin complex,
isomerase; HET: DNA NOV; 2.30A {Thermus thermophilus}
SCOP: d.14.1.3 d.122.1.2
Length = 390
Score = 590 bits (1525), Expect = 0.0
Identities = 162/399 (40%), Positives = 228/399 (57%), Gaps = 20/399 (5%)
Query: 76 TYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALL 135
+Y + I+VL+GLE VR RPAMYIG TG G HHL EILDNAVDEA AGYA+ I V L
Sbjct: 2 SYDASAIRVLKGLEGVRHRPAMYIGGTGVEGYHHLFKEILDNAVDEALAGYATEILVRLN 61
Query: 136 ADNS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSV 186
D S IP+DL P K A+E + LH+GGKF + Y VSGGLHGVG SV
Sbjct: 62 EDGSLTVEDNGRGIPVDLMPEEGKPAVEVIYNTLHSGGKFEQGA--YKVSGGLHGVGASV 119
Query: 187 VNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT 246
VNALSE V V+R+G + +SRG+ L V+ + + GTR+ F PD ++F
Sbjct: 120 VNALSEWTVVEVFREGKHHRIAFSRGEVTEPL--RVVGEAPRGKTGTRVTFKPDPEIFGN 177
Query: 247 AIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKK 306
++FD + I R+RE+A+L L + + E+ + GG+ + + L +
Sbjct: 178 -LRFDPSKIRARLREVAYLVAGLKLVFQDRQHGKEE----VFLDKGGVASFAKALAEGED 232
Query: 307 PLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTL 365
L+ R + +++ Y+ +L YAN I T DGGTH+ K++ +R L
Sbjct: 233 LLYEKPFLIRGTHGEVEVEVGFLHT-QGYNAEILTYANMIPTRDGGTHLTAFKSAYSRAL 291
Query: 366 NSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSV 425
N KK+ K+K +G+ + EGL ++SV++PNP+FEGQTK +L NPE V Q V
Sbjct: 292 NQYAKKAGLNKEKGPQPTGDDLLEGLYAVVSVKLPNPQFEGQTKGKLLNPEAGTAVGQVV 351
Query: 426 QEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLV 464
E L E LE +P + ++ K+L A +A AA++AR+LV
Sbjct: 352 YERLLEILEENPRIAKAVYEKALRAAQAREAARKARELV 390
>1ei1_A DNA gyrase B, GYRB; ATPase domain, dimer, isomerase; HET: DNA ANP;
2.30A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2
Length = 391
Score = 573 bits (1480), Expect = 0.0
Identities = 168/401 (41%), Positives = 249/401 (62%), Gaps = 22/401 (5%)
Query: 74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEV 132
S + S I+VL+GL+AVRKRP MYIG T GLHH+V+E++DNA+DEA AG+ I V
Sbjct: 1 SNSSDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIV 60
Query: 133 ALLADNS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVG 183
+ ADNS IP +HP SA E ++TVLHAGGKF +S Y VSGGLHGVG
Sbjct: 61 TIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNS--YKVSGGLHGVG 118
Query: 184 LSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQV 243
+SVVNALS+ LE+ + R+G + Q Y G P L ++ GT +RFWP +
Sbjct: 119 VSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLET 174
Query: 244 FTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT 303
FT +F++ +A R+REL+FL+ ++I LR + E + + GG++ +V++LN
Sbjct: 175 FTNVTEFEYEILAKRLRELSFLDSGVSIRLRDKRDGKED----HFHYEGGIKAFVEYLNK 230
Query: 304 DKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLT 362
+K P+H ++ F + DGI +++ALQW D + + + + N+I DGGTH+ G +A++T
Sbjct: 231 NKTPIHPNIFYFSTEKDGIGVEVALQWN-DGFQENIYCFTNNIPQRDGGTHLAGFRAAMT 289
Query: 363 RTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVD 422
RTLN+ K K +S +G+ REGL ++SV+VP+P+F QTK +L + EV+ V+
Sbjct: 290 RTLNAYMDKEGYSKKAKVSATGDDAREGLIAVVSVKVPDPKFSSQTKDKLVSSEVKSAVE 349
Query: 423 QSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDL 463
Q + E L EYL +P ++ K + A +A AA+RAR++
Sbjct: 350 QQMNELLAEYLLENPTDAKIVVGKIIDAARAREAARRAREM 390
>1s16_A Topoisomerase IV subunit B; two-domain protein complexed with
ADPNP; HET: ANP; 2.10A {Escherichia coli} SCOP: d.14.1.3
d.122.1.2
Length = 390
Score = 550 bits (1421), Expect = 0.0
Identities = 128/404 (31%), Positives = 207/404 (51%), Gaps = 25/404 (6%)
Query: 74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVA 133
++TY ++ I+VL GLE VR+RP MY +T +HL E++DN+VDEA AG+A ++V
Sbjct: 2 TQTYNADAIEVLTGLEPVRRRPGMYTDTTR---PNHLGQEVIDNSVDEALAGHAKRVDVI 58
Query: 134 LLADNS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGL 184
L AD S +P+D+HP A+E +L LHAGGKF + Y SGGLHGVG+
Sbjct: 59 LHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHAGGKFSNKN--YQFSGGLHGVGI 116
Query: 185 SVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVF 244
SVVNALS+ +EV V RDG Y+ + G+ V L V+ K GT + FWPD+ F
Sbjct: 117 SVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDL--QVVGTCGKRNTGTSVHFWPDETFF 174
Query: 245 TTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTD 304
+ +F + + ++ A L P + I + E ++ E+ + + GL +Y+
Sbjct: 175 DS-PRFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQ----RWCYQDGLNDYLAEAVNG 229
Query: 305 KKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTR 363
L D +D AL W + Y N I T+ GGTH+ G++ L
Sbjct: 230 LPTLPEKPFIGNFAGDTEAVDWALLWLPEGGELLTESYVNLIPTMQGGTHVNGLRQGLLD 289
Query: 364 TLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQ 423
+ + + + + LS E + + ++SV++ +P+F GQTK RL + + V
Sbjct: 290 AMREFCEYRNILP-RGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVSG 348
Query: 424 SVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQK 467
V++ +L + + + ++S+ + + A+ +VR+K
Sbjct: 349 VVKDAFILWLNQNVQAAELLAEMAISSAQR--RMRAAKKVVRKK 390
>3lnu_A Topoisomerase IV subunit B; PARE, ATP-binding, nucleotide-BI
topoisomerase; 2.20A {Xanthomonas oryzae PV} PDB:
3lps_A*
Length = 408
Score = 548 bits (1415), Expect = 0.0
Identities = 127/413 (30%), Positives = 208/413 (50%), Gaps = 26/413 (6%)
Query: 65 TEAFKENPVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQA 124
+ + Y + I+VL GL+ V++RP MY + +HL E++DN+VDEA A
Sbjct: 12 SGLVPRGSHNTRYNAADIEVLSGLDPVKRRPGMYTDTAR---PNHLAQEVIDNSVDEALA 68
Query: 125 GYASNIEVALLADNS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSV 175
G+A IEV L D S +P+D+HP +E +LT LHAGGKF + Y+
Sbjct: 69 GHAKQIEVTLYKDGSCEVSDDGRGMPVDIHPEEKIPGVELILTRLHAGGKFNNRN--YTF 126
Query: 176 SGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRI 235
SGGLHGVG+SVVNALS +E+ + R+G E+ ++ G + L V+ K GTR+
Sbjct: 127 SGGLHGVGVSVVNALSTKVELFIKREGSEHRMEFRDGNAASKLE--VVGTVGKKNTGTRL 184
Query: 236 RFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLE 295
RFW D + F T +F+ + +R A L P LT+ L E + + ++F GL
Sbjct: 185 RFWADPKYFDT-PKFNVRALRHLLRAKAVLCPGLTVKLHDEATGEQD----SWYFENGLR 239
Query: 296 EYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHI 354
