RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13892
(628 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 = 53.3 bits (127), Expect = 2e-07
Identities = 80/498 (16%), Positives = 145/498 (29%), Gaps = 136/498 (27%)
Query: 157 DTLSLKFHYEYKQGIICKRLLLSVLASFF-------DILGLWTPIIMSLKLLVQSAWIQK 209
D + + Y+YK +LSV F D+ + I+ K
Sbjct: 8 DFETGEHQYQYKD-------ILSVFEDAFVDNFDCKDVQDMPKSIL------------SK 48
Query: 210 KEWDDELDSKD-KEKFLEIVDSMNFVSNIPVARYFDVPNNHDDQSVRYELHAFSDACSYS 268
+E D + SKD L + ++ V ++ + + + + + S
Sbjct: 49 EEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMM 108
Query: 269 YASVVYLRSVSHSGDIRTNIVFAKSRVAPTNKPTLPRLELL----GALIAYRSLKFV--- 321
+ R + N VFAK V RL+ AL+ R K V
Sbjct: 109 TRMYIEQRDRLY----NDNQVFAKYNV--------SRLQPYLKLRQALLELRPAKNVLID 156
Query: 322 ------KNSLHINI---DKCYLWIDNQCVIHWLT-GNKVLPTFVNNRVKEIKASVFPIVY 371
K + +++ K +D + I WL N N + + + ++Y
Sbjct: 157 GVLGSGKTWVALDVCLSYKVQCKMDFK--IFWLNLKNC-------NSPETVLEMLQKLLY 207
Query: 372 KYIPTDSNPADLACRGSSAVDLQGNKL-----WWEGP-GFLAL------GTWPDFPFQCK 419
+ P ++ +D + + +L L L W F CK
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK 267
Query: 420 SICEEVTVDNGH--DEVNLVSKCEEKLQPIS-PLNIDEQRYSSFKKLVNVTCYVKKFINL 476
+ +T D ++ + L S L DE + S K ++ + +L
Sbjct: 268 IL---LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK-SLLLKYLDC-----RPQDL 318
Query: 477 CRKRSEFKG--PISLEEFSGSKTEWLKYAQEKYFPSTVEKLKQGLSDPIATQLGLELNDE 534
E P L + + +T + K D + T + LN
Sbjct: 319 ---PREVLTTNPRRLSIIA---------ESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366
Query: 535 GLLICKGRFRELRYDGRKVFP--ILLPRRCHLTNIIVTDVHRACFHNGASQTLATLRLDY 592
+ F L VFP +P + L+ +
Sbjct: 367 EPAEYRKMFDRL-----SVFPPSAHIP----------------------TILLSLI---- 395
Query: 593 WITQGRSAVKQILKSCVN 610
W +S V ++
Sbjct: 396 WFDVIKSDVMVVVNKLHK 413
Score = 51.8 bits (123), Expect = 7e-07
Identities = 78/513 (15%), Positives = 139/513 (27%), Gaps = 171/513 (33%)
Query: 150 MLWDTQEDTLSLK-----FHYEYKQGIICKR---LLLSVLAS--FFDILGLWTPIIMSLK 199
M ++T E K F + CK + S+L+ I+ + +L+
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 200 LLVQSAWIQKKEWDDELDSKDKE---KFLEIVDSMNFVSNIPVARYFDVPNNHDDQSVRY 256
L W L SK +E KF+E V +N+ ++ + Y
Sbjct: 67 LF----WT--------LLSKQEEMVQKFVEEVLRINY--KFLMSPIKTEQRQPSMMTRMY 112
Query: 257 ELHAFSDACSYSYASVVYLRSVSHSGDIRTNIVFAKSRVAPTNKPTLPRLELLGALIAYR 316
+Y N VFAK V RL+ L +
Sbjct: 113 I----------EQRDRLY----------NDNQVFAKYNV--------SRLQPYLKLR--Q 142
Query: 317 SLKFVKNSLHINIDKCYLWIDNQCVIHWLTGN-K-VLPTFVNNRVKEIKASVFPIVYKYI 374
+L ++ + ++ +I + G+ K +
Sbjct: 143 ALLELRPAKNV-------------LIDGVLGSGKTWV----------------------- 166
Query: 375 PTDSNPADLACRGSSAVDLQGNKLWWEGPGFLALGTWPDFPFQCKSICEEVTVDNG---H 431
A C K++W L L C S + +
