RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 011644
(480 letters)
>3h90_A Ferrous-iron efflux pump FIEF; membrane protein, zinc transporter,
cell inner membrane, cell membrane, ION transport, iron
transport; 2.90A {Escherichia coli k-12} PDB: 2qfi_A
Length = 283
Score = 97.6 bits (244), Expect = 5e-23
Identities = 50/259 (19%), Positives = 97/259 (37%), Gaps = 31/259 (11%)
Query: 138 QRAVTTALWGNFLVFSLKFGVWLGTSSHVMLAEVVHSVADFANQVLLAYGLSSSRRAPDA 197
RA A L+ +K W T S +LA +V S+ D + + S + D
Sbjct: 3 SRAAIAATAMASLLLLIKIFAWWYTGSVSILAALVDSLVDIGASLTNLLVVRYSLQPADD 62
Query: 198 LHPYGYSKERFVWSLISAVGIFCLGSGATIV-NGIQHLWTAEAPENMKYAALVICGSFII 256
H +G+ K + +L +F GS + GIQHL + + +V + I
Sbjct: 63 NHSFGHGKAESLAALA--QSMFISGSALFLFLTGIQHLISPTPMTDPGVGVIVTIVALIC 120
Query: 257 EGASLLVAIQAVKKGAAAEGMTIRDYIWRGHDPTSVAVMTEDG------AAVTGLVIAGA 310
+ V++ + S AV D + G ++
Sbjct: 121 TIILVSFQRWVVRR--------TQ----------SQAVRA-DMLHYQSDVMMNGAILLA- 160
Query: 311 SLIAVNVTGNAIYDPIGSIIVGNLLGMVAIFLIQRNRHALIGRAMDDHDMEKILHFLKND 370
+ ++ G D + ++ +G + A+ + +L+ RA+ D + ++I+ + +
Sbjct: 161 --LGLSWYGWHRADALFALGIGIYILYSALRMGYEAVQSLLDRALPDEERQEIIDIVTSW 218
Query: 371 PVVDALYDCKSEVIGPGFF 389
P V +D ++ GP F
Sbjct: 219 PGVSGAHDLRTRQSGPTRF 237
>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 = 63.1 bits (153), Expect = 1e-10
Identities = 98/599 (16%), Positives = 175/599 (29%), Gaps = 223/599 (37%)
Query: 38 TSWRFLSRLLHSSKRTAVLNPSS------------------PFNVFINDNNGKFFSILEH 79
S R L+ L H S +L P++ P F D+ + + E
Sbjct: 4 YSTRPLT-LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD--EPTTPAEL 60
Query: 80 TNQFRGFCS--VHCSK-----RFVLLGLVSFDN---SGSNQH---------------HKY 114
+F G+ S V SK + + L L F+N G++ H
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 115 SSNRNFFTRAKQVKKIETTDEHSQ---RAVTTALWGNFLVFSLKFG------VW------ 159
+N+ A+ + K + + RAV GN + ++ FG +
Sbjct: 121 ELIKNYI-TARIMAKRPFDKKSNSALFRAVGE---GNAQLVAI-FGGQGNTDDYFEELRD 175
Query: 160 LGTSSHVMLAEVVHSVADFANQVLLAYGLSSSRRAPDALHPYGY-------------SKE 206
L + HV++ +++ A + L L + + + G K+
Sbjct: 176 LYQTYHVLVGDLIKFSA----ETLS--ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD 229
Query: 207 RFVWSLISAVGIFCLGSGATIVNGIQHLWTAEAPENMK--YAALVICGSFIIEGASLLVA 264
+ IS I + +V +T P ++ ++ A VA
Sbjct: 230 YLLSIPISCPLIGVIQLAHYVVTAKLLGFT---PGELRSYLKGATGHSQGLV-TA---VA 282
Query: 265 IQAVKKG-----AAAEGMTIRDYI-WRGHD--------PTSVAVMTEDGA-------AVT 303
I + + +T+ +I R ++ P+ + E+ +++
Sbjct: 283 IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 304 GL-------VIAGA------------SLI----AVNVTGNAIYDPIGSIIVGNLLGMVAI 340
L + SL+ + V+G P S L G+
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG-----PPQS-----LYGLNLT 392
Query: 341 FLIQRNRHALIGRAMDDHDMEKILH----------FLKNDPV---------VDALYDCKS 381
R A G D +I FL PV V A
