RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6555
(178 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 = 41.8 bits (97), Expect = 6e-05
Identities = 30/180 (16%), Positives = 52/180 (28%), Gaps = 39/180 (21%)
Query: 2 RPKRPFIPTTGPTLTGSTVLDSNIIFSGLRILGEGLRVIPGTVKQCSDILQDNNIMAISP 61
+ TLT V + + L + +P V N +S
Sbjct: 285 TTTHISLDHHSMTLTPDEVKS---LLL--KYLDCRPQDLPREVLTT-------NPRRLS- 331
Query: 62 GGLYEAQLGDSYYKLMWRRRMGFAKVAIEAKVPIIPIFTRNIRES-FRTVGWLKSFWNKL 120
+ + D W + V + II + + +R K F +L
Sbjct: 332 --IIAESIRD--GLATWDN---WKHVNCDKLTTIIESSLNVLEPAEYR-----KMFD-RL 378
Query: 121 YIYTRLPL-VPIYGGFPVK-LVTYVGEPIPYDPNLTPEELAKKVM---RPKNNYYSLSDI 175
+ P I P L + I D + +L K + +PK + S+ I
Sbjct: 379 SV---FPPSAHI----PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431
>3p8c_A Cytoplasmic FMR1-interacting protein 1; actin polymerization,
protein binding; 2.29A {Homo sapiens}
Length = 1253
Score = 32.1 bits (72), Expect = 0.095
Identities = 24/123 (19%), Positives = 46/123 (37%), Gaps = 15/123 (12%)
Query: 30 LRILGEGLRVIPGTVKQCSDILQDNNIMAISPGGLYEAQLGDSYYKLMWRRRMGFAKVAI 89
+ L + L VI G + +DI+ + L ++ K M + MGF +
Sbjct: 221 TQSLQQQLEVISGYEELLADIVNLCVDYYENRMYLTPSE------KHMLLKVMGFGLYLM 274
Query: 90 EAKVPIIPIFTRNIRESFRTVGWLKSFWNKLYIYTRLPLVPIYGGFPVKLVTYVGEPIPY 149
+ V I R + + + +L +VP++G ++L Y+ Y
Sbjct: 275 DGSVSNIYKLDAKKRINLSKI---------DKYFKQLQVVPLFGDMQIELARYIKTSAHY 325
Query: 150 DPN 152
+ N
Sbjct: 326 EEN 328
>3h8l_A NADH oxidase; membrane protein, complete form, rossman-like fold,
oxidoreductase; HET: FAD; 2.57A {Acidianus ambivalens}
PDB: 3h8i_A*
Length = 409
Score = 29.3 bits (66), Expect = 0.61
Identities = 9/56 (16%), Positives = 18/56 (32%), Gaps = 2/56 (3%)
Query: 82 MGFAKVAIEAKVPIIPIFTRNIRESFRTVGWLKSFWNKLYIYT--RLPLVPIYGGF 135
+ A+ K T +I + K + K Y++T + L +
Sbjct: 354 NPYEGYAVSVKDDTWYGGTVSIADPAAVNHLKKELFTKYYMWTKGDMALEKFLASW 409
>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 = 1.2
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 17/49 (34%)
Query: 14 TLTGST-VLDSNIIF-----SGLRIL------GEGLRVIP-GTVKQCSD 49
T +T +LD F SGL +L G G+RVI GT+ D
Sbjct: 494 TQFKATHILD----FGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPD 538
>3h28_A Sulfide-quinone reductase; monotopic membrane protein,
flavoprotein, polysulfur, oxidoreductase; HET: FAD DCQ
LMT; 2.00A {Aquifex aeolicus} PDB: 3h27_A* 3h29_A*
3hyv_A* 3hyw_A* 3hyx_A*
Length = 430
Score = 27.4 bits (61), Expect = 3.1
Identities = 8/47 (17%), Positives = 19/47 (40%), Gaps = 2/47 (4%)
Query: 88 AIEAKVPIIPIFTRNIRESFRTVGWLKSFWNKLYIYT--RLPLVPIY 132
P+IP R I + + + K+ + K +++ + P +
Sbjct: 356 GFFFADPVIPPRERVITKMGKWAHYFKTAFEKYFLWKVRNGNIAPSF 402
>2v0h_A Bifunctional protein GLMU; cell WALL, magnesium, cell shape,
transferase, peptidoglycan synthesis, associative
mechanism; 1.79A {Haemophilus influenzae} PDB: 2v0i_A*
2v0j_A* 2v0k_A* 2v0l_A* 2vd4_A* 2w0v_A* 2w0w_A* 3twd_A*
Length = 456
Score = 27.1 bits (61), Expect = 3.7
Identities = 12/42 (28%), Positives = 19/42 (45%)
Query: 19 TVLDSNIIFSGLRILGEGLRVIPGTVKQCSDILQDNNIMAIS 60
+D N+I G LG+ +++ G V + I D I S
Sbjct: 272 VEIDVNVIIEGNVKLGDRVKIGTGCVLKNVVIGNDVEIKPYS 313
>4fce_A Bifunctional protein GLMU; GLMU. csgid, niaid, structural genomics,
national institute allergy and infectious diseases; HET:
GP1; 1.96A {Yersinia pseudotuberculosis} PDB: 3fww_A
1hv9_A* 2oi5_A* 2oi6_A* 2oi7_A* 1fxj_A* 1fwy_A*
Length = 459
Score = 27.1 bits (61), Expect = 3.8
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 19 TVLDSNIIFSGLRILGEGLRVIPGTVKQCSDILQDNNIMAISPGGLYEAQLGD 71
