RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16
(87 letters)
>3na5_A Phosphoglucomutase; isomerase, metal binding; HET: BTB; 1.70A
{Salmonella enterica subsp} PDB: 3olp_A 2fuv_A*
Length = 570
Score = 64.3 bits (157), Expect = 5e-14
Identities = 20/85 (23%), Positives = 30/85 (35%), Gaps = 13/85 (15%)
Query: 8 NLMCWETLTGFKWMGTKTYDLEQEGKHVLLAFEEAIG-----FMDGTHVLDKDGVTAAVR 62
E GFKW D +G EE+ G F DKDG+ +
Sbjct: 387 GRKLVEVPVGFKWFV----DGLFDGS-FGFGGEESAGASFLRFDGTPWSTDKDGIIMCLL 441
Query: 63 MAELVAYLDSQGKDLHQLLADVYDK 87
AE+ A GK+ + ++ +
Sbjct: 442 AAEITAV---TGKNPQEHYNELAAR 463
>2z0f_A Putative phosphoglucomutase; isomerase, magnesium, metal-binding,
structural genomics; 2.52A {Thermus thermophilus}
Length = 524
Score = 63.8 bits (156), Expect = 7e-14
Identities = 23/85 (27%), Positives = 33/85 (38%), Gaps = 13/85 (15%)
Query: 8 NLMCWETLTGFKWMGTKTYDLEQEGKHVLLAFEEAIG-----FMDGTHVLDKDGVTAAVR 62
+ET GFK EG + A EE+ G F DKDG+ +
Sbjct: 343 GREVYETPVGFKHFV----AGLLEGW-LGFAGEESAGASFLRFDGRPFSTDKDGILMGLL 397
Query: 63 MAELVAYLDSQGKDLHQLLADVYDK 87
AEL+A +G+ L + +K
Sbjct: 398 AAELMAK---RGQAPDALYEALAEK 419
>1kfi_A Phosphoglucomutase 1; parafusin, phosphoprotein PP63, exocytosis,
isomerase; 2.40A {Paramecium tetraurelia} SCOP: c.84.1.1
c.84.1.1 c.84.1.1 d.129.2.1 PDB: 1kfq_A
Length = 572
Score = 53.6 bits (129), Expect = 3e-10
Identities = 20/88 (22%), Positives = 40/88 (45%), Gaps = 9/88 (10%)
Query: 3 VDFTNNLMCWETLTGFKWMGTKTYDLEQEGKHVLLAFEEAIGFMDGTHVLDKDGVTAAVR 62
V N + +ET TG+K+ G +L G + L EE+ G H+ +KDG+ A +
Sbjct: 360 VAAKNGIKLFETPTGWKFFG----NLMDAGL-INLCGEESFGTG-SNHIREKDGIWAVLA 413
Query: 63 MAELVAYL---DSQGKDLHQLLADVYDK 87
++A+ + +++ + +
Sbjct: 414 WLTILAHKNKNTDHFVTVEEIVTQYWQQ 441
>3pmg_A Alpha-D-glucose-1,6-bisphosphate; phosphoglucomutase,
phosphotransferase; HET: SEP; 2.40A {Oryctolagus
cuniculus} SCOP: c.84.1.1 c.84.1.1 c.84.1.1 d.129.2.1
PDB: 1c4g_A* 1jdy_A* 1lxt_A 1vkl_A* 1c47_A*
Length = 561
Score = 53.6 bits (129), Expect = 3e-10
Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 9/80 (11%)
Query: 8 NLMCWETLTGFKWMGTKTYDLEQEGKHVLLAFEEAIGFMDGTHVLDKDGVTAAVRMAELV 67
+ +ET TG+K+ G +L K + L EE+ G H+ +KDG+ A + ++
Sbjct: 348 KIALYETPTGWKFFG----NLMDASK-LSLCGEESFGTGSD-HIREKDGLWAVLAWLSIL 401
Query: 68 AYLDSQGKDLHQLLADVYDK 87
A + + + +L D + K
Sbjct: 402 AT---RKQSVEDILKDHWHK 418
>1tuo_A Putative phosphomannomutase; thermus thermophilus HB8, biosynthesis
of alginate, structural genomics; 1.70A {Thermus
thermophilus}
Length = 464
Score = 42.6 bits (101), Expect = 2e-06
Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 8 NLMCWETLTGFKWMGTKTYDLEQEGKHVLLAFEEAIGFMDGTHVLDKDGVTAAVRMAELV 67
T GFKW+ + + + EE+ G H+ ++DG+ ++ + E V
Sbjct: 305 GFGVTTTPVGFKWIKEE---FLKGD--CFIGGEESGGVGYPEHLPERDGILTSLLLLESV 359
Query: 68 AYLDSQGKDLHQLLADVYDK 87
A + GKDL + +V
Sbjct: 360 A---ATGKDLAEQFKEVEAL 376
