RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17041
(202 letters)
>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 = 36.2 bits (83), Expect = 0.006
Identities = 43/277 (15%), Positives = 73/277 (26%), Gaps = 111/277 (40%)
Query: 1 MRSGRLLAEESPQV----------LLQTYGCQSLEEVFLKLSRKQGNDATANNVPEV--N 48
M G L + S TYG S+ L + + T + E
Sbjct: 1631 M--GMDLYKTSKAAQDVWNRADNHFKDTYG-FSI----LDIVINNPVNLTIHFGGEKGKR 1683
Query: 49 IANN---ISLATLQWGNKKDEPVY--VTEESGVVGLMFHQSKEIL--------------- 88
I N + T+ G K E ++ + E S F K +L
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHS--TSYTFRSEKGLLSATQFTQPALTLMEK 1741
Query: 89 -----------IQD------HSNGHYDDYYPDPESAINAVRVGDAWGALYFTDNFTDALV 131
I HS G Y +A+ ++ A + + +
Sbjct: 1742 AAFEDLKSKGLIPADATFAGHSLGEY--------AALASL----A-DVM----SIESLV- 1783
Query: 132 ARMVLGR-DADEETLDQSE----------IRPNGKSVMMIEQEDDNSSCGDCCPLTTK-- 178
+V R + + + E I P G+ QE T
Sbjct: 1784 -EVVFYRGMTMQVAVPRDELGRSNYGMIAINP-GRVAASFSQEALQYVVERVGKRTGWLV 1841
Query: 179 ---------------GKTKAL--LQK--NFLRMWRNV 196
G +AL + NF+++ + +
Sbjct: 1842 EIVNYNVENQQYVAAGDLRALDTVTNVLNFIKL-QKI 1877
>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint
center for structural genomics, JCSG, protein structu
initiative, PSI; 2.10A {Thermotoga maritima} SCOP:
c.37.1.12
Length = 256
Score = 34.4 bits (80), Expect = 0.013
Identities = 8/35 (22%), Positives = 20/35 (57%)
Query: 1 MRSGRLLAEESPQVLLQTYGCQSLEEVFLKLSRKQ 35
+ +G ++ + + L + Y Q++EEVF ++ +
Sbjct: 219 IHNGTIVETGTVEELKERYKAQNIEEVFEEVVKCS 253
>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 = 34.4 bits (78), Expect = 0.020
Identities = 14/87 (16%), Positives = 27/87 (31%), Gaps = 12/87 (13%)
Query: 52 NISLATLQ--WGN-KKDEPVYVTEESGVVGLMFHQSKEILIQDHSNGHYDDYYPDPE--- 105
+I L W + K + + V + L+ Q KE I Y + E
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP--SIYLELKVKLENEY 443
Query: 106 ----SAINAVRVGDAWGALYFTDNFTD 128
S ++ + + + + D
Sbjct: 444 ALHRSIVDHYNIPKTFDSDDLIPPYLD 470
Score = 29.1 bits (64), Expect = 1.4
Identities = 28/212 (13%), Positives = 61/212 (28%), Gaps = 61/212 (28%)
Query: 17 QTYGCQSLEEVFLKLSRKQGNDATANNVPEVNIANNISLATLQWGNKKDEPVYVTEESGV 76
Y + + VF + +V + + +I L+ + + V+ +
Sbjct: 14 HQYQYKDILSVFEDAFVD---NFDCKDVQD--MPKSI-LSKEEIDHIIMSKDAVSGTLRL 67
Query: 77 VGLMFHQSKEILIQDHSNGHYDDY----------YPDPESAINAVRVGDAWGALYFTDN- 125
+ + +E++ + +Y P + + LY DN
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPS--MMTRMYIEQRDRLY-NDNQ 124
Query: 126 -FTDALVARMVLGRDADEETLDQ-----SEIRPN-----------GKSVMMIEQEDDNSS 168
F V+R + + E+RP GK+ + ++
Sbjct: 125 VFAKYNVSR--------LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD------V 170
Query: 169 CGDCCPLTTKGKTKALLQKNFLRMWRNVG-CH 199
C K + +F W N+ C+
Sbjct: 171 CLS---------YKVQCKMDFKIFWLNLKNCN 193
>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 = 33.0 bits (74), Expect = 0.031
Identities = 6/13 (46%), Positives = 6/13 (46%), Gaps = 2/13 (15%)
Query: 100 YYPD--PESAINA 110
Y D P AI A
Sbjct: 32 YADDSAPALAIKA 44
>2woe_A ADP-ribosyl-[dinitrogen reductase] glycohydrolase; dimanganese,
nitrogen fixation, ADP-ribosylglycohydrolase,
mono-ADP-ribosylhydrolase; HET: AR6 TLA; 1.90A
{Rhodospirillum rubrum} PDB: 2woc_A 2wod_A*
Length = 299
Score = 30.0 bits (68), Expect = 0.45
Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 97 YDDYYPDPESAINAVRVGD----AWGALYFTDNFTDALVARMVLGRDAD 141
