RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 009178
(541 letters)
>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 = 57.9 bits (139), Expect = 6e-09
Identities = 67/442 (15%), Positives = 128/442 (28%), Gaps = 111/442 (25%)
Query: 54 SAALSRFKTRPGASSGIL---LGAVTLPTVMISKLIQLTRAYSLQQIELQELEHMTMQYW 110
+K + I L P ++ L +L Y + +H +
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL--YQIDPNWTSRSDHSSNIKL 225
Query: 111 ATSASCFGVLIFL-------CLVVLSTPNTKRFPRSFSVWDATLSIFCVASYAVTCCVSL 163
+ + L CL+VL +V +A ++ ++C + L
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLVLL-----------NVQNAK----AWNAFNLSCKILL 270
Query: 164 AAISHTGSNTVLKLMWELYHGLVAVMLIQRLLDKFPSCASIGELLLVTVGLVLYFGDML- 222
T V + +++ L LLL + L
Sbjct: 271 T----TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK----SLLLKYLDCRP---QDLP 319
Query: 223 --ACTIAKGVVLGLLLFPLLLKYALHLSEGYFNKRYSEARRSNEIRTSL--L-------F 271
T L + ++ L + + K + + + I +SL L
Sbjct: 320 REVLTTNP---RRLSIIAESIRDGLATWDNW--KHVNCDKLTTIIESSLNVLEPAEYRKM 374
Query: 272 FSSLG-FILVVIIPS------W--------MQIVQDFHVHPLL--WVLTFVFSEPLKRLS 314
F L F IP+ W M +V H + L+ S P L
Sbjct: 375 FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434
Query: 315 LCIYWVSL--IFASVLRFYNISKNSKIERIL---LRKY------YHLLAVLMFVPALIFQ 363
L + + + S++ YNI K + ++ L +Y +HL + +F+
Sbjct: 435 LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR 494
Query: 364 PKFLHLAF---------------GAALAVFLVLEIMRVW----------RIWPLGQFIHQ 398
FL F G+ L L+ + + + + F+ +
Sbjct: 495 MVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPK 554
Query: 399 FMTAFTDHRDSDLLIVSHFSLL 420
+ +DLL +L+
Sbjct: 555 IEENLICSKYTDLL---RIALM 573
Score = 50.6 bits (120), Expect = 1e-06
Identities = 65/399 (16%), Positives = 118/399 (29%), Gaps = 139/399 (34%)
Query: 20 CRVL-----------------YSLPLSLLCPGLNLA-ILSLFALFLDIRLDDSAALSR-- 59
C++L + L L + SL +LD R D L R
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD---LPREV 322
Query: 60 FKTRPGASSGILLGAVTLPTVMISKLIQ--LTRAYSLQQIELQELEHMTMQYWATSASCF 117
T P S +I++ I+ L + + + +L +
Sbjct: 323 LTTNPRRLS------------IIAESIRDGLATWDNWKHVNCDKLTTI------------ 358
Query: 118 GVLIFLCLVVLSTPNTKRFPRSFSVWDATLSIFCVASYAVTCCVSLAAISHTGSNTVLKL 177
I L VL ++ SV+ + I +L L
Sbjct: 359 ---IESSLNVLEPAEYRKMFDRLSVFPPSAHI---------------------PTILLSL 394
Query: 178 MW---------ELYHGLVAVMLIQRLLDKFPSCASIGELLLVTVGLVLYFGDMLACTIAK 228
+W + + L L+++ S SI + L
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEK--QPKESTISIPSIYL------------------- 433
Query: 229 GVVLGLLLFPLLLKYALH--LSEGYFNKRYSEARRSNEIRTSLL---FFSSLGFILVVII 283
L L +YALH + + Y + S+++ L F+S +G L
Sbjct: 434 -----ELKVKLENEYALHRSIVDHY---NIPKTFDSDDLIPPYLDQYFYSHIGHHL---- 481
Query: 284 PSWMQIVQDFHVHPLLWVLTFVFSEP-LKRLSLCIYWVSLIFASV--LRFYN--ISKNSK 338
++ + + +++ L F F E ++ S I ++ L+FY I N
Sbjct: 482 -KNIEHPERMTLFRMVF-LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDP 539
Query: 339 IERILLRKYYHLLAVLMFVPAL---IFQPKF---LHLAF 371
L+ F+P + + K+ L +A
Sbjct: 540 KYERLVNAILD------FLPKIEENLICSKYTDLLRIAL 572
Score = 38.3 bits (88), Expect = 0.007
