RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1834
(101 letters)
>3tgu_G UQCRQ, mitochondrial ubiquinol-cytochrome C reductase UB binding
protein QP-C; cytochrome BC1, membrane protein, heme
protein, rieske iron protein; HET: HEM WF3 UQ CDL PEE
HEC BOG; 2.70A {Gallus gallus} PDB: 3cwb_G* 3h1i_G*
3h1h_G* 3h1k_G* 3h1l_G* 3h1j_G* 3l71_G* 3l72_G* 3l73_G*
3l74_G* 3l75_G* 3l70_G*
Length = 81
Score = 88.7 bits (220), Expect = 4e-25
Identities = 28/80 (35%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 21 HGFGNLGPHIRNIVYHRISMFEQRAFAGLLNPGLQNTLRRITESAPRTVPYFLITYVIIT 80
FGNL +R+I+ + +S FEQRA + + L N RR + + P FL Y++ +
Sbjct: 2 IHFGNLAR-VRHIITYSLSPFEQRAIPNIFSDALPNVWRRFSSQVFKVAPPFLGAYLLYS 60
Query: 81 QTNDYYAQLNRKNPKDYEHE 100
+ +L RKNP DYE++
Sbjct: 61 WGTQEFERLKRKNPADYEND 80
>1pp9_G Ubiquinol-cytochrome C reductase complex ubiquino protein QP-C;
cytochrome BC1, membrane protein, heme protein, rieske
iron protein, cytochrome B, complex III; HET: BHG HEM
HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP: f.23.13.1
PDB: 1bgy_G* 1be3_G* 1l0n_G* 1ntk_G* 1ntm_G* 1ntz_G*
1nu1_G* 1l0l_G* 1ppj_G* 1sqb_G* 1sqp_G* 1sqq_G* 1sqv_G*
1sqx_G* 2a06_G* 2fyu_G* 2ybb_G* 1bcc_G* 2bcc_G* 3bcc_G*
...
Length = 81
Score = 88.0 bits (218), Expect = 8e-25
Identities = 27/80 (33%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 21 HGFGNLGPHIRNIVYHRISMFEQRAFAGLLNPGLQNTLRRITESAPRTVPYFLITYVIIT 80
FG+L +R+++ + +S FEQRAF + G+ N LRR R P F+ Y++ T
Sbjct: 2 RQFGHL-TRVRHVITYSLSPFEQRAFPHYFSKGIPNVLRRTRACILRVAPPFVAFYLVYT 60
Query: 81 QTNDYYAQLNRKNPKDYEHE 100
+ + RKNP YE++
Sbjct: 61 WGTQEFEKSKRKNPAAYEND 80
>3cx5_H Cytochrome B-C1 complex subunit 8; complex III, electron transfer
complex, cytochrome BC1 complex,
mitochondrialtransmembrane complex; HET: M3L SUC 6PH
UMQ HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces
cerevisiae} SCOP: f.23.13.1 PDB: 1kb9_H* 1kyo_H*
1p84_H* 1ezv_G* 3cxh_H* 2ibz_G*
Length = 93
Score = 70.3 bits (172), Expect = 1e-17
Identities = 15/71 (21%), Positives = 30/71 (42%), Gaps = 1/71 (1%)
Query: 23 FGNLG-PHIRNIVYHRISMFEQRAFAGLLNPGLQNTLRRITESAPRTVPYFLITYVIITQ 81
+G++G P + I + +S + Q+ G+ + + N+ RR + I +
Sbjct: 12 WGHMGGPKQKGITSYAVSPYAQKPLQGIFHNAVFNSFRRFKSQFLYVLIPAGIYWYWWKN 71
Query: 82 TNDYYAQLNRK 92
N+Y L K
Sbjct: 72 GNEYNEFLYSK 82
>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 = 0.25
Identities = 5/28 (17%), Positives = 11/28 (39%), Gaps = 4/28 (14%)
Query: 55 QNTLRRITES----APRTVPYFLITYVI 78
+ L+++ S A + P I +
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATM 46
>3ih6_A Putative zinc protease; bordetella pertussis tohama I, struc
genomics, PSI-2, protein structure initiative, midwest
CENT structural genomics; 2.15A {Bordetella pertussis}
PDB: 3ivl_A
Length = 197
Score = 25.4 bits (56), Expect = 3.4
