RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 008202
(574 letters)
>1aop_A Sirhp, sulfite reductase hemoprotein; oxidoreductase, siroheme,
[4Fe-4S], snirr, six-electron REDU phosphate complex;
HET: SRM; 1.60A {Escherichia coli} SCOP: d.58.36.1
d.58.36.1 d.134.1.1 d.134.1.1 PDB: 2aop_A* 2gep_A*
3aop_A* 3geo_A* 4aop_A* 4gep_A* 5aop_A* 5gep_A* 6gep_A*
7gep_A* 8gep_A*
Length = 497
Score = 526 bits (1358), Expect = 0.0
Identities = 158/453 (34%), Positives = 240/453 (52%), Gaps = 29/453 (6%)
Query: 124 KSYSFMLRTKNPCGKVSNQLYLTMDDLADQF-GIGTLRLTTRQTFQLHGVLKKDLKTVMR 182
++ +LR + P G ++ + + +D A + G++RLT RQTFQ HG+LKK++K V +
Sbjct: 3 PRHAMLLRCRLPGGVITTKQWQAIDKFAGENTIYGSIRLTNRQTFQFHGILKKNVKPVHQ 62
Query: 183 SIIRSMGSTLGACGDLNRNVLAPPAPLVRKDYLFAQKTAENIAALLTPQSGFYYDMWVDG 242
+ L D+NRNVL P + + A + A+ I+ L P++ Y ++W+D
Sbjct: 63 MLHSVGLDALATANDMNRNVLCTSNPYESQLHAEAYEWAKKISEHLLPRTRAYAEIWLDQ 122
Query: 243 EQIMTAEPPEVVKARNDNSHGTNFPDSPEPIYGTQFLPRKFKVAVTVPTDNSVDILTNDI 302
E++ T + EPI G +LPRKFK V +P N +D+ ND+
Sbjct: 123 EKVATTDE--------------------EPILGQTYLPRKFKTTVVIPPQNDIDLHANDM 162
Query: 303 GVVVVSDENGEPQGFNLYVGGGMGRTHRLETTFPRLGEQLGYVPKEDILYAVKAIVVTQR 362
V +++ GFNL VGGG+ H + T+ R + GY+P E L +A+V TQR
Sbjct: 163 NFVAIAENGKLV-GFNLLVGGGLSIEHGNKKTYARTASEFGYLPLEHTLAVAEAVVTTQR 221
Query: 363 ENGRRDDRKYSRMKYLISSWGIEKFRSVVEQYYGKKFEPFRQLPEWEFKSHLGWHEQGDG 422
+ G R DRK ++ KY + G+E F++ VE+ G KFEP R +GW + D
Sbjct: 222 DWGNRTDRKNAKTKYTLERVGVETFKAEVERRAGIKFEPIRPYEFTGRGDRIGWVKGIDD 281
Query: 423 GLFCGLHVDNGRIAG----KMKKTLREIIEKYNLNVRITPNQNIILCDIRKAWKRPITTA 478
L ++NGRI +K L EI + + + RIT NQN+I+ + ++ K I
Sbjct: 282 NWHLTLFIENGRILDYPARPLKTGLLEIAKIHKGDFRITANQNLIIAGVPESEKAKIEKI 341
Query: 479 LAQAGLLLPRYVDPLNITAMACPSLPLCPLAITEAERGIPDILKRIRAVFEKVGLKYNES 538
++GL+ V P +MAC S P CPLA+ EAER +P + I + K G+ +E
Sbjct: 342 AKESGLMNA--VTPQRENSMACVSFPTCPLAMAEAERFLPSFIDNIDNLMAKHGVS-DEH 398
Query: 539 VVIRVTGCPNGCARPYMAELGLVGDGPNSYQVF 571
+V+RVTGCPNGC R +AE+GLVG P Y +
Sbjct: 399 IVMRVTGCPNGCGRAMLAEVGLVGKAPGRYNLH 431
Score = 32.2 bits (74), Expect = 0.46
Identities = 15/72 (20%), Positives = 31/72 (43%), Gaps = 19/72 (26%)
Query: 301 DIGVVVVSDENGE-PQGFNLYVGGGMGRTHRLETTFPRLGEQLGY-VPKEDILYAVKAIV 358
++G+V G+ P +NL++GG T R+ + + +IL ++ ++
Sbjct: 417 EVGLV------GKAPGRYNLHLGGNRIGT--------RIPRMYKENITEPEILASLDELI 462
Query: 359 ---VTQRENGRR 367
+RE G
Sbjct: 463 GRWAKEREAGEG 474
>1zj8_A Probable ferredoxin-dependent nitrite reductase N; NIRA, sulfite,
siroheme, Fe4-S4, Cys-Tyr bond, structural proteomics in
europe; HET: SRM; 2.80A {Mycobacterium tuberculosis}
SCOP: d.58.36.1 d.58.36.1 d.134.1.1 d.134.1.1 PDB:
1zj9_A*
Length = 566
Score = 480 bits (1237), Expect = e-165
Identities = 115/555 (20%), Positives = 203/555 (36%), Gaps = 85/555 (15%)
Query: 48 RSSVVRAVSTPVKPETE----TKTETKRSKVEIIKEQSNF--IRYPLNEEL---LTDAPN 98
A + P K E + E +K+ N +R + D+ +
Sbjct: 7 HHHHGMATARPAKARNEGQWALGHREPLNANEELKKAGNPLDVRERIENIYAKQGFDSID 66
Query: 99 VNESATQLIKFHGSYQQYNRDERGAKS----------YSFMLRTKNPCGKVSNQLYLTMD 148
+ ++ G Y Q + G + FM+R + G +S T+
Sbjct: 67 KTD-LRGRFRWWGLYTQREQGYDGTWTGDDNIDKLEAKYFMMRVRCDGGALSAAALRTLG 125
Query: 149 DLADQFGIGTLRLTTRQTFQLHGVLKKDLKTVMRSIIRSMGSTLGACGDLNRNVLAPPAP 208
++ +F T ++ RQ Q H + +++ + R + T ACGD R VL P
Sbjct: 126 QISTEFARDTADISDRQNVQYHWIEVENVPEIWRRLDDVGLQTTEACGDCPRVVLGSPLA 185