Sbjct: 393 L---RKAKAPSG-----LDQSRIPFSERKLKFSNRFL---PVASPFHSHLLVPASDLINK 441
Query: 382 EVIGPGFFRFKAEIDFNGVMVVQNYLKRTG---REA------------------WAKQFH 420
+++ F A+ D + V Y G R W
Sbjct: 442 DLVKNN-VSFNAK-DI-QIPV---YDTFDGSDLRVLSGSISERIVDCIIRLPVKW----- 490
Query: 421 EAAKEKDDTALLKIMSNYGEEVVTALGTEVDRLEKEIQDLVPGIRHV---DIEAHNPVD 476
E + T +L ++G + LG R K+ G+R + ++ NP D
Sbjct: 491 ETTTQFKATHIL----DFGPGGASGLGVLTHRN-KDGT----GVRVIVAGTLDI-NPDD 539
Score = 44.7 bits (105), Expect = 6e-05
Identities = 38/217 (17%), Positives = 61/217 (28%), Gaps = 75/217 (34%)
Query: 278 TIRDYIWRGHD----------P----TSVA---VMTEDGAAVTGLVIAGASLIAVNVTG- 319
Y +R P A + G AG SL G
Sbjct: 1713 HSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSL------GE 1766
Query: 320 -NAIYDPIGSIIVGNLLGMVAIFLIQRNRHALIGRAMDDHDMEKILHFLKNDPVVDALYD 378
A+ + + +L+ +V R G M + D + + Y
Sbjct: 1767 YAALASLADVMSIESLVEVVF----YR------GMTMQ--------VAVPRDELGRSNYG 1808
Query: 379 CKSEVIGPGFFRFKAEIDFNGV-MVVQNYLKRTGREAWAKQFHEAAKEKDDTALLKIMSN 437
+ I PG R A + VV+ KRTG E N
Sbjct: 1809 MIA--INPG--RVAASFSQEALQYVVERVGKRTG------WLVEIV-------------N 1845
Query: 438 Y---GEEVVTALGTE--VDRLEKEIQDLVPGIRHVDI 469
Y ++ V A G +D + + + ++ +DI
Sbjct: 1846 YNVENQQYVAA-GDLRALDTVTNVLNFI--KLQKIDI 1879
Score = 36.2 bits (83), Expect = 0.031
Identities = 48/277 (17%), Positives = 87/277 (31%), Gaps = 82/277 (29%)
Query: 226 TIVNG-IQHLWTAEAPENMKYAALVICGSFIIEGASLLVAIQAVKKGAAAEGMTIRDYIW 284
T+ +G ++H+ P + A + F L EG D
Sbjct: 10 TLSHGSLEHVL--LVPTASFFIASQLQEQFN---KIL---------PEPTEGFAADD--- 52
Query: 285 RGHDPTSVAVMTEDGAAVTGLVIAGASLIAVNVTGNAIYDPIGSIIVGNLLGMVAIFLIQ 344
+PT+ A E G V +SL+ + G +D + ++ + +L
Sbjct: 53 ---EPTTPA---ELVGKFLGYV---SSLVEPSKVGQ--FDQVLNLCLTEF---ENCYLEG 98
Query: 345 RNRHALIGRAMDDHD--MEKILHFLKN-------------DPVVDALYDCKSEVIGPGFF 389
+ HAL + + ++D + K +KN AL+ E G
Sbjct: 99 NDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE----GNA 154
Query: 390 RFKAEIDFNGVMVVQNYLKRTG-REAWAKQFHEAAKEKDDTALLKIMSNYGEEVVTALGT 448
+ A F G Q G + + F E L + Y V +
Sbjct: 155 QLVAI--FGG----Q------GNTDDY---FEE---------LRDLYQTYHVLVGDLIKF 190
Query: 449 EVDRLEKEIQDLVPGIRH----VDIEA--HNPVDVPS 479
+ L + I+ + + ++I NP + P
Sbjct: 191 SAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
>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 = 39.1 bits (90), Expect = 0.003
Identities = 69/574 (12%), Positives = 163/574 (28%), Gaps = 167/574 (29%)
Query: 3 VLNISNILGEFRTISEFLLIKPKKRKERKDLDLMRTSWRFLSRLLHSSKRTAVLNPSSPF 62
++ + + + LL K ++ ++ +++R +++FL + + +R PS
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR----QPSMMT 109
Query: 63 NVFI-------NDNN--GKFF-SILEHTNQFR-GFCSVHCSKRFVLLGLVSFDNSGSNQH 111
++I NDN K+ S L+ + R + +K ++ G++ G
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS---G---- 162
Query: 112 HKYSSNRNFFTRAKQVKKIETTDEHSQRAVTTALWGNFLVFSLKFGVWLGTSSHVMLAEV 171