+Y++ + + L D+ D +D A W Y N I T GTH+
Sbjct: 240 DYLKGEMAEHEMLPADLFVGSLKKDTEIVDWAAGWV-PEGELVQESYVNLIPTAQHGTHV 298
Query: 355 EGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGN 414
G+++ LT L + + + L+ E V + +T ++S+++ +P+F GQTK RL +
Sbjct: 299 NGLRSGLTDALREFCDFRNLLP-RGVKLAPEDVWDRVTFVLSLKMTDPQFSGQTKERLSS 357
Query: 415 PEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQK 467
+ ++ + + + YL + ++ + I ++ A K + +VR+K
Sbjct: 358 RQAAGFIEGAAHDAFSLYLNQNVEIGEKIAQIAIDRASA--RLKTEKQIVRKK 408
>3cwv_A DNA gyrase, B subunit, truncated; structural genomics, unknown
function, B-subunit binding, isomerase,
nucleotide-binding, topoisomerase; HET: DNA; 1.95A
{Myxococcus xanthus}
Length = 369
Score = 504 bits (1301), Expect = e-175
Identities = 101/378 (26%), Positives = 158/378 (41%), Gaps = 41/378 (10%)
Query: 87 GLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS------- 139
+E VRKRP MY G G GLHHLVY +LD A +EA+ G ++ + + D S
Sbjct: 11 IVENVRKRPGMYCGDVGEYGLHHLVYFLLDVAYEEARRGECRDVVLEVGGDGSIALFCTS 70
Query: 140 --IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVT 197
+ E ++ V G G G + V ALS +V
Sbjct: 71 RTVTA-----------ENLVRVATGAGFLGR--PPGDGWGWDSML--VVSLALSSRYQVD 115
Query: 198 VWRDGMEYHQKYSRGKPVTTLTCH--VLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTI 255
+W DG ++ G P + P+ +G R+ F PD +F + FD +
Sbjct: 116 IWADGRQWRVMGEHGHPQGEGAAVTPMEPMPVSAERGVRVHFVPDATIFEV-LAFDRARL 174
Query: 256 AGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGF 314
+ R ELA L P L ++ + GG+ ++ L + LH + V F
Sbjct: 175 SRRCNELAALAPGLRVSFADLQRGERT----LWHLPGGVAQWAHVLTEARPQLHPEPVVF 230
Query: 315 RKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKT 374
DG+ + ALQWC + T+L +AN++RT+ G H++GV +L L L +
Sbjct: 231 DFTWDGLRVQCALQWC-EDEDSTLLSFANAVRTVRHGAHVKGVTQALRGALAKLSGE--- 286
Query: 375 VKDKDISLSGEHVREGLTCIISVRVPNP--EFEGQTKTRLGNPEVRKVVDQSVQEYLTEY 432
+ V +GLT I++V P F G TK L P + + + + +Q E
Sbjct: 287 ---TRGAFPWARVAQGLTAIVAVSGPRRQMAFAGPTKELLAIPGLEEAIRKQLQPLFIEL 343
Query: 433 LELHPDVLDSILSKSLSA 450
L HP + ++ +
Sbjct: 344 LREHPVTPALLARRTSGS 361
>3k9f_C DNA topoisomerase 4 subunit B; quinolone, topoisomerase,
protein-DNA cleavage complex; HET: DNA LFX; 2.90A
{Streptococcus pneumoniae} PDB: 3fof_C* 3foe_C* 3ksa_C*
3ksb_C* 3ltn_C* 3rad_C* 3rae_C* 3raf_C*
Length = 268
Score = 441 bits (1137), Expect = e-152
Identities = 120/261 (45%), Positives = 163/261 (62%), Gaps = 7/261 (2%)
Query: 449 SALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGR 508
+ D K+ L GKL S P ++E+++VEGDSAGGSAKQGR
Sbjct: 7 HHHHHHSSGHIDDDDKHMKNKKDKGLLSGKLTPAQSKNPAKNELYLVEGDSAGGSAKQGR 66
Query: 509 DRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIIL 568
DR+FQAILPLRGK++N + A + KNEEI +I +G GV G DF E Y KIII+
Sbjct: 67 DRKFQAILPLRGKVINTAKAKMADILKNEEINTMIYTIGAGV-GADFSIEDANYDKIIIM 125
Query: 569 TDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGK----QVQYCYDDAEL 624
TDAD DGAHI+TLLLTFFYRY + L + G +Y+ +PPLYK+ +GK +V Y + D EL
Sbjct: 126 TDADTDGAHIQTLLLTFFYRYMRPLVEAGHVYIALPPLYKMSKGKGKKEEVAYAWTDGEL 185
Query: 625 KKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLM 684
++++ F ++QR+KGLGEM QLWETT+NPE R L ++ IED A A + LM
Sbjct: 186 EELRKQFGKG--ATLQRYKGLGEMNADQLWETTMNPETRTLIRVTIEDLARAERRVNVLM 243
Query: 685 GARVDTRKELIQNAANLVNLD 705
G +V+ R++ I++ +
Sbjct: 244 GDKVEPRRKWIEDNVKFTLEE 264
>3m4i_A DNA gyrase subunit B; GYRB, toprim, type II topoisomerase,
tuberculosi quinolone binding site, DNA binding site,
ATP-binding; HET: DNA; 1.95A {Mycobacterium
tuberculosis} PDB: 3ig0_A* 2zjt_A*
Length = 242
Score = 406 bits (1047), Expect = e-139
Identities = 110/241 (45%), Positives = 155/241 (64%), Gaps = 8/241 (3%)
Query: 472 SSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEA 531
+ + D T P +SE+++VEGDSAGGSAK GRD FQAILPLRGKI+NVE+
Sbjct: 2 AHHHHHHVDDDDKTDPRKSELYVVEGDSAGGSAKSGRDSMFQAILPLRGKIINVEKARID 61
Query: 532 AMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQK 591
+ KN E+Q +I ALG G+ ++F LRYHKI+++ DADVDG HI TLLLT +R+ +
Sbjct: 62 RVLKNTEVQAIITALGTGI-HDEFDIGKLRYHKIVLMADADVDGQHISTLLLTLLFRFMR 120
Query: 592 TLFDEGCIYVGVPPLYKVERGKQ-VQYCYDDAELKKV-----KSSFPSNALYSIQRFKGL 645
L + G +++ PPLYK++ + ++ Y D E + K+ N IQR+KGL
Sbjct: 121 PLIENGHVFLAQPPLYKLKWQRSDPEFAYSDRERDGLLEAGLKAGKKINKEDGIQRYKGL 180
Query: 646 GEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ-NAANLVNL 704
GEM +LWETT++P R+L+Q+ ++DAA A+ +FS LMG VD R+ I NA ++ L
Sbjct: 181 GEMDAKELWETTMDPSVRVLRQVTLDDAAAADELFSILMGEDVDARRSFITRNAKDVRFL 240
Query: 705 D 705
D
Sbjct: 241 D 241
>1pvg_A DNA topoisomerase II; GHKL ATPase domain; HET: DNA ANP; 1.80A
{Saccharomyces cerevisiae} SCOP: d.14.1.3 d.122.1.2 PDB:
1qzr_A*
Length = 418
Score = 380 bits (979), Expect = e-126
Identities = 80/422 (18%), Positives = 147/422 (34%), Gaps = 73/422 (17%)
Query: 74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPR-----------------------GLHHL 110
S++ Q + LE + KRP YIGS + GL +
Sbjct: 9 EPVSASDKYQKISQLEHILKRPDTYIGSVETQEQLQWIYDEETDCMIEKNVTIVPGLFKI 68
Query: 111 VYEILDNAVDEAQAG-YASNIEVALLAD-NS---------IPIDLHPATNKSALETVLTV 159
EIL NA D I+V + A+ ++ IPI++H N E +
Sbjct: 69 FDEILVNAADNKVRDPSMKRIDVNIHAEEHTIEVKNDGKGIPIEIHNKENIYIPEMIFGH 128
Query: 160 LHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTV--WRDGMEYHQKYSRGKPVTT 217
L + V+GG +G G + N S + G +Y QK+ +
Sbjct: 129 LLTSSNYDDDE--KKVTGGRNGYGAKLCNIFSTEFILETADLNVGQKYVQKWENNMSICH 186
Query: 218 LTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKED 277
+ K T++ F PD F + D++ + R + +N + +
Sbjct: 187 P--PKITSYKKGPSYTKVTFKPDLTRFGM-KELDNDILGVMRRRVYDINGSVRDINVYLN 243
Query: 278 SDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH--------DVVGFRKDVDGITIDLALQW 329
K F +E Y++ L ++ + D+ + ++A
Sbjct: 244 GKSLK----IRNFKNYVELYLKSLEKKRQLDNGEDGAAKSDIPTILYERINNRWEVAFAV 299
Query: 330 CSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVRE 389
SD + + NSI T GGTH+ + + + ++ + KK K S+ ++
Sbjct: 300 -SDISFQ-QISFVNSIATTMGGTHVNYITDQIVKKISEILKK-----KKKKSVKSFQIKN 352
Query: 390 GLTCIISVRVPNPEFEGQTKTRLGNPE-------------VRKVVDQSVQEYLTEYLELH 436