>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 = 34.3 bits (78), Expect = 0.003
Identities = 14/69 (20%), Positives = 29/69 (42%), Gaps = 16/69 (23%)
Query: 23 TKTYDLEQEGKHV--LLA-FEEAIGFMDGTHVLDKDGVTAAVRMAELV------AYLDSQ 73
T+ + + E L+ F +G++ + +++ V ++ L YL +
Sbjct: 45 TEGFAADDEPTTPAELVGKF---LGYV--SSLVEPSKVGQFDQVLNLCLTEFENCYL--E 97
Query: 74 GKDLHQLLA 82
G D+H L A
Sbjct: 98 GNDIHALAA 106
Score = 25.0 bits (54), Expect = 3.7
Identities = 10/48 (20%), Positives = 16/48 (33%), Gaps = 4/48 (8%)
Query: 41 EAIGFMDGTHVLDKD-GVTAAVRMAELVAYLDSQGKDLHQLLADVYDK 87
E TH+LD G + + L G + ++A D
Sbjct: 491 ETTTQFKATHILDFGPGGAS--GLGVLTHRN-KDGTGVRVIVAGTLDI 535
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain,
transcription, RNA binding protein; 2.27A {Pseudomonas
aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5
c.55.3.13 PDB: 3bzk_A 2oce_A
Length = 785
Score = 29.1 bits (66), Expect = 0.16
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 14/54 (25%)
Query: 38 AFEEAIGFM---DGTHVLDKDGV-----TAAVRMAELVAYLDSQGKDLHQLLAD 83
FE+A GF+ +G + LD V R+A +D+ L+ D
Sbjct: 550 TFEQAAGFLRVMNGDNPLDASAVHPETYPLVQRIAA------DTERDIRSLIGD 597
>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 = 27.9 bits (61), Expect = 0.35
Identities = 11/75 (14%), Positives = 26/75 (34%), Gaps = 24/75 (32%)
Query: 20 WMGTKTYDLEQEGKHVLLAFEEAIGFMDGTH---VLDKDGVTAAVRMAELVAYLDSQGK- 75
W D+ ++ H +++K + + + + YL+ + K
Sbjct: 396 WFDVIKSDVMV--------------VVNKLHKYSLVEKQPKESTISIPSI--YLELKVKL 439
Query: 76 ----DLHQLLADVYD 86
LH+ + D Y+
Sbjct: 440 ENEYALHRSIVDHYN 454
>1p5d_X PMM, phosphomannomutase; alpha/beta protein, phosphohexomutase,
phosphoserine, enzyme complex, enzyme-metal complex,
isomerase; HET: SEP G1P; 1.60A {Pseudomonas aeruginosa}
SCOP: c.84.1.1 c.84.1.1 c.84.1.1 d.129.2.1 PDB: 1k35_A*
1p5g_X* 1pcj_X* 1pcm_X* 1k2y_X* 2h5a_X* 2h4l_X* 2fkf_A*
3rsm_A 3bkq_X* 3c04_A* 2fkm_X*
Length = 463
Score = 26.4 bits (59), Expect = 1.2
Identities = 7/29 (24%), Positives = 14/29 (48%), Gaps = 3/29 (10%)
Query: 55 DGVTAAVRMAELVAYLDSQGKDLHQLLAD 83
DG+ +A R+ E+ L +D + +
Sbjct: 341 DGIYSAARLLEI---LSQDQRDSEHVFSA 366
>2cx4_A Bacterioferritin comigratory protein; oxidoreductase, antioxidant
enzyme, reactive oxygen species, thioredoxin fold,
structural genomics; 2.30A {Aeropyrum pernix} SCOP:
c.47.1.10 PDB: 2cx3_A
Length = 164
Score = 24.5 bits (54), Expect = 4.3
Identities = 8/42 (19%), Positives = 15/42 (35%), Gaps = 10/42 (23%)
Query: 27 DLEQEGKHVLLAF----------EEAIGFMDGTHVLDKDGVT 58
++ + G+ +L F +E F D L+K
Sbjct: 28 EVLKRGRPAVLIFFPAAFSPVCTKELCTFRDKMAQLEKANAE 69
>1kcz_A Beta-methylaspartase; beta zigzag, alpha/beta-barrel, lyase; 1.90A
{Clostridium tetanomorphum} SCOP: c.1.11.2 d.54.1.1 PDB:
1kd0_A* 3zvi_A 3zvh_A
Length = 413
Score = 24.2 bits (52), Expect = 6.2
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 3/51 (5%)
Query: 39 FEEAIGFMDGTHVLDKDGVTA---AVRMAELVAYLDSQGKDLHQLLADVYD 86