+D+N+I G ILG+ +R+ G V + I D+ I + L +A+L
Sbjct: 275 ITIDTNVIIEGHVILGDRVRIGTGCVLKNCVIGDDSEISPYTV--LEDARLDA 325
>2j0w_A Lysine-sensitive aspartokinase 3; feedback inhibition, allosteric
regulation, ACT domain, transferase, amino acid
biosynthesis; HET: ADP; 2.5A {Escherichia coli} SCOP:
c.73.1.3 d.58.18.10 d.58.18.10 PDB: 2j0x_A*
Length = 449
Score = 26.8 bits (60), Expect = 3.8
Identities = 9/32 (28%), Positives = 14/32 (43%)
Query: 32 ILGEGLRVIPGTVKQCSDILQDNNIMAISPGG 63
++G L G K+ +L+ NI I G
Sbjct: 391 LIGNDLSKACGVGKEVFGVLEPFNIRMICYGA 422
>3hp4_A GDSL-esterase; psychrotrophic, monoethylphosphonate, hydrolase;
HET: MIR; 1.35A {Pseudoalteromonas SP}
Length = 185
Score = 26.4 bits (58), Expect = 5.0
Identities = 9/55 (16%), Positives = 17/55 (30%), Gaps = 3/55 (5%)
Query: 49 DILQDNNIMAISPGGLYEAQLGDSYYKLMWRRRMGFAKVAIEAKVPIIPIFTRNI 103
Q N M G Y K+ F +++ + ++ F +I
Sbjct: 97 KKSQAANAMTALMEIYIPPNYGPRYSKMFTSS---FTQISEDTNAHLMNFFMLDI 148
>1ccw_B Protein (glutamate mutase); coenzyme B12, radical reaction,
TIM-barrel rossman-fold, isomerase; HET: CNC TAR; 1.60A
{Clostridium cochlearium} SCOP: c.1.19.2 PDB: 1cb7_B*
1i9c_B*
Length = 483
Score = 26.4 bits (58), Expect = 5.4
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 6 PFIPTTGPTLTGSTVLDSNIIFSGLRILGEGLRVIPGTVKQCSDILQD 53
PF P TG TL ++ ++ I L +G++ I +C +++QD
Sbjct: 215 PFGPLTG-TLVPPSMSNAVGITEALLAAEQGVKNITVGYGECGNMIQD 261
>2r8u_A Microtubule-associated protein RP/EB family member 1; cytoskeleton,
acetylation, cell cycle, cell division, cytoplasm,
mitosis, phosphorylation; 1.35A {Homo sapiens} SCOP:
a.40.1.1 PDB: 1vka_A 1txq_B 1wu9_A 2hkq_A 2hl5_A 3tq7_A
3gjo_A 1yib_A 1yig_A
Length = 268
Score = 26.0 bits (56), Expect = 6.7
Identities = 10/48 (20%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 74 YKLMWRRRMGFAKVAIEAKVPIIPIFTRNIRESFRTVGWLKSFWNKLY 121
+K++ + GF ++ ++ +P+ + +++F V W K F++ Y
Sbjct: 75 FKIL---QAGFKRMGVDKIIPVDKLVKGKFQDNFEFVQWFKKFFDANY 119
>2qjz_A Microtubule-associated protein RP/EB family member 1; calponin
homology domain, microtubule plus END, +TIP, protein
binding; 1.25A {Homo sapiens} SCOP: a.40.1.1 PDB: 1pa7_A
1ueg_A 3co1_A 1v5k_A
Length = 123
Score = 25.3 bits (55), Expect = 7.9
Identities = 10/48 (20%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 74 YKLMWRRRMGFAKVAIEAKVPIIPIFTRNIRESFRTVGWLKSFWNKLY 121
+K++ + GF ++ ++ +P+ + +++F V W K F++ Y
Sbjct: 65 FKIL---QAGFKRMGVDKIIPVDKLVKGKFQDNFEFVQWFKKFFDANY 109
>1wyo_A Protein EB3, microtubule-associated protein RP/EB family member 3;
CH domain, microtubule-binding, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 159
Score = 25.4 bits (55), Expect = 8.5
Identities = 9/48 (18%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 74 YKLMWRRRMGFAKVAIEAKVPIIPIFTRNIRESFRTVGWLKSFWNKLY 121
+K++ + F K+ ++ +P+ + +++F + W K F++ Y
Sbjct: 82 FKVL---QAAFKKMGVDKIIPVEKLVKGKFQDNFEFIQWFKKFFDANY 126
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
0.322 0.143 0.442
Gapped
Lambda K H
0.267 0.0839 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,927,588
Number of extensions: 172154
Number of successful extensions: 426
Number of sequences better than 10.0: 1
Number of HSP's gapped: 425
Number of HSP's successfully gapped: 17
Length of query: 178
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 91
Effective length of database: 4,272,666
Effective search space: 388812606
Effective search space used: 388812606
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.4 bits)