Identities = 6/34 (17%), Positives = 11/34 (32%), Gaps = 1/34 (2%)
Query: 55 QNTLRRITESAPRTVPYFLITYVIITQTN-DYYA 87
Q+ R +T P Y + + D+
Sbjct: 10 QDGERSVTLRRAGGTPLVAAMYHLPAAGSPDFVG 43
>3m9w_A D-xylose-binding periplasmic protein; xylose binding protein,
conformational changes, SUGA protein; 2.15A {Escherichia
coli} PDB: 3m9x_A* 3ma0_A*
Length = 313
Score = 25.3 bits (56), Expect = 4.0
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 67 RTVPYFLITYVIITQTN 83
+ VP L+T + + + N
Sbjct: 275 KDVPSRLLTPIDVNKNN 291
>3gwf_A Cyclohexanone monooxygenase; flavoprotein biocatalysis
baeyer-villiger oxidation green CH monooxygenase,
oxidoreductase; HET: FAD NAP; 2.20A {Rhodococcus SP}
PDB: 3gwd_A* 3ucl_A*
Length = 540
Score = 24.8 bits (55), Expect = 5.4
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 79 ITQTNDYYAQLNRKN 93
+ YY NR N
Sbjct: 330 PLCDSGYYEVYNRPN 344
>2xod_A NRDI protein, NRDI; flavoprotein, redox protein, ribonucleotide
reductase; HET: FMN; 0.96A {Bacillus anthracis} PDB:
2xoe_A* 2x2o_A* 2x2p_A*
Length = 119
Score = 24.4 bits (53), Expect = 5.5
Identities = 7/23 (30%), Positives = 9/23 (39%)
Query: 54 LQNTLRRITESAPRTVPYFLITY 76
L +I E + LITY
Sbjct: 19 LNMPAVQIGEDLVIDEDFILITY 41
>1j2g_A Uricase, urate oxidase; T-fold barrel, purine, oxidoreductase; HET:
AZA; 2.20A {Bacillus SP} SCOP: d.96.1.4 d.96.1.4
Length = 319
Score = 24.5 bits (53), Expect = 7.3
Identities = 10/73 (13%), Positives = 22/73 (30%), Gaps = 3/73 (4%)
Query: 29 HIRNIVYHRISMFEQRAFAGLLNPGLQNTLRRITESAPRTVPYFLITYVIITQTNDYYAQ 88
+ +I F +Q+ + I P + V N + +
Sbjct: 224 PENYVAAEQIRDIATSVFHETETLSIQHLIYLIGRRILERFP--QLQEVYFESQNHTWDK 281
Query: 89 LNRKNPKDYEHEV 101
+ + P+ E +V
Sbjct: 282 IVEEIPES-EGKV 293
>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 = 24.4 bits (52), Expect = 9.8
Identities = 8/87 (9%), Positives = 25/87 (28%), Gaps = 6/87 (6%)
Query: 14 ESSTMGHHGFGNLGPHIRNIVYHRISMFEQRAFAGLLNPGLQNT-LRRITESAPR-TVPY 71
E+ + + ++ + + F+ + + L + I S +
Sbjct: 10 ETGEH-QYQYKDILSVFEDAF---VDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTL 65
Query: 72 FLITYVIITQTNDYYAQLNRKNPKDYE 98
L ++ Q + +Y+
Sbjct: 66 RLFWTLLSKQEEMVQKFVEEVLRINYK 92
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
0.323 0.138 0.411
Gapped
Lambda K H
0.267 0.0787 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,564,847
Number of extensions: 79210
Number of successful extensions: 136
Number of sequences better than 10.0: 1
Number of HSP's gapped: 136
Number of HSP's successfully gapped: 20
Length of query: 101
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 34
Effective length of database: 4,831,086
Effective search space: 164256924
Effective search space used: 164256924
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (23.3 bits)