+ I+ + NP F QTK +L + K++ + + E + +
Sbjct: 353 NMFIFINCLIENPAFTSQTKEQLTTRVKDFGSRCEIPLEYINKIMKTDLATRMFEIADAN 412
Query: 437 PD 438
+
Sbjct: 413 EE 414
>1zxm_A TOPO IIA ATPase, DNA topoisomerase II, alpha isozyme; GHKL
nucleotide-binding fold; HET: DNA ANP; 1.87A {Homo
sapiens} PDB: 1zxn_A*
Length = 400
Score = 350 bits (901), Expect = e-115
Identities = 77/420 (18%), Positives = 128/420 (30%), Gaps = 64/420 (15%)
Query: 79 SEQIQVLEGLEAVRKRPAMYIGSTGPR----------------------GLHHLVYEILD 116
Q LE + RP YIGS GL+ + EIL
Sbjct: 3 ERIYQKKTQLEHILLRPDTYIGSVELVTQQMWVYDEDVGINYREVTFVPGLYKIFDEILV 62
Query: 117 NAVDEAQAG-YASNIEVALLADNS----------IPIDLHPATNKSALETVLTVLHAGGK 165
NA D Q S I V + +N+ IP+ H + L
Sbjct: 63 NAADNKQRDPKMSCIRVTIDPENNLISIWNNGKGIPVVEHKVEKMYVPALIFGQLLTSSN 122
Query: 166 FGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGMEYHQKYSRGKPVTTLTCHVL 223
+ V+GG +G G + N S V + Q + +
Sbjct: 123 YDDDE--KKVTGGRNGYGAKLCNIFSTKFTVETASREYKKMFKQTWMDNMGRAGE---ME 177
Query: 224 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAG---RIRELAFLNPKLTIALRKEDSDP 280
T I F PD F D + +A R ++A + + L
Sbjct: 178 LKPFNGEDYTCITFQPDLSKFKM-QSLDKDIVALMVRRAYDIAGSTKDVKVFLN------ 230
Query: 281 EKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTML 339
G YV DK + + + ++ L S+ +
Sbjct: 231 -----GNKLPVKGFRSYVDMYLKDKLDETGNSLKVIHEQVNHRWEVCLTM-SEKGF-QQI 283
Query: 340 GYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRV 399
+ NSI T GG H++ V + L + KK +++ V+ + ++ +
Sbjct: 284 SFVNSIATSKGGRHVDYVADQIVTKLVDVVKKKN---KGGVAVKAHQVKNHMWIFVNALI 340
Query: 400 PNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKR 459
NP F+ QTK + + E + +++SIL + KA + +
Sbjct: 341 ENPTFDSQTKENMTLQPKSFGSTCQLSEKFIKAAIGCG-IVESIL--NWVKFKAQVQLNK 397
>4emv_A DNA topoisomerase IV, B subunit; protein-inhibitor complex, ATP
binding, structure-based drug antimicrobial, virtual
screen; HET: DNA 0R9; 1.70A {Streptococcus pneumoniae
GA47373} PDB: 4em7_A*
Length = 226
Score = 342 bits (880), Expect = e-114
Identities = 106/232 (45%), Positives = 139/232 (59%), Gaps = 20/232 (8%)
Query: 69 KENPVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYAS 128
K+ Y + IQVLEGL+AVRKRP MYIGST GLHHLV+EI+DNAVDEA +G+
Sbjct: 3 KKEININNYNDDAIQVLEGLDAVRKRPGMYIGSTDGAGLHHLVWEIVDNAVDEALSGFGD 62
Query: 129 NIEVALLADNS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGL 179
I+V + D S +P +H +E + T+LHAGGKFG GY SGGL
Sbjct: 63 RIDVTINKDGSLTVQDHGRGMPTGMHA-MGIPTVEVIFTILHAGGKFGQ--GGYKTSGGL 119
Query: 180 HGVGLSVVNALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFW 238
HGVG SVVNALS LEV + RDG Y Q++ GKPVTTL + K + GT++ F
Sbjct: 120 HGVGSSVVNALSSWLEVEITRDGAVYKQRFENGGKPVTTLK--KIGTALKSKTGTKVTFM 177
Query: 239 PDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFF 290
PD +F+T F +NTI+ R+ E AFL +T++L + +D E+ +
Sbjct: 178 PDATIFST-TDFKYNTISERLNESAFLLKNVTLSLTDKRTDEAI----EFHY 224
>4duh_A DNA gyrase subunit B; structure-based drug design, antibacterial,
DNA gyrase B, GY isomerase-isomerase inhibitor complex;
HET: DNA RLI; 1.50A {Escherichia coli} PDB: 1aj6_A*
1kzn_A* 3g7e_A*
Length = 220
Score = 330 bits (848), Expect = e-109
Identities = 104/230 (45%), Positives = 141/230 (61%), Gaps = 20/230 (8%)
Query: 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIE 131
+S +Y S I+VL+GL+AVRKRP MYIG T GLHH+V+E++DNA+DEA AG+ I
Sbjct: 1 MSNSYDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEII 60
Query: 132 VALLADNS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGV 182
V + ADNS IP +HP SA E ++TVLHAGGKF +S Y VSGGLHGV
Sbjct: 61 VTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNS--YKVSGGLHGV 118
Query: 183 GLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQ 242
G+SVVNALS+ LE+ + R+G + Q Y G P L ++ GT +RFWP +
Sbjct: 119 GVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLE 174
Query: 243 VFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAG 292
FT +F++ +A R+REL+FLN ++I LR + E + + G
Sbjct: 175 TFTNVTEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKED----HFHYEG 220
>3nuh_B DNA gyrase subunit B; topoisomerase, supercoiling, specialization,
isomera; HET: DNA; 3.10A {Escherichia coli}
Length = 420
Score = 320 bits (822), Expect = e-103
Identities = 98/254 (38%), Positives = 147/254 (57%), Gaps = 10/254 (3%)
Query: 457 AKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAIL 516
+ AR++ R+K L + LPGKLADC P SE+++VEGDSAGGSAKQGR+R+ QAIL
Sbjct: 1 SNAAREMTRRKGALDLAGLPGKLADCQERDPALSELYLVEGDSAGGSAKQGRNRKNQAIL 60
Query: 517 PLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGA 576
PL+GKILNVE+ M ++E+ LI ALG G+ +++ + LRYH III+TDADVDG+
Sbjct: 61 PLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDEYNPDKLRYHSIIIMTDADVDGS 120
Query: 577 HIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNAL 636
HIRTLLLTFFYR + + G +Y+ PPLYKV++GKQ QY DD + + + S +
Sbjct: 121 HIRTLLLTFFYRQMPEIVERGHVYIAQPPLYKVKKGKQEQYIKDDEAMDQYQISIALDGA 180
Query: 637 YSIQRFKGLGEMMPVQL---------WETTLNPEQRMLKQLVIEDAAEANVVFSSLMGAR 687
++ + L + +N +R + ++++ + + +
Sbjct: 181 -TLHTNASAPALAGEALEKLVSEYNATQKMINRMERRYPKAMLKELIYQPTLTEADLSDE 239
Query: 688 VDTRKELIQNAANL 701
+ + + L
Sbjct: 240 QTVTRWVNALVSEL 253
Score = 120 bits (302), Expect = 2e-29
Identities = 47/183 (25%), Positives = 78/183 (42%), Gaps = 6/183 (3%)
Query: 526 ERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHI--RTLLL 583
+ E+ + + E + I+ + VD + +
Sbjct: 240 QTVTRWVNALVSELNDKEQHGSQWKFDVHTNAEQNLFEPIVRVRTHGVDTDYPLDHEFIT 299
Query: 584 TFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFK 643
YR TL ++ + ERG++ Q + SIQR+K
Sbjct: 300 GGEYRRICTLGEKLRGLLEEDAFI--ERGERRQPVASFEQALDWLVKESRRG-LSIQRYK 356
Query: 644 GLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ-NAANLV 702
GLGEM P QLWETT++PE R + ++ ++DA A+ +F++LMG V+ R+ I+ NA
Sbjct: 357 GLGEMNPEQLWETTMDPESRRMLRVTVKDAIAADQLFTTLMGDAVEPRRAFIEENALKAA 416
Query: 703 NLD 705
N+D
Sbjct: 417 NID 419
>3fv5_A DNA topoisomerase 4 subunit B; topoisomerase IV B subunit complex,
antibiotic resistance, ATP-binding, nucleotide-binding;
