RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5344
(566 letters)
>2b3y_A Iron-responsive element binding protein 1; IRP1 IRE-IRP1 aconitase
activity, lyase; 1.85A {Homo sapiens} SCOP: c.8.2.1
c.83.1.1 PDB: 2b3x_A 3snp_A 3sn2_A 2ipy_A
Length = 888
Score = 862 bits (2229), Expect = 0.0
Identities = 314/537 (58%), Positives = 383/537 (71%), Gaps = 40/537 (7%)
Query: 56 GIEAEAVMLGQAISLLLPEVIGYKIEGKLSQYVTSTDLVLTITKHLRQLGVVGKFVEFFG 115
GIEAEAVMLGQ IS++LP+VIGY++ GK VTSTD+VLTITKHLRQ+GVVGKFVEFFG
Sbjct: 222 GIEAEAVMLGQPISMVLPQVIGYRLMGKPHPLVTSTDIVLTITKHLRQVGVVGKFVEFFG 281
Query: 116 PGVKELSIADRATISNMCPEYGATVGFFPVDQNSLEYLKQTSKSPGCTKVSR-------- 167
PGV +LSIADRATI+NMCPEYGAT FFPVD+ S+ YL QT + K+
Sbjct: 282 PGVAQLSIADRATIANMCPEYGATAAFFPVDEVSITYLVQTGRDE--EKLKYIKKYLQAV 339
Query: 168 --WRSGQNARLVGFKGYGLKSQVIE--------------------PLNQLGFDVVGFGCM 205
+R + + +QV+E ++ + D C+
Sbjct: 340 GMFRDFNDP--SQDPDF---TQVVELDLKTVVPCCSGPKRPQDKVAVSDMKKDFES--CL 392
Query: 206 TCIGNSGPLDPPIDKLGATGQFEFEGKTYTLKHGSVVIAAITSCTNTSNPSVMLGAGLLA 265
+ F ++ +TL HGSVVIAAITSCTNTSNPSVMLGAGLLA
Sbjct: 393 GAKQGFKGFQVAPEHHNDHKTFIYDNTEFTLAHGSVVIAAITSCTNTSNPSVMLGAGLLA 452
Query: 266 KKAVEAGLSVAPYIKTSLSPGSGVVTYYLRESQVIEPLNQLGFDVVGFGCMTCIGNSGPL 325
KKAV+AGL+V PYIKTSLSPGSGVVTYYL+ES V+ L+QLGFDVVG+GCMTCIGNSGPL
Sbjct: 453 KKAVDAGLNVMPYIKTSLSPGSGVVTYYLQESGVMPYLSQLGFDVVGYGCMTCIGNSGPL 512
Query: 326 DPPIVDAIEKNELVVAGVLSGNRNFEGRIHPNTRANYLASPLLVIAYALAGTVDIDFEKE 385
P+V+AI + +LV GVLSGNRNFEGR+HPNTRANYLASP LVIAYA+AGT+ IDFEKE
Sbjct: 513 PEPVVEAITQGDLVAVGVLSGNRNFEGRVHPNTRANYLASPPLVIAYAIAGTIRIDFEKE 572
Query: 386 PIGTNKQGAPVFLRDIWPSRSEIHAVEKQHVIPAMFREVYARIENGSNSWRALQAPEGQL 445
P+G N +G VFL+DIWP+R EI AVE+Q+VIP MF+EVY +IE + SW AL P +L
Sbjct: 573 PLGVNAKGQQVFLKDIWPTRDEIQAVERQYVIPGMFKEVYQKIETVNESWNALATPSDKL 632
Query: 446 YPWDLSSTYIKRPPFFDGMGRDVTPGDRVIEQARVLLLLGDSVTTDHISPAGSIARTSAA 505
+ W+ STYIK PPFF+ + D+ + I A VLL LGDSVTTDHISPAG+IAR S A
Sbjct: 633 FFWNSKSTYIKSPPFFENLTLDL-QPPKSIVDAYVLLNLGDSVTTDHISPAGNIARNSPA 691
Query: 506 AKFLASKGLSPPDFNSYGSRRGNDDVMVRGTFANIRIVNKLVSKPGPKTVHFPSLEE 562
A++L ++GL+P +FNSYGSRRGND VM RGTFANIR++N+ ++K P+T+H PS E
Sbjct: 692 ARYLTNRGLTPREFNSYGSRRGNDAVMARGTFANIRLLNRFLNKQAPQTIHLPSGEI 748
Score = 76.4 bits (189), Expect = 1e-14
Identities = 28/36 (77%), Positives = 33/36 (91%)
Query: 1 MRDAVKSLNGDPQKINPICPSDLVIDHSVQVDFSRS 36
MRDAVK L GDP+KINP+CP+DLVIDHS+QVDF+R
Sbjct: 99 MRDAVKKLGGDPEKINPVCPADLVIDHSIQVDFNRR 134
>1c96_A Mitochondrial aconitase; lyase, tricarboxylic acid cycle,
iron-sulfur, mitochondrion, transit peptide, 4Fe-4S,
3D-structure; HET: FLC; 1.81A {Bos taurus} SCOP: c.8.2.1