Sbjct: 167 ------ALDVCLSYKVQCKMDFKIFW-----LNLK-------NCNSPETVLEMLQKLLYQ 208
Query: 432 DEVNLVSKCEEKLQPISPLNIDEQRYSSFKK--------LV--NV--TCYVKKFINLCRK 479
+ N S+ + ++ + K LV NV F C+
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK- 267
Query: 480 RSEFKGPISLEEFSGSKTEWLKYAQEKYFPSTVEKLKQGLSDPIATQLGLELNDEGLLIC 539
I L T++L A + ++ L+ L LL
Sbjct: 268 -------ILLTTRFKQVTDFLSAATTTHIS--LDHHSMTLTPD----EVKSL----LLKY 310
Query: 540 KG-RFRELRYDGRKVFPILLPRRCHLTNIIVTDVHRACFHNGASQTLATLRLDYWITQGR 598
R ++L + P L +II +G + D W
Sbjct: 311 LDCRPQDLPREVLTTNPRRL-------SIIA-----ESIRDGLA------TWDNWKHVNC 352
Query: 599 SAVKQILKSCVNC---KRFRQGPYKQPEFSFYP 628
+ I++S +N +R+ + S +P
Sbjct: 353 DKLTTIIESSLNVLEPAEYRK-MFD--RLSVFP 382
Score = 48.7 bits (115), Expect = 5e-06
Identities = 64/477 (13%), Positives = 137/477 (28%), Gaps = 132/477 (27%)
Query: 70 HLDKYSGD----YIDQLKNNI--YMDNILCGVNNEEEIENFVGTARKVFSDASLN--LRE 121
H+D +G+ Y D L ++DN C +++++ + + S ++ +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDC-----KDVQDMP---KSILSKEEIDHIIMS 57
Query: 122 WASNYPSV------LIGTLSPELVNTSRVQNTLGMLWDTQEDTLSLKFHYEYKQGIICKR 175
L TL VQ + + L E +Q + R
Sbjct: 58 -----KDAVSGTLRLFWTL--LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTR 110
Query: 176 LLLSVLASFFDILGLWTPI-IMSLKLLVQSAWIQKKEWDDELDSKDKEKFLEIVDSM--- 231
+ + ++ ++ + L+ ++ +++ L K + ++D +
Sbjct: 111 MYIEQRDRLYNDNQVFAKYNVSRLQPYLK---LRQA-----LLELRPAKNV-LIDGVLGS 161
Query: 232 -------NFVSNIPVARYFD-------VPNNHDDQSVRYELHAFSDACSYSYASVVYLRS 277
+ + V D + N + ++V L +
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL-----LYQIDPNWTSR 216
Query: 278 VSHSGDIRTNIVFAKSRVAPTNKPTLPRLELLGALIAYRSLKFVKNSLHINIDKCYLWI- 336
HS +I+ I ++ L L+ + +N L + ++
Sbjct: 217 SDHSSNIKLRIHSIQAE--------------LRRLLKSKPY---ENCLLVLLNVQNAKAW 259
Query: 337 ---DNQCVIHWLTGNKVLPTFVNNRVKEIKASVFPIVYKYIPTDSNPADLACRGSSAVDL 393
+ C K+L T R K++ + +I D + L L
Sbjct: 260 NAFNLSC--------KILLT---TRFKQVTDFLSAATTTHISLDHHSMTLT--PDEVKSL 306
Query: 394 QGNKLWWEGPGFL---ALGTWPDFPFQCKSICEEV-----TVDN----GHDEVN-LVSKC 440
L P L L T P + I E + T DN D++ ++
Sbjct: 307 LLKYL-DCRPQDLPREVLTT---NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 441 EEKLQPISPLNIDEQRYSS---FKKLVNVTCYV-------------KKFINLCRKRS 481
L+P + + F ++ + +N K S
Sbjct: 363 LNVLEP----AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS 415
Score = 38.3 bits (88), Expect = 0.009
Identities = 66/504 (13%), Positives = 140/504 (27%), Gaps = 169/504 (33%)
Query: 9 DIEKAFLNVGLNEGERDYTRILWVKDVAKPLD-SDNVVVLRHTRLPFGVVSSPFLLSCVI 67
++ + F+ L +Y + L + S + R + F V
Sbjct: 77 EMVQKFVEEVL---RINY-KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132
Query: 68 RTHLDKYSGDYIDQLKNNIY----MDNIL------CG--------VNNEEEIENFVG--- 106