Identities = 43/314 (13%), Positives = 91/314 (28%), Gaps = 91/314 (28%)
Query: 252 FNKRYSEARRS--NEIRTSLLFFSSLGFILVVIIP----SWM--QIVQDFHVHPLLWVLT 303
F K Y+ +R ++R +LL +L+ + +W+ + + V
Sbjct: 126 FAK-YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ-----CK 179
Query: 304 FVFSEPLKRLSLCIYWVSLIFASVLRFYNISKNSKIERILLRKYYHLLAVLMFVPALIFQ 363
F I+W++L N + + +L + Y +
Sbjct: 180 MDFK---------IFWLNLK--------NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222
Query: 364 PKFLHLAFGAALAVFLV-------LEIMR-VWRIWPLGQFIHQFMTAFT--DHRDSDLLI 413
K + A L L L ++ V F T + +D L
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLS 282
Query: 414 VSH---------------------FSLLLGCA---LPIWMSSGFNDRPLAPFAGILSLGI 449
+ L C LP + + P LS+ I
Sbjct: 283 AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN---PRR-----LSI-I 333
Query: 450 GDTMASIVGYKYGVLRWSKTGKKTIEGTAAGITSVLAAC-SILLPLLASTGY----IFTE 504
+++ + G+ W + +T+++ + ++L P + +F
Sbjct: 334 AESI------RDGLATWDNWKHVNCD----KLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 505 HWFSLILAVTVSSL 518
+ I + +S +
Sbjct: 384 S--AHIPTILLSLI 395
>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 = 53.5 bits (128), Expect = 2e-07
Identities = 86/517 (16%), Positives = 135/517 (26%), Gaps = 200/517 (38%)
Query: 55 AALSRFKTRPGASSGILLGAVTLPTVMISKLI-----Q-LTRAYSLQQIELQELEHMTMQ 108
R + S+ L AV +L+ Q T Y + EL++L
Sbjct: 131 IMAKRPFDKKSNSA--LFRAVGEGNA---QLVAIFGGQGNTDDY-FE--ELRDL------ 176
Query: 109 YWATSASCFGVLIFLC------LVVLSTPNTKRFPRSFSV--W--------------DAT 146
+ T G LI L+ + K F + ++ W
Sbjct: 177 -YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIP 235
Query: 147 LS---IFCV--ASYAVTC-------------------C----VSLAAISHTGSNTVLKLM 178
+S I + A Y VT V+ AI+ T S
Sbjct: 236 ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS------- 288
Query: 179 WELYHGLVAVMLIQRLL--------DKFPSCASIGELLL--VTVGLVLYFGD---MLACT 225
WE + V + +L + +P+ + +L + G ML+ +
Sbjct: 289 WESFFVSVRKAI--TVLFFIGVRCYEAYPNTSLPPSILEDSLENN----EGVPSPMLSIS 342
Query: 226 IAKGVVLGLLLFPLLLKYALHLSEGYFNKRYSEARRSNEIRTSLLFFSSLGFILVVIIPS 285
L + Y N ++ + SL V
Sbjct: 343 -------NLTQ-EQVQDYV-----NKTNSHLPAGKQ---VEISL-----------VNGAK 375
Query: 286 WMQIVQDFHVHPLLWVLTFVFSEPLKRLSLCIYWVSLIFASVLRFYNISKNSKIE--RIL 343
V S P SL LR S ++ RI
Sbjct: 376 -----------------NLVVSGP--PQSLY------GLNLTLR--KAKAPSGLDQSRIP 408
Query: 344 L--RKYYHLLAVLMFVPALIFQPKFLH---LAFGAALAVFLVLEIMRV-WRIWPLGQFIH 397
RK L F+P + P F H L A+ + L V + + I
Sbjct: 409 FSERK---LKFSNRFLP--VASP-F-HSHLLV-PASDLINKDLVKNNVSFNAKDIQ--IP 458
Query: 398 QFMTAFT--DHRD-SDLLIVSHFSLLLGCALPI-WMSSGFNDRPLAPFAG---ILSLGIG 450
+ T F D R S + + LP+ W IL G G
Sbjct: 459 VYDT-FDGSDLRVLSGSISERIVDCI--IRLPVKW--------ETTTQFKATHILDFGPG 507
Query: 451 DTMASIVGYKYGVLRWSKTGKKTIEGTAAGITSVLAA 487
G + +GT G+ ++A
Sbjct: 508 -----------GASGLGVLTHRNKDGT--GVRVIVAG 531
Score = 49.3 bits (117), Expect = 3e-06
Identities = 54/309 (17%), Positives = 97/309 (31%), Gaps = 66/309 (21%)
Query: 214 LVLYFGDMLACTIAKGVVLGLLLFP-LLLKYALHLSEGYFNKRYSEARRS----NEIRTS 268
L L G L + L P A L E FNK E +E T
