RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18030
(121 letters)
>1pp9_F Ubiquinol-cytochrome C reductase complex 14 kDa P; 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.27.1.1 PDB: 1bgy_F*
1be3_F* 1l0n_F* 1ntk_F* 1ntm_F* 1ntz_F* 1nu1_F* 1l0l_F*
1ppj_F* 1sqb_F* 1sqq_F* 1sqv_F* 1sqx_F* 2a06_F* 2fyu_F*
2ybb_F* 1sqp_F* 1qcr_F* 1bcc_F* 2bcc_F* ...
Length = 110
Score = 124 bits (314), Expect = 1e-38
Identities = 52/118 (44%), Positives = 77/118 (65%), Gaps = 9/118 (7%)
Query: 2 ASKRAGSALQKWAWEYSGFRKYGALQKWAWEYSGFRKYGLYYDDLANETPVVEEALRRLP 61
A + A SA +W ++KW + +GF K GL DD +E V+EA+RRLP
Sbjct: 1 AGRPAVSASSRW---------LEGIRKWYYNAAGFNKLGLMRDDTIHENDDVKEAIRRLP 51
Query: 62 EKLKNERHFRQLRAVQLNIQKSILPKDQWTKYEDETRYLKPYIEQVEKEFKEKEEWGK 119
E L ++R FR RA+ L++++ ILPK+QWTKYE++ YL+PY+++V +E KE+EEW K
Sbjct: 52 ENLYDDRVFRIKRALDLSMRQQILPKEQWTKYEEDKSYLEPYLKEVIRERKEREEWAK 109
>3cx5_G Cytochrome B-C1 complex subunit 7; 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.27.1.1 PDB: 1kyo_G* 3cxh_G* 2ibz_F*
1ezv_F* 1kb9_G* 1p84_G*
Length = 126
Score = 123 bits (309), Expect = 1e-37
Identities = 35/102 (34%), Positives = 57/102 (55%), Gaps = 1/102 (0%)
Query: 20 FRKYGALQKWAWEYSGFRKYGLYYDDLANE-TPVVEEALRRLPEKLKNERHFRQLRAVQL 78
+ + +G++K GL +DDL E P+++ ALRRLPE R +R +RA Q
Sbjct: 21 SKLCVPVANQFINLAGYKKLGLKFDDLIAEENPIMQTALRRLPEDESYARAYRIIRAHQT 80
Query: 79 NIQKSILPKDQWTKYEDETRYLKPYIEQVEKEFKEKEEWGKL 120
+ +LP+++W K +++ YL PYI + E KEK+E +
Sbjct: 81 ELTHHLLPRNEWIKAQEDVPYLLPYILEAEAAAKEKDELDNI 122
>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 = 0.005
Identities = 14/102 (13%), Positives = 33/102 (32%), Gaps = 37/102 (36%)
Query: 53 VEEALRR----LPEK------LKN-ERHF------RQLRAVQLNIQKSILP--KDQW-TK 92
V++ + + LP L N ++ + L + L ++K+ P DQ
Sbjct: 349 VQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIP 408
Query: 93 YEDE----------------TRYLKPYIEQVEKEFKEKE-EW 117
+ + + L P + + K+ + +
Sbjct: 409 FSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSF 450
Score = 25.0 bits (54), Expect = 8.9
Identities = 19/80 (23%), Positives = 27/80 (33%), Gaps = 9/80 (11%)
Query: 45 DLANETPVVEEALRRLPEKLKNERHFRQLRAVQLN-IQKSILPKDQWTKYEDETRYLKPY 103
DL + ++ R K+ F L V N + +I + K E Y
Sbjct: 1634 DLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRE-NYSAMI 1692
Query: 104 IE-------QVEKEFKEKEE 116
E + EK FKE E
Sbjct: 1693 FETIVDGKLKTEKIFKEINE 1712
>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 = 33.3 bits (75), Expect = 0.014
Identities = 13/84 (15%), Positives = 31/84 (36%), Gaps = 11/84 (13%)
Query: 43 YDDLANETPVVEEALRRLPEKLKNERHFRQLRAVQLNIQKSILPKDQW------TKYEDE 96
D + RL L + +Q VQ +++ + ++ T+
Sbjct: 51 IDHIIMS-KDAVSGTLRLFWTLLS----KQEEMVQKFVEEVLRINYKFLMSPIKTEQRQP 105
Query: 97 TRYLKPYIEQVEKEFKEKEEWGKL 120
+ + YIEQ ++ + + + + K
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKY 129
Score = 30.6 bits (68), Expect = 0.12
Identities = 23/105 (21%), Positives = 35/105 (33%), Gaps = 31/105 (29%)
Query: 20 FRKYGALQKWAWEYSGFRKYGLYYDDLANETPVVEEALRRLPEKLKNER--HFRQLRAVQ 77
KY ++K E + +Y + L KL+NE H R +
Sbjct: 411 LHKYSLVEKQPKEST-ISIPSIYLE---------------LKVKLENEYALH-RSIVD-H 452
Query: 78 LNIQKSILPKDQWTKYEDETRYLKPYI-------EQVEK--EFKE 113
NI K+ D Y D+ Y +I E E+ F+
