RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11598
(457 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 = 71.4 bits (174), Expect = 2e-13
Identities = 71/475 (14%), Positives = 141/475 (29%), Gaps = 138/475 (29%)
Query: 41 SLLAECGQPTLQVRRNIRCVNYMSNVARNPNHPCYLQELDKLNVV---HHTALRIVTGAF 97
+ E QP++ R I + + N Q K NV + LR
Sbjct: 97 PIKTEQRQPSMMTRMYIEQRDRLYNDN---------QVFAKYNVSRLQPYLKLRQALLEL 147
Query: 98 RTSPIVSL--LAECGQPTL--QVRRNIRCVNYMSN-----VARNPNHPCYLLLFNDKLRI 148
R + V + + G+ + V + + M +N N P +L KL
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
Query: 149 NIRSEKYPLNIRLRAEAMDDYKLEVRCVIKQQKEEPQWLLHQPRYP--LNIRLR------ 200
I N R++ + KL I + E + LL Y L + L
Sbjct: 208 QIDP-----NWTSRSDHSSNIKLR----IHSIQAELRRLLKSKPYENCLLV-LLNVQNAK 257
Query: 201 -AEAMDDYKLEVRC---VIKQQK----------------EEPQWLLHQPKVTMLIS---G 237
A + + C + + K + L +V L+
Sbjct: 258 AWNAFN-----LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312
Query: 238 KKDEELPSE---INNKYL----EFKNENKNKILCYTDGSKNDNFTGGAYILNETIEQFQL 290
+ ++LP E N + L E + DN+ +
Sbjct: 313 CRPQDLPREVLTTNPRRLSIIAESIRDGLATW---------DNW-----------KHVNC 352
Query: 291 NQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVIC-SDSKSSLQALKFNLNDSFKRWE 349
+++ +I I+ LN + F + + L + W
Sbjct: 353 DKLTTI-------IESSLNVLEPAEYRK-MFDRLSVFPPSAHIPTILLSL-I------WF 397
Query: 350 EIWTQNA-VLGRQLRQIKTDVRKWKSSNR----NIRQEEVVLCRLRIGHCLATHKHLLER 404
++ + V+ +L + + V K + +I E ++++ + A H+ +++
Sbjct: 398 DVIKSDVMVVVNKLHK-YSLVEKQPKESTISIPSIYLEL----KVKLENEYALHRSIVDH 452
Query: 405 KDPPACEFCRQTPV----------YLNHWLTECHALANLRRQHQIGNSMKFILQD 449
+ P F + ++ H H L N+ + + + D
Sbjct: 453 YNIPKT-FDSDDLIPPYLDQYFYSHIGH-----H-LKNI-EHPERMTLFRMVFLD 499
Score = 39.5 bits (91), Expect = 0.003
Identities = 53/352 (15%), Positives = 108/352 (30%), Gaps = 84/352 (23%)
Query: 51 LQVRRNIRCVNYMSNVARNPNH------PC-------YLQELDKLNVVHHTALRIV--TG 95
L+ + C+ + NV +N C + Q D L+ T + + +
Sbjct: 238 LKSKPYENCLLVLLNV-QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 96 AFRTSPIVSLLAEC-GQPTLQVRRNIRCVN--YMSNVARN-PNHPC----YLLLFNDKLR 147
+ SLL + + R + N +S +A + + + + DKL
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT 356
Query: 148 INIRS---EKYPLNIRLRAEAM----DDYKL--EVRCVI--KQQKEEPQWLLHQPRYPLN 196
I S P R + + + + +I K + +++
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN------- 409
Query: 197 IRLRAEAMDDYKLEVRCVIKQQKEEPQWLLHQPKVTMLISGKKDEELPSEINNKYLEFKN 256
KL ++++Q +E + + + + + + L I + Y
Sbjct: 410 -----------KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY----- 453
Query: 257 ENKNKILCYTDGSKN--DNFTGGAYILN------ETIEQFQL-NQIASIYT------AEL 301
N K D D Y + + IE + ++ ++