Query: 209 LVRKDYLFAQKTAENIAALLTPQSGFYYDMWVDGEQIMTAEPPEVVKARNDNSHGTNFPD 268
D + + ++
Sbjct: 186 GESLDEVL-------------DPTWAIEEIVRRYIG------------------------ 208
Query: 269 SPEPIYGTQFLPRKFKVAVTVPTDNSVDILTNDIGVVVVSDENGEPQGFNLYVGGGMGRT 328
+P + LPRK+K A++ V ND+ + V+ P G +L+VGGG+
Sbjct: 209 --KPDF--ADLPRKYKTAIS--GLQDVAHEINDVAFIGVNHPEHGP-GLDLWVGGGLSTN 261
Query: 329 HRLETTFPRLGEQLG-YVPKEDILYAVKAIVVTQRENGRRDDRKYSRMKYLISSWGIEKF 387
P L +++G +VP ++ A+ R+ G R R +R+K+LI WGI KF
Sbjct: 262 -------PMLAQRVGAWVPLGEVPEVWAAVTSVFRDYGYRRLRAKARLKFLIKDWGIAKF 314
Query: 388 RSVVEQYYGKK--FEPFRQLPEWEFKSHLGWHEQGDGGLFCGLHVDNGRIAGKMKKTLRE 445
R V+E Y K+ + P H+G +G G+ GR++G + + +
Sbjct: 315 REVLETEYLKRPLIDGPAPEPVKHPIDHVGVQRLKNGLNAVGVAPIAGRVSGTILTAVAD 374
Query: 446 IIEKYNL-NVRITPNQNIILCDIRKAWKRPITTALAQAGLLLPRYVDPLNITAMACPSLP 504
++ + +R TP Q +++ DI A + L GL MAC +
Sbjct: 375 LMARAGSDRIRFTPYQKLVILDIPDALLDDLIAGLDALGLQSR--PSHWRRNLMACSGIE 432
Query: 505 LCPLAITEAERGIPDILKRIRAVFEKVGLKYNESVVIRVTGCPNGCARPYMAELGLVG-- 562
C L+ E ++ + E + + + + + + GCPN CAR +A++G G
Sbjct: 433 FCKLSFAETRVRAQHLVPELERRLEDINSQLDVPITVNINGCPNSCARIQIADIGFKGQM 492
Query: 563 ------DGPNSYQVF 571
+QV
Sbjct: 493 IDDGHGGSVEGFQVH 507
Score = 36.9 bits (86), Expect = 0.017
Identities = 17/73 (23%), Positives = 31/73 (42%), Gaps = 15/73 (20%)
Query: 301 DIGVV--VVSDENGE-PQGFNLYVGGGMGRTHRLETTFPRLGEQL--GYVPKEDILYAVK 355
DIG ++ D +G +GF +++GG +G G +L V +++ +
Sbjct: 485 DIGFKGQMIDDGHGGSVEGFQVHLGGHLGLD-------AGFGRKLRQHKVTSDELGDYID 537
Query: 356 AIV---VTQRENG 365
+V V R G
Sbjct: 538 RVVRNFVKHRSEG 550
>2akj_A Ferredoxin--nitrite reductase, chloroplast; X-RAY crystallography,
heme, electron transport, oxidoreductase; HET: SRM;
2.80A {Spinacia oleracea} SCOP: d.58.36.1 d.58.36.1
d.134.1.1 d.134.1.1
Length = 608
Score = 444 bits (1143), Expect = e-150
Identities = 112/601 (18%), Positives = 207/601 (34%), Gaps = 88/601 (14%)
Query: 2 TTSFGAANTVIPNNPNIRIRSFNGLKPSHSLSIRTNLRAFPVPYASRSSVVRAVSTPVKP 61
AA + + + + + K + A + R +
Sbjct: 18 MKETAAAKFERQHMDSPDLGTDDDDKAM-GCQKAVSPAAETAAVSPSVDAARLEPRVEER 76
Query: 62 ETE----TKTETKRSKVEIIKEQSNFIRYPLNEELLTDAPNVNESATQLIKFHGSYQQYN 117
+ + + + E +K + + ++ + + + A E + + +
Sbjct: 77 DGFWVLKEEFRSGINPAEKVKIEKDPMKLFIEDGISDLATLSMEEVD-----KSKHNKDD 131
Query: 118 RDER----------GAKSYSFMLRTKNPCGKVSNQLYLTMDDLADQFGI-GTLRLTTRQT 166
D R FM+R K P G +++ + + ++G G +TTRQ
Sbjct: 132 IDVRLKWLGLFHRRKHHYGRFMMRLKLPNGVTTSEQTRYLASVIKKYGKDGCADVTTRQN 191
Query: 167 FQLHGVLKKDLKTVMRSIIRSMGSTLGACGDLNRNVLAPPAPLVRKDYLFAQKTAENIAA 226
+Q+ GV+ D+ +++ + ++L + D RN + P I
Sbjct: 192 WQIRGVVLPDVPEIIKGLESVGLTSLQSGMDNVRNPVGNPLA--------------GIDP 237
Query: 227 LLTPQSGFYYDMWVDGEQIMTAEPPEVVKARNDNSHGTNFPDSPEPIYGTQFLPRKFKVA 286
+ + ++ + LPRK+
Sbjct: 238 HEIVDTRPFTNLISQ-----------------------FVTANSRGNLSITNLPRKWNPC 274
Query: 287 VTVPTDNSVDILTNDIGVVVVSDENGEPQGFNLYVGGGMGRTHRLETTFPRLGEQLG-YV 345
V D ND+ + +NG+ GFNL VGG L +V
Sbjct: 275 VIGSHDLYEHPHINDLAYMPA-TKNGKF-GFNLLVGGFFSIKR------CEEAIPLDAWV 326
Query: 346 PKEDILYAVKAIVVTQRENGRRDDRKYSRMKYLISSWGIEKFRSVVEQYYGKKF-----E 400
ED++ KA++ R+ G R +R+ RM +LI G+E FR VE+ ++
Sbjct: 327 SAEDVVPVCKAMLEAFRDLGFRGNRQKCRMMWLIDELGMEAFRGEVEKRMPEQVLERASS 386
Query: 401 PFRQLPEWEFKSHLGWHEQGDGGLF-CGLHVDNGRIAGKMKKTLREIIEKY-NLNVRITP 458
