RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy255
(70 letters)
>3gr4_A Pyruvate kinase isozymes M1/M2; activator, acetylation, allosteric
enzyme, alternative splicing, glycolysis, magnesium,
metal-binding; HET: FBP TLA DYY ADP; 1.60A {Homo
sapiens} PDB: 3gqy_A* 3h6o_A* 3me3_A* 1zjh_A 3g2g_A
1t5a_A* 3bjt_A 3bjf_A* 1f3x_A 3n25_A 1f3w_A 1a49_A*
1a5u_A* 1aqf_A* 1pkm_A 2g50_A* 1pkn_A 2vgb_A* 2vgf_A*
2vgg_A* ...
Length = 550
Score = 59.3 bits (144), Expect = 2e-12
Identities = 25/52 (48%), Positives = 33/52 (63%)
Query: 19 EPSPADWLRDVDTRVAHGIKYGRDRKFLNQGDPVIVVTGWKKGAGFTNTLIV 70
+P W DVD RV + G+ R F +GD VIV+TGW+ G+GFTNT+ V
Sbjct: 495 DPVQEAWAEDVDLRVNFAMNVGKARGFFKKGDVVIVLTGWRPGSGFTNTMRV 546
>1a3w_A Pyruvate kinase; allosteric regulation, tranferase, transfer; HET:
FBP; 3.00A {Saccharomyces cerevisiae} SCOP: b.58.1.1
c.1.12.1 c.49.1.1 PDB: 1a3x_A
Length = 500
Score = 57.7 bits (140), Expect = 6e-12
Identities = 19/52 (36%), Positives = 31/52 (59%)
Query: 19 EPSPADWLRDVDTRVAHGIKYGRDRKFLNQGDPVIVVTGWKKGAGFTNTLIV 70
+ +DW DV+ R+ GI+ ++ L +GD + + G+K GAG +NTL V
Sbjct: 446 KEPVSDWTDDVEARINFGIEKAKEFGILKKGDTYVSIQGFKAGAGHSNTLQV 497
>1e0t_A Pyruvate kinase, PK; phosphotransferase, glycolysis, allostery;
1.8A {Escherichia coli} SCOP: b.58.1.1 c.1.12.1 c.49.1.1
PDB: 1pky_A 1e0u_A
Length = 470
Score = 57.1 bits (139), Expect = 1e-11
Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 1/68 (1%)
Query: 4 TRSEEIPKQVLIGK-IEPSPADWLRDVDTRVAHGIKYGRDRKFLNQGDPVIVVTGWKKGA 62
T +E+ Q+++ K + P + D G + ++GD V++V+G +
Sbjct: 400 TTNEKTAHQLVLSKGVVPQLVKEITSTDDFYRLGKELALQSGLAHKGDVVVMVSGALVPS 459
Query: 63 GFTNTLIV 70
G TNT V
Sbjct: 460 GTTNTASV 467
>3hqn_D Pyruvate kinase, PK; TIM barrel, T-state enzyme, transferase,
allosteric enzyme, binding, glycolysis, magnesium,
metal-binding, NUCL binding; 2.00A {Leishmania mexicana}
PDB: 1pkl_A 3hqo_K* 3hqp_A* 3hqq_A* 3is4_A* 3ktx_A*
3qv6_A* 3qv7_D* 3qv8_D* 3e0w_A 3e0v_A 3pp7_A* 3qv9_A*
Length = 499
Score = 55.7 bits (135), Expect = 3e-11
Identities = 13/71 (18%), Positives = 29/71 (40%), Gaps = 6/71 (8%)
Query: 4 TRSEEIPKQVLIGK------IEPSPADWLRDVDTRVAHGIKYGRDRKFLNQGDPVIVVTG 57
T + +Q+ I + + + RVA G+++ + + ++ GD +V+
Sbjct: 423 TTRLQTCRQLNITQGVESVFFDADKLGHDEGKEHRVAAGVEFAKSKGYVQTGDYCVVIHA 482
Query: 58 WKKGAGFTNTL 68
K G+ N
Sbjct: 483 DHKVKGYANQT 493
>3ma8_A Pyruvate kinase; parasitology, pyruvate kiase, glycol kinase,
magnesium, transferase, structural genomi structural
genomics consortium; HET: CIT; 2.64A {Cryptosporidium
parvum}
Length = 534
Score = 51.9 bits (125), Expect = 7e-10
Identities = 12/68 (17%), Positives = 29/68 (42%), Gaps = 4/68 (5%)
Query: 4 TRSEEIPKQVLI--GKIEPSPADWLRDVDTRVAHGIKYGRDRKFLNQGDPVIVVTGWKKG 61
T E+ + + I G ++ + + + +++ + ++ + GD I V G K+
Sbjct: 462 TAKPEVARGLKIARG-VKTYVLNSIHHSEVVISNALALAKEESLIESGDFAIAVHGVKES 520
Query: 62 -AGFTNTL 68
G N +
Sbjct: 521 CPGSCNLM 528
>3khd_A Pyruvate kinase; malaria, structural genomics, structural GE
consortium, SGC, transferase; 2.70A {Plasmodium
falciparum 3D7}
Length = 520
Score = 51.0 bits (123), Expect = 1e-09
Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 4 TRSEEIPKQVLI--GKIEPSPADWLRDVDTRVAHGIKYGRDRKFLNQGDPVIVVTGWKKG 61