Sbjct: 454 -NIPKTFDSDDLIPPYLDQ-----YFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507
Query: 302 MAIDLCLNA---ILTYVQNNFCFKDFVICSDSKSSLQALKFNLNDSFKRWEE 350
NA IL +Q +K + IC D+ + L + D + EE
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPY-IC-DNDPKYERLVNAILDFLPKIEE 557
>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 = 46.2 bits (109), Expect = 2e-05
Identities = 75/528 (14%), Positives = 141/528 (26%), Gaps = 200/528 (37%)
Query: 10 TLRDTWCIP-CLVVHHTALR--------IVTGAFR-----TSPIVSLLAECGQPTLQVRR 55
+L +P + L+ T F T+P L+ +
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTP-AELVGK---------- 63
Query: 56 NIRCVNYMSNVARNPNHPCYLQELDKLNVVHHTA-LRIVTGAFRT---------SPIVSL 105
++ V+ ++ V L + F + L
Sbjct: 64 ------FLGYVSS---------LVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKL 108
Query: 106 LAECGQPTLQVRRNIRCVNY-----MSNVARNPNHPCYLL------------LFN----- 143
L E ++ + I+ NY M+ + L +F
Sbjct: 109 LQENDTTLVKTKELIK--NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNT 166
Query: 144 ----DKLRINIRSEKYPLNIRLRAEAMDDYKLEVRCVIKQQKEEPQWLLHQPRYPLNIRL 199
++LR + Y Y + V +IK E L+ L
Sbjct: 167 DDYFEELR-----DLY-----------QTYHVLVGDLIKFSAETLSELIRTT-------L 203
Query: 200 RAEAMDDYKLEVRCVIKQQKEEP--QWLLHQPKVTM-LISGKKDEELPSEINNKYLEFKN 256
AE + L + ++ P +LL P ++ LI + + Y+
Sbjct: 204 DAEKVFTQGLNILEWLENPSNTPDKDYLLSIP-ISCPLIG------VIQLAH--YVVTA- 253
Query: 257 ENKNKILCYTDGSKNDNFTGGAYILNETIEQFQLNQIASIYTAELMA--------IDLCL 308
K+L +T G G + TA +A
Sbjct: 254 ----KLLGFTPGELRSYLKGA------------TGHSQGLVTAVAIAETDSWESFFVSVR 297
Query: 309 NAI--LTYV----QNNFC--------FKD------------FVICSDSKSSLQALKFNLN 342
AI L ++ + +D I + ++ +Q N
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 343 DSFKRWEEIW------TQNAVL-G--RQLRQIKTDVRKWKSSNRNIRQEEVVLC--RLRI 391
+++ +N V+ G + L + +RK K+ + + Q + +L+
Sbjct: 358 SHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPS-GLDQSRIPFSERKLKF 416
Query: 392 GHC-LAT----HKHLLERKDPPACEFCRQ---------------TPVY 419
+ L H HLL PA + + PVY
Sbjct: 417 SNRFLPVASPFHSHLLV----PASDLINKDLVKNNVSFNAKDIQIPVY 460
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO
enzyme, structural genomics, protein structure
initiative; NMR {Desulfitobacterium hafniense dcb-2}
PDB: 2kw4_A
Length = 147
Score = 34.6 bits (80), Expect = 0.022
Identities = 14/84 (16%), Positives = 23/84 (27%), Gaps = 15/84 (17%)
Query: 257 ENKNKILCYTDGSKNDNFTGGAYIL---NETIEQFQLNQIASIYT------AELMAIDLC 307
+++ + YTDGS + AY + + E+ A
Sbjct: 2 DDRTEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAA--- 58
Query: 308 LNAILTYVQNNFCFKDFVICSDSK 331
L A+ Q I D
Sbjct: 59 LYAVKKASQLG---VKIRILHDYA 79