+ D++ +P ++ + D + TD F L+ + G DAD
Sbjct: 202 HRDFHFEPYKGQSSAYIVDTMQTVLHYYFVTDTFKSCLIQTVNQGGDAD 250
>3o5t_A Dinitrogenase reductase activacting glicohydrolas; ADP binding,
hydrolase-transcription complex; HET: ADP; 2.09A
{Azospirillum brasilense} PDB: 3g9d_A*
Length = 297
Score = 28.5 bits (64), Expect = 1.4
Identities = 9/49 (18%), Positives = 17/49 (34%), Gaps = 4/49 (8%)
Query: 97 YDDYYPDPESAINAVRVGD----AWGALYFTDNFTDALVARMVLGRDAD 141
+ + P + + D + TD+ +V + G DAD
Sbjct: 197 HRQFKFQPYRGLATAYIVDTMQTVMHYYFQTDSVESCVVETVNQGGDAD 245
>2fp8_A Strictosidine synthase; six bladed beta propeller fold, lyase;
2.30A {Rauvolfia serpentina} PDB: 2fp9_A* 2fpc_A*
2vaq_A* 3v1s_A* 2fpb_A* 2v91_A*
Length = 322
Score = 28.5 bits (63), Expect = 1.4
Identities = 15/91 (16%), Positives = 23/91 (25%), Gaps = 23/91 (25%)
Query: 78 GLMFH-QSKEILIQDHSNGHY-------------DDYYPDPESAINAVRVGDAWGALYFT 123
+ ++ Q+ ++ I D P + AV V G +YFT
Sbjct: 84 DISYNLQNNQLYIVDCYYHLSVVGSEGGHATQLATSVDGVPFKWLYAVTVDQRTGIVYFT 143
Query: 124 DNFTDALVARMVLGRDADEETLDQSEIRPNG 154
D T D G
Sbjct: 144 DVST---------LYDDRGVQQIMDTSDKTG 165
>3pop_A GILR oxidase; FAD binding protein, gilvocarcin, gilvocarcin
biosynthesis, covalently bound FAD, oxidoreductase; HET:
FAD; 1.65A {Streptomyces griseoflavus} PDB: 3pqb_A*
Length = 501
Score = 28.3 bits (63), Expect = 2.0
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 101 YPDPESAINA-VRVGDAWGALYFTDNF 126
YPD + A R G+ W LY+ DN+
Sbjct: 451 YPDADLLDPARNRSGEPWHHLYYKDNY 477
>3l3u_A POL polyprotein; DNA integration, AIDS, integrase, endonuclease,
polynucleotidyl transferase, DNA binding, viral protein;
1.40A {Human immunodeficiency virus 1} PDB: 3ao1_A
3l3v_A* 3ovn_A* 3ao2_A* 3ao3_A* 3ao4_A* 3ao5_A* 2itg_A
1biz_A 1biu_A 1b9d_A 4dmn_A* 2b4j_A 1itg_A 1b92_A 1bl3_A
1bi4_A 1bis_A 1b9f_A 1bi4_B ...
Length = 163
Score = 27.1 bits (60), Expect = 2.7
Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 1/51 (1%)
Query: 69 YVTEESGVVGLMFHQSKEILIQDH-SNGHYDDYYPDPESAINAVRVGDAWG 118
Y + GV+ M + K+I+ Q H N R G G
Sbjct: 94 YNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNHKRKGGIGG 144
>2dtg_E Insulin receptor; IR ectodomain, X-RAY crystallography, hormone
receptor/immune system complex; 3.80A {Homo sapiens}
SCOP: b.1.2.1 b.1.2.1 b.1.2.1 c.10.2.5 c.10.2.5 g.3.9.1
PDB: 3loh_E
Length = 897
Score = 27.6 bits (60), Expect = 3.7
Identities = 17/40 (42%), Positives = 23/40 (57%)
Query: 143 ETLDQSEIRPNGKSVMMIEQEDDNSSCGDCCPLTTKGKTK 182
T+D S I + + ++ +DDN CGD CP T KGKT
Sbjct: 129 ATIDWSRILDSVEDNHIVLNKDDNEECGDICPGTAKGKTN 168
>3h8d_A Myosin-VI; myosin VI, myosin 6, DAB2, cargo binding,
protein-peptide complex, actin-binding, ATP-binding,
calmodulin-binding; 2.20A {Mus musculus} PDB: 2kia_A
Length = 141
Score = 26.7 bits (58), Expect = 3.9
Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 147 QSEIRPNGKSVMMIEQEDDNSSCGDCCPLT--TKGKTKALLQKNFLRMWRNVG 197
Q E+ P+ ++++ +DD C T T+ + +L + F +W G
Sbjct: 51 QMELHPDKPPILLVAGKDDMEMCELNLEETGLTRKRGAEILPRQFEEIWERCG 103
>1a6z_A HFE; HFE, hereditary hemochromatosis, MHC class I, MHC class I
complex; 2.60A {Homo sapiens} SCOP: b.1.1.2 d.19.1.1
PDB: 1de4_A*
Length = 275
Score = 27.2 bits (61), Expect = 4.0
Identities = 6/40 (15%), Positives = 16/40 (40%), Gaps = 7/40 (17%)
Query: 137 GRDADEETLDQSEIRPNG-------KSVMMIEQEDDNSSC 169