c.83.1.1 PDB: 1c97_A* 1b0k_A* 1b0j_A* 7acn_A* 6acn_A*
5acn_A* 1b0m_A* 1ami_A* 1amj_A 8acn_A* 1fgh_A* 1aco_A*
1nis_A* 1nit_A
Length = 753
Score = 400 bits (1030), Expect = e-131
Identities = 129/518 (24%), Positives = 197/518 (38%), Gaps = 94/518 (18%)
Query: 56 GIEAEAVMLGQAISLLLPEVIGYKIEGKLSQYVTSTDLVLTITKHLRQLGVVGKFVEFFG 115
G +A VM G L P+VIG K+ G LS + + D++L + L G G VE+ G
Sbjct: 182 GADAVDVMAGIPWELKCPKVIGVKLTGSLSGWTSPKDVILKVAGILTVKGGTGAIVEYHG 241
Query: 116 PGVKELSIADRATISNMCPEYGATVGFFPVDQNSLEYLKQTSKSPGCTKVSRWRSGQNAR 175
PGV +S ATI NM E GAT FP + +YL +T ++ ++
Sbjct: 242 PGVDSISCTGMATICNMGAEIGATTSVFPYNHRMKKYLSKTGRADIANLADEFKDHLVP- 300
Query: 176 LVGFKG--YGLKSQVIE-PLNQLGFDVVGFGCMTCIGNSGPLDP----PIDKLGATGQFE 228
G Y QVIE L++L I +GP P P+ ++G+ + E
Sbjct: 301 ---DPGCHY---DQVIEINLSEL---------KPHI--NGPFTPDLAHPVAEVGSVAEKE 343
Query: 229 FEGKTYTLKHGSVVIAAITSCTNTSNPSVMLGAGLLAKKAVEAGLSVAPYIKTSLSPGSG 288
+ + I SCTN+S + A + AK+A+ GL + +++PGS
Sbjct: 344 GWPLD-------IRVGLIGSCTNSSYEDMGRSAAV-AKQALAHGL--KCKSQFTITPGSE 393
Query: 289 VVTYYLRESQVIEPLNQLGFDVVGFGCMTCIGNSGPLDPPIVDAIEKNELVVAGVLSGNR 348
+ + + L +G V+ C CIG D I+K E V S NR
Sbjct: 394 QIRATIERDGYAQVLRDVGGIVLANACGPCIGQWDRKD------IKKGEKNTI-VTSYNR 446
Query: 349 NFEGRIHPNTRA-NYLASPLLVIAYALAGTVDIDFEKEPIGTNKQGAPVFLRDIWPSRSE 407
NF GR N ++ SP +V A A+AGT+ + E + + T K G + P E
Sbjct: 447 NFTGRNDANPETHAFVTSPEIVTALAIAGTLKFNPETDFL-TGKDGKKF--KLEAPDADE 503
Query: 408 IHAVEKQHVIPAMFREVYARIENGSNSWRALQAPEGQLYPWDLSSTYIKRPPFFDGM-GR 466
+ + P + + GQ +S ++ FD G+
Sbjct: 504 L---PRAEFDPGQDTYQH-----------PPKDSSGQRVAVSPTSQRLQLLEPFDKWDGK 549
Query: 467 DVTPGDRVIEQARVLLLLGDSVTTDHISPAGSIARTSAAAKFLASKGLSPPDFNSYGSRR 526
D +E ++L+ + TTDHIS AG F +
Sbjct: 550 D-------LEDLQILIKVKGKCTTDHISAAGPWL-----------------KFRGHLDNI 585
Query: 527 GNDDVMVRGTFANIRIVNKLVSKPGPKTVHFPSLEEGG 564
N I I N+ + + E G
Sbjct: 586 SN-----NLLIGAINIENRKA----NSVRNAVTQEFGP 614
Score = 30.3 bits (69), Expect = 1.8
Identities = 6/24 (25%), Positives = 9/24 (37%), Gaps = 3/24 (12%)
Query: 10 GDPQKINPICPSDLVIDHSVQVDF 33
G P PS + DH ++
Sbjct: 86 GLP---KVAVPSTIHCDHLIEAQL 106
>1l5j_A Aconitate hydratase 2; molecular recognition, RNA binding, citric
acid cycle, heat- like domain, lyase; HET: TRA; 2.40A
{Escherichia coli} SCOP: a.118.15.1 c.8.2.1 c.83.1.1
Length = 865
Score = 76.4 bits (188), Expect = 1e-14
Identities = 20/148 (13%), Positives = 45/148 (30%), Gaps = 14/148 (9%)
Query: 25 IDHSVQVDFSRSG---VSSHGVVVTALALHARDPGIEAEAVMLGQAISLLLPEVIGYKIE 81
+ HS + + + L +PE + + +
Sbjct: 478 VIHSWLNRMLLPDTVGTGGDSHTRFPIGISFPAGSGLVAFAAATGVMPLDMPESVLVRFK 537
Query: 82 GKLSQYVTSTDLVLTITKHLRQLGVVGKFVEFF----------GPGVKELSIADRATISN 131