+WE + +LG H Q GL GLH+ GR+ + L I + Y + +R+T
Sbjct: 387 EELVQKDWERREYLGVHPQKQQGLSFVGLHIPVGRLQADEMEELARIADVYGSGELRLTV 446
Query: 459 NQNIILCDIRKAWKRPITTALAQAGLLLPRYVDPLNITAMACPSLPLCPLAITEAERGIP 518
QNII+ ++ + + P L +AC C AI E +
Sbjct: 447 EQNIIIPNVENSKIDSLLNEPLLKERYSPEPP-ILMKGLVACTGSQFCGQAIIETKARAL 505
Query: 519 DILKRIRAVFEKVGLKYNESVVIRVTGCPNGCARPYMAELGLVG--------DGPNSYQV 570
+ + ++ + V + TGCPN C + +A++G +G V
Sbjct: 506 KVTEEVQRLVSV-----TRPVRMHWTGCPNSCGQVQVADIGFMGCMTRDENGKPCEGADV 560
Query: 571 F 571
F
Sbjct: 561 F 561
Score = 38.9 bits (91), Expect = 0.004
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 18/76 (23%)
Query: 301 DIGVV--VVSDENGE-PQGFNLYVGGGMGRTHRLETTFPRLGEQLG-YVPKEDILYAVKA 356
DIG + + DENG+ +G +++VGG +G LG+ VP +D++ V
Sbjct: 539 DIGFMGCMTRDENGKPCEGADVFVGGRIGSD-------SHLGDIYKKAVPCKDLVPVVAE 591
Query: 357 IVV-------TQRENG 365
I++ +RE
Sbjct: 592 ILINQFGAVPREREEA 607
>3b0g_A NII3, nitrite reductase; siroheme, Fe4S4 binding protein,
oxidoreductase; HET: SRM; 1.25A {Nicotiana tabacum} PDB:
3vkp_A* 3vkq_A* 3vkr_A* 3vks_A* 3vkt_A* 3b0n_A* 3b0m_A*
3b0j_A* 3b0l_A* 3b0h_A*
Length = 591
Score = 419 bits (1079), Expect = e-140
Identities = 114/587 (19%), Positives = 206/587 (35%), Gaps = 96/587 (16%)
Query: 24 NGLKPSHSLSIRTNLRAFPVPYASRSSVVRAVSTPVKPETETKTE------------TKR 71
+G + + ++ P + + A + E
Sbjct: 14 SGHIEGRHMFSKNAVKLHATPPSVAAPPTGAPEVAAERLEPRVEEKDGYWILKEQFRKGI 73
Query: 72 SKVEIIKEQSNFIRYPLNEELLTDAPNVNESATQ----------LIKFHGSYQQYNRDER 121
+ E +K + ++ + + A E Q +K+ G + + R
Sbjct: 74 NPQEKVKIEKEPMKLFMENGIEELAKIPIEEIDQSKLTKDDIDVRLKWLGLFHR-----R 128
Query: 122 GAKSYSFMLRTKNPCGKVSNQLYLTMDDLADQFGI-GTLRLTTRQTFQLHGVLKKDLKTV 180
+ FM+R K P G ++ + + ++G G +TTRQ +Q+ GV+ D+ +
Sbjct: 129 KNQYGRFMMRLKLPNGVTTSAQTRYLASVIRKYGKEGCADITTRQNWQIRGVVLPDVPEI 188
Query: 181 MRSIIRSMGSTLGACGDLNRNVLAPPAPLVRKDYLFAQKTAENIAALLTPQSGFYYDMWV 240
++ + ++L + D RN + P I + Y ++
Sbjct: 189 LKGLAEVGLTSLQSGMDNVRNPVGNPLA--------------GIDPEEIVDTRPYTNLLS 234
Query: 241 DGEQIMTAEPPEVVKARNDNSHGTNFPDSPEPIYGTQFLPRKFKVAVTVPTDNSVDILTN 300
+ LPRK+ V D N
Sbjct: 235 QF-----------------------ITGNSRGNPAVSNLPRKWNPCVVGSHDLYEHPHIN 271
Query: 301 DIGVVVVSDENGEPQGFNLYVGGGMGRTHRLETTFPRLGEQLG-YVPKEDILYAVKAIVV 359
D+ + ++G GFNL VGG L +VP +D++ +AI+
Sbjct: 272 DLAYMPA-TKDGRF-GFNLLVGGFFSAKR------CDEAIPLDAWVPADDVVPVCRAILE 323
Query: 360 TQRENGRRDDRKYSRMKYLISSWGIEKFRSVVEQYY-GKKFEPFR----QLPEWEFKSHL 414
R+ G R +R+ RM +LI G+E FR+ VE+ ++ E +WE + +L
Sbjct: 324 AFRDLGFRGNRQKCRMMWLIDELGVEGFRAEVEKRMPQQQLERASPEDLVQKQWERRDYL 383
Query: 415 GWHEQGDGGLF-CGLHVDNGRIAGKMKKTLREIIEKY-NLNVRITPNQNIILCDIRKAWK 472
G H Q G GLH+ GR+ L + ++Y + +R+T QNII+ +I +
Sbjct: 384 GVHPQKQEGYSFIGLHIPVGRVQADDMDELARLADEYGSGEIRLTVEQNIIIPNIETSKI 443
Query: 473 RPITTALAQAGLLLPRYVDPLNITAMACPSLPLCPLAITEAERGIPDILKRIRAVFEKVG 532
+ + L +AC C AI E + I + ++
Sbjct: 444 EALLKEPVLSTFSPD--PPILMKGLVACTGNQFCGQAIIETKARSLKITEEVQRQVSL-- 499
Query: 533 LKYNESVVIRVTGCPNGCARPYMAELGLVG--------DGPNSYQVF 571
+ V + TGCPN CA+ +A++G +G VF
Sbjct: 500 ---TKPVRMHWTGCPNTCAQVQVADIGFMGCLTRDKNGKTVEGADVF 543
Score = 40.8 bits (96), Expect = 0.001
Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 11/73 (15%)
Query: 301 DIGVV--VVSDENGE-PQGFNLYVGGGMGRTHRLETTFPRLGEQLG-YVPKEDILYAVKA 356
DIG + + D+NG+ +G ++++GG +G LGE VP +D++ V