+ D + + ++ PNG ++ + E+ +C
Sbjct: 221 KQPMDAKEFEPKDVLPNGDGTYQGWITLAVPPGEEQRYTC 260
>2y3s_A TAML; oxidoreductase; HET: FAD TIR; 1.67A {Streptomyces SP} PDB:
2y3r_A* 2y08_A* 2y4g_A*
Length = 530
Score = 26.8 bits (59), Expect = 5.4
Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 1/27 (3%)
Query: 101 YPDPE-SAINAVRVGDAWGALYFTDNF 126
YPD + + G W LY+ D +
Sbjct: 477 YPDVDLADEEWNTSGVPWSELYYKDAY 503
>2wdx_A Putative hexose oxidase; oxidoreductase-antibiotic complex,
glycopeptide; HET: FAD GHP 3MY 3FG OMY BMA NAG N1L T55;
2.30A {Nonomuraea SP} PDB: 2wdw_A*
Length = 523
Score = 26.8 bits (59), Expect = 5.5
Identities = 9/27 (33%), Positives = 12/27 (44%), Gaps = 1/27 (3%)
Query: 101 YPDPESAINAV-RVGDAWGALYFTDNF 126
YPD + A + G W LY+ N
Sbjct: 473 YPDSDLADPGLNTSGVPWHDLYYKGNH 499
>3nxu_A Cytochrome P450 3A4; alpha beta protein, cytochrome P450 fold,
hemoprotein, monoo cytochrome P450 reductase,
endoplasmic reticulum; HET: HEM RIT; 2.00A {Homo
sapiens} PDB: 1w0e_A* 1w0g_A* 2j0d_A* 2v0m_A* 1w0f_A*
1tqn_A* 3ua1_A* 3tjs_A*
Length = 485
Score = 26.8 bits (60), Expect = 5.8
Identities = 5/11 (45%), Positives = 7/11 (63%), Gaps = 1/11 (9%)
Query: 96 HYD-DYYPDPE 105
H D Y+ +PE
Sbjct: 380 HRDPKYWTEPE 390
>2ipi_A Aclacinomycin oxidoreductase (aknox); anthracycline, flavoenzyme,
twinning, MAD; HET: AKY FAD; 1.65A {Streptomyces
galilaeus}
Length = 521
Score = 26.8 bits (59), Expect = 6.3
Identities = 8/27 (29%), Positives = 11/27 (40%), Gaps = 1/27 (3%)
Query: 101 YPDPESAINAVR-VGDAWGALYFTDNF 126
YPD + G W LY+ N+
Sbjct: 469 YPDVDLVDERWNTSGVPWYTLYYKGNY 495
>3hfw_A Protein ADP-ribosylarginine hydrolase; all alpha-helical,
magnesium; HET: ADP; 1.92A {Homo sapiens}
Length = 357
Score = 26.2 bits (57), Expect = 7.7
Identities = 8/50 (16%), Positives = 14/50 (28%), Gaps = 6/50 (12%)
Query: 98 DDYYPDPESAINAVRVGDA------WGALYFTDNFTDALVARMVLGRDAD 141
D +Y + G L D++ + G D+D
Sbjct: 255 DQFYTSLSYSGWGGSSGHDAPMIAYDAVLAAGDSWKELAHRAFFHGGDSD 304
>1t5j_A Hypothetical protein MJ1187; putative hydrolase, structural
genomics, PSI, protein structure initiative; 2.70A
{Methanocaldococcus jannaschii} SCOP: a.209.1.1
Length = 313
Score = 26.1 bits (58), Expect = 8.7
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 116 AWGALYFTDNFTDALVARMVLGRDAD 141
A TDNF + ++ + G D D
Sbjct: 232 AIATYLLTDNFKEGMLKCINAGGDTD 257
>2yzv_A ADP-ribosylglycohydrolase; all alpha protein, structural genomics,
NPPSFA, N project on protein structural and functional
analyses; 1.60A {Thermus thermophilus} PDB: 2cwc_A
2yzw_A
Length = 303
Score = 26.1 bits (58), Expect = 9.3
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 116 AWGALYFTDNFTDALVARMVLGRDAD 141
A A +F + + + LG DAD
Sbjct: 228 ALWAFARGRDFEEGMRLAVNLGGDAD 253
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
0.315 0.132 0.391
Gapped
Lambda K H
0.267 0.0616 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,021,977
Number of extensions: 170172
Number of successful extensions: 390
Number of sequences better than 10.0: 1
Number of HSP's gapped: 390
Number of HSP's successfully gapped: 23
Length of query: 202
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 113
Effective length of database: 4,216,824
Effective search space: 476501112
Effective search space used: 476501112
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 (25.2 bits)