RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 017826
(365 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 = 74.1 bits (183), Expect = 3e-15
Identities = 38/202 (18%), Positives = 70/202 (34%), Gaps = 31/202 (15%)
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 SLIAVNVTGNAIYDPIGSIIVG 332
+ ++ G D + ++ +G
Sbjct: 161 --LGLSWYGWHRADALFALGIG 180
>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 = 62.0 bits (150), Expect = 1e-10
Identities = 65/424 (15%), Positives = 126/424 (29%), Gaps = 148/424 (34%)
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 TNQFRGFCSVHCSK-------RFVLLGLVSFDN---SGSNQH---------------HKY 114
+F G+ S + + 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----AVNVTGNAIYDPIGSIIVGNLLGMVLF 340
L + SL+ + V+G P S L G+ L
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG-----PPQS-----LYGLNLT 392
Query: 341 FSKI 344
K
Sbjct: 393 LRKA 396
Score = 30.4 bits (68), Expect = 1.2
Identities = 9/52 (17%), Positives = 11/52 (21%), Gaps = 17/52 (32%)
Query: 278 TIRDYIWRGHD----------P----TSVA---VMTEDGAAVTGLVIAGASL 312
Y +R P A + G AG SL
Sbjct: 1713 HSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSL 1764
>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 = 34.8 bits (79), Expect = 0.046
Identities = 42/335 (12%), Positives = 98/335 (29%), Gaps = 92/335 (27%)
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 285
++ ++ I + +G+ D W+
Sbjct: 319 PREVLTTNPRRLSIIAESIR----DGLATWDN-WK 348
>2l8e_A Polyhomeotic-like protein 1; DNA binding protein; NMR {Homo
sapiens}
Length = 49
Score = 29.0 bits (64), Expect = 0.27
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 3/20 (15%)
Query: 79 HTNQFRG---FCSVHCSKRF 95
QFRG FCS+ C+KR+
Sbjct: 29 PAEQFRGSKRFCSMTCAKRY 48
>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 = 29.5 bits (65), Expect = 1.8
Identities = 20/91 (21%), Positives = 32/91 (35%), Gaps = 5/91 (5%)
Query: 276 GMTIRDYIWRGHDPTSVAVMTEDGAAVTGLVIAGASLIAVNVTGNAI----YDPIGS-II 330
G + D W P+ VAV DG+ V + A + A+ + P G +
Sbjct: 149 GGMVIDMKWNPTVPSMVAVCLADGSIAVLQVTETVKVCATLPSTVAVTSVCWSPKGKQLA 208
Query: 331 VGNLLGMVLFFSKIINSLIHALESPEVGNLH 361
VG G V+ + + P + H
Sbjct: 209 VGKQNGTVVQYLPTLQEKKVIPCPPFYESDH 239
>3tth_A Spermidine N1-acetyltransferase; central intermediary metabolism;
3.30A {Coxiella burnetii}
Length = 170
Score = 26.8 bits (60), Expect = 8.7
Identities = 11/68 (16%), Positives = 21/68 (30%), Gaps = 10/68 (14%)
Query: 29 ERKDLDLMRT------SWRFLSRLLHSSKRTAVLNPSSPFNVFINDNNGKFFSILEHTNQ 82
ER+DL + + + S R I+D + + F I + +
Sbjct: 13 EREDLKFVHELNNNLSIMSYWFEEPYESYRELEDL----HIKHIHDQSERRFIIKDLKDN 68
Query: 83 FRGFCSVH 90
G +
Sbjct: 69 KVGLVELT 76
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
0.323 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: 5,548,701
Number of extensions: 336682
Number of successful extensions: 677
Number of sequences better than 10.0: 1
Number of HSP's gapped: 675
Number of HSP's successfully gapped: 11
Length of query: 365
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 270
Effective length of database: 4,049,298
Effective search space: 1093310460
Effective search space used: 1093310460
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 58 (26.0 bits)