Sbjct: 521 DIGFMGCLTRDKNGKTVEGADVFLGGRIGSD-------SHLGEVYKKAVPCDDLVPLVVD 573
Query: 357 IVVTQRENGRRDD 369
++V R+
Sbjct: 574 LLVNNFGAVPRER 586
>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 = 61.4 bits (148), Expect = 6e-10
Identities = 85/581 (14%), Positives = 162/581 (27%), Gaps = 192/581 (33%)
Query: 15 NPNIRIRSFNGLKPSHSLSIRTNLRAF-PVPY--------ASRSSVVRAVSTPVKPETET 65
N N +N + L +R L P + ++ V V K + +
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 66 KTE-------TKRSKVEIIKEQSNFIRYPLNEELLTDAPNVNESATQLIKFHGSYQQYNR 118
+ S +++ + ++ + T + +
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLY------------QIDPNWTSRSDHSSNIKLRIH 228
Query: 119 DERGAKSYSFMLRTKNPCGKVSNQLYLTMDDLADQ-----FGIG--TLRLTTRQ---TFQ 168
+ + C L + ++ + F + L LTTR T
Sbjct: 229 SIQAELRRLLKSKPYENC-------LLVLLNVQNAKAWNAFNLSCKIL-LTTRFKQVTDF 280
Query: 169 LHGVLKKDLKTVMRSIIRSMGSTLG--------ACGDLNRNVLAPPAPLVRKDYLFAQKT 220
L + S+ + DL R VL P + A+
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT-NPRRLS--IIAESI 337
Query: 221 AENIAALLTPQSGFYYDMWVDGEQIMTA--------EPPEVVKARNDNSHGTNFPDSPEP 272
+ +A T + V+ +++ T EP E K + S FP S
Sbjct: 338 RDGLA---TWD---NWKH-VNCDKLTTIIESSLNVLEPAEYRKMFDRLS---VFPPS--- 384
Query: 273 IYGTQFLPRKFKVAVTVPTDNSV------DILTNDIGVVVVSDEN-----GEPQGFNLYV 321
+PT + D++ +D+ VVV +P+ + +
Sbjct: 385 --------------AHIPTI--LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI 428
Query: 322 GGGMGRTHRLETTFPRLGEQLGYVPKEDILYAVKAIVVTQRENGRRDDRKYSRMKYLISS 381
+ L K + YA+
Sbjct: 429 -------PSI---------YLELKVKLENEYALH-------------------------- 446
Query: 382 WGIEKFRSVVEQY-YGKKFEPFRQLPEWE---FKSHLGWH----EQGD-GGLFCGLHVDN 432
RS+V+ Y K F+ +P + F SH+G H E + LF + +D
Sbjct: 447 ------RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF 500
Query: 433 GRIAGKMKK-------------TLREIIEKYNLNVRITPNQNI---ILCDIRKAWKRPIT 476
+ K++ TL++ ++ Y I N ++ I +
Sbjct: 501 RFLEQKIRHDSTAWNASGSILNTLQQ-LKFY--KPYICDNDPKYERLVNAILDFLPKI-- 555
Query: 477 TALAQAGLLLPRYVDPLNITAMACPSLPLCPLAITEAERGI 517
+ L+ +Y D L I A+ + EA + +
Sbjct: 556 ----EENLICSKYTDLLRI-ALMAEDEAI----FEEAHKQV 587
Score = 51.8 bits (123), Expect = 6e-07
Identities = 57/477 (11%), Positives = 125/477 (26%), Gaps = 143/477 (29%)
Query: 65 TKTETKRSKVEIIKEQSNFIR-YPLNEELLTDAPNVNESATQLIKFHGSYQQYNRDERGA 123
+K E II + L LL+ E Q KF + N
Sbjct: 47 SKEEID----HIIMSKDAVSGTLRLFWTLLSK----QEEMVQ--KFVEEVLRIN------ 90
Query: 124 KSYSFML-----RTKNPCGKVSNQLYLTMDDLADQFGIGTLRL-TTRQTFQLHGV----L 173
Y F++ + P ++Y+ D RL Q F + V
Sbjct: 91 --YKFLMSPIKTEQRQPSMM--TRMYIEQRD----------RLYNDNQVFAKYNVSRLQP 136
Query: 174 KKDLKTVMRSIIRSMGSTL---GACGDLNRNVLAPPAPLVRKDYLFAQKTAENI------ 224
L+ + + + + G + +A + Y K I
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVLGSG---KTWVA--LDVCL-SYKVQCKMDFKIFWLNLK 190
Query: 225 -----AALLTPQSGFYYDM---WVDGEQIMTAEPPEVVKARNDNSH---GTNFPDS---- 269
+L Y + W + + + + + +
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250
Query: 270 -----PEPIYGTQFLPRKF----KVAVTVPT-DNSV-DILTNDIGVVVVSDENGEPQGFN 318
+ F K+ +T T V D L+ + D
Sbjct: 251 LNVQNAKAW-------NAFNLSCKILLT--TRFKQVTDFLSAATTTHISLDH--HSMTL- 298
Query: 319 LYVGGGMGRTHR-LETTFPR-LGEQLGYVPKEDIL---YAVKAIVVTQRENGRRDDR--- 370
T +++ + L + +P+E + + I + R+ D
Sbjct: 299 ---------TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH 349