K ++ + V + +F +F WL + V
Sbjct: 163 -------------KTWVALDVCLSYK---VQCKM--DFKIF------WLNLKNCNSPETV 198
Query: 172 VHSVADFANQVLLAY--GLSSSRRAPDALHPYGYSKERF---------------VWS--L 212
+ + Q+ + S +H R V +
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258
Query: 213 ISAVGIFC---------------LGSGATIVNGIQHLWTAEAPENMKYAALVICGSF--- 254
+A + C + T ++ H T E +
Sbjct: 259 WNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
Query: 255 ---IIEGASLLVA-IQAVKKGAAAEGMTIRDYIWR--GHDP------TSVAVMT--EDGA 300
++ ++ I + +G+ D W+ D +S+ V+ E
Sbjct: 319 PREVLTTNPRRLSIIAESIR----DGLATWDN-WKHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 301 AVTGLVIAGASLIAVNVT--------GNAIYDPIGSIIVGNLLGMVAIFLIQRNR----- 347
L + S ++ + I + ++ + L+++
Sbjct: 374 MFDRLSVFPPS---AHIPTILLSLIWFDVIKSDVMVVVN----KLHKYSLVEKQPKESTI 426
Query: 348 --HALIGRAMDDHDMEKILH--FLKNDPVVDALYDCKSEVIGPG---FFRF------KAE 394
++ + E LH + + + +D + F+ E
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVDHYNIPKT-FDSDDLIPPYLDQYFYSHIGHHLKNIE 485
Query: 395 ------------IDFNGVMVVQNYLKRTGREAWAKQFHEAAKEKDDTALLKIMSNYGEEV 442
+DF ++ ++ AW L+ + Y +
Sbjct: 486 HPERMTLFRMVFLDFR---FLEQKIRHDS-TAWNAS-------GSILNTLQQLKFY-KPY 533
Query: 443 VTALGTEVDRLEKEIQDLVPGI-------RHVDI 469
+ + +RL I D +P I ++ D+
Sbjct: 534 ICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567
>2pbe_A AAD6, aminoglycoside 6-adenylyltransferase; NYSGXRC, aminoglycoside
6-adenyltransferase, PSI-2, structural genomics; 2.65A
{Bacillus subtilis} SCOP: a.160.1.5 d.218.1.13
Length = 294
Score = 30.7 bits (69), Expect = 0.84
Identities = 10/62 (16%), Positives = 18/62 (29%), Gaps = 2/62 (3%)
Query: 360 MEKILHFLKNDPVVDALYDCKSEVIGPGFFRFKAEIDFNGVMVVQNYLKRTGREAWAKQF 419
M+ L F ND + + S + D V + + W + F
Sbjct: 10 MDIFLDFALNDERIRLVTLEGSRTNRNIPPDNFQDYDI--SYFVTDVESFKENDQWLEIF 67
Query: 420 HE 421
+
Sbjct: 68 GK 69
>3r1k_A Enhanced intracellular surviVal protein; GNAT, acetyltransferase,
transferase; HET: COA; 1.95A {Mycobacterium
tuberculosis}
Length = 428
Score = 28.5 bits (63), Expect = 4.8
Identities = 20/83 (24%), Positives = 27/83 (32%), Gaps = 12/83 (14%)
Query: 280 RDYIWRGHDPTSVAVMTEDGAAVTGLVIAGASLIA--VNVTGNAIYDPIGSIIVGNLLGM 337
WR PT AV+ DGA V+ A + + V G + G L
Sbjct: 58 SATAWRTLVPTDGAVVVRDGAGPGSEVVGMALYMDLRLTVPGEVVLPTAG-------LSF 110
Query: 338 VAIFLIQRNR---HALIGRAMDD 357
VA+ R R A+
Sbjct: 111 VAVAPTHRRRGLLRAMCAELHRR 133
>2oit_A Nucleoporin 214KDA; NH2 terminal domain of NUP214/CAN, X-RAY
crystallography, beta-propeller, structure, mRNA export,
NPC assembly, leukemia; HET: MES; 1.65A {Homo sapiens}
PDB: 3fmo_A* 3fmp_A* 3fhc_A
Length = 434
Score = 28.3 bits (62), Expect = 5.4
Identities = 18/71 (25%), Positives = 27/71 (38%), Gaps = 5/71 (7%)
Query: 276 GMTIRDYIWRGHDPTSVAVMTEDGAAVTGLVIAGASLIAVNVTGNAI----YDPIGS-II 330
G + D W P+ VAV DG+ V + A + A+ + P G +