GK+ +T DLV I + + G++ + G+ +L + +++
Sbjct: 538 GKMQPGITLRDLVHAIPLYAIKQGLLTVEKKGKKNIFSGRILEIEGLPDLKVEQAFELTD 597
Query: 132 MCPEYGATVGFFPVDQNSL-EYLKQTSK 158
E A +++ + EYL
Sbjct: 598 ASAERSAAGCTIKLNKEPIIEYLNSNIV 625
Score = 55.2 bits (133), Expect = 4e-08
Identities = 29/133 (21%), Positives = 42/133 (31%), Gaps = 19/133 (14%)
Query: 244 AAITSCTNTSNPSVMLGAGLLAKKAVEAGLSVAPYIKTSLSPGSGVVTYYLRESQVIEPL 303
I SC N AG L + ++P + + L E
Sbjct: 705 VFIGSCMT--NIGHFRAAGKLLD-----AHKGQLPTRLWVAPPTRMDAAQLTEEGYYSVF 757
Query: 304 NQLGFDVVGFGCMTCIGNSGPLDPPIVDAIEKNELVVAGVLSGNRNFEGRIHPNTRANYL 363
+ G + GC C+GN + VV+ + RNF R+ +L
Sbjct: 758 GKSGARIEIPGCSLCMGNQA--------RVADGATVVS---TSTRNFPNRLGTGANV-FL 805
Query: 364 ASPLLVIAYALAG 376
AS L AL G
Sbjct: 806 ASAELAAVAALIG 818
>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 = 61.8 bits (149), Expect = 4e-10
Identities = 56/387 (14%), Positives = 110/387 (28%), Gaps = 106/387 (27%)
Query: 165 VSRWRSGQNARLVGFKGYGLKSQVIEPLNQLGFDVVGFGCMTCIGNSGPLDPPIDKLGAT 224
+S ++ Q + + Y IE ++L D F P KL
Sbjct: 95 MSPIKTEQRQPSMMTRMY------IEQRDRLYNDNQVFAKYNV-----SRLQPYLKL-RQ 142
Query: 225 GQFEFEGKTYTLKHGSVVIAAITSCTNTSNPSVMLGAGLLAKKAVEAGLSVAPYIKTSLS 284
E L G +LG+G K A L V K
Sbjct: 143 ALLELRPAKNVLIDG------------------VLGSG----KTWVA-LDVCLSYKVQCK 179
Query: 285 PGSGVVTYYL------RESQVIEPLNQLGFDVVGFGCMTCIGNSGPLDPPIVDAIEKNEL 338
+ ++L V+E L +L + + + + + + EL
Sbjct: 180 MDFKI--FWLNLKNCNSPETVLEMLQKLLYQID---PNWTSRSDHSSNIKLRIHSIQAEL 234
Query: 339 VVAGVLSGNRNFEGRIHPNT-------------RANYLASPLLV------IAYALAG--T 377
R + + + N A L+ +L+ + L+ T
Sbjct: 235 --------RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATT 286
Query: 378 VDIDFEKEPIG-TNKQGAPVFLRDIWPSRSEI-HAVEKQH-----VIPAMFREVYARIEN 430
I + + T + + L+ + ++ V + +I R+ A +N
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346
Query: 431 GSNSWR---------ALQAPEGQLYPWDLSSTYIKRPPFFDGMGRDVTPGDRVIEQARVL 481
W+ +++ L P + + + V P I +L
Sbjct: 347 ----WKHVNCDKLTTIIESSLNVLEPAEYRKMFDR---LS------VFPPSAHIP-TILL 392
Query: 482 LLL-GDSVTTDHISPAGSIARTSAAAK 507
L+ D + +D + + + S K
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEK 419
Score = 50.6 bits (120), Expect = 1e-06
Identities = 69/483 (14%), Positives = 127/483 (26%), Gaps = 156/483 (32%)
Query: 83 KLSQY-VTSTDLVLTITKHLRQL----GVV-------GK------------FVEFFGPGV 118
++Y V+ L + + L +L V+ GK +
Sbjct: 125 VFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI 184
Query: 119 KELSIADRAT-------ISNMCPEYGATVGFFPVDQNSLEYLKQTSKSP-----GCTKVS 166
L++ + + + + + +D N +S ++
Sbjct: 185 FWLNLKNCNSPETVLEMLQKLL---------YQIDPNWTSRSDHSSNIKLRIHSIQAELR 235