Sbjct: 453 YNIPKTFDSDDLIPPYLDQ--YFYSHIGHHLKNIEHPERMTLFRM 495
>1oxw_A Patatin; alpha/beta class fold with approximately three layers;
2.20A {Solanum cardiophyllum} SCOP: c.19.1.3
Length = 373
Score = 26.0 bits (56), Expect = 3.3
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 54 EEALRRLPEKLKNERHFRQLRA 75
EEAL+R + L + + R +A
Sbjct: 350 EEALKRFAKLLSDRKKLRANKA 371
>3rq1_A Aminotransferase class I and II; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
alpha-beta structure, cytosol; HET: AKG GOL; 2.20A
{Veillonella parvula}
Length = 418
Score = 25.3 bits (56), Expect = 6.7
Identities = 6/31 (19%), Positives = 10/31 (32%), Gaps = 4/31 (12%)
Query: 40 GLYYDDLANETPV---VEEALRRLPEKLKNE 67
G +D+ N V+E L +
Sbjct: 46 GAIHDEEGN-LVFLKTVKEEYLSLSDSEHVG 75
>3rfo_A Methionyl-tRNA formyltransferase; structural genomics, center for
structural genomics of infec diseases, csgid, alpha-beta
structure, cytosol; HET: PGE; 2.40A {Bacillus anthracis}
Length = 317
Score = 25.1 bits (56), Expect = 7.4
Identities = 11/68 (16%), Positives = 25/68 (36%), Gaps = 30/68 (44%)
Query: 50 TPVVEEALR-----RLPEKLKNERHFRQLRAVQ-------------------------LN 79
TPV EA + P +++ + + ++ A++ +N
Sbjct: 50 TPVKVEAEKHGIPVLQPLRIREKDEYEKVLALEPDLIVTAAFGQIVPNEILEAPKYGCIN 109
Query: 80 IQKSILPK 87
+ S+LP+
Sbjct: 110 VHASLLPE 117
>1fmt_A Methionyl-tRNA FMet formyltransferase; initiator tRNA, translation
initiation; 2.00A {Escherichia coli} SCOP: b.46.1.1
c.65.1.1 PDB: 2fmt_A* 3r8x_A
Length = 314
Score = 24.8 bits (55), Expect = 8.3
Identities = 10/68 (14%), Positives = 21/68 (30%), Gaps = 30/68 (44%)
Query: 50 TPVVEEALR-----RLPEKLKNERHFRQLRAVQ-------------------------LN 79
+PV A P L+ + + + + +Q +N
Sbjct: 49 SPVKVLAEEKGLPVFQPVSLRPQENQQLVAELQADVMVVVAYGLILPKAVLEMPRLGCIN 108
Query: 80 IQKSILPK 87
+ S+LP+
Sbjct: 109 VHGSLLPR 116
>3tqq_A Methionyl-tRNA formyltransferase; protein synthesis; 2.00A
{Coxiella burnetii}
Length = 314
Score = 24.8 bits (55), Expect = 8.7
Identities = 13/68 (19%), Positives = 23/68 (33%), Gaps = 30/68 (44%)
Query: 50 TPVVEEALR-----RLPEKLKNERHFRQLRAVQ-------------------------LN 79
+PV E A + P L++E +L A+ +N
Sbjct: 48 SPVKEIARQNEIPIIQPFSLRDEVEQEKLIAMNADVMVVVAYGLILPKKALNAFRLGCVN 107
Query: 80 IQKSILPK 87
+ S+LP+
Sbjct: 108 VHASLLPR 115
>2bln_A Protein YFBG; transferase, formyltransferase, L-ARA4N
biosynthesis, methyltransferase; HET: FON U5P; 1.2A
{Escherichia coli} SCOP: b.46.1.1 c.65.1.1 PDB: 1yrw_A
Length = 305
Score = 24.7 bits (55), Expect = 8.8
Identities = 4/49 (8%), Positives = 15/49 (30%), Gaps = 10/49 (20%)
Query: 50 TPVVEEALR-----RLPEKLKNERHFRQLRAVQLNIQKS-----ILPKD 88
V A P+ + + ++ + ++ S ++ +
Sbjct: 43 GSVARLAAERGIPVYAPDNVNHPLWVERIAQLSPDVIFSFYYRHLIYDE 91
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
0.316 0.133 0.416
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,021,232
Number of extensions: 111051
Number of successful extensions: 335
Number of sequences better than 10.0: 1
Number of HSP's gapped: 329
Number of HSP's successfully gapped: 38
Length of query: 121
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 39
Effective length of database: 4,412,271
Effective search space: 172078569
Effective search space used: 172078569
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: 51 (23.4 bits)