+ S+ K + + G + + D + + I+ + R GD VI + G K+
Sbjct: 448 SASDSTVKCLNVHRG-VTCIKVGSFQGTDIVIRNAIEIAKQRNMAKVGDSVIAIHGIKEE 506
Query: 62 -AGFTNTLIV 70
+G TN + V
Sbjct: 507 VSGGTNLMKV 516
>3t05_A Pyruvate kinase, PK; tetramer, glycolysis, transferase; 3.05A
{Staphylococcus aureus subsp} PDB: 3t07_A*
Length = 606
Score = 50.3 bits (121), Expect = 2e-09
Identities = 16/69 (23%), Positives = 29/69 (42%), Gaps = 2/69 (2%)
Query: 4 TRSEEIPKQVLIGK-IEPSPADWLRDVDTRVAHGIKYGRDRKFLNQGDPVIVVTGWKKG- 61
T SEE +Q I ++P + D + + + + + GD +I+ G G
Sbjct: 422 TPSEETARQCSIVWGVQPVVKKGRKSTDALLNNAVATAVETGRVTNGDLIIITAGVPTGE 481
Query: 62 AGFTNTLIV 70
G TN + +
Sbjct: 482 TGTTNMMKI 490
>3gg8_A Pyruvate kinase; malaria, genomics, proteomics, glycolysis,
magnesium, transferase, structural genomics, STRU
genomics consortium, SGC; 2.21A {Toxoplasma gondii} PDB:
3eoe_A
Length = 511
Score = 48.7 bits (117), Expect = 9e-09
Identities = 16/70 (22%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 4 TRSEEIPKQVLI--GKIEPSPADWLRDVDTRVAHGIKYGRDRKFLNQGDPVIVVTGWKKG 61
+ SE K + + G + + D + + I ++R+ + +G+ ++ V G K+
Sbjct: 439 SASESTIKHLQVIRG-VTTMQVPSFQGTDHVIRNAIVVAKERELVTEGESIVAVHGMKEE 497
Query: 62 -AGFTNTLIV 70
AG +N L V
Sbjct: 498 VAGSSNLLKV 507
>2e28_A Pyruvate kinase, PK; allosteric, transferase; 2.40A {Geobacillus
stearothermophilus}
Length = 587
Score = 46.4 bits (111), Expect = 5e-08
Identities = 13/69 (18%), Positives = 27/69 (39%), Gaps = 2/69 (2%)
Query: 4 TRSEEIPKQVLIGK-IEPSPADWLRDVDTRVAHGIKYGRDRKFLNQGDPVIVVTGWKKG- 61
T +E + +++ + + A + D + + + GD V++ G G
Sbjct: 403 TSNEAVSRRLALVWGVYTKEAPHVNTTDEMLDVAVDAAVRSGLVKHGDLVVITAGVPVGE 462
Query: 62 AGFTNTLIV 70
G TN + V
Sbjct: 463 TGSTNLMKV 471
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.3 bits (57), Expect = 0.71
Identities = 9/47 (19%), Positives = 18/47 (38%), Gaps = 2/47 (4%)
Query: 6 SEEIPKQVLIGKIEPSPADWLRDVDTRVAHGIKYGR--DRKFLNQGD 50
+ ++ +Q K + +W + +V R D+ F Q D
Sbjct: 104 ASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPD 150
>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 = 26.2 bits (57), Expect = 0.83
Identities = 7/36 (19%), Positives = 14/36 (38%), Gaps = 1/36 (2%)
Query: 6 SEEIPKQVLIGKIEPSPADWLRDVDTRVAHGIKYGR 41
S I ++ ++ I P W + H + +G
Sbjct: 472 SGSISER-IVDCIIRLPVKWETTTQFKATHILDFGP 506
>1hyo_A Fumarylacetoacetate hydrolase; beta-sandwich roll; HET: HBU; 1.30A
{Mus musculus} SCOP: b.34.8.1 d.177.1.1 PDB: 1qcn_A
2hzy_A* 1qco_A 1qqj_A
Length = 421
Score = 26.3 bits (57), Expect = 0.93
Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 40 GRDRKFLNQGDPVIVVTGWKKGAGF 64
G+ R FL GD +++TG +G G+
Sbjct: 380 GQTRTFLLDGD-EVIITGHCQGDGY 403
>3fg1_A Allene oxide synthase-lipoxygenase protein; arichidonic
metabolism, dioxygenase, fatty ACI biosynthesis, heme,
iron, lipid synthesis, lyase; HET: GOL; 1.85A {Plexaura
homomalla} PDB: 3fg4_A* 3fg3_A* 2fnq_A
Length = 696
Score = 25.6 bits (55), Expect = 1.6
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 52 VIVVTGWKKGAGFTNT 67
V V TG ++ AG T
Sbjct: 11 VEVETGDREHAGTDAT 26
>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural
