RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12192
(82 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 = 28.9 bits (64), Expect = 0.16
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 16 AKQTIRNWLEACLKKIRATNKQQTSLIAGLRATNE 50
K+ I+N++ A + R +K+ S + RA E
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSAL--FRAVGE 151
>1q7e_A Hypothetical protein YFDW; structural genomics, intertwined dimer,
PSI, protein structu initiative; HET: MSE; 1.60A
{Escherichia coli} SCOP: c.123.1.1 PDB: 1pqy_A* 1q6y_A*
1pt7_A 1pt5_A 1pt8_A*
Length = 428
Score = 27.2 bits (61), Expect = 0.52
Identities = 3/26 (11%), Positives = 7/26 (26%)
Query: 4 REEIEYIIEEEVAKQTIRNWLEACLK 29
+I IE+ + +
Sbjct: 307 IFDIFAEIEKYTVTIDKHEAVAYLTQ 332
>1eq2_A ADP-L-glycero-D-mannoheptose 6-epimerase; N-terminal domain
rossmann fold, C-terminal mixed alpha/beta domain; HET:
NAP ADQ; 2.00A {Escherichia coli} SCOP: c.2.1.2
Length = 310
Score = 27.2 bits (61), Expect = 0.54
Identities = 11/50 (22%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 1 MLAREEIEYIIEEEVAKQTIRNWLEACLKKIRAT--NKQQTSLIAGLRAT 48
+ +IEYI + K + + +A L +RA +K ++ G+
Sbjct: 253 YHKKGQIEYIPFPDKLKGRYQAFTQADLTNLRAAGYDKPFKTVAEGVTEY 302
>2vjq_A Formyl-coenzyme A transferase; class III COA transferase; HET: EPE;
1.8A {Oxalobacter formigenes} PDB: 2vjp_A 2vjm_A*
2vjl_A* 2vjk_A* 1p5h_A 1p5r_A* 2vjn_A* 1t4c_A* 2vjo_A*
2vjm_B* 1vgr_A* 1t3z_A* 1t4c_B* 1vgq_A*
Length = 428
Score = 27.2 bits (61), Expect = 0.59
Identities = 5/24 (20%), Positives = 8/24 (33%)
Query: 4 REEIEYIIEEEVAKQTIRNWLEAC 27
+I IE + A + E
Sbjct: 317 LMDIFSFIETKFADKDKFEVTEWA 340
>3ubm_A COAT2, formyl-COA:oxalate COA-transferase; HET: COA; 1.99A
{Acetobacter aceti}
Length = 456
Score = 26.9 bits (60), Expect = 0.64
Identities = 6/24 (25%), Positives = 10/24 (41%)
Query: 4 REEIEYIIEEEVAKQTIRNWLEAC 27
EI IE+ +A +T +
Sbjct: 344 MFEIFAAIEKAIADKTKYEAVAHL 367
>4ed9_A CAIB/BAIF family protein; ssgcid, NIH, niaid, SBRI, UW, emerald
biostructures, structu genomics; HET: NHE; 1.95A
{Brucella suis}
Length = 385
Score = 26.7 bits (60), Expect = 0.75
Identities = 5/26 (19%), Positives = 10/26 (38%)
Query: 4 REEIEYIIEEEVAKQTIRNWLEACLK 29
R + ++EE + + L K
Sbjct: 291 RAALTALLEERTKQWKRDDLLAELAK 316
>1vhu_A Hypothetical protein AF1521; structural genomics, unknown function;
HET: MSE MES; 1.34A {Archaeoglobus fulgidus} SCOP:
c.50.1.2 PDB: 2bfq_A* 1hjz_A* 2bfr_A*
Length = 211
Score = 26.5 bits (59), Expect = 1.0
Identities = 3/19 (15%), Positives = 11/19 (57%)
Query: 14 EVAKQTIRNWLEACLKKIR 32
E + ++N+ + +K++
Sbjct: 163 ETFLEAVKNFKGSAVKEVA 181
>2x6t_A ADP-L-glycero-D-manno-heptose-6-epimerase; isomerase, carbohydrate
metabolism, stress response; HET: NAP ADP BMA; 2.36A
{Escherichia coli} PDB: 2x86_A*
Length = 357
Score = 26.5 bits (59), Expect = 1.0
Identities = 11/50 (22%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 1 MLAREEIEYIIEEEVAKQTIRNWLEACLKKIRAT--NKQQTSLIAGLRAT 48
+ +IEYI + K + + +A L +RA +K ++ G+
Sbjct: 300 YHKKGQIEYIPFPDKLKGRYQAFTQADLTNLRAAGYDKPFKTVAEGVTEY 349
>1xk7_A Crotonobetainyl-COA:carnitine COA-transferase; CAIB,
montreal-kingston bacterial structural genomics
initiative, BSGI, structural genomics; 1.60A
{Escherichia coli} SCOP: c.123.1.1 PDB: 1xk6_A 1xvt_A*