HET: DNA 1EU; 1.80A {Escherichia coli} PDB: 1s14_A*
Length = 201
Score = 302 bits (776), Expect = 4e-99
Identities = 84/205 (40%), Positives = 119/205 (58%), Gaps = 17/205 (8%)
Query: 87 GLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS------- 139
GLE VR+RP MY +T P +HL E++DN+VDEA AG+A ++V L AD S
Sbjct: 1 GLEPVRRRPGMYTDTTRP---NHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDG 57
Query: 140 --IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVT 197
+P+D+HP A+E +L LHAGGKF + Y SGGLHGVG+SVVNALS+ +EV
Sbjct: 58 RGMPVDIHPEEGVPAVELILCRLHAGGKFSNKN--YQFSGGLHGVGISVVNALSKRVEVN 115
Query: 198 VWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAG 257
V RDG Y+ + G+ V L V+ K GT + FWPD+ F + +F + +
Sbjct: 116 VRRDGQVYNIAFENGEKVQDLQ--VVGTCGKRNTGTSVHFWPDETFFDS-PRFSVSRLTH 172
Query: 258 RIRELAFLNPKLTIALRKEDSDPEK 282
++ A L P + I + E ++ E+
Sbjct: 173 VLKAKAVLCPGVEITFKDEINNTEQ 197
>3ttz_A DNA gyrase subunit B; protein-inhibitor complex, ATP-binding,
structure-based drug antimicrobial, isomerase-isomerase
inhibitor complex; HET: DNA 07N; 1.63A {Staphylococcus
aureus} PDB: 3u2d_A* 3u2k_A* 3g75_A* 3g7b_A*
Length = 198
Score = 295 bits (758), Expect = 2e-96
Identities = 99/227 (43%), Positives = 128/227 (56%), Gaps = 39/227 (17%)
Query: 77 YGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLA 136
YG+ QIQVLEGLEAVRKRP MYIGST RGLHHLV+EI+DN++DEA AGYA+ IEV +
Sbjct: 2 YGAGQIQVLEGLEAVRKRPGMYIGSTSERGLHHLVWEIVDNSIDEALAGYANQIEVVIEK 61
Query: 137 DNS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVV 187
DN IP+D+ + A+E +LT SVV
Sbjct: 62 DNWIKVTDNGRGIPVDIQEKMGRPAVEVILTS-------------------------SVV 96
Query: 188 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 247
NALS+ LEV V R+ YHQ Y +G P L V + D+ GT IRF D ++FT
Sbjct: 97 NALSQDLEVYVHRNETIYHQAYKKGVPQFDLKE----VGTTDKTGTVIRFKADGEIFTET 152
Query: 248 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGL 294
+++ T+ RIRELAFLN + I LR E + + + Y + GG+
Sbjct: 153 TVYNYETLQQRIRELAFLNKGIQITLRDERDEENVRE-DSYHYEGGI 198
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter
baumannii} PDB: 2xkk_A*
Length = 767
Score = 256 bits (655), Expect = 6e-75
Identities = 115/267 (43%), Positives = 161/267 (60%), Gaps = 10/267 (3%)
Query: 440 LDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDS 499
++ +SK+ LKAA +R K ++ +LPGKLADC T EESE+FIVEGDS
Sbjct: 1 MEMAISKAGRRLKAAKKVER-------KKIVSGPALPGKLADCVGQTREESELFIVEGDS 53
Query: 500 AGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEA 559
AGGSAKQ RD+ FQAI+P+RGKILN + ++E+ ++ A+G+ +D +
Sbjct: 54 AGGSAKQARDKNFQAIMPIRGKILNTWEVSSDEVLASQEVHDIAIAIGVDPGSDDLSE-- 111
Query: 560 LRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCY 619
LRY KI IL DAD DG HI TLL F ++ L +EG +YV +PPL++++ GK V Y
Sbjct: 112 LRYGKICILADADSDGLHIATLLCALFVKHFPALVEEGHLYVAMPPLFRIDIGKDVHYAL 171
Query: 620 DDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAE-ANV 678
DD EL+ + + N I RFKGLGEM +QL ETT++P R L QL ++DA A +
Sbjct: 172 DDEELETILKNVKGNKNPQITRFKGLGEMNAIQLRETTMDPNTRRLVQLDLDDAHLTAGL 231
Query: 679 VFSSLMGARVDTRKELIQNAANLVNLD 705
+ L R RK+ ++ NL ++
Sbjct: 232 LDKLLAKKRAADRKQWLEQKGNLADIT 258
>3qx3_A DNA topoisomerase 2-beta; toprim domain, winged-helix domain,
coiled-coil domain, DNA and cleavage, nucleus; HET: DNA
EVP; 2.16A {Homo sapiens}
Length = 803
Score = 254 bits (650), Expect = 5e-74
Identities = 67/264 (25%), Positives = 107/264 (40%), Gaps = 13/264 (4%)
Query: 452 KAALAAKRARDL----VRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQG 507
K A + D + S ++ D E + + EGDSA A G
Sbjct: 11 KGADDDDKVPDPTSVDSVKYSKIKGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSG 70
Query: 508 R---DRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEA----L 560
R + PLRGKILNV + +N EI N+I+ +GL + + L
Sbjct: 71 LGVIGRDRYGVFPLRGKILNVREASHKQIMENAEINNIIKIVGLQY-KKSYDDAESLKTL 129
Query: 561 RYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYD 620
RY KI+I+TD D DG+HI+ LL+ F + +L G + + P+ K + KQ Y
Sbjct: 130 RYGKIMIMTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLEEFITPIVKASKNKQELSFYS 189
Query: 621 DAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVF 680
E + K + + I+ +KGLG + E + E+ + + +
Sbjct: 190 IPEFDEWKKHIENQKAWKIKYYKGLGTSTAKEAKEYFADMERHRILF-RYAGPEDDAAIT 248
Query: 681 SSLMGARVDTRKELIQNAANLVNL 704
+ ++D RKE + N
Sbjct: 249 LAFSKKKIDDRKEWLTNFMEDRRQ 272
>2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA
topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus
aureus} PDB: 2xct_B* 2xcr_B* 2xcq_A* 2xco_A*
Length = 692
Score = 203 bits (519), Expect = 2e-56
Identities = 120/237 (50%), Positives = 147/237 (62%), Gaps = 35/237 (14%)
Query: 473 SSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA 532
+SLPGKLADCSS +PEE EIF+VEGDSAGGS K GRD R QAILPLRGKILNVE+
Sbjct: 4 ASLPGKLADCSSKSPEECEIFLVEGDSAGGSTKSGRDSRTQAILPLRGKILNVEKARLDR 63
Query: 533 MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKT 592
+ N EI+ +I A G G+ G DF RYHKI+I+TDADVDGAHIRTLLLTFFYR+ +
Sbjct: 64 ILNNNEIRQMITAFGTGIGG-DFDLAKARYHKIVIMTDADVDGAHIRTLLLTFFYRFMRP 122
Query: 593 LFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQ 652
L + G +Y+ PP +KGLGEM Q
Sbjct: 123 LIEAGYVYIAQPP----------------------------------TGYKGLGEMNADQ 148
Query: 653 LWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 709
LWETT+NPE R L Q+ +EDA EA+ F LMG V+ R++ I++ A NLD ++
Sbjct: 149 LWETTMNPEHRALLQVKLEDAIEADQTFEMLMGDVVENRRQFIEDNAVYANLDFAEL 205
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently
linked comple supercoiling; HET: DNA PTR TSP; 2.48A
{Saccharomyces cerevisiae} PDB: 3l4k_A* 1bjt_A 1bgw_A
2rgr_A*
Length = 757
Score = 155 bits (392), Expect = 1e-39
Identities = 63/239 (26%), Positives = 108/239 (45%), Gaps = 11/239 (4%)
Query: 478 KLADCS---STTPEESEIFIVEGDSAGGSAKQGR---DRRFQAILPLRGKILNVERKDEA 531
KL D + + + + + EGDSA A G R + PLRGK+LNV
Sbjct: 8 KLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRDYYGCYPLRGKMLNVREASAD 67
Query: 532 AMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQK 591
+ KN EIQ + + +GL + + ++LRY ++I+TD D DG+HI+ L++ F