Sbjct: 9 LTLSHGS-LEHVL---------LVPTASFFIASQLQEQ-FNKILPEPTEGFAADDEPTTP 57
Query: 269 L-LFFSSLGFILVVIIPSWMQIVQDFHVHPLLWVLTFVFSEPLKRLSLC---IYWVSLIF 324
L LG++ +V+ V VL +E + L I+
Sbjct: 58 AELVGKFLGYV--------SSLVEPSKVGQFDQVLNLCLTE-FENCYLEGNDIH----AL 104
Query: 325 ASVLRFYNISKNSKIERILLRKYYHLLAVLMFVPALIFQPKFLHLAF-GAA--LAVF--- 378
A+ L N + K + ++ + Y + G A +A+F
Sbjct: 105 AAKLLQENDTTLVKTKELI-KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ 163
Query: 379 -----LVLEIMRVWRIWP--LGQFIHQFMTAFTDHRDSDLLIVSHFSLLLGCALPIWMSS 431
E+ +++ + +G I ++ + L F+ G + W+ +
Sbjct: 164 GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT--QGLNILEWLEN 221
Query: 432 GFNDRP----LA------PFAGILSLGIGDTMASIVGYKYGVLRWSKTGKKTIEGTAAGI 481
++ P L P G++ L A ++G+ G LR ++G
Sbjct: 222 P-SNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELR------SYLKGATGHS 274
Query: 482 TSVLAACSI 490
++ A +I
Sbjct: 275 QGLVTAVAI 283
Score = 36.2 bits (83), Expect = 0.036
Identities = 41/252 (16%), Positives = 76/252 (30%), Gaps = 85/252 (33%)
Query: 249 EGYFNKRYSEARRSNEI--RTSLLFFSSLGFILVVIIPSWMQIVQDFHVHPLLWVLTFVF 306
+ Y K A+ ++ R F + GF S + IV + P+ LT F
Sbjct: 1634 DLY--KTSKAAQ---DVWNRADNHFKDTYGF-------SILDIVINN---PV--NLTIHF 1676
Query: 307 SEPLKRLSLCIYWVSLIFASVLRFYNISKNSKIERILLRKYYHLLAVLMFVPA-LIF--- 362
+ + + ++IF +++ K E+I H + L+
Sbjct: 1677 GGEKGK-RIRENYSAMIFETIV-----DGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQ 1730
Query: 363 --QPKFLHLAFGAALAVFLV-LEIMRVWRIWPLGQFIHQFMTAFTDHRDSDLLIVSHFSL 419
QP A+ L+ + + F H SL
Sbjct: 1731 FTQP-----------ALTLMEKAAFEDLKSK----GLIPADATFAGH-----------SL 1764
Query: 420 LLG--CALPIWMSSGFNDRPLAPFAGILSLGIGDTMASIVGYKYGVLRWSKTGKKTIEGT 477
G AL A A ++S+ +++ +V Y R T + +
Sbjct: 1765 --GEYAAL-------------ASLADVMSI---ESLVEVVFY-----R-GMTMQVAVPRD 1800
Query: 478 AAGITSV-LAAC 488
G ++ + A
Sbjct: 1801 ELGRSNYGMIAI 1812
Score = 28.1 bits (62), Expect = 9.2
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 11/44 (25%)
Query: 2 ALSSSMLNGERGVVVLIVCRVLYS-LPLSLLCPGLNLAILSLFA 44
+ S++NG + +VV S P SL GLNL + A
Sbjct: 365 QVEISLVNGAKNLVV--------SGPPQSLY--GLNLTLRKAKA 398
>2jyx_A Lipoprotein SPR; solution structure, construct optimized, membrane,
palmitate, structural genomics, PSI-2, protein structure
initiative; NMR {Escherichia coli K12} PDB: 2k1g_A
Length = 136
Score = 27.6 bits (62), Expect = 5.9
Identities = 9/15 (60%), Positives = 13/15 (86%)
Query: 247 LSEGYFNKRYSEARR 261
++E Y+ KRY+EARR
Sbjct: 108 MNEPYWKKRYNEARR 122
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
0.330 0.142 0.436
Gapped
Lambda K H
0.267 0.0457 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,108,924
Number of extensions: 482914
Number of successful extensions: 873
Number of sequences better than 10.0: 1
Number of HSP's gapped: 863
Number of HSP's successfully gapped: 16
Length of query: 541
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 443
Effective length of database: 3,965,535
Effective search space: 1756732005
Effective search space used: 1756732005
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 60 (27.6 bits)