Query: 167 R---WRSGQNARLVGFKGYGL----KSQVIEPLNQLGFDVVGFGCMTCI--GNSGPLDPP 217
R + +N LV L ++ F+ C +
Sbjct: 236 RLLKSKPYENCLLV------LLNVQNAKAWNA-----FN---LSCKILLTTRFKQ----V 277
Query: 218 IDKLGATGQF----EFEGKTYTLKHGSVVIAAITSCTNTSNPSVMLGAGLLAKKAVEAGL 273
D L A + T T ++ C P +L L
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR-------L 330
Query: 274 SVAPYIKTSLSPGSGVVTYYLRE-----SQVIEP-LNQLG-------FDVVG-FGCMTCI 319
S+ I S+ G + + +IE LN L FD + F
Sbjct: 331 SI---IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF------ 381
Query: 320 GNSGPLD---PPIV------DAIEK------NELVVAGVLSGNRN----------FEGRI 354
P P I+ D I+ N+L ++ E ++
Sbjct: 382 ----PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKV 437
Query: 355 HPNTRANYLASPLLVIAYALAGTVDIDFEKEPIGTNKQGAPVFLRDIWPSRSEIHAVEKQ 414
S +V Y + T D + P +L + S H +
Sbjct: 438 KLENEYALHRS--IVDHYNIPKTFD----------SDDLIPPYLDQYFYSHIGHHLKNIE 485
Query: 415 HV-IPAMFREVY-------ARIENGSNSWRALQAPEGQLYPWDLSSTYI-KRPPFFDGMG 465
H +FR V+ +I + S +W A + L YI P ++ +
Sbjct: 486 HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545
Query: 466 RDV 468
+
Sbjct: 546 NAI 548
>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 = 52.0 bits (124), Expect = 4e-07
Identities = 82/483 (16%), Positives = 129/483 (26%), Gaps = 199/483 (41%)
Query: 47 ALALHARDPGIEAEAVMLGQAISLLLPEVIGYKIEGKLSQYVTSTDLVLTITKHLRQL-- 104
AL + + A+ GQ G Y + LR L
Sbjct: 144 ALFRAVGEGNAQLVAIFGGQ---------------GNTDDYF----------EELRDLYQ 178
Query: 105 ---GVVGKFVEFFGPGVKELSIADRATISNMCPEYGATVGFFPVDQNSLEYLKQTSKSPG 161
+VG ++F + EL + + G N LE+L+ S +P
Sbjct: 179 TYHVLVGDLIKFSAETLSELI-RTTLDAEKVFTQ-----GL-----NILEWLENPSNTPD 227
Query: 162 CTKVSRWRSGQNARLVGFKGYGLKSQVIEPLNQLGFDVVGFGCMTCIGNSGPLDPP--ID 219
K Y L + PL + + P
Sbjct: 228 ------------------KDYLLSIPISCPLIGV----IQLAHYVVTAKLLGFTPGELRS 265
Query: 220 KL-GATGQFEFEGKTYTLKHGSVVIAAITSCTNTSNPSVMLGAGLLAKKAVEA----GL- 273
L GATG H ++ A+ S S + +KA+ G+
Sbjct: 266 YLKGATG------------HSQGLVTAVAIAETDSWES----FFVSVRKAITVLFFIGVR 309
Query: 274 --------SVAPYI-KTSLSPGSGVVTYYL-----RESQV---IEPLNQLGFDVVGFGCM 316
S+ P I + SL GV + L + QV + N
Sbjct: 310 CYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNS----------- 358
Query: 317 TCIGNSGPLDPPIVDAIEKN---ELVVAG---VLSG-NRNFEG----------RI----- 354
P + ++ N LVV+G L G N RI
Sbjct: 359 -----HLPAGKQVEISL-VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSER 412
Query: 355 HPNTRANYLA------SPLLVIAYALAGTVDIDFEKEPIGTNKQGAPVFLRDIWPSRSEI 408
+L S LLV A + + +D+ +
Sbjct: 413 KLKFSNRFLPVASPFHSHLLVPA----------------------SDLINKDLVKNNVSF 450
Query: 409 HAVEKQHVIPAMFREVYARIENGSNSWRALQAPEGQLYP------------WD----LSS 452