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV,
RNAse H, reverse transcriptase, transcription; 1.50A
{Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A
3v1r_A* 2hb5_A
Length = 165
Score = 31.7 bits (72), Expect = 0.23
Identities = 20/73 (27%), Positives = 26/73 (35%), Gaps = 15/73 (20%)
Query: 265 YTDGSKNDNFTG----GAYIL--NETIEQFQLNQIASIYTAELMAIDLCLNAILTYVQNN 318
YTDGS G GA + E I L S AEL+A+ L
Sbjct: 27 YTDGSSFLQ-EGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEG----- 80
Query: 319 FCFKDFVICSDSK 331
K + +DS+
Sbjct: 81 ---KKLNVYTDSR 90
>3cyg_A Uncharacterized protein; PSI-II, 10495J, fervibacterium nodosum,
structural genomics, protein structure initiative; 2.61A
{Fervidobacterium nodosum rt17-b1}
Length = 222
Score = 30.0 bits (67), Expect = 1.5
Identities = 7/64 (10%), Positives = 22/64 (34%), Gaps = 1/64 (1%)
Query: 235 ISGKKDEELPSEINNKYLEFKNENKNKILCYTDGSKNDNFTGGAYILNETIE-QFQLNQI 293
+ KD + N++ E + N++ + + Y +++ +++
Sbjct: 29 LKYLKDSNFEEKFNSEVEEKIKKFVNEVKGIAQEDHDKDVQHTPYEAYVSVDVRYEGKDF 88
Query: 294 ASIY 297
S
Sbjct: 89 LSFV 92
>3rg0_A Calreticulin; beta-sandwich, chaperone, monoglucosylated proteins
binding, carbohydrate binding, calcium binding,
endoplasmic reticulu; 2.57A {Mus musculus}
Length = 332
Score = 29.6 bits (66), Expect = 1.9
Identities = 25/146 (17%), Positives = 59/146 (40%), Gaps = 18/146 (12%)
Query: 216 KQQKEEPQWLLHQPKVTMLISGKKDEELPSE-----INNKYLEFKNENKNKILCYTDGSK 270
K + + +++L K + K + + ++ K+ F N+ + ++ +T +
Sbjct: 27 KHKSDFGKFVLSSGKFYGDLEKDKGLQTSQDARFYALSAKFEPFSNKGQTLVVQFTVKHE 86
Query: 271 NDNFTGGAYI--LNETIEQFQLNQIASIYTAELM-AIDLC------LNAILTYV-QNNFC 320
+ GG Y+ ++Q ++ S Y +M D+C ++ I Y +N
Sbjct: 87 QNIDCGGGYVKLFPSGLDQKDMHG-DSEYN--IMFGPDICGPGTKKVHVIFNYKGKNVLI 143
Query: 321 FKDFVICSDSKSSLQALKFNLNDSFK 346
KD D + L L +++++
Sbjct: 144 NKDIRSKDDEFTHLYTLIVRPDNTYE 169
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 29.8 bits (67), Expect = 2.2
Identities = 13/38 (34%), Positives = 17/38 (44%), Gaps = 13/38 (34%)
Query: 328 SDSKSSLQALKFNLNDSFKRWE-EIWTQN-----AVLG 359
S+SK SL+ L F RW E W A++G
Sbjct: 641 SESKLSLETL-------FNRWHSESWANQLTVCGAIIG 671
>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 = 28.8 bits (63), Expect = 2.6
Identities = 8/35 (22%), Positives = 12/35 (34%), Gaps = 9/35 (25%)
Query: 253 EFKN-ENKNKILCYTDGSKNDNFTGGAYILNETIE 286
K + K+ Y D S A + T+E
Sbjct: 21 ALKKLQASLKL--YADDS------APALAIKATME 47
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 3.2
Identities = 15/93 (16%), Positives = 31/93 (33%), Gaps = 23/93 (24%)
Query: 178 KQQKEEP----QWLLHQPRYPLNIRLRAEAMDDYKLEVRCVIKQQKEEPQWLLHQPKVTM 233
+ +EP +W + ++ A + E R K +K+ +W Q