Query: 371 -KYSRMKYLISSWGIEKFRSV-VEQYYGKKFEPFR---QLPE------W----------- 408
++ +I S + + + + F +P W
Sbjct: 350 VNCDKLTTIIES-SLNVLEPAEYRKMF-DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV 407
Query: 409 --EF--KSHL-GWHEQGDGGLFCGLHVDNGRIAGKMKKTL-REIIEKYNLNVRITPN 459
+ S + ++ + ++++ ++ + + L R I++ YN+ +
Sbjct: 408 VNKLHKYSLVEKQPKESTISIP-SIYLEL-KVKLENEYALHRSIVDHYNIPKTFDSD 462
>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 = 53.9 bits (129), Expect = 1e-07
Identities = 83/594 (13%), Positives = 156/594 (26%), Gaps = 224/594 (37%)
Query: 21 RSFNGLKPSHSLSIRTNLRAFPVPYAS--RSSVVR---AVSTPVKPETETKTETKRSKVE 75
R L SH S+ VP AS +S ++ P E + + E
Sbjct: 7 RPLT-L--SHG-SLEH---VLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE 59
Query: 76 IIKEQSNFIRYPLNEELLTDAPNVNESATQLIKFHGSYQQYNRDERGAKSYSFMLRTKNP 135
++ F+ Y ++ + P+ Q++ ++
Sbjct: 60 LV---GKFLGY-VSSLV---EPSKVGQFDQVLNL--CLTEFENC---------------- 94
Query: 136 CGKVSNQLYLTMDDLADQFGIGTLRLTTRQTFQLHGVLKKDLKTVMRSIIRSMGSTLGAC 195
YL +D I L +L L + +I++ + A
Sbjct: 95 --------YLEGND------IHAL------AAKLLQENDTTLVKT-KELIKN---YITAR 130
Query: 196 GDLNRNVLAPPAPLVRKDYLF--AQKTAENIAALL----TPQSGF------Y--YDMWVD 241
R LF + + A+ F Y Y + V
Sbjct: 131 IMAKRPFDKKSNSA-----LFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV- 184
Query: 242 GEQIMTAEP------PEVVKARNDNSHGTNFP---DSPEPIYGTQFLPRKFKVAVTVPTD 292
G+ I + + A + G N ++P +L + ++ P
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS---IPISCPL- 240
Query: 293 NSVDILTNDIGVVVVSDENGEPQGFNLYVGGGMGRTHRLETTFPRLGEQLGYVPKE--DI 350
IGV+ Q + V + LG+ P E
Sbjct: 241 ---------IGVI---------QLAHYVV----------------TAKLLGFTPGELRSY 266
Query: 351 LYAV----KAIVVTQRENGRRDDRKYSRMKYLIS---SWGIEKFRSVVEQYYGKKFEPFR 403
L + +V I+ SW E F V +
Sbjct: 267 LKGATGHSQGLVTAV----------------AIAETDSW--ESFFVSVRKAI-------- 300
Query: 404 QLPEWEFKSHLGWHEQGDGGLF--CGLH-------VDNGR--------IAGKMKKTLREI 446
F +G + L ++N I+ ++ +++
Sbjct: 301 ---TVLF--FIGVRCYE---AYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 447 IEKYNLN------VRI----TPNQNII---------LC-DIRKAWKRPITTALAQAGLLL 486
+ K N + V I ++ L +RKA K P + L Q+ +
Sbjct: 353 VNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA-KAP--SGLDQSRIPF 409
Query: 487 ----PRYVDP-LNITAMACPSLPL-CPLAITEAERGIPDILKRIRAVFEKVGLK 534
++ + L + + P L + A I L + F ++
Sbjct: 410 SERKLKFSNRFLPVAS------PFHSHL-LVPASDLINKDLVKNNVSFNAKDIQ 456
Score = 39.3 bits (91), Expect = 0.004
Identities = 26/172 (15%), Positives = 50/172 (29%), Gaps = 54/172 (31%)
Query: 7 AANTVIPNNPNIRIRSFNGLK------PSHSL-SIRTNLRAFP---------VPYASRSS 50
N+ +P + I NG K P SL + LR +P++ R
Sbjct: 355 KTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL 414
Query: 51 VVRA----VSTPV-----KPETET-KTETKRSKVEI-----------------IKEQSNF 83
V++P P ++ + ++ V ++ S
Sbjct: 415 KFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGS 474
Query: 84 IRYPLNEELLTDAPN----VNESATQLIKF-------HGSYQQYNRDERGAK 124
I + + ++ AT ++ F G N+D G +
Sbjct: 475 ISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVR 526
Score = 37.7 bits (87), Expect = 0.011
Identities = 44/275 (16%), Positives = 72/275 (26%), Gaps = 109/275 (39%)
Query: 324 GMGRTHRLETTFP-----------RLGEQLGYVPKEDILYAVKAIVVTQR-ENGRRDDRK 371
GMG L T + G+ + ++ + + E G+R
Sbjct: 1630 GMGMD--LYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIREN 1687