genomics, PSI, protein struct initiative; 2.40A {Vibrio
parahaemolyticus} SCOP: e.61.1.1
Length = 273
Score = 25.3 bits (55), Expect = 1.8
Identities = 4/20 (20%), Positives = 8/20 (40%)
Query: 16 GKIEPSPADWLRDVDTRVAH 35
+ +RD+D R+
Sbjct: 135 FLANDTSFSDVRDIDDRLGG 154
>3v98_A Arachidonate 5-lipoxygenase; dioxygenase, oxidoreductase; 2.07A
{Homo sapiens} PDB: 3v99_A* 3o8y_A 3v92_B
Length = 691
Score = 25.2 bits (54), Expect = 1.8
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 52 VIVVTGWKKGAGFTNT 67
V V TG ++ AG +
Sbjct: 26 VTVATGSQEHAGTDDY 41
>3vf1_A 11R-lipoxygenase; LOX, PLAT, beta sandwich, C2-like domain,
non-heme iron, conformational change, dioxygenase,
oxidoreductase; HET: SUC; 2.47A {Gersemia fruticosa}
Length = 698
Score = 24.9 bits (53), Expect = 2.4
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 52 VIVVTGWKKGAGFTNT 67
+ V TG +GAG +
Sbjct: 24 ITVETGDLRGAGTDAS 39
>1lox_A 15-lipoxygenase, 15LOX; oxidoreductase, 15LO_depot2; HET: RS7;
2.40A {Oryctolagus cuniculus} SCOP: a.119.1.2 b.12.1.1
PDB: 2p0m_A*
Length = 662
Score = 24.8 bits (53), Expect = 3.1
Identities = 7/16 (43%), Positives = 7/16 (43%)
Query: 52 VIVVTGWKKGAGFTNT 67
V V TG AG N
Sbjct: 5 VCVSTGASIYAGSKNK 20
>3r7a_A Phosphoglycerate mutase, putative; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG;
HET: MSE EPE; 1.84A {Bacillus anthracis}
Length = 237
Score = 23.8 bits (52), Expect = 5.4
Identities = 7/31 (22%), Positives = 11/31 (35%)
Query: 26 LRDVDTRVAHGIKYGRDRKFLNQGDPVIVVT 56
TR+ I + + G V+VV
Sbjct: 151 WELFSTRIKAEIDKISEEAAKDGGGNVLVVV 181
>3r5y_A Putative uncharacterized protein; PA-824, nitroimidazoles, split
barrel-like fold, DUF385, DEA dependent nitroreductase,
unknown function; HET: F42; 1.80A {Nocardia farcinica}
Length = 147
Score = 23.4 bits (50), Expect = 6.6
Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 7/58 (12%)
Query: 16 GKIEPSPADWLRD-VDTRVAHGIKYGRDRKFLNQGDPVIVVT--GWKKGAGFTNTLIV 70
G+ PSP++W+ + V A + G P++++T G K GA ++
Sbjct: 8 GEYVPSPSEWIGNQVAQYEASDGAEAGEF----DGRPLVILTTVGRKTGALRKTPVMR 61
>3r5z_A Putative uncharacterized protein; split barrel-like fold, DUF385,
deazaflavin-dependent reduct F420-dependent reductase,
FDR; HET: F42; 1.50A {Nocardia farcinica}
Length = 145
Score = 23.0 bits (49), Expect = 9.2
Identities = 23/60 (38%), Positives = 29/60 (48%), Gaps = 7/60 (11%)
Query: 14 LIGKIEPSPADWLRD-VDTRVAHGIKYGRDRKFLNQGDPVIVVT--GWKKGAGFTNTLIV 70
L G+ EPSP+DW R V+T G G QG PV+V+T G K G L+
Sbjct: 4 LTGEYEPSPSDWARKQVETYENSGGTEGTTL----QGKPVVVLTTKGAKTGKLRKTPLMR 59
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
0.318 0.138 0.418
Gapped
Lambda K H
0.267 0.0446 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,154,115
Number of extensions: 57726
Number of successful extensions: 142
Number of sequences better than 10.0: 1
Number of HSP's gapped: 142
Number of HSP's successfully gapped: 21
Length of query: 70
Length of database: 6,701,793
Length adjustment: 40
Effective length of query: 30
Effective length of database: 5,584,953
Effective search space: 167548590
Effective search space used: 167548590
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 (21.7 bits)
S2: 51 (24.1 bits)