Sbjct: 68 QILKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLIINFLESSFP 127
Query: 592 TLFD-EGCIYVGVPPLYKVERGKQVQYC---YDDAELKKVKSSFPSNALYSIQRFKGLGE 647
L D +G + + P+ KV K + Y+ + +K + + + +KGLG
Sbjct: 128 GLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFTWKQKYYKGLGT 187
Query: 648 MMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDH 706
+ ++ E N + R LK + + + + + D RKE ++ LD
Sbjct: 188 SLAQEVREYFSNLD-RHLKIFHSLQGNDKDYIDLAFSKKKADDRKEWLRQYEPGTVLDP 245
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 68.7 bits (167), Expect = 5e-12
Identities = 84/569 (14%), Positives = 164/569 (28%), Gaps = 186/569 (32%)
Query: 225 VDSKDR-QGTRIRFW-----PDKQV---FTTAIQFDHNTIAGRIRELAFLNPKLTIALRK 275
+ SKD GT FW ++ V ++ ++ + I+
Sbjct: 55 IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT-------------- 100
Query: 276 EDSDPEKN--QYNEY---FFAGG----------LEEYVQ---WLNTDKKP----LHDVVG 313
E P Y E + L+ Y++ L + + V+G
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLG 160
Query: 314 FRKDVDGITIDLALQWCSDAYSDTM---------LGYANSIRTI---------------- 348
K +AL C L NS T+
Sbjct: 161 SGKTW------VALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214
Query: 349 ---DGGT----HIEGVKASLTRTL------NSL---------------GKKSKTV---KD 377
D + I ++A L R L N L K + +
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF 274
Query: 378 KDIS----------LSGEHVREGLTC---------IISVRVPN-PEFEGQTKTRLGNPEV 417
K ++ +S +H LT + R + P + T NP
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR---EVLT--TNPRR 329
Query: 418 RKVVDQSVQEYLT---EYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSS 474
++ +S+++ L + ++ D L +I+ SL+ L+ A K L SV S+
Sbjct: 330 LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL----SVFPPSA 385
Query: 475 -LPGKL-----ADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAI----LPLRGKILN 524
+P L D + +V ++ +I L L+ K+ N
Sbjct: 386 HIPTILLSLIWFDVIKSDVMV----VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN 441
Query: 525 --------VERKDEAAMYKNEEIQNL-------------IRALGLGVKGEDFKKEALRYH 563
V+ + + ++++ ++ + + F+ L +
Sbjct: 442 EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFR 501
Query: 564 ----KIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYK--VERGKQVQY 617
KI + A I L + Y+ + D Y + + + ++
Sbjct: 502 FLEQKIRHDSTAWNASGSILNTLQQLKF-YKPYICDNDPKYERLVNAILDFLPKIEENLI 560
Query: 618 CYDDAELKKVKSSFPSNALYS-----IQR 641
C +L ++ A++ +QR
Sbjct: 561 CSKYTDLLRIALMAEDEAIFEEAHKQVQR 589
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 66.2 bits (161), Expect = 3e-11
Identities = 108/636 (16%), Positives = 180/636 (28%), Gaps = 232/636 (36%)
Query: 23 CSF--SSSLFFKPRTNFAIRGVSSQVLTRSNVVLPRAFLSS-SIATEAFKENPVSKTYGS 79
++ FF ++SQ L F TE F +
Sbjct: 18 HVLLVPTASFF----------IASQ--------LQEQFNKILPEPTEGFAAD-------D 52
Query: 80 EQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEV-ALLADN 138
E E L + Y+ S ++L+ + E + Y ++ AL A
Sbjct: 53 EPTTPAE-LVG---KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKL 108
Query: 139 SIPIDLHPATNKSALETVLTVLHAGGK----------FGGSSSG----YSVSGGLHGVGL 184
D K ++ +T + F G ++ GG G
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGG-QGNTD 167
Query: 185 SVVNALSESLEVTVWRDGMEYHQKYSRGKP-VTTL------TCHVLPVDSKD-----RQG 232
L + L Y V L T L + D QG
Sbjct: 168 DYFEELRD-L--------------YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG 212
Query: 233 TRIRFW-------PDKQVFTTA---------IQFDHNTIAGRIRELAFLNPK-------- 268
I W PDK + IQ H + ++ P
Sbjct: 213 LNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGF---TPGELRSYLKG 269
Query: 269 LT---------IALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVD 319
T +A+ + DS F + + + L +G R
Sbjct: 270 ATGHSQGLVTAVAIAETDSWES--------FFVSVRKAITVL------FF--IGVR---- 309
Query: 320 GITIDLALQWCSDAYSDT--------------------MLGYANSIRTIDGGTHIEGVKA 359
C +AY +T ML SI E V+
Sbjct: 310 ----------CYEAYPNTSLPPSILEDSLENNEGVPSPML----SIS----NLTQEQVQD 351
Query: 360 SLTRTLNSLGKKSKTVKDKDISL---------SGEHVR--EGLTCIISVR-VPNPEFEGQ 407
+ +T NS K V+ ISL SG + GL +++R P Q
Sbjct: 352 YVNKT-NSHLPAGKQVE---ISLVNGAKNLVVSG-PPQSLYGLN--LTLRKAKAPSGLDQ 404
Query: 408 TKTRLGNPEVRKVVDQSVQEYL-------TEYLE-----LHPDVLDSILSKSLSALKAAL 455
++ RK+ + +L + L ++ D++ + +S + ++ +
Sbjct: 405 SRIPFSE---RKLKFSN--RFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPV 459
Query: 456 -AAKRARDLVRQKSVLRSSSLPGKLADCSSTTP---EESEIF----IVE---GDSAG-GS 503
DL R S S+ ++ DC P E + F I++ G ++G G
Sbjct: 460 YDTFDGSDL-RVLS----GSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGV 514
Query: 504 ----AKQGRDRRFQAILPLRGKILNVERKDEAAMYK 535
K G R I+ G L++ D+ +K
Sbjct: 515 LTHRNKDGTGVRV--IVA--GT-LDINPDDDYG-FK 544
Score = 48.1 bits (114), Expect = 9e-06
Identities = 62/393 (15%), Positives = 116/393 (29%), Gaps = 136/393 (34%)
Query: 5 LLKAPY-LHIRVLMASRCFCSFSSSLFFKPRTNFAIRGVSSQVLTRSNVVLPRAFLSSSI 63
LL P + ++ + + L F P +R S ++ ++ +
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKLLGFTPG---ELRSYLKGATGHSQGLVTAVAIAETD 287
Query: 64 ATEAFKENPVSKTYGSEQIQVL--EGLEAVRKRPAMYI-----------GSTGP------ 104
+ E+F + + I VL G+ P + P
Sbjct: 288 SWESFFVS------VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI 341
Query: 105 RGLHHLVYEILDNAVDEAQAGYASN--IEVALLADNSIPIDLHPATNKSALETVLTVLHA 162
L E + + V++ + + +E++L+ N A N V++
Sbjct: 342 SNLTQ---EQVQDYVNKTNSHLPAGKQVEISLV--NG-------AKN-----LVVS---- 380
Query: 163 GGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQ-KYSRGKPVTTLTCH 221
G S L+G+ L++ A + S G++ + +S K +
Sbjct: 381 ---------GPPQS--LYGLNLTLRKAKAPS--------GLDQSRIPFSERKLKFSNR-- 419
Query: 222 VLPVDS---------------KDRQGTRIRFWPDK---QVFTTAIQFDHNTIAGR-IREL 262
LPV S KD + F V+ T FD G +R L
Sbjct: 420 FLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDT---FD-----GSDLRVL 471
Query: 263 AF-LNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQW-LNTDKKPLHDVVGF-RKDVD 319
+ ++ ++ + + V+W T K H ++ F
Sbjct: 472 SGSISERIVDCI--------------------IRLPVKWETTTQFKATH-ILDFGPGGAS 510
Query: 320 GITIDLALQWCSDAYSDTMLGYANSIRTIDGGT 352
G+ L G +R I GT
Sbjct: 511 GLG-VLT--------HRNKDGT--GVRVIVAGT 532
