RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy306
(190 letters)
>2nw8_A Tryptophan 2,3-dioxygenase; all alpha-helical protein, structural
genomics, PSI-2, prote structure initiative; HET: TRP
HEM; 1.60A {Xanthomonas campestris PV} SCOP: a.266.1.1
PDB: 2nw7_A* 2nw9_A* 3bk9_A* 3e08_A* 1yw0_A
Length = 306
Score = 85.4 bits (210), Expect = 2e-20
Identities = 28/105 (26%), Positives = 49/105 (46%), Gaps = 3/105 (2%)
Query: 65 AILITMYRDEPRFHLPSQILSALMDIDCCTAKWRHNHVLMVQRMIGSQHLGTGGTSGYQY 124
+ +Y + R+ + L+D++ WR H+ V R+IG + GTGG+SG +
Sbjct: 204 PVFERIYENTDRYWREYSLCEDLVDVETQFQLWRFRHMRTVMRVIGFKR-GTGGSSGVGF 262
Query: 125 LRSTLSDRYKIFLDLFNVSSFLLPKQYIPVLSGTLKSQLSATPHH 169
L+ L+ + F +LF+V + + P S +L HH
Sbjct: 263 LQQALALTF--FPELFDVRTSVGVDNRPPQGSADAGKRLEHHHHH 305
>2nox_A Tryptophan 2,3-dioxygenase; helical bundle, heme protein,
oxidoreductase; HET: HEM; 2.40A {Cupriavidus
metallidurans}
Length = 281
Score = 80.8 bits (198), Expect = 7e-19
Identities = 27/121 (22%), Positives = 51/121 (42%), Gaps = 3/121 (2%)
Query: 26 QIADYKKRKEMFQTIFDEDIHASLLSRGDRSLSHKALQGAILITMYRDEPRFHLPSQILS 85
+ Y + + + + + + A A + +YR+ ++
Sbjct: 164 TPSMYDEAIRLMARRGFQIDPEVVERDWTQPTQYNASVEAAWLEVYRNPSAHWELYELGE 223
Query: 86 ALMDIDCCTAKWRHNHVLMVQRMIGSQHLGTGGTSGYQYLRSTLSDRYKIFLDLFNVSSF 145
+D++ +WR HV V+R+IG + GTGGT G YLR L +F +L+ + +
Sbjct: 224 KFVDLEDAFRQWRFRHVTTVERVIGFKR-GTGGTEGVSYLRRML--DVVLFPELWKLRTD 280
Query: 146 L 146
L
Sbjct: 281 L 281
>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 = 49.7 bits (118), Expect = 2e-07
Identities = 39/172 (22%), Positives = 57/172 (33%), Gaps = 37/172 (21%)
Query: 12 IDYLDAESESLQSCQIADYKKR--KEMFQTIF--DEDIH---ASLLSRGDRSLSHKALQG 64
+ Y+ + E + Q E F+ + DIH A LL D +L
Sbjct: 65 LGYVSSLVEPSKVGQFDQVLNLCLTE-FENCYLEGNDIHALAAKLLQENDTTLVKTKE-- 121
Query: 65 AILITMY---RDEPRFHLPSQILSALMDIDCCTAKWRHNHVLMVQRMIGSQHLGTGGTSG 121
LI Y R + + SAL A N L+ G Q G T
Sbjct: 122 --LIKNYITARIMAKRPFDKKSNSALFR-----AVGEGNAQLVAI--FGGQ----GNTDD 168
Query: 122 Y-QYLRSTLSDRYKIFL-DLFNVSSFLLPKQYIPVLSGTLKSQLSATPHHPR 171
Y + LR L Y + + DL S+ LS +++ L A +
Sbjct: 169 YFEELRD-LYQTYHVLVGDLIKFSA--------ETLSELIRTTLDAEKVFTQ 211
Score = 43.1 bits (101), Expect = 3e-05
Identities = 34/142 (23%), Positives = 48/142 (33%), Gaps = 45/142 (31%)
Query: 17 AESESLQSCQIADYKKRKEMFQTIFDEDI----HASLL-----------SRGDRSLSHKA 61
A S QS +I + +RK F F + H+ LL + + S + K
Sbjct: 398 APSGLDQS-RIP-FSERKLKFSNRFLP-VASPFHSHLLVPASDLINKDLVKNNVSFNAKD 454
Query: 62 LQGAILITMY-----RDEPRFHLPSQILSALMD-IDCCTAKW------RHNHVLMVQRMI 109
+Q I +Y D R L I ++D I KW + H+L
Sbjct: 455 IQ----IPVYDTFDGSD-LR-VLSGSISERIVDCIIRLPVKWETTTQFKATHIL------ 502
Query: 110 GSQHLGTGGTSGYQYLRSTLSD 131
G GG SG L D
Sbjct: 503 ---DFGPGGASGLGVLTHRNKD 521
>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 = 44.8 bits (105), Expect = 6e-06
Identities = 36/229 (15%), Positives = 70/229 (30%), Gaps = 51/229 (22%)
Query: 6 KQPKLQIDY-----LDAESESLQSC----QIADYKKRKEMFQTIFDEDIH--ASLLSR-- 52
+ D D + ++S + A+Y+K + ++F H LLS
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL-SVFPPSAHIPTILLSLIW 396
Query: 53 -----GDRSLSHKALQGAILITMYRDEPRFHLPSQILSALMDIDCCTAKWRHNHVL---M 104
D + L L+ E +PS L + ++ A H ++