+A + Q IP VY +GS+ L+ G + W+ +
Sbjct: 451 NAKDIQ--IP-----VYD-TFDGSD----LRVLSGSISERIVDCIIRLPVKWETTTQFKA 498
Query: 453 TYI 455
T+I
Sbjct: 499 THI 501
Score = 43.9 bits (103), Expect = 2e-04
Identities = 53/329 (16%), Positives = 88/329 (26%), Gaps = 145/329 (44%)
Query: 235 TLKHGSVVIAAITSCTNTSNPSVMLGAGLLAKKAVEAGLSVAPYIKTSLSPGSGVVTYYL 294
TL HGS +E L V P T+ + L
Sbjct: 10 TLSHGS----------------------------LEHVLLV-P---TASFFIASQ----L 33
Query: 295 RE---SQVIEPLNQLGFDVVGFGCMTCIGNSGPLDPPIVDAIEKNELVVAGVLSGNRNF- 350
+E + EP D D P A EL V L +
Sbjct: 34 QEQFNKILPEPTEGFAAD----------------DEPTTPA----EL-VGKFLG----YV 68
Query: 351 EGRIHPNTRANYLASPLLVIAYALAGTVDIDFEKEPIGTNKQGAPVFLRDIWPSRSEIHA 410
+ P+ + V+ L +FE +L ++IHA
Sbjct: 69 SSLVEPSKVGQFDQ----VLNLCLT-----EFENC-----------YLEG-----NDIHA 103
Query: 411 V-------------EKQHVIPAMF--REVYAR-IENGSNS--WRALQAPEGQLY------ 446
+ + + +I R + R + SNS +RA+ QL
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ 163
Query: 447 -----PWD----LSSTYIKRPPFFDGMGRDVTPGDRVIEQARVLL--LLGDSVTTDHISP 495
++ L TY V +I+ + L L+ ++ + +
Sbjct: 164 GNTDDYFEELRDLYQTY---HVL-------VGD---LIKFSAETLSELIRTTLDAEKVFT 210
Query: 496 AG-------SIARTSAAAKFLASKGLSPP 517
G + +L S +S P
Sbjct: 211 QGLNILEWLENPSNTPDKDYLLSIPISCP 239
Score = 43.9 bits (103), Expect = 2e-04
Identities = 78/443 (17%), Positives = 133/443 (30%), Gaps = 149/443 (33%)
Query: 228 EFEGKTYTLKHGSVVIAAITSCTNTSNPSVMLGAGLLAKKAVEA-GLSVAPYIKTSLSP- 285
EFE Y L+ I A+ + N + ++ L K + A ++ P+ K S S
Sbjct: 90 EFE-NCY-LEGND--IHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL 145
Query: 286 ----------------GSGVVTYYLRE----------------SQVIEPLNQL------- 306
G G Y E E L++L
Sbjct: 146 FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDA 205
Query: 307 ------GFDVVGFGCMTCIGNSGPLDPPIVD----------AIEKNELV---VAGVLSGN 347
G +++ + P + P D I +L V L G
Sbjct: 206 EKVFTQGLNILEWL-------ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLG- 257
Query: 348 RNFEGRIHPNTRANYLASPL-----LVIAYALAGTVDID-FEKEP---------IGTNKQ 392
P +YL LV A A+A T + F IG
Sbjct: 258 ------FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCY 311
Query: 393 GA-PVFLRDIWPSRSEIHAVEKQHVIPA-MF-------REVYARIE--NGS--------- 432
A P + PS E ++E +P+ M +V + N
Sbjct: 312 EAYPNT--SLPPSILED-SLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEI 368
Query: 433 ---NSWRA--LQAPEGQLYPWDLSSTYIKRPPFFDGMGRDVTPG-DRVIE-QARVLLLLG 485
N + + P LY +L+ K P G+ + P +R ++ R L
Sbjct: 369 SLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPS---GLDQSRIPFSERKLKFSNRFL---- 421
Query: 486 DSVT----TDHISPAGSIARTSAAAKFLASKG--LSPPDFNSYGSRRGNDDVMVRGTFAN 539