Score = 46.2 bits (109), Expect = 4e-05
Identities = 69/386 (17%), Positives = 122/386 (31%), Gaps = 118/386 (30%)
Query: 396 SVRVPNP----------EFEGQTKTRLGNPEVRKVVDQ---SVQEYLTEYL-----ELHP 437
+ VP +F K L P D + E + ++L + P
Sbjct: 19 VLLVPTASFFIASQLQEQF---NKI-LPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEP 74
Query: 438 DV---LDSILSKSLS-------------ALKAALAAKRARDLVRQKSVLRSSSLPGKLAD 481
D +L+ L+ AL A L + LV+ K ++++ +A
Sbjct: 75 SKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAK 134
Query: 482 CSSTTPEESEIF--IVEGDSA-----GGSAKQG-RDRRFQAILPLRGKILNVERKDE-AA 532
S +F + EG++ GG QG D F +E
Sbjct: 135 RPFDKKSNSALFRAVGEGNAQLVAIFGG---QGNTDDYF----------------EELRD 175
Query: 533 MYK--NEEIQNLIRALG-----LGVKGEDFKKEALRYHKIII---LTDADV--DGAHIRT 580
+Y+ + + +LI+ L D +K + + I L + D ++ +
Sbjct: 176 LYQTYHVLVGDLIKFSAETLSELIRTTLDAEK--VFTQGLNILEWLENPSNTPDKDYLLS 233
Query: 581 -------LLLTFFYRYQKTLFDEGCIYVGVPP--LYKVERGKQVQYCYDD----AELKKV 627
+ + Y T +G P L +G + +
Sbjct: 234 IPISCPLIGVIQLAHYVVT-----AKLLGFTPGELRSYLKG--ATGHSQGLVTAVAIAET 286
Query: 628 KS--SFPSNALYSIQRFKGLG----EMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFS 681
S SF + +I +G E P T+L P ++ED+ E N
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPN----TSLPPS-------ILEDSLENNEGVP 335
Query: 682 SLMGARVDTRKELIQNAANLVNLDHL 707
S M + + +E +Q+ N N HL
Sbjct: 336 SPMLSISNLTQEQVQDYVNKTN-SHL 360
Score = 43.9 bits (103), Expect = 2e-04
Identities = 61/348 (17%), Positives = 101/348 (29%), Gaps = 130/348 (37%)
Query: 62 SIATEAFKENPVSKT--YGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAV 119
SI + NPV+ T +G E+ + +R+ + I T G L E + +
Sbjct: 1660 SI-LDIVINNPVNLTIHFGGEKGK------RIRENYSAMIFETIVDG--KLKTEKIFKEI 1710
Query: 120 DEAQAGYASNIEVALLADNSIPIDL----HPA---TNKSALETVLTVLHAGGK------F 166
+E Y E LL PA K+A E L + G F
Sbjct: 1711 NEHSTSYTFRSEKGLL-------SATQFTQPALTLMEKAAFE----DLKSKGLIPADATF 1759
Query: 167 GGSSSG-YS--VSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL 223
G S G Y+ S V +S + +EV + RG +
Sbjct: 1760 AGHSLGEYAALASLA--DV-MS----IESLVEVV-----------FYRGM----TMQVAV 1797
Query: 224 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKN 283
P D R + IA +NP A +++
Sbjct: 1798 PRDELGRSNYGM-------------------IA--------INPGRVAASFSQEA----- 1825
Query: 284 QYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYAN 343
L+ V+ + L ++V + +V+
Sbjct: 1826 ----------LQYVVERVGKRTGWLVEIVNY--NVENQQY-------------------- 1853
Query: 344 SIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGL 391
+ G + + +T LN + + + + SLS E V L
Sbjct: 1854 ----VAAG-DLRALDT-VTNVLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 42.0 bits (98), Expect = 8e-04
Identities = 42/293 (14%), Positives = 82/293 (27%), Gaps = 128/293 (43%)
Query: 293 GLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGT 352
G++ Y +DV + A D + G+ SI I
Sbjct: 1632 GMDLYKT---------SKAA---QDV----WNRA-----DNHFKDTYGF--SILDI---- 1664
Query: 353 HIEGVKASLTR-TLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTR 411
V + T++ G+K K +++ ++ E + +G
Sbjct: 1665 ----VINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDG--------------------- 1699
Query: 412 LGNPEVRKVVDQSVQEYLTEYLELHP-DVLDS-------ILSKSLSALK----------- 452
+ + + + E+ T Y +L + + +A +
Sbjct: 1700 ---KLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPAD 1756
Query: 453 -----------AALAA-------KRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFI 494
AALA+ + ++V R G +
Sbjct: 1757 ATFAGHSLGEYAALASLADVMSIESLVEVVFY----R-----GMTMQVA----------- 1796
Query: 495 VEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALG 547
V D G S + AI P G++ AA + E +Q ++ +G
Sbjct: 1797 VPRDELGRS-----NYGMIAINP--GRV--------AASFSQEALQYVVERVG 1834
Score = 35.4 bits (81), Expect = 0.085
Identities = 32/178 (17%), Positives = 46/178 (25%), Gaps = 65/178 (36%)
Query: 26 SSSLFFKP------RTNFAIRGVSSQVLTRSNVVLPRAFLSSSIATEAFKEN---PVSKT 76
S+S F+ T F Q P L A E K P T
Sbjct: 1714 STSYTFRSEKGLLSATQFT------Q---------PALTLMEKAAFEDLKSKGLIPADAT 1758
Query: 77 Y-----G--------SEQIQVLEGLEAVRKRPAMYIGSTGPRGLH--------------- 108
+ G ++ + + +E V R M + PR
Sbjct: 1759 FAGHSLGEYAALASLADVMSIESLVEVVFYR-GMTMQVAVPRDELGRSNYGMIAINPGRV 1817
Query: 109 --HLVYEILDNAVDEAQAGYASNIEVALLADNS----IPIDLHPATNKSALETVLTVL 160
E L V+ +E+ N A + AL+TV VL
Sbjct: 1818 AASFSQEALQYVVERVGKRTGWLVEIV--NYNVENQQYVA----AGDLRALDTVTNVL 1869
>2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase;
4.00A {Methanosarcina mazei}
Length = 621
Score = 43.6 bits (102), Expect = 2e-04
Identities = 45/234 (19%), Positives = 75/234 (32%), Gaps = 41/234 (17%)
Query: 70 ENPVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEA-QAGYAS 128
E P+++ +Q + + E K + + PR L V E +DNA+D +AG
Sbjct: 2 ETPIAEELAKKQ-KSISVAEFFEKNRQILGFDSAPRSLITTVKEAVDNALDACEEAGILP 60
Query: 129 NIEVAL-----------LADNSIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSG 177
+I V + + DN I + + V L G +F S
Sbjct: 61 DILVQVERTGPDYVTVIIEDNGPGIV------REQIPKVFAKLLYGSRFHALKQ----SR 110
Query: 178 GLHGVGLSVVNALSESLE------VTVWRDG-----MEYHQKYSRGKPVTTLTCHVLPVD 226
G G+G+S ++ ++ E S +P + D
Sbjct: 111 GQQGIGISAAVLYAQMTAGRHTKILSKTSPTAPAHYYELMINTSTNEPDILVDE---VRD 167
Query: 227 SKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDP 280
GT+I Q I ++ A +NP I L D +
Sbjct: 168 WFRPHGTQIELEMRAAYVKGRRQS----IYEYLKATAIVNPHARITLIDPDGNE 217
>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein,
decatenation, ATPase, drug design, DNA-binding,
magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus
shibatae}
Length = 530
Score = 36.3 bits (83), Expect = 0.039
Identities = 23/211 (10%), Positives = 59/211 (27%), Gaps = 31/211 (14%)
Query: 89 EAVRKRPAMYIGSTGPRGLHHLVYEILDNAVD---EAQAGYASNIEVALLADNSIPIDLH 145
E ++ P + R L+ V E+++N++D I + L+ D ++
Sbjct: 14 EFFKRNPELAGFPNPARALYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVN 73
Query: 146 -----PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWR 200
+ + K+ + G++G+G+ S+
Sbjct: 74 VVDNGIGIPPQEVPNAFGRVLYSSKYVNRQTR-----GMYGLGVKAAVLYSQM------- 121
Query: 201 DGMEYHQKYSRGKPVTTLTCHVLPVD--------SKDRQGTRIRFWPDKQVFTTA---IQ 249
