RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11631
(219 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 = 38.3 bits (88), Expect = 0.001
Identities = 32/282 (11%), Positives = 76/282 (26%), Gaps = 81/282 (28%)
Query: 2 KYKRKK-KEVEDESYVDDPGEPLD----EDGVPVAAKKNVEKDDAAVPEDEFGA------ 50
+Y+ K V ++++VD+ D +D K + G
Sbjct: 15 QYQYKDILSVFEDAFVDN----FDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70
Query: 51 -KDYRAQMV-------LKPDH-------KSRPLWVAPNGHIFLESFSPVYRHAHDFLIAI 95
+ +MV L+ ++ K+ + +++E +Y F
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF---A 127
Query: 96 AEPVCRPEHIHEYKLTAYSLYAAVSVGL-------------------------------- 123
V R + + + L A +V +
Sbjct: 128 KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL 187
Query: 124 ------ETHDIIEYLKRLSKTSVPDGIVEFINLCTLSYGKVKLVLKHNRYFIESPFAEVL 177
++E L++L P+ + + + + R P+ L
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
Query: 178 QKL--LKDPVIQD-----CRL---RRDTEDSQTLINQADKKL 209
L +++ + C++ R + + L +
Sbjct: 248 LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
Score = 34.1 bits (77), Expect = 0.033
Identities = 26/125 (20%), Positives = 42/125 (33%), Gaps = 25/125 (20%)
Query: 85 YRHAH-DFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKTSVPDG 143
+ H H DF EH ++YK A + D+ + K + D
Sbjct: 2 HHHHHMDFETG--------EHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDH 53
Query: 144 IVE---------FINLCTLSYGK------VKLVLKHNRYFIESPFA-EVLQKLLKDPVIQ 187
I+ + LS + V+ VL+ N F+ SP E Q + +
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113
Query: 188 DCRLR 192
+ R R
Sbjct: 114 EQRDR 118
Score = 30.6 bits (68), Expect = 0.48
Identities = 19/150 (12%), Positives = 39/150 (26%), Gaps = 45/150 (30%)
Query: 53 YRAQMVLKPDHKSRPLWVAPNGHIF---------------LESFSPVYRHAHDFLIAIAE 97
Y D P + + + + F V+ FL
Sbjct: 453 YNIPKTFDSDDLIPPYL---DQYFYSHIGHHLKNIEHPERMTLFRMVFLD-FRFL----- 503
Query: 98 PVCRPEHIHEYKL--TAYSLYAAVSVGLETHDIIEYLKRLSKTS-VPDGIVEFINLCTLS 154
E K+ + + A+ S+ + Y + + +V I
Sbjct: 504 ---------EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI------ 548
Query: 155 YGKVKLVLKHNRYFIESPFAEVLQKLLKDP 184
+ + K I S + ++L+ L
Sbjct: 549 ---LDFLPKIEENLICSKYTDLLRIALMAE 575
>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 = 34.6 bits (79), Expect = 0.025
Identities = 31/209 (14%), Positives = 49/209 (23%), Gaps = 87/209 (41%)
Query: 79 ESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSV----------------- 121
V+ + L + P P+ Y L +S
Sbjct: 203 LDAEKVFTQGLNILEWLENPSNTPD-------KDYLLSIPISCPLIGVIQLAHYVVTAKL 255
Query: 122 -GLETHDIIEYLKRLSKTSVPDGIV------------EFINL--------------CTLS 154
G ++ YLK T G+V F C +
Sbjct: 256 LGFTPGELRSYLK--GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEA 313
Query: 155 YGKVKLVLKHNRYFIE------SP-FA------EVLQKLLKDPVIQDCRLRRDTEDSQTL 201
Y L +E SP + E +Q + + L + +L
Sbjct: 314 YPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK---TNSHLPAGKQVEISL 370
Query: 202 INQAD------------------KKLKAP 212
+N A +K KAP
Sbjct: 371 VNGAKNLVVSGPPQSLYGLNLTLRKAKAP 399
Score = 28.5 bits (63), Expect = 1.9
Identities = 30/223 (13%), Positives = 60/223 (26%), Gaps = 52/223 (23%)
Query: 31 AAKKNVEKDDAAVPEDEFGAK--DYRAQMVLKPDHKSRPLWVAPNGHIFLESFSPVYRHA 88
+ DD E K Y + +V +P + V ++ L F Y
Sbjct: 43 EPTEGFAADDEPTTPAELVGKFLGYVSSLV-EPSKVGQFDQVL---NLCLTEFENCYLEG 98