V + + PA + ++ + P ++++ G+D +R +
Sbjct: 422 -PVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD---GSD---LRVLSGS 474
Query: 540 I--RIVNKLVSKPGPKTVHFPSL 560
I RIV+ ++ P V + +
Sbjct: 475 ISERIVDCIIRLP----VKWETT 493
Score = 41.2 bits (96), Expect = 9e-04
Identities = 42/234 (17%), Positives = 77/234 (32%), Gaps = 73/234 (31%)
Query: 177 VGFKGYGLKSQVI-EPLNQLGFDVVGFGCMTCIGNSGPLDPPIDKLGATGQFEFEGKTYT 235
+ F G K + I E + + F+ + G + + + I++ + + F +
Sbjct: 1674 IHFGGE--KGKRIRENYSAMIFETIVDGKLK----TEKIFKEINE--HSTSYTFRSEKGL 1725
Query: 236 LKHGSVVIAAITSCTNTSNPSVML----------GAGLLAKKAVEAGLSVAPYIKTSLSP 285
L T T P++ L GL+ A AG S+ Y +L+
Sbjct: 1726 LS--------ATQ--FTQ-PALTLMEKAAFEDLKSKGLIPADATFAGHSLGEY--AALAS 1772
Query: 286 GSGVVTY-------YLR--ESQVIEPLNQLGFDVVGF-----GCMTCIGNSGPLDPPIVD 331
+ V++ + R QV P ++LG G G + + L +V+
Sbjct: 1773 LADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQ-YVVE 1831
Query: 332 AI--EKNELV-VAGVLSGNRNFEGRIHPNTRANYLASPLLVIAYALAGTV-DID 381
+ LV + N N E + Y AG + +D
Sbjct: 1832 RVGKRTGWLVEIV-----NYNVENQQ-----------------YVAAGDLRALD 1863
Score = 38.5 bits (89), Expect = 0.008
Identities = 27/134 (20%), Positives = 47/134 (35%), Gaps = 33/134 (24%)
Query: 414 QHVIPAMFREVYARIENGSNSW-RALQAPEGQLYPWDLSSTYIKRPP----FFDGM-GRD 467
Q M ++Y + + W RA + Y + + I P F G G+
Sbjct: 1627 QEQ--GMGMDLYKTSKAAQDVWNRADNHFK-DTYGFSILDIVINNPVNLTIHFGGEKGKR 1683
Query: 468 V----------TPGDRVIEQARVLLLLGDSVTTDHI--SPAGSIARTS-----------A 504
+ T D ++ ++ + + +T + S G ++ T A
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEI-NEHSTSYTFRSEKGLLSATQFTQPALTLMEKA 1742
Query: 505 AAKFLASKGLSPPD 518
A + L SKGL P D
Sbjct: 1743 AFEDLKSKGLIPAD 1756
Score = 29.6 bits (66), Expect = 3.8
Identities = 20/106 (18%), Positives = 30/106 (28%), Gaps = 56/106 (52%)
Query: 463 GMGRDVTPGDRVIEQARVLLLLGDSVTTDHISPAGSIARTSAAAKFL---ASKGLSPPDF 519
GMG D + +TS AA+ + A
Sbjct: 1630 GMGMD-------------------------------LYKTSKAAQDVWNRADNHFK---- 1654
Query: 520 NSYGSRRGNDDVMVRGTFANIRIVNKLVSKPGPKTVHFPSLEEGGQ 565
++YG F+ + IV P T+HF E G+
Sbjct: 1655 DTYG-------------FSILDIVIN---NPVNLTIHFGG--EKGK 1682
>3ne5_A Cation efflux system protein CUSA; transmembrane helix, metal
transport; 2.90A {Escherichia coli} PDB: 3k07_A 3k0i_A
3kso_A 3kss_A
Length = 1054
Score = 31.8 bits (73), Expect = 0.86
Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 16/73 (21%)
Query: 329 IVDAIEKNELVVAGVLSGNRNFEGRIHPNTRANYLASPLLVIAYALAGTVDIDFEKEPIG 388
+ A++ + N+ G A Y+ V A T+D DF +
Sbjct: 213 VKSALDAS----------NQEAGGSSIELAEAEYM-----VRASGYLQTLD-DFNHIVLK 256
Query: 389 TNKQGAPVFLRDI 401
++ G PV+LRD+