+ + + + L +D + R + V +
Sbjct: 122 HQDKPIEIETSPVNSKRIYTFKLKIDINKNEPIIVERGSVENTRGFHGTSVAISIPGDWP 181
Query: 250 FDHNTIAGRIRELAFLNPKLTIALRKEDSDP 280
+ I I+ + P + + +
Sbjct: 182 KAKSRIYEYIKRTYIITPYAEFIFKDPEGNV 212
>1jmo_A HC-II, heparin cofactor II, HLS2, serin; serpin, thrombin,
protease, inhibition, inhibitor, blood CLO; HET: TYS NDG
NAG; 2.20A {Homo sapiens} SCOP: e.1.1.1 PDB: 1jmj_A*
Length = 480
Score = 31.6 bits (72), Expect = 1.0
Identities = 4/44 (9%), Positives = 16/44 (36%), Gaps = 10/44 (22%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
+ + L + N+ + + +G + +T +++
Sbjct: 117 NLYRVLKDQVNTFDNIFIAPVGISTAMGMISLGLKGETHEQVHS 160
>1vr5_A Oligopeptide ABC transporter, periplasmic oligope binding protein;
TM1223, periplasmic oligopepti binding, structural
genomics; HET: EPE; 1.73A {Thermotoga maritima} SCOP:
c.94.1.1
Length = 547
Score = 31.2 bits (71), Expect = 1.5
Identities = 10/64 (15%), Positives = 23/64 (35%), Gaps = 9/64 (14%)
Query: 271 IALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRK------DVDGITID 324
+ + K+ N + + ++N +K PL FR+ + + I +
Sbjct: 243 VPVLKKAYGIVTWYENAPYMLPANTAGI-YINVNKYPLSIPE-FRRAMAYAINPEKI-VT 299
Query: 325 LALQ 328
A +
Sbjct: 300 RAYE 303
>2oay_A C1-inhibitor, plasma protease C1 inhibitor, C1 INH, C1INH; latent
serpin, RCL insertion, immune system,hydrolase inhibi;
HET: NAG; 2.35A {Homo sapiens}
Length = 390
Score = 31.1 bits (71), Expect = 1.5
Identities = 8/44 (18%), Positives = 14/44 (31%), Gaps = 10/44 (22%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
++ E N+ FS +GA +T+ L
Sbjct: 42 KLYHAFSAMKKVETNMAFSPFSIASLLTQVLLGAGENTKTNLES 85
>3kcg_I Antithrombin-III, ATIII; michaelis complex, blood coagulation,
calcium, disulfide bond, EGF-like domain, glycoprotein,
hemophilia, hydrolase; HET: NAG FUC MAN NTP; 1.70A {Homo
sapiens} PDB: 1e04_I* 1ath_A 1ant_L* 1br8_L 1azx_I*
1dzh_L* 1e03_L* 1dzg_L* 1e05_L* 1jvq_L* 1lk6_L* 1nq9_I*
1oyh_L* 1r1l_L* 1sr5_A* 2ant_L* 2beh_L* 2hij_L* 2znh_A*
3evj_I* ...
Length = 432
Score = 31.1 bits (71), Expect = 1.5
Identities = 9/44 (20%), Positives = 16/44 (36%), Gaps = 10/44 (22%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
+ L N+ S L +GA DT ++L++
Sbjct: 61 TFYQHLADSKNDNDNIFLSPLSISTAFAMTKLGACNDTLQQLME 104
>2fcj_A Small toprim domain protein; structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; HET: MES; 1.30A {Geobacillus
stearothermophilus} SCOP: c.136.1.1 PDB: 2i5r_A*
Length = 119
Score = 29.4 bits (66), Expect = 1.7
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 557 KEALRYHKIIILTDADVDGAHIRTLLLTFF 586
+ L + + +L DAD G +R F
Sbjct: 45 ADELEGYDVYLLADADEAGEKLRRQFRRMF 74
>2wxy_C Angiotensinogen, serpin A8; glycoprotein, hypertension,
vasoconstrictor, renin, serpins, vasoactive, hormone;
2.10A {Mus musculus} PDB: 2wxx_A 2wy0_C 2wxz_A 2wxz_C
2wy1_A
Length = 453
Score = 30.8 bits (70), Expect = 1.7
Identities = 8/44 (18%), Positives = 14/44 (31%), Gaps = 10/44 (22%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
RM K L + + + S +G+ T +L
Sbjct: 83 RMYKMLNEAGSGASGAILSPPALFGTLVSFYLGSLDPTASQLQT 126
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.5 bits (65), Expect = 2.0
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 11/26 (42%)
Query: 613 KQVQYCYDDAELKKVKSSFPSNALYS 638
KQ LKK+++S LY+
Sbjct: 19 KQ--------ALKKLQASL---KLYA 33
>3k7d_A Glutamate-ammonia-ligase adenylyltransferase; nucleotidyl
transferase domain, ATP-binding, nucleotide-BIND
nucleotidyltransferase; 2.40A {Escherichia coli}
Length = 498
Score = 30.3 bits (68), Expect = 2.4
Identities = 12/56 (21%), Positives = 19/56 (33%), Gaps = 11/56 (19%)
Query: 427 EYLTEYLELHPDVLDSILS-------KSLSALKAALAAKRAR----DLVRQKSVLR 471
+ L +P +LD +L + A + L R D +Q LR
Sbjct: 115 PMIASQLARYPLLLDELLDPNTLYQPTATDAYRDELRQYLLRVPEDDEEQQLEALR 170
>1wvf_A 4-cresol dehydrogenase [hydroxylating] flavoprote subunit;
flavoprotein, electron-transfer, FAD, oxidoreductase;
HET: FAD; 1.30A {Pseudomonas putida} SCOP: d.58.32.1
d.145.1.1 PDB: 1wve_A* 1dii_A* 1diq_A*
Length = 520
Score = 30.0 bits (68), Expect = 2.7
Identities = 9/56 (16%), Positives = 20/56 (35%), Gaps = 10/56 (17%)
Query: 152 ALETVL---TVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL-----EVTVW 199
+E VL V G S+ + + G G ++ +++ ++ W
Sbjct: 183 GMEVVLANGDVYRTGMGGVPGSNTWQIFK--WGYGPTLDGMFTQANYGICTKMGFW 236
>1as4_A Antichymotrypsin, ACT; serpin, serine protease inhibitor; 2.10A
{Homo sapiens} SCOP: e.1.1.1 PDB: 2ach_A* 4caa_A 3caa_A
Length = 341
Score = 29.1 bits (66), Expect = 5.0
Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 11/44 (25%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
+ KQLV++ + NV+FS L +GA T E+++
Sbjct: 17 SLYKQLVLKAPDK-NVIFSPLSISTALAFLSLGAHNTTLTEILK 59
>3ndd_A Alpha-1-antitrypsin; serpin, hydrolase inhibitor; 1.50A {Homo
sapiens} PDB: 3ndf_A 7api_A* 8api_A* 9api_A* 1d5s_A
1ezx_A 3t1p_A 2d26_A 1qmb_A
Length = 343
Score = 29.1 bits (66), Expect = 5.1
Identities = 9/44 (20%), Positives = 20/44 (45%), Gaps = 11/44 (25%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
+ +QL + + N+ FS + +G + DT E+++
Sbjct: 21 SLYRQLAHQSNST-NIFFSPVSIATAFAMLSLGTKADTHDEILE 63
>1v4a_A Glutamate-ammonia-ligase adenylyltransferase; main alpha helix, DNA
polymerase beta motif; 2.00A {Escherichia coli} SCOP:
a.24.16.4 d.218.1.9
Length = 440
Score = 29.0 bits (65), Expect = 5.3
Identities = 9/52 (17%), Positives = 16/52 (30%), Gaps = 7/52 (13%)
Query: 427 EYLTEYLELHPDVLDSILS-----KSLSALKAALAAKRAR--DLVRQKSVLR 471
+++ + + HP+ L + S A L D LR
Sbjct: 40 DFVQDSVIAHPEWLTELESQPPQADEWQHYAAWLQEALCNVSDEAGLMRELR 91
>1qhu_A Protein (hemopexin); beta propeller, HAEM binding and transport,
iron metabolism, binding protein; HET: HEM; 2.30A
{Oryctolagus cuniculus} SCOP: b.66.1.1 b.66.1.1 PDB:
1qjs_A*
Length = 460
Score = 29.4 bits (65), Expect = 5.3
Identities = 7/50 (14%), Positives = 12/50 (24%), Gaps = 10/50 (20%)
Query: 288 YFFAGGLEEYVQWLNTDK--------KPLHDVVGFRKDVDGITIDLALQW 329
Y + +L K L +G + +D A