Query: 372 YSRMKYLISSWGIEK----FRSVVEQYYGKKFE-------------P---------FRQL 405
YS M + G K F+ + E F P F L
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDL 1747
Query: 406 PEWEFKS-------H-LG---------------------------------WHEQGDGGL 424
H LG E G
Sbjct: 1748 KSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSN- 1806
Query: 425 FCGLHVDNGRIAGKM-KKTLREIIEKY-----------NLNVRITPNQNIILC-DIRKAW 471
+ + ++ GR+A ++ L+ ++E+ N NV NQ + D+R
Sbjct: 1807 YGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNV---ENQQYVAAGDLR--- 1860
Query: 472 KRPITTALAQAGLLLPRYVDPLNITAMACP-SLPL 505
AL +L ++ I + SL L
Sbjct: 1861 ------ALDTVTNVL-NFIKLQKIDIIELQKSLSL 1888
Score = 36.6 bits (84), Expect = 0.025
Identities = 56/405 (13%), Positives = 100/405 (24%), Gaps = 142/405 (35%)
Query: 14 NNPNIRIRSFNGLKPSHSLSIRTNLRAFPVPYASRSSVVRAVSTPVKPETETK--TETKR 71
N+ + + + + ++ + +R R P ++ +
Sbjct: 99 NDIHALAAKLLQENDTTLVKTKELIKNY---ITARIMAKR----PFDKKSNSALFRAVGE 151
Query: 72 SKVEIIKE---QSNFIRYPLNEELL----TDAPNVNESATQLIKFHGSY-QQYNRDERGA 123
+++ Q N Y EEL T V + LIKF + R A
Sbjct: 152 GNAQLVAIFGGQGNTDDY-F-EELRDLYQTYHVLVGD----LIKFSAETLSELIRTTLDA 205
Query: 124 KSY---SFMLRT--KNPCGKVSNQLYL----------TMDDLADQFGIGTLR---LTTRQ 165
+ + +NP ++ YL + LA + + T + T +
Sbjct: 206 EKVFTQGLNILEWLENP-SNTPDKDYLLSIPISCPLIGVIQLA-HYVV-TAKLLGFTPGE 262
Query: 166 TFQ-LHGVLKKDLKTVMRSIIRSMGSTLGACGDLNRNVLAPPAPLVRKDYLF-----AQK 219
L G V I + + + R + LF +
Sbjct: 263 LRSYLKGATGHSQGLVTAVAI-AETDSWESFFVSVRKAIT---------VLFFIGVRCYE 312
Query: 220 TAENIAALLTPQSGFYYDMWVDGEQIMT----------AEPPEVVKARND---------- 259
N + L P D + E + + + + V N
Sbjct: 313 AYPNTS--LPPS--ILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEI 368
Query: 260 ---NSHGTNF-----PDS----------------------P----EPIYGTQFLPRKFKV 285
N N P S P + + +FLP
Sbjct: 369 SLVNGA-KNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP----- 422
Query: 286 AVTVP-----------------TDNSVDILTNDIGVVVVSDENGE 313
V P N+V DI + V +G
Sbjct: 423 -VASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGS 466
Score = 35.0 bits (80), Expect = 0.089
Identities = 33/177 (18%), Positives = 58/177 (32%), Gaps = 47/177 (26%)
Query: 11 VIPNNPNIRIRSFNGLKPSHSLSIRTNLRAFPV-PYASRSSVVRAVSTPVKPETE----- 64
++ NNP F G K IR N A + + +
Sbjct: 1664 IVINNPVNLTIHFGGEK---GKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR 1720
Query: 65 ------TKTE--------TKRSKVEIIKEQSNFIRYPLNE--------E---LLTDAPNV 99
+ T+ +++ E +K + P + E L + A +V
Sbjct: 1721 SEKGLLSATQFTQPALTLMEKAAFEDLKSKGLI---PADATFAGHSLGEYAALASLA-DV 1776
Query: 100 N--ESATQLIKFHGSYQQY--NRDERGAKSYSFMLRTKNPCGKVSNQLYLTMDDLAD 152
ES +++ + G Q RDE G +Y M+ NP G+V+ + + L
Sbjct: 1777 MSIESLVEVVFYRGMTMQVAVPRDELGRSNYG-MIAI-NP-GRVA--ASFSQEALQY 1828
Score = 28.5 bits (63), Expect = 7.7
Identities = 30/168 (17%), Positives = 46/168 (27%), Gaps = 67/168 (39%)
Query: 393 QYYG------KKFEPFRQLPEWE-----FKSHLGW---------------HEQGDGGLFC 426
Q G K + + + W FK G+ H G+ G
Sbjct: 1627 QEQGMGMDLYKTSKAAQDV--WNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKG--- 1681
Query: 427 GLHVDNGRIAGKMKKTLREIIEKYN-LNVRITPNQNIILCDIRKAWKRPITTAL--AQAG 483
+ I E Y+ + + + I K T+ ++ G
Sbjct: 1682 -----------------KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKG 1724
Query: 484 LLLPRYVDPLNITAMACPSLPLCPLAITEA--ERG-IPDILKRIRAVF 528
LL + T P+L L A E +G IP A F