Query: 89 ---HDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSK----TSVP 141
H + + + + Y A + + S +V
Sbjct: 99 NDIHALAAKLLQENDTTLVKTKELIKNY--ITARIMAKRP------FDKKSNSALFRAVG 150
Query: 142 DGIVEFINLC-----TLSYGKVK-LVLKHNRY------FIESPFAEVLQKLLKDPVIQDC 189
+G + + + T Y + L + Y I+ AE L +L++ + +
Sbjct: 151 EGNAQLVAIFGGQGNTDDY--FEELRDLYQTYHVLVGDLIKF-SAETLSELIRTTLDAE- 206
Query: 190 RLRRDTEDSQTLINQADKK------LKAP---------QFGLY 217
++ + + L P Q Y
Sbjct: 207 KVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHY 249
Score = 27.3 bits (60), Expect = 5.6
Identities = 12/41 (29%), Positives = 17/41 (41%), Gaps = 8/41 (19%)
Query: 25 EDGVPVAAK--KNVEKDDAAVPEDEFGAKDYRAQMV-LKPD 62
E V V ++ AVP DE G +Y M+ + P
Sbjct: 1780 ESLVEVVFYRGMTMQV---AVPRDELGRSNYG--MIAINPG 1815
>2cg9_A ATP-dependent molecular chaperone HSP82; chaperone complex, HSP90,
heat shock protein, ATP-binding, heat shock,
nucleotide-binding, acetylation; HET: ATP; 3.1A
{Saccharomyces cerevisiae}
Length = 677
Score = 27.8 bits (62), Expect = 3.2
Identities = 22/96 (22%), Positives = 35/96 (36%), Gaps = 8/96 (8%)
Query: 3 YKRKKKEVEDESYVDDPGEPLDEDGVPVAAKKNVEKDDAAVPEDEFGAKDYRAQMVLKPD 62
KEVE E E DE+ K +K DE K + + V +
Sbjct: 206 QLVVTKEVEKEVP-IPEEEKKDEEKKDEEKKDEDDKKPKLEEVDEEEEKKPKTKKVKEEV 264
Query: 63 H------KSRPLWVAPNGHIFLESFSPVYRH-AHDF 91
K++PLW I E ++ Y+ ++D+
Sbjct: 265 QEIEELNKTKPLWTRNPSDITQEEYNAFYKSISNDW 300
>2zkt_A 2,3-bisphosphoglycerate-independent phosphoglycer mutase;
phosphonopyruvate decarboxylase, isomerase, structural
genom NPPSFA; 2.40A {Pyrococcus horikoshii}
Length = 412
Score = 27.3 bits (60), Expect = 4.3
Identities = 8/47 (17%), Positives = 14/47 (29%), Gaps = 4/47 (8%)
Query: 17 DDPGEPLDEDGVPVAAKKNVEKDDAAVPEDEFGAKDYRAQMVLKPDH 63
D G D P + +E+ D + + + DH
Sbjct: 305 DAAGH----DNKPKLKAELIERADRMIGYILDHVDLEEVVIAITGDH 347
>3m1c_A GH, envelope glycoprotein H; glycoprotein H, GH/GL, envelope
protein, HER simplex virus, disulfide bond, HOST cell
MEMB HOST endosome; HET: NAG XYL; 3.00A {Human
herpesvirus 2}
Length = 762
Score = 27.2 bits (59), Expect = 5.1
Identities = 12/60 (20%), Positives = 19/60 (31%), Gaps = 9/60 (15%)
Query: 39 DDAAVPEDEFGAKDYRAQMVLKPDHKSRPLWVAPNGHIF---------LESFSPVYRHAH 89
D A + V D S L + PNG + + + +P + H H
Sbjct: 703 DTDATQQQLAQGPVAGTPNVFSSDVPSVALLLFPNGTVIHLLAFDTLPIATIAPHHHHHH 762
>3n9t_A PNPC; phospholipid binds, N-terminal helix tunnel, oxidoreductase;
HET: HGX FLC; 2.00A {Pseudomonas putida}
Length = 290
Score = 27.0 bits (59), Expect = 5.2
Identities = 22/104 (21%), Positives = 30/104 (28%), Gaps = 21/104 (20%)
Query: 17 DDPGEPL-------DEDGVPVAAKKNVEKDDAAVPEDEFGAKDYRAQMVLKPDHKSRPLW 69
G P D G PV A Y Q +P R +
Sbjct: 124 LTDGVPALVYGRVLDVQGRPVVGAVLDVWQTAD-------NGMYSGQDPDQPFGNLRGRY 176
Query: 70 VA-PNGHIFLESFSPV-YRHAHD-----FLIAIAEPVCRPEHIH 106
+ +G +++ PV Y D L A RP H+H
Sbjct: 177 RSDNDGCFAIQTTVPVCYPIPTDGPVGEMLDAANRHAWRPAHLH 220
>3nm8_A Tyrosinase; TYPE3 copper proteins, oxidoreductase; 2.00A {Bacillus
megaterium} PDB: 3npy_A 3nq0_A 3nq1_A* 3ntm_A 3nq5_A
Length = 303
Score = 27.0 bits (59), Expect = 5.3
Identities = 6/36 (16%), Positives = 13/36 (36%)
Query: 57 MVLKPDHKSRPLWVAPNGHIFLESFSPVYRHAHDFL 92
++ + +P+ P G F + P D +
Sbjct: 242 QIIHRNQNYQPMKNGPFGQNFRDPMYPWNTTPEDVM 277