Sbjct: 257 ASENGVPVYLRDV 269
>4em8_A Ribose 5-phosphate isomerase B; ssgcid, seattle structural genomics
center for infectious DI niaid; 1.95A {Anaplasma
phagocytophilum}
Length = 148
Score = 29.0 bits (66), Expect = 2.5
Identities = 8/26 (30%), Positives = 11/26 (42%)
Query: 181 GYGLKSQVIEPLNQLGFDVVGFGCMT 206
G L+ + L LG +V GC
Sbjct: 18 GVELRLFLSAYLRDLGCEVFDCGCDP 43
>1o1x_A Ribose-5-phosphate isomerase RPIB; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI; 1.90A {Thermotoga maritima} SCOP:
c.121.1.1
Length = 155
Score = 28.7 bits (65), Expect = 2.7
Identities = 7/24 (29%), Positives = 10/24 (41%)
Query: 181 GYGLKSQVIEPLNQLGFDVVGFGC 204
+ LK +V L G +V G
Sbjct: 23 AFELKEKVKNYLLGKGIEVEDHGT 46
>3ph3_A Ribose-5-phosphate isomerase; alpha-beta-alpha sandwich fold; HET:
RB5; 2.07A {Clostridium thermocellum} PDB: 3ph4_A*
Length = 169
Score = 28.7 bits (65), Expect = 2.9
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 181 GYGLKSQVIEPLNQLGFDVVGFGC 204
GY LK ++ + L + G++V+ FG
Sbjct: 31 GYNLKREIADFLKKRGYEVIDFGT 54
>3he8_A Ribose-5-phosphate isomerase; CTRPI B, isomerization; 1.90A
{Clostridium thermocellum} PDB: 3hee_A*
Length = 149
Score = 28.6 bits (65), Expect = 2.9
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 181 GYGLKSQVIEPLNQLGFDVVGFGC 204
GY LK ++ + L + G++V+ FG
Sbjct: 11 GYNLKREIADFLKKRGYEVIDFGT 34
>3s5p_A Ribose 5-phosphate isomerase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; 2.30A {Giardia lamblia}
Length = 166
Score = 28.7 bits (65), Expect = 3.0
Identities = 5/24 (20%), Positives = 12/24 (50%)
Query: 181 GYGLKSQVIEPLNQLGFDVVGFGC 204
G L+ + + + G++V+ G
Sbjct: 32 GRDLRMFLQQRASAHGYEVMDLGT 55
>2vvr_A Ribose-5-phosphate isomerase B; RPIB, carbohydrate metabolism,
pentose phosphate pathway; 2.10A {Escherichia coli} PDB:
1nn4_A
Length = 149
Score = 28.6 bits (65), Expect = 3.2
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 181 GYGLKSQVIEPLNQLGFDVVGFGC 204
G+ LK +++ L + G +V+ G
Sbjct: 12 GFILKHEIVAHLVERGVEVIDKGT 35
>2vvp_A Ribose-5-phosphate isomerase B; RPIB, RV2465C, RARE sugar,
carbohydrate metabolism, pentose phosphate pathway; HET:
R52 5RP; 1.65A {Mycobacterium tuberculosis} SCOP:
c.121.1.1 PDB: 2vvo_A* 2vvq_A* 2bes_A* 2bet_A* 1usl_A
Length = 162
Score = 28.3 bits (64), Expect = 3.7
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 181 GYGLKSQVIEPLNQLGFDVVGFGC 204
GY LK ++IE L Q G + + G
Sbjct: 14 GYELKQRIIEHLKQTGHEPIDCGA 37
>2c43_A Aminoadipate-semialdehyde dehydrogenase- phosphopantetheinyl
transferase; fatty acid biosynthesis, coenzyme A; HET:
COA; 1.93A {Homo sapiens} PDB: 2byd_A* 2cg5_A*
Length = 323