F+ D V TA + A L A ++ + +++ D Y+
Sbjct: 109 FKPMAEEFDKMTVNGNRLHTAIRYGITQAILDAVAKTRKVTMAEVIRDEYN 159
>2v1n_A KIN17, protein KIN homolog; nuclear protein, winged helix motif;
NMR {Homo sapiens}
Length = 111
Score = 24.0 bits (52), Expect = 6.2
Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 8 NLMCWETLTGF-KWMG-TKTYDLEQEGKHVLLAFEE 41
N WETLT F KW+G +++ K + + +
Sbjct: 59 NATQWETLTDFTKWLGREGLCKVDETPKGWYIQYID 94
>1ogl_A Dutpase, deoxyuridine triphosphatase; hydrolase, native, X-RAY,
dimer; 2.4A {Trypanosoma cruzi} SCOP: a.204.1.1 PDB:
1ogk_A
Length = 283
Score = 24.2 bits (51), Expect = 6.5
Identities = 12/63 (19%), Positives = 25/63 (39%), Gaps = 8/63 (12%)
Query: 32 GKHVLLAFEEAIGFMDGTHVLDKDGVTAAVRMAELVAYLDSQG--------KDLHQLLAD 83
K+ L + G+ +G +V ++GV + E V + + K ++
Sbjct: 196 AKYTLNQIRQLKGYKEGVYVKVREGVEDNELLHECVQSVSVEDVLNEGTYLKAWEKIACS 255
Query: 84 VYD 86
V+D
Sbjct: 256 VFD 258
>2kln_A Probable sulphate-transport transmembrane protein; SLC26,
sulfate, antisigma factor antagonist, ensemble
structures, transport protein; NMR {Mycobacterium
bovis}
Length = 130
Score = 23.8 bits (52), Expect = 7.6
Identities = 8/46 (17%), Positives = 16/46 (34%), Gaps = 10/46 (21%)
Query: 33 KHVLLAFEEAIGFMDGTHVLDKDGVTAAVRMAELVAYLDSQGKDLH 78
+ +L E + +D +TA + +L L +G
Sbjct: 49 EWFVLNAE-SNVEVD---------LTALDALDQLRTELLRRGIVFA 84
>1w2y_A Deoxyuridine 5'-triphosphate nucleotide hydrolase; DUTP
pyrophosphatase, dimeric, ligand complex, magnesium
IONS, pathogen, drug target; HET: DUN; 1.65A
{Campylobacter jejuni} SCOP: a.204.1.1 PDB: 2cic_A*
Length = 229
Score = 24.0 bits (51), Expect = 8.0
Identities = 13/56 (23%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 32 GKHVLLAFEEAIGFMDGTHVLDKDGVTAAVRMAELVAYLDSQGKDLHQLLADVYDK 87
GK+VL F + G+ DG++ +G +A+++ +++ L + Y K
Sbjct: 174 GKNVLNIFRQNNGYKDGSYKKTWNGKEDNEVLAQILEQELDF-DTIYKKLEECYKK 228
>3hnc_A Ribonucleoside-diphosphate reductase large subuni;
oxidoreductase, ribonucleotide reductase, allosteric
enzyme, binding, DNA replication; HET: TTP; 2.41A {Homo
sapiens} PDB: 3hnd_A* 3hne_A* 3hnf_A*
Length = 792
Score = 24.1 bits (52), Expect = 8.7
Identities = 7/36 (19%), Positives = 14/36 (38%)
Query: 50 HVLDKDGVTAAVRMAELVAYLDSQGKDLHQLLADVY 85
HV+ +DG V ++ + + L+ D
Sbjct: 2 HVIKRDGRQERVMFDKITSRIQKLCYGLNMDFVDPA 37
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
0.321 0.136 0.414
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,406,504
Number of extensions: 75451
Number of successful extensions: 176
Number of sequences better than 10.0: 1
Number of HSP's gapped: 170
Number of HSP's successfully gapped: 22
Length of query: 87
Length of database: 6,701,793
Length adjustment: 55
Effective length of query: 32
Effective length of database: 5,166,138
Effective search space: 165316416
Effective search space used: 165316416
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: 51 (23.4 bits)