>2ae6_A Acetyltransferase, GNAT family; GCN5-related N-acetyltransferase
(GNAT), alpha-beta, structu genomics, PSI, protein
structure initiative; HET: GOL; 2.19A {Enterococcus
faecalis} SCOP: d.108.1.1
Length = 166
Score = 26.5 bits (59), Expect = 5.4
Identities = 6/42 (14%), Positives = 15/42 (35%), Gaps = 7/42 (16%)
Query: 63 HKSRPLWVAPN-----GHIFLESFS--PVYRHAHDFLIAIAE 97
K ++VA + G I + + ++ I ++
Sbjct: 50 MKDETIFVAISGQQLAGFIEVHPPTSLAAHQKQWLLSIGVSP 91
>1ffv_C CUTM, flavoprotein of carbon monoxide dehydrogenase; hydrolase;
HET: ARO PCD FAD; 2.25A {Hydrogenophaga pseudoflava}
SCOP: d.87.2.1 d.145.1.3 PDB: 1ffu_C*
Length = 287
Score = 26.8 bits (60), Expect = 6.1
Identities = 10/39 (25%), Positives = 15/39 (38%), Gaps = 2/39 (5%)
Query: 20 GEPLDEDGVPVAAKKNVEKDDAAVPEDEFGAKDYRAQMV 58
G+ ++ V AA + ED G DY+ M
Sbjct: 235 GKAFTKEAVQAAADAAIA--ICEPAEDLRGDADYKTAMA 271
>3hl2_A O-phosphoseryl-tRNA(SEC) selenium transferase; selenocysteine,
sepsecs, protein-RNA complex, alternative splicing,
cytoplasm, protein biosynthesis, pyridoxal phosphate,
selenium; HET: PLR SEP; 2.81A {Homo sapiens}
Length = 501
Score = 26.6 bits (58), Expect = 6.9
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 103 EHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKT 138
H + Y AY L AA ++G++ D+ ++KRL +
Sbjct: 424 SHTNNYP-CAY-LNAASAIGMKMQDVDLFIKRLDRC 457
>3bc8_A O-phosphoseryl-tRNA(SEC) selenium transferase; disorder-order
transition, phosphate-loop, pyridoxal phospha
selenocysteine synthase (SECS, sepsecs); HET: LLP; 1.65A
{Mus musculus} SCOP: c.67.1.9 PDB: 3bca_A* 3bcb_A*
Length = 450
Score = 26.5 bits (58), Expect = 7.1
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 103 EHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKT 138
H Y AY L AA ++G++ D+ ++KRL K
Sbjct: 406 SHADNYP-CAY-LNAAAAIGMKMQDVDLFIKRLDKC 439
>1t3q_C Quinoline 2-oxidoreductase medium subunit; QOR, molybdenum, MCD;
HET: FAD MCN; 1.80A {Pseudomonas putida} SCOP: d.87.2.1
d.145.1.3
Length = 288
Score = 26.4 bits (59), Expect = 7.3
Identities = 9/39 (23%), Positives = 17/39 (43%), Gaps = 2/39 (5%)
Query: 20 GEPLDEDGVPVAAKKNVEKDDAAVPEDEFGAKDYRAQMV 58
G+ +DE AA+ + + D G++D R +
Sbjct: 232 GKVIDESTAATAAE--LATEGLEPRSDIHGSRDLRLSLA 268
>1n62_C Carbon monoxide dehydrogenase medium chain; CODH, molybdenum,
molybdopterin, oxidoreductase; HET: CUB MCN FAD; 1.09A
{Oligotropha carboxidovorans} SCOP: d.87.2.1 d.145.1.3
PDB: 1n5w_C* 1n61_C* 1n60_C* 1n63_C* 1zxi_C*
Length = 288
Score = 26.4 bits (59), Expect = 8.6
Identities = 10/39 (25%), Positives = 14/39 (35%), Gaps = 2/39 (5%)
Query: 20 GEPLDEDGVPVAAKKNVEKDDAAVPEDEFGAKDYRAQMV 58
G LD+ + A A D G +YR +M
Sbjct: 235 GTALDKPALDKAVALAEA--ITAPASDGRGPAEYRTKMA 271
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
0.317 0.136 0.399
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,458,253
Number of extensions: 208538
Number of successful extensions: 387
Number of sequences better than 10.0: 1
Number of HSP's gapped: 383
Number of HSP's successfully gapped: 33
Length of query: 219
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 129
Effective length of database: 4,188,903
Effective search space: 540368487
Effective search space used: 540368487
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.1 bits)