Score = 29.0 bits (64), Expect = 4.9
Identities = 8/55 (14%), Positives = 19/55 (34%), Gaps = 1/55 (1%)
Query: 355 HPNTRANYLASPLLVIAYALAGTVDIDFEKEPIGTNKQGAPVFLRDIWPSRSEIH 409
+A L++ +A ++I + + +G PV +D +
Sbjct: 63 FARDAKAAMAGRLMI-RKLVAEKLNIPWNHIRLQRTAKGKPVLAKDSSNPYPNFN 116
>3p14_A L-rhamnose isomerase; TIM barrel; 2.51A {Bacillus halodurans} PDB:
3uu0_A
Length = 424
Score = 28.9 bits (64), Expect = 5.0
Identities = 14/82 (17%), Positives = 23/82 (28%), Gaps = 10/82 (12%)
Query: 476 EQARVLLLLGDSVTTDHISPAGSIARTSAAAKFLASKGLSPPDFNSYGSRRGNDDVMVRG 535
LL G H P +++ +A L L + R + D +V
Sbjct: 257 NDKLCLLDTG------HYHPTETVS-NKISAMLLFHDKL---ALHVSRPVRWDSDHVVTF 306
Query: 536 TFANIRIVNKLVSKPGPKTVHF 557
I ++V V
Sbjct: 307 DDELREIALEIVRNDALDRVLI 328
>1v7l_A 3-isopropylmalate dehydratase small subunit; beta barrel, lyase;
1.98A {Pyrococcus horikoshii} SCOP: c.8.2.1
Length = 163
Score = 28.0 bits (63), Expect = 5.0
Identities = 17/63 (26%), Positives = 22/63 (34%), Gaps = 8/63 (12%)
Query: 475 IEQARVLLLLGDSVTTDHISPAGSIARTSAAAKFLASKGLS--PPDFNSYGSRRGNDDVM 532
I +V GD ++TD I+P LA PDF DV+
Sbjct: 2 ITTGKVWKF-GDDISTDEITPGRYNLTKDPKE--LAKIAFIEVRPDF---ARNVRPGDVV 55
Query: 533 VRG 535
V G
Sbjct: 56 VAG 58
>1hfe_L Protein (Fe-only hydrogenase (E.C.1.18.99.1) (larger subunit));
hydrogene metabolism, periplasm; 1.60A {Desulfovibrio
vulgaris subsp} SCOP: c.96.1.1 d.58.1.5 PDB: 1e08_A*
1gx7_A*
Length = 421
Score = 28.5 bits (64), Expect = 6.8
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 266 KKAVEAGLSVAPYIKTSLSPGSGVVTYYLRESQVIEPLNQLGFDVV 311
K A AP ++ +L G+ + +++ L +LGF
Sbjct: 99 KVKCIA--MPAPAVRYALGDAFGMPVGSVTTGKMLAALQKLGFAHC 142
>3k7p_A Ribose 5-phosphate isomerase; pentose phosphate pathway, type B
ribose 5-phosphate isomera (RPIB), R5P; 1.40A
{Trypanosoma cruzi} PDB: 3k7s_A* 3k7o_A* 3k8c_A* 3m1p_A
Length = 179
Score = 27.6 bits (62), Expect = 8.6
Identities = 4/26 (15%), Positives = 10/26 (38%)
Query: 181 GYGLKSQVIEPLNQLGFDVVGFGCMT 206
+ + +I + + G + V C
Sbjct: 33 AFAIHENLILYVKEAGDEFVPVYCGP 58
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 0.137 0.404
Gapped
Lambda K H
0.267 0.0816 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,904,080
Number of extensions: 569961
Number of successful extensions: 1236
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1222
Number of HSP's successfully gapped: 36
Length of query: 566
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 467
Effective length of database: 3,937,614
Effective search space: 1838865738
Effective search space used: 1838865738
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: 60 (26.7 bits)