1xvu_A* 1xvv_A* 1xa3_A* 1xa4_A*
Length = 408
Score = 26.4 bits (59), Expect = 1.1
Identities = 5/24 (20%), Positives = 9/24 (37%)
Query: 4 REEIEYIIEEEVAKQTIRNWLEAC 27
+E ++ +A TI E
Sbjct: 292 GPLVEEKLDAWLATHTIAEVKERF 315
>3agc_A RED chlorophyll catabolite reductase, chloroplast; chlorophyll
degradation, substrate-bound enzyme, chlorophyll
catabolism, NADP; HET: RCC; 2.00A {Arabidopsis thaliana}
PDB: 3agb_A* 3aga_A* 2zxl_A 2zxk_A
Length = 276
Score = 25.2 bits (54), Expect = 2.5
Identities = 15/75 (20%), Positives = 27/75 (36%), Gaps = 13/75 (17%)
Query: 3 AREEIEYIIEEEV---AKQTIRNWLEACLKKIRATNKQQTSLIAGLRATNEMLHMQDHLE 59
+++E I+ + V AK+ + WLE C+K+ L ++
Sbjct: 188 EEDKLEEILRDHVSPAAKEVLEVWLERCVKEEEEKIVVGEEERMELERRDKSF------- 240
Query: 60 DKTKDKQAEKDTDAN 74
+ K E D D
Sbjct: 241 ---RRKSIEDDLDLQ 252
>3i9v_3 NADH-quinone oxidoreductase subunit 3; electron transport,
respiratory chain, cell flavoprotein, FMN, iron,
iron-sulfur, membrane; HET: FMN; 3.10A {Thermus
thermophilus} PDB: 2ybb_3* 2fug_3* 3iam_3* 3ias_3*
3m9s_3*
Length = 783
Score = 24.9 bits (54), Expect = 3.3
Identities = 5/27 (18%), Positives = 10/27 (37%)
Query: 24 LEACLKKIRATNKQQTSLIAGLRATNE 50
A + ++ ++ L AT E
Sbjct: 326 FLALKEGLKEARGEEVGLYLAHDATLE 352
>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR
repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1
d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A
Length = 457
Score = 25.0 bits (54), Expect = 3.3
Identities = 12/74 (16%), Positives = 27/74 (36%)
Query: 2 LAREEIEYIIEEEVAKQTIRNWLEACLKKIRATNKQQTSLIAGLRATNEMLHMQDHLEDK 61
A+ + E ++E + R + C KK + N++ + A + ++
Sbjct: 369 SAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDRRIYANMFKKFAEQDAKEEANKA 428
Query: 62 TKDKQAEKDTDANE 75
K +E T+
Sbjct: 429 MGKKTSEGVTNEKG 442
>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 = 24.8 bits (53), Expect = 4.7
Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 15/87 (17%)
Query: 1 MLAREEIEYIIEEEVAKQTIRNWLEACLKKIRATNKQQTSLIAGLRATNEMLHMQDH--L 58
+L++EEI++II + A L +Q ++ + E+L ++ L
Sbjct: 45 ILSKEEIDHIIMSKDAVSGTLRLFW-TLL------SKQEEMVQ--KFVEEVLR-INYKFL 94
Query: 59 ED--KTKDKQAEKDTDA-NEGLKRTKN 82
KT+ +Q T E R N
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRDRLYN 121
>2i7t_A Cleavage and polyadenylation specificity factor 73 kDa subunit;
metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J
recombination; 2.10A {Homo sapiens} SCOP: d.157.1.10
PDB: 2i7v_A
Length = 459
Score = 23.7 bits (52), Expect = 9.9
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 24 LEACLKKIRATNKQQTSLIAGLRAT 48
LE + KI N + +AG++
Sbjct: 128 LEESMDKIETINFHEVKEVAGIKFW 152
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
0.310 0.125 0.333
Gapped
Lambda K H
0.267 0.0814 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,154,733
Number of extensions: 53250
Number of successful extensions: 125
Number of sequences better than 10.0: 1
Number of HSP's gapped: 124
Number of HSP's successfully gapped: 24
Length of query: 82
Length of database: 6,701,793
Length adjustment: 51
Effective length of query: 31
Effective length of database: 5,277,822
Effective search space: 163612482
Effective search space used: 163612482
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (23.3 bits)