Sbjct: 397 FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL--HRSIVDHYN 454
Query: 105 VQRMIGSQHLGTGGTSGY--QYL-----RSTLSDRY----KIFLDLFNVSSFLLPK---- 149
+ + S L Y ++ +R +FLD FL K
Sbjct: 455 IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF----RFLEQKIRHD 510
Query: 150 QYIPVLSGTLKSQLSA--------TPHHPRNREHADSKKNCVKHLNGNL 190
SG++ + L + P+ ++ + + + NL
Sbjct: 511 STAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL 559
Score = 37.5 bits (86), Expect = 0.002
Identities = 27/205 (13%), Positives = 57/205 (27%), Gaps = 47/205 (22%)
Query: 3 GRDKQPKLQIDYLDAESESLQSCQIADYKKRKEMFQTIFDEDIHASLLSRGDRSLSHKAL 62
P+ ++ L + L ++ R + I IH S+ + R L K
Sbjct: 190 KNCNSPETVLEML----QKLLYQIDPNWTSRSDHSSNIKLR-IH-SIQAELRRLLKSKPY 243
Query: 63 QGAILITMYRD--EPRFHLPSQILSALMDIDCCTAKWRHNHVLMVQRMIGSQHLGTGGTS 120
+ +L+ + + +A ++ C +L+ R T S
Sbjct: 244 ENCLLV--LLNVQNAK------AWNA-FNLSC--------KILLTTRFKQV----TDFLS 282
Query: 121 GYQYLRSTLSDRYKIF-----LDLF----NVSSFLLPKQYI---PVLSGTLKSQLSATPH 168
+L L + LP++ + P + +
Sbjct: 283 AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA 342
Query: 169 HPRNREHADSKK------NCVKHLN 187
N +H + K + + L
Sbjct: 343 TWDNWKHVNCDKLTTIIESSLNVLE 367
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.2 bits (62), Expect = 1.5
Identities = 7/41 (17%), Positives = 20/41 (48%), Gaps = 9/41 (21%)
Query: 4 RDKQPKLQIDYLDAESESLQSC-------QIAD-YKKRKEM 36
R++Q + ++ LDA S+ ++ + + +++ E
Sbjct: 91 REEQ-RKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQ 130
Score = 27.0 bits (59), Expect = 3.3
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 10/46 (21%)
Query: 11 QIDYLDAESESL------QSCQI----ADYKKRKEMFQTIFDEDIH 46
Q D L E ES+ Q ++ A K ++ ++ +D+
Sbjct: 76 QADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLE 121
>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 = 27.2 bits (59), Expect = 2.2
Identities = 7/30 (23%), Positives = 10/30 (33%), Gaps = 12/30 (40%)
Query: 149 KQYIPVLSGTLKSQLSATPHHPRNREHADS 178
KQ + L +LK + DS
Sbjct: 19 KQALKKLQASLK------LYAD------DS 36
>1gk9_B Penicillin G acylase beta subunit; antibiotic resistance, amidase,
NTN-hydrolase,; 1.3A {Escherichia coli} SCOP: d.153.1.2
PDB: 1gm9_B* 1k7d_B* 1pnk_B 1pnl_B* 1pnm_B* 1e3a_B
1kec_B* 1h2g_B 1ajq_B* 1ai5_B* 1ai6_B* 1ai7_B 1ajn_B*
1ai4_B* 1ajp_B* 1gkf_B 1gm7_B* 1gm8_B* 1fxh_B* 1fxv_B*
...
Length = 557
Score = 26.5 bits (58), Expect = 6.8
Identities = 7/49 (14%), Positives = 16/49 (32%), Gaps = 6/49 (12%)
Query: 107 RMIGSQHLGTGGTSGYQYLRSTLSDRYKIFLDLFNVSSFLLPKQYIPVL 155
R + + + G SG+ T+ Y+ L ++ +
Sbjct: 495 RPVLAWDVVAPGQSGFIAPDGTVDKHYEDQLKMY------ENFGRKSLW 537
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 0.134 0.399
Gapped
Lambda K H
0.267 0.0501 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,791,452
Number of extensions: 149095
Number of successful extensions: 260
Number of sequences better than 10.0: 1
Number of HSP's gapped: 255
Number of HSP's successfully gapped: 12
Length of query: 190
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 102
Effective length of database: 4,244,745
Effective search space: 432963990
Effective search space used: 432963990
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: 54 (25.1 bits)