Sbjct: 1725 LL--------SATQFTQPALTLMEKAAFEDLKSKGLIPA-----DATF 1759
>3fhm_A Uncharacterized protein ATU1752; CBS domain, prokaryotic, bound
nucleotide, AMP, NADH, struct genomics, PSI-2; HET: AMP
NAI; 2.70A {Agrobacterium tumefaciens str}
Length = 165
Score = 29.6 bits (67), Expect = 1.6
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 279 LPRKFKVAVTVPTDNSV----DILT-NDIGVVVVSDENGEPQG 316
L RK + VTV D S+ L + IG VVV+D +G G
Sbjct: 30 LDRKGRDVVTVGPDVSIGEAAGTLHAHKIGAVVVTDADGVVLG 72
>1xr5_A Genome polyprotein; RNA-dependent RNA polymerase, transferase;
2.80A {Human rhinovirus 14} SCOP: e.8.1.4
Length = 466
Score = 30.1 bits (67), Expect = 2.0
Identities = 12/85 (14%), Positives = 27/85 (31%), Gaps = 7/85 (8%)
Query: 325 MGRTHRLETTFPRLGEQLGYVPKEDILYAVKAIVVTQRENGRRDDRKYSRMKYLISSWGI 384
+ R + + FP L P + + + ++ D S L G
Sbjct: 373 LKRYFKPDQQFPFL-----VHPVMP-MKDIHESIRWTKDPKNTQDHVRSLC-MLAWHSGE 425
Query: 385 EKFRSVVEQYYGKKFEPFRQLPEWE 409
+++ +++ LPE+
Sbjct: 426 KEYNEFIQKIRTTDIGKCLILPEYS 450
>3aie_A Glucosyltransferase-SI; beta-alpha-barrels; HET: MES; 2.10A
{Streptococcus mutans} PDB: 3aic_A* 3aib_A*
Length = 844
Score = 30.1 bits (67), Expect = 2.2
Identities = 33/158 (20%), Positives = 51/158 (32%), Gaps = 22/158 (13%)
Query: 225 AALLTPQSG----FYYDMWVDGEQIMTAEPPEV------VKARNDNSHGT-----NFPDS 269
A LLT +S +Y DM+ D Q M + +KAR G +
Sbjct: 402 ALLLTNKSSVPRVYYGDMFTDDGQYMAHKTINYEAIETLLKARIKYVSGGQAMRNQQVGN 461
Query: 270 PEPIYGTQFLPRKFKVAVTVPTDNSVDILTNDIG-VVVVSDENGEPQGFNLYVGGGMGRT 328
E I R K A+ ++ D +T G VV+ + + V MG
Sbjct: 462 SEIITSV----RYGKGAL--KATDTGDRITRTSGVVVIEGNNPSLRLKASDRVVVNMGAA 515
Query: 329 HRLETTFPRLGEQLGYVPKEDILYAVKAIVVTQRENGR 366
H+ + P L + +V + G
Sbjct: 516 HKNQAYRPLLLTTDNGIKAYHSDQEAAGLVRYTNDRGE 553
>3kh5_A Protein MJ1225; AMPK, AMP, ADP, ATP, CBS domain, archaea, unknown
function; HET: ADP AMP; 2.10A {Methanocaldococcus
jannaschii} PDB: 3lfz_A*
Length = 280
Score = 29.0 bits (65), Expect = 3.6
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 287 VTVPTDNSVD-----ILTNDIGVVVVSDENGEPQG 316
+T + + ++TNDIG + V DEN +G
Sbjct: 234 ITAKEGDKLKKIAEIMVTNDIGALPVVDENLRIKG 268
>2r4q_A Phosphotransferase system (PTS) fructose-specific iiabc component;
fructose specific IIB subunit, PF structural genomics,
PSI-2; HET: MSE; 1.60A {Bacillus subtilis subsp} SCOP:
c.44.2.2
Length = 106
Score = 27.8 bits (62), Expect = 3.8
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 540 VIRVTGCPNGCARPYMAELGL 560
++ VT CP G A +MA L
Sbjct: 5 ILAVTACPTGIAHTFMAADAL 25
>3ddj_A CBS domain-containing protein; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: AMP; 1.80A {Sulfolobus solfataricus} SCOP:
d.37.1.1 d.37.1.1
Length = 296
Score = 29.0 bits (65), Expect = 4.4
Identities = 7/35 (20%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 287 VTVPTDNSVD-----ILTNDIGVVVVSDENGEPQG 316
VT+ SV+ ++ IG +++ +++ +G
Sbjct: 238 VTIDELASVNRAAAEMIVKRIGSLLILNKDNTIRG 272
>3c3d_A 2-phospho-L-lactate transferase; alpha-beta protein, structural
genomics, PSI-2, protein structure initiative; HET: FO1;
2.50A {Methanosarcina mazei GO1} PDB: 2ffe_A* 3c3e_A*
3cgw_A
Length = 311
Score = 28.8 bits (64), Expect = 5.4
Identities = 8/79 (10%), Positives = 26/79 (32%), Gaps = 7/79 (8%)
Query: 392 EQYYGKKFEPFRQLPEWEFKSHLGWHEQGDGGLFCGLHV---DNGRIAGKMKKTLREIIE 448