R +L+ + N+L G + +
Sbjct: 133 RLQP-------YLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Query: 107 --TARKVFSDASL-----NL-REWASNYPSVLIGTLSPELVNTSRVQNTLGMLWDTQEDT 158
+ S ++ L + N+ S + + +L +Q L L ++
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL-RIHSIQAELRRLLKSKPYE 244
Query: 159 LSL-------------KFHYEYKQGIICKRLLLSVLASFFDILG--LWTPIIM------- 196
L F + CK LL + D L T I +
Sbjct: 245 NCLLVLLNVQNAKAWNAF------NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 197 ----SLKLLVQSAWIQKKE--------------------------WD------------- 213
LL++ + ++ WD
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI 358
Query: 214 -----DELDSKD-KEKFLEIV---DSMNFVSNIP---VARYFDVPNNHDDQSVRYELHAF 261
+ L+ + ++ F + S ++IP ++ + D V +LH +
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVFPPS----AHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 262 S----DACSYSYASV--VYLRSVSHSGDIRT---NIV--FAKSRVAPTNKPTLPRLELLG 310
S + S+ +YL + +IV + + ++ P L+
Sbjct: 415 SLVEKQPKESTI-SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD--Q 471
Query: 311 ---ALIAYRSLKFVKNSLHINI-DKCYL---WIDNQCVIH----WLTGNKVLPTFVNNRV 359
+ I + LK +++ + + +L +++ + + H W +L T +
Sbjct: 472 YFYSHIGHH-LKNIEHPERMTLFRMVFLDFRFLEQK-IRHDSTAWNASGSILNTLQQLK- 528
Query: 360 KEIKASVFPIVYK-YIPTDSNPAD 382
YK YI D++P
Sbjct: 529 ----------FYKPYI-CDNDPKY 541
>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 = 51.6 bits (123), Expect = 8e-07
Identities = 87/644 (13%), Positives = 175/644 (27%), Gaps = 219/644 (34%)
Query: 15 LNVGLNEGERDYTRILWVKDVAKPLDSDNVVVLRHT---RLPFGVVSSPFLLSCVIRTHL 71
LN+ L E E Y L D+ H +L ++ +I+ +
Sbjct: 84 LNLCLTEFENCY---LEGNDI-------------HALAAKLLQENDTTLVKTKELIKNY- 126
Query: 72 DKYSGDYIDQLKNNIYMDNILCGVNNEEEIENFV-----GTARKVFSDASLNLREWASNY 126
+ + + + ++ L E + G F + LR+ Y
Sbjct: 127 --ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE----LRDLYQTY 180
Query: 127 PSVLIGTLSPELVNTSRVQNTLGMLWDTQEDTLSLKFHYEYKQGIICKRLLLSVLASFFD 186
++ +L+ S L + TL + + QG +
Sbjct: 181 HVLVG-----DLIKFSA-----ETLSELIRTTLDAEKVFT--QG--------------LN 214
Query: 187 ILGLWTPIIMSLKLLVQSAWIQKKEWDDELDSKDKEKFLEIVDSMNFVSNIPVARYFDVP 246
IL W++ ++ DK+ ++ +IP++ P
Sbjct: 215 IL----------------EWLENPS-----NTPDKD----------YLLSIPIS----CP 239
Query: 247 NNHDDQSVRYELHAFSDACSYSYASVV-YLRSVS-HSGDIRTNIVFAKSRVAPTNKPTLP 304
Q Y + ++ + YL+ + HS + T + A++ +
Sbjct: 240 LIGVIQLAHYV--VTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWES------ 291
Query: 305 RLELLGALIAYRSLKFVKNSLHINIDKCYLWIDNQCVIHWLTGNKVLPTFVNNRVKEIKA 364
F + +I +C + N LP
Sbjct: 292 ---------------FFVSVR--KAITVLFFIGVRC--YEAYPNTSLP------------ 320
Query: 365 SVFPIVYKY-------IPTDSNPADLACRGSSAVDLQGNKLWWEGPGFLALGTWPDFPFQ 417
