RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7987
(112 letters)
>3ugu_A S-arrestin; arrestin fold, signal termination, GPCR, outer segment,
SIGN protein; 1.85A {Bos taurus} PDB: 3ugx_A 1cf1_A
1ayr_A
Length = 380
Score = 101 bits (253), Expect = 4e-27
Identities = 32/75 (42%), Positives = 53/75 (70%), Gaps = 3/75 (4%)
Query: 11 DGVVLIDSDYLKDRKVFGHVLAAFRYGREDLDVLGLTFRKELFVTSDQIFPPLNSTTPNK 70
DGVVL+D + +K ++V+ + AFRYG+ED+DV+GL+FR++L+ + Q+FPP+ + +
Sbjct: 52 DGVVLVDPELVKGKRVYVSLTCAFRYGQEDIDVMGLSFRRDLYFSQVQVFPPVGA---SG 108
Query: 71 PLTRLQKVLGLIPGS 85
TRLQ+ L G+
Sbjct: 109 ATTRLQESLIKKLGA 123
>1g4m_A Beta-arrestin1; sensory transduction, alternative splicing,
signaling protein; 1.90A {Bos taurus} SCOP: b.1.18.11
b.1.18.11 PDB: 1g4r_A 3gd1_C 1jsy_A 1zsh_A* 2wtr_A
2wtr_B 3gc3_A 3p2d_A
Length = 393
Score = 100 bits (251), Expect = 7e-27
Identities = 45/75 (60%), Positives = 54/75 (72%), Gaps = 2/75 (2%)
Query: 11 DGVVLIDSDYLKDRKVFGHVLAAFRYGREDLDVLGLTFRKELFVTSDQIFPPLNSTTPNK 70
DGVVL+D +YLK+R+V+ + AFRYGREDLDVLGLTFRK+LFV + Q FPP K
Sbjct: 38 DGVVLVDPEYLKERRVYVTLTCAFRYGREDLDVLGLTFRKDLFVANVQSFPPAPE--DKK 95
Query: 71 PLTRLQKVLGLIPGS 85
PLTRLQ+ L G
Sbjct: 96 PLTRLQERLIKKLGE 110
>1suj_A CONE arrestin; sensory transduction, signaling protein; 2.38A
{Ambystoma tigrinum}
Length = 392
Score = 100 bits (251), Expect = 7e-27
Identities = 39/75 (52%), Positives = 54/75 (72%), Gaps = 4/75 (5%)
Query: 11 DGVVLIDSDYLKDRKVFGHVLAAFRYGREDLDVLGLTFRKELFVTSDQIFPPLNSTTPNK 70
DGVVLID +YLKDRKVF + AFRYGR+DLD++G++FRK+L+ + Q++PP +
Sbjct: 37 DGVVLIDPEYLKDRKVFVTLTCAFRYGRDDLDLIGMSFRKDLYSLATQVYPP----ETKE 92
Query: 71 PLTRLQKVLGLIPGS 85
PLT LQ+ L G+
Sbjct: 93 PLTPLQEKLMKKLGA 107
>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 = 31.7 bits (71), Expect = 0.040
Identities = 20/118 (16%), Positives = 40/118 (33%), Gaps = 25/118 (21%)
Query: 4 MFVHVNGDGVVLIDSDYLKDRKVFGHVLAAFRYGREDLDVLGLTFRKELFVTSDQIFPPL 63
FV + V+ I+ +L + + + + + R L+ +Q+F
Sbjct: 81 KFV----EEVLRINYKFLMSP------IKTEQRQPSMMTRMYIEQRDRLY-NDNQVFAKY 129
Query: 64 NSTTPNKPLTRLQKVL-GLIPGS---------C--TVGADISLIDIDRGDCLD-TLFW 108
N + +P +L++ L L P T A + +D +FW
Sbjct: 130 NVSRL-QPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW 186
>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 = 29.2 bits (65), Expect = 