Sbjct: 78 DRLTQEPESIRKW---REEQRKRLQELDAASKVMEQEWR--EKAKKDLEEWNQRQ----- 127
Query: 234 LISGKKDEELPSEI-NNKYLE--FKNENKNKIL 263
E++ NN+ + F + I+
Sbjct: 128 ------SEQVEKNKINNRIADKAFYQQPDADII 154
Score = 28.6 bits (63), Expect = 3.4
Identities = 13/79 (16%), Positives = 29/79 (36%), Gaps = 18/79 (22%)
Query: 149 NIRS--EKYPLNIRLRAEAMDDYKLEVRCVIKQQKEEPQWLLHQPRYPLNIRLRAEAMDD 206
+IR E+ ++ A + E R K +K+ +W + ++E ++
Sbjct: 86 SIRKWREEQRKRLQELDAASKVMEQEWR--EKAKKDLEEW------N----QRQSEQVEK 133
Query: 207 YKLEVRCV----IKQQKEE 221
K+ R +Q +
Sbjct: 134 NKINNRIADKAFYQQPDAD 152
>2r6h_A NADH:ubiquinone oxidoreductase, Na translocating, subunit;
alpha-beta-alpha sandwich, structural genomics, PSI-2;
HET: FAD; 2.95A {Porphyromonas gingivalis}
Length = 290
Score = 28.7 bits (64), Expect = 3.3
Identities = 13/66 (19%), Positives = 26/66 (39%), Gaps = 10/66 (15%)
Query: 30 VTGAFRTSPIVSLLAECGQPTLQVRRNIRCVNYMSNVARNPNHPCYLQELDKL-----NV 84
+ G +P+ + + + TL+ R + AR+ N Y ++ ++ N
Sbjct: 162 IGGGAGMAPLRAQILHLFR-TLKTGRKVSYWY----GARSKNEIFYEEDFREIEREFPNF 216
Query: 85 VHHTAL 90
H AL
Sbjct: 217 KFHIAL 222
>1u5x_A Tumor necrosis factor ligand superfamily member 1; TNFSF, cytokine,
jelly-roll, trimer, hormone-growth factor C; 1.80A {Mus
musculus} SCOP: b.22.1.1 PDB: 1u5y_A 1u5z_A 3k48_A
1xu1_A 1xu2_A
Length = 140
Score = 27.6 bits (61), Expect = 4.6
Identities = 9/44 (20%), Positives = 15/44 (34%), Gaps = 5/44 (11%)
Query: 120 IRCVNYMSNVARNPNHPCYL-----LLFNDKLRINIRSEKYPLN 158
RC+ M + + CY L D + + I L+
Sbjct: 84 FRCIRSMPSDPDRAYNSCYSAGVFHLHQGDIITVKIPRANAKLS 127
>2psm_F Interleukin-15 receptor alpha chain; cytokine, glycoprotein,
secreted, alternative splicing, endoplasmic reticulum,
golgi apparatus, membrane; 2.19A {Mus musculus} SCOP:
g.18.1.1
Length = 78
Score = 25.9 bits (56), Expect = 9.7
Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 6/44 (13%)
Query: 149 NIRSEKYPLNIRLRAEAMDDYK------LEVRCVIKQQKEEPQW 186
+IR + Y +N R R +K + CVI + W
Sbjct: 21 DIRVKNYSVNSRERYVCNSGFKRKAGTSTLIECVINKNTNVAHW 64
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
0.324 0.136 0.427
Gapped
Lambda K H
0.267 0.0447 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,932,427
Number of extensions: 405155
Number of successful extensions: 858
Number of sequences better than 10.0: 1
Number of HSP's gapped: 846
Number of HSP's successfully gapped: 22
Length of query: 457
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 360
Effective length of database: 3,993,456
Effective search space: 1437644160
Effective search space used: 1437644160
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 59 (27.2 bits)