P + + +P+ P L+ + +Q
Sbjct: 321 ---PSILEDSLENNEGVPS---PM-LSISNLTQEQVQ----------------------- 350
Query: 418 CKSICEEVTVDNGHDEVNLVSKCEEKLQPISPLNIDEQRYSSFKKLVNVTCYVKKFINLC 477
+ ++ N ++++ IS +N K LV V+ + L
Sbjct: 351 -DYV----------NKTNSHLPAGKQVE-ISLVN-------GAKNLV-VSGPPQSLYGLN 390
Query: 478 RKRSEFKGPISLEEFSGSKTEWLKYAQEK------YFPSTV---EKLKQGLSDPIATQL- 527
+ K P L++ S+ +++ K + P L SD I L
Sbjct: 391 LTLRKAKAPSGLDQ---SRI---PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLV 444
Query: 528 --GLELNDEGLLI-----CKGR-FRELRYD-GRKVFPILLPRRCHLTNIIVTDV-HRACF 577
+ N + + I G R L ++ ++ H F
Sbjct: 445 KNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDF 504
Query: 578 HNGASQTLATLRLDYWITQGRSAVKQILKSCVNCKRFRQGPYKQ 621
G + L L G V+ I+ ++ +KQ
Sbjct: 505 GPGGASGLGVLTHR--NKDGTG-VRVIVAGTLDINPDDDYGFKQ 545
Score = 34.3 bits (78), Expect = 0.17
Identities = 29/191 (15%), Positives = 57/191 (29%), Gaps = 83/191 (43%)
Query: 3 RCALIGDIEKAFLNVGLNEGERDYTRILWVKDVAKPL--DSDNVVV-------------L 47
+ + + K N L G++ ++ L + N+VV L
Sbjct: 346 QEQVQDYVNK--TNSHLPAGKQVE--------IS--LVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 48 RH---------TRLP-----------FGVVSSPFLLSCVIRTHLDKYSGDYIDQLKNNIY 87
R +R+P F V+SPF H D + ++
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPF--------H-SHLLVPASDLINKDLV 444
Query: 88 MDNILCGVNNEEEIENFVGTARK--VFS--DASLNLREWASNYPSVLIGTLSPELVNTSR 143
+N+ F + V+ D S +LR + + ++ + +
Sbjct: 445 KNNVS-----------FNAKDIQIPVYDTFDGS-DLRVLSGSISERIV-----DCIIRLP 487
Query: 144 VQNTLGMLWDT 154
V+ W+T
Sbjct: 488 VK------WET 492
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 39.9 bits (92), Expect = 6e-04
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 8/33 (24%)
Query: 357 NRVKEIKASVFPIVYK-YIPTDSNPADLACRGS 388
+K+++AS+ K Y DS PA LA + +
Sbjct: 20 QALKKLQASL-----KLYAD-DSAPA-LAIKAT 45
>3hph_A Integrase, IN; protein-protein complex, tetramer, DNA integration,
endonucl magnesium, metal-binding, multifunctional
enzyme; 2.64A {Maedi visna virus} PDB: 3hpg_A
Length = 219
Score = 32.9 bits (75), Expect = 0.22
Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 577 FHNGASQTLATLRLDYWITQGRSAVKQILKSCVNCKRFRQGPYKQP 622
+H A +L L++ I R+A + I++ C C+ + +
Sbjct: 15 WHQDAV----SLHLEFGIP--RTAAEDIVQQCDVCQENKMPSTLRG 54
>1k6y_A Integrase; HIV-1, domain organization, transferase; 2.40A {Human
immunodeficiency virus 1} SCOP: a.4.10.1 c.55.3.2 PDB:
1wjb_A 1wjd_A 1wjf_A 1wja_A 1wjc_A 1wje_A
Length = 212
Score = 32.2 bits (73), Expect = 0.38
Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 2/51 (3%)
Query: 578 HNGASQTLATLRLDYWITQGRSAVKQILKSCVNCKRFRQGPYKQPEFSFYP 628
H + D+ + K+I+ SC C+ + + Q + S
Sbjct: 12 HEKYHSNWRAMASDFNLP--PVVAKEIVASCDKCQLKGEAMHGQVDCSPGI 60