++++G + + F + + GD H+ + R + + ++
Sbjct: 61 KRWWGIENDTFGTYERMKELGIEEGLKLGDRDR--ATHIIRSNIIRDGASLTDSTVKLSS 118
Query: 449 KYNLNVRITP--NQNIILC 465
+ + I P + +
Sbjct: 119 LFGIKANILPMSDDPVSTY 137
>2yzi_A Hypothetical protein PH0107; sheet/helix/sheet/sheet/helix,
structural genomics, unknown function, NPPSFA; 2.25A
{Pyrococcus horikoshii} SCOP: d.37.1.1
Length = 138
Score = 27.6 bits (62), Expect = 5.8
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 5/36 (13%)
Query: 286 AVTVPTDNSVD-----ILTNDIGVVVVSDENGEPQG 316
+ V SV ++ D+G +VV +++G G
Sbjct: 17 LLGVKPSTSVQEASRLMMEFDVGSLVVINDDGNVVG 52
>1v72_A Aldolase; PLP-dependent enzyme, lyase; HET: PLP; 2.05A {Pseudomonas
putida} SCOP: c.67.1.1
Length = 356
Score = 28.3 bits (64), Expect = 6.3
Identities = 23/114 (20%), Positives = 40/114 (35%), Gaps = 15/114 (13%)
Query: 419 QGDGGLFCGLHVDNGRIAGKMKKTLREIIEKYN-LNVRITPNQNIILCDIRKAWKRPITT 477
Q D L L + N R A + L + +E + V NI+ C + +
Sbjct: 252 QIDAYLTDDLWLRNARKANAAAQRLAQGLEGLGGVEVLGGTEANILFCRL----DSAMID 307
Query: 478 ALAQAGLLLPRYVDPLNITAM-ACPSLPLCPLAITEAERGIPDILKRIRAVFEK 530
AL +AG Y D + A T + + +L ++R ++
Sbjct: 308 ALLKAGFGF--YHDRWGPNVVRFV-----TSFATTAED--VDHLLNQVRLAADR 352
>3f0h_A Aminotransferase; RER070207000802, structural genomics, JOIN for
structural genomics, JCSG; HET: MSE LLP; 1.70A
{Eubacterium rectale}
Length = 376
Score = 28.4 bits (64), Expect = 6.8
Identities = 12/48 (25%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
Query: 317 FNLYVGGGMGRTHRLETTFPRLGEQLGYVPKEDILYAVKAIVVTQREN 364
+ +++ G +T F R+G +G + ED V A Q+ N
Sbjct: 331 YGIWICPNGG--EMKDTIF-RVG-HIGALTHEDNTTLVNAFKDLQKRN 374
>2o7s_A DHQ-SDH PR, bifunctional 3-dehydroquinate dehydratase/shikima
dehydrogenase; shikimate, NADPH, dehydroshikimate,
bifunctional enzyme; HET: DHK TLA NAP; 1.78A
{Arabidopsis thaliana} PDB: 2o7q_A* 2gpt_A*
Length = 523
Score = 28.5 bits (64), Expect = 7.5
Identities = 5/19 (26%), Positives = 11/19 (57%)
Query: 6 GAANTVIPNNPNIRIRSFN 24
GA NT++ + ++ +N
Sbjct: 314 GAVNTILRRKSDGKLLGYN 332
>1xub_A Phenazine biosynthesis protein PHZF; biosynthetic protein; 1.30A
{Pseudomonas fluorescens} SCOP: d.21.1.2 d.21.1.2 PDB:
1u1w_A* 1u1v_A* 1u1x_A* 1xua_A* 1t6k_A
Length = 298
Score = 28.0 bits (63), Expect = 8.4
Identities = 6/30 (20%), Positives = 12/30 (40%), Gaps = 1/30 (3%)
Query: 543 VTGCPNGCARPYMAELGLVGDGPNSYQVFQ 572
TG G ++A G + + ++ Q
Sbjct: 230 ATGSAAGPLAIHLARHGQI-EFGQPVEILQ 258
>2ior_A Chaperone protein HTPG; heat shock protein, HSP90; HET: ADP; 1.65A
{Escherichia coli}
Length = 235
Score = 27.9 bits (63), Expect = 8.8
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 60 KPETETKTETKRSKVEIIKEQSNFIRYP 87
+ + + R + II + S+ I P
Sbjct: 201 REGEDEFLDDWRVR-SIISKYSDHIALP 227
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
0.319 0.136 0.406
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,851,968
Number of extensions: 552342
Number of successful extensions: 1512
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1471
Number of HSP's successfully gapped: 48
Length of query: 574
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 475
Effective length of database: 3,937,614
Effective search space: 1870366650
Effective search space used: 1870366650
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 (21.7 bits)
S2: 60 (26.9 bits)