Sbjct: 317 YLIQD--TKVYVFLTKGGYTLVNGYPKRLEKELGSPPVISLEAVDAAFVC 364
>1yxa_A Serine (OR cysteine) proteinase inhibitor, clade 3N; serpin,
antichymotrypsin, protease inhibitor, reactive centr
plasma, hydrolase inhibitor; 2.10A {Mus musculus}
Length = 398
Score = 29.1 bits (66), Expect = 6.0
Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 11/44 (25%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
+ K+LV+++ N+VFS L +GA+ +T +E+++
Sbjct: 37 SLYKELVLKNPDT-NIVFSPLSISAALALVSLGAKGNTLEEILE 79
>2vdx_A Corticosteroid-binding globulin; transport protein, cortisol
binding globulin, glycoprotein, lipid-binding, disease
mutation, CBG, SERP cleaved; 1.84A {Homo sapiens} PDB:
2vdy_A*
Length = 373
Score = 28.7 bits (65), Expect = 6.7
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 11/44 (25%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
+ K LV + N+ S + +G TR +L+Q
Sbjct: 17 SLYKHLVALSPKK-NIFISPVSISMALAMLSLGTCGHTRAQLLQ 59
>1t6t_1 Putative protein; structural genomics, PSI, protein structur
initiative, midwest center for structural genomics,
MCSG, U function; 1.80A {Aquifex aeolicus} SCOP:
c.136.1.1
Length = 118
Score = 27.6 bits (61), Expect = 7.0
Identities = 16/72 (22%), Positives = 29/72 (40%), Gaps = 3/72 (4%)
Query: 519 RGKILNVE-RKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAH 577
R ++ VE + D+ A+ I+N+I G + ++ K+I+L D D G
Sbjct: 20 REAVILVEGKNDKKAL-SKFSIKNVIDLSGKRYA-DVVDMLEGKWEKVILLFDLDTHGER 77
Query: 578 IRTLLLTFFYRY 589
I +
Sbjct: 78 INQKMKELLSSQ 89
>3dy0_A N-terminus plasma serine protease inhibitor; serpin, blood
clotting, hydrolase inhibitor; HET: IDS SGN; 1.55A {Homo
sapiens} PDB: 1lq8_A* 2hi9_A*
Length = 336
Score = 28.7 bits (65), Expect = 7.1
Identities = 7/44 (15%), Positives = 19/44 (43%), Gaps = 11/44 (25%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
+ + L ++ N+ FS + +GA T+ ++++
Sbjct: 15 DLYRALASAAPSQ-NIFFSPVSISMSLAMLSLGAGSSTKMQILE 57
>3ne4_A Alpha-1-antitrypsin; serpin, LUNG disease, liver disease,
polymerisation, hydrolase inhibitor; 1.81A {Homo
sapiens} PDB: 1qlp_A 2qug_A 3cwl_A 3cwm_A* 1psi_A 3drm_A
1kct_A 3dru_A 1hp7_A 1iz2_A* 1oph_A 1oo8_A 1atu_A 1d5s_B
1qmb_B
Length = 424
Score = 28.8 bits (65), Expect = 7.1
Identities = 9/44 (20%), Positives = 20/44 (45%), Gaps = 11/44 (25%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
+ +QL + + N+ FS + +G + DT E+++
Sbjct: 66 SLYRQLAHQSNST-NIFFSPVSIATAFAMLSLGTKADTHDEILE 108
>2dgk_A GAD-beta, GADB, glutamate decarboxylase beta; gadbd1-14,
autoinhibition, substituted aldamine, lyase; HET: PLP;
1.90A {Escherichia coli} PDB: 2dgm_A* 1pmo_A* 2dgl_A*
1pmm_A* 3fz6_A* 3fz7_A 3fz8_A* 1xey_A*
Length = 452
Score = 28.8 bits (64), Expect = 7.8
Identities = 17/106 (16%), Positives = 29/106 (27%), Gaps = 14/106 (13%)
Query: 120 DEAQAGYASNIEVALLADNSIPIDLHPATNKSALETV---LTVLHAGGKFGGSSSGYSVS 176
+ +I N I + +P + L V + HA G + G +
Sbjct: 56 ENVHKLMDLSINK-----NWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTI 110
Query: 177 GGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHV 222
G L + WR ME K + + +
Sbjct: 111 GSSEACMLGGMAMKW------RWRKRMEAAGKPTDKPNLVCGPVQI 150
>3le2_A Serpin-ZX; apoplast, glycoprotein, protease inhibitor, secreted,
serine protease inhibitor, hydrolase; 2.20A {Arabidopsis
thaliana}
Length = 393
Score = 28.5 bits (64), Expect = 8.2
Identities = 7/44 (15%), Positives = 18/44 (40%), Gaps = 10/44 (22%)
Query: 663 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 696
+ K ++ + +NV+FS G+ T+ +++
Sbjct: 18 NLAKHVITTVSQNSNVIFSPASINVVLSIIAAGSAGATKDQILS 61
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle
dysfunction, inhibitor design, allosteric enzyme,
alternative splicing, CGMP binding; HET: WAN; 2.00A
{Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A
2k31_A*
Length = 878
Score = 28.6 bits (63), Expect = 8.4
Identities = 24/179 (13%), Positives = 48/179 (26%), Gaps = 14/179 (7%)
Query: 406 GQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILS-KSLSALKAALAAKRARDLV 464
+ R ++ Q Q+ + +L+ H D S K+ + A A+R +
Sbjct: 10 SFGQQRQQQQPQQQKQQQRDQDSVEAWLDDHWDFTFSYFVRKATREMVNAWFAERVHTIP 69
Query: 465 RQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGG-----------SAKQGRDRRFQ 513
K +R + S + S + +G
Sbjct: 70 VCKEGIRGHTESCSCPLQQSPRADNSVPGTPTRKISASEFDRPLRPIVVKDSEGTVSFLS 129
Query: 514 AILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDAD 572
L R D + + L++ + + + + I L AD
Sbjct: 130 DSEKKEQMPLTPPRFDHDEGDQCSRLLELVKDISSHLDVTALCHKIFLH--IHGLISAD 186
>1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix
two-turns helix; 2.00A {Sulfolobus shibatae} SCOP:
a.156.1.3 d.14.1.3 d.122.1.2 PDB: 1mx0_A* 1z5b_A*
1z5a_A* 1z59_A* 1z5c_A* 2hkj_A*
Length = 471
Score = 28.2 bits (62), Expect = 9.7
Identities = 26/199 (13%), Positives = 61/199 (30%), Gaps = 39/199 (19%)
Query: 105 RGLHHLVYEILDNAVD-EAQAGYASNIEVAL-------------LADNSIPIDLHPATNK 150
R L+ V E+++N++D G NI++ + + DN I I
Sbjct: 31 RALYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIP------P 84
Query: 151 SALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL---EVTVWRDGMEYHQ 207
+ + K+ + G++G+G+ S+ + + + +
Sbjct: 85 QEVPNAFGRVLYSSKYVNRQ-----TRGMYGLGVKAAVLYSQMHQDKPIEIETSPVNSKR 139
Query: 208 KYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGR------IRE 261
Y+ + P+ + R + V AI + + I+
Sbjct: 140 IYTFKLKIDINKNE--PIIVERGSVENTRGFHGTSV---AISIPGDWPKAKSRIYEYIKR 194
Query: 262 LAFLNPKLTIALRKEDSDP 280
+ P + + +
Sbjct: 195 TYIITPYAEFIFKDPEGNV 213
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.134 0.384
Gapped
Lambda K H
0.267 0.0814 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,797,934
Number of extensions: 680577
Number of successful extensions: 1614
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1512
Number of HSP's successfully gapped: 59
Length of query: 709
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 609
Effective length of database: 3,909,693
Effective search space: 2381003037
Effective search space used: 2381003037
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 (21.7 bits)
S2: 61 (27.1 bits)