>3f9k_A Integrase; protein-protein complex, AIDS, DNA integration,
endonuclease magnesium, metal-binding, multifunctional
enzyme; 3.20A {Human immunodeficiency virus type 2} PDB:
1e0e_A
Length = 210
Score = 32.0 bits (72), Expect = 0.41
Identities = 9/51 (17%), Positives = 17/51 (33%), Gaps = 2/51 (3%)
Query: 578 HNGASQTLATLRLDYWITQGRSAVKQILKSCVNCKRFRQGPYKQPEFSFYP 628
H + L + I +QI+ SC C++ + + Q
Sbjct: 13 HEKYHSNVKELSHKFGIP--NLVARQIVNSCAQCQQKGEAIHGQVNAELGT 61
>3nnq_A Integrase P46, N-terminal domain of moloney murine leukemia VIRU
integrase; retroviral integrase, Zn finger; 2.69A
{Moloney murine leukemia virus}
Length = 114
Score = 30.6 bits (68), Expect = 0.49
Identities = 14/69 (20%), Positives = 26/69 (37%), Gaps = 10/69 (14%)
Query: 548 YDGRKVFPILLPRRCHLTNIIVTDVHRACFHNGASQTLATLR---LDYWITQGRSAVKQI 604
Y G+ V P ++ +H+ H S+ A L Y++ +K I
Sbjct: 39 YQGKPVMPDQFTFE------LLDFLHQLT-HLSFSKMKALLERSHSPYYMLNRDRTLKNI 91
Query: 605 LKSCVNCKR 613
++C C +
Sbjct: 92 TETCKACAQ 100
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse
transcriptase, transferase, replication; 3.00A {Moloney
murine leukemia virus} SCOP: e.8.1.2
Length = 455
Score = 30.4 bits (69), Expect = 1.9
Identities = 19/96 (19%), Positives = 34/96 (35%), Gaps = 14/96 (14%)
Query: 9 DIEKAFLNVGLNEGERDYTRILWVKDVAKPLDSDNVVVLRHTRLPFGVVSSP--F--LLS 64
D++ AF + L+ + W L TRLP G +SP F L
Sbjct: 131 DLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQ-----LTWTRLPQGFKNSPTLFDEALH 185
Query: 65 CVIRTHLDKYSGDYIDQLKNNIYMDNILCGVNNEEE 100
+ ++ + Y+D++L +E +
Sbjct: 186 RDLADFRIQHPDLILL-----QYVDDLLLAATSELD 216
>4e3a_A Sugar kinase protein; structural genomics, protein structure
initiative, nysgrc, S kinase, PSI-biology; HET: ADN;
1.63A {Rhizobium etli} PDB: 3ubo_A*
Length = 352
Score = 28.0 bits (63), Expect = 9.3
Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 14/68 (20%)
Query: 58 SSPFLLSCVIRTHLDKYSGDYIDQLKNNIYMDNILCGVNNEEEIENFVGTARKVFSDASL 117
S F CV D+Y G+++D +++ +D + N +E + T F +A
Sbjct: 210 SDSF---CV-----DRYRGEFLDLMRSG-KVDIVFA---NRQEALSLYQT--DDFEEALN 255
Query: 118 NLREWASN 125
+
Sbjct: 256 RIAADCKI 263
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
0.321 0.138 0.426
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,598,520
Number of extensions: 566820
Number of successful extensions: 985
Number of sequences better than 10.0: 1
Number of HSP's gapped: 980
Number of HSP's successfully gapped: 13
Length of query: 628
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 529
Effective length of database: 3,937,614
Effective search space: 2082997806
Effective search space used: 2082997806
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: 60 (26.9 bits)