Sbjct: 149 GGMVIDMKWNPTVPSMVAVCLADGSIAVLQVTETVKVCATLPSTVAVTSVCWSPKGKQLA 208
Query: 331 VGNLLGMVAIF 341
VG G V +
Sbjct: 209 VGKQNGTVVQY 219
>3qwl_A TBC1 domain family member 7; RAB GTPase activation, structural
genomics consortium, TBC D SGC, hydrolase activator;
1.90A {Homo sapiens}
Length = 294
Score = 28.1 bits (62), Expect = 6.9
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 338 VAIFLIQRNRHALIGRAMDDHDMEKILHFLKNDPVVDA 375
VA+ ++ + + M + EKI FL+N P +
Sbjct: 239 VAVEILLTFKIKV----MALNSAEKITKFLENIPQDSS 272
>2za4_B Barstar; protein-protein complex, endonuclease, genetically
modified FOOD, hydrolase, nuclease, secreted, cytoplasm;
1.58A {Bacillus amyloliquefaciens} PDB: 1b27_D 1a19_A
1x1w_D 3da7_C 1ab7_A 1bgs_E 1brs_D 1x1u_D 1x1y_D 1b3s_D
1b2s_D 1x1x_D 1ay7_B 1bta_A 1btb_A 1b2u_D 2hxx_A*
Length = 90
Score = 26.4 bits (58), Expect = 7.0
Identities = 9/58 (15%), Positives = 20/58 (34%), Gaps = 6/58 (10%)
Query: 374 DALYDCKSEVIGPGFFRFKAEIDFNGVMVVQNYLKRTGREAWAKQFHEAAKEKDDTAL 431
DAL+ + + +++ + + E+ + F EA E D +
Sbjct: 36 DALWAALTGWVEYPL-----VLEWRQFEQSKQLTENG-AESVLQVFREAKAEGADITI 87
>3l0a_A Putative exonuclease; RER070207002219, structural genomics, center
for structural genomics, JCSG, protein structure INI
PSI-2, hydrolase; HET: PE4; 2.19A {Eubacterium rectale}
Length = 266
Score = 27.7 bits (61), Expect = 7.6
Identities = 9/61 (14%), Positives = 22/61 (36%), Gaps = 6/61 (9%)
Query: 342 LIQRNRHALIGRAMDDHDM---EKILHFLKNDPVVDALYDCKSEVIGPGF---FRFKAEI 395
+ N + + E+I+ ++ D + +VI G ++K ++
Sbjct: 73 FKKDNPEIFTQKGELKANFKQAEEIIARIERDEYFMKYMSGQKQVIMTGELFGAKWKIKM 132
Query: 396 D 396
D
Sbjct: 133 D 133
>2fxu_A Alpha-actin-1, actin, alpha skeletal muscle; actin complexed to
bistramide A, structural protein; HET: HIC ATP BID;
1.35A {Oryctolagus cuniculus} SCOP: c.55.1.1 c.55.1.1
PDB: 1h1v_A* 1kxp_A* 1lot_B* 1m8q_7* 1ma9_B* 1mvw_1*
1nwk_A* 1o18_1* 1o19_1* 1o1a_1* 1o1b_0* 1o1c_0* 1o1d_0*
1o1e_1* 1o1f_0* 1o1g_1* 1j6z_A* 1qz6_A* 1rdw_X* 1rfq_A*
...
Length = 375
Score = 27.7 bits (62), Expect = 9.6
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 451 DRLEKEIQDLVPGIRHVDIEAH 472
DR++KEI L P + I A
Sbjct: 311 DRMQKEITALAPSTMKIKIIAP 332
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
0.322 0.136 0.406
Gapped
Lambda K H
0.267 0.0785 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,523,543
Number of extensions: 473431
Number of successful extensions: 1062
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1058
Number of HSP's successfully gapped: 16
Length of query: 480
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 383
Effective length of database: 3,993,456
Effective search space: 1529493648
Effective search space used: 1529493648
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 (21.9 bits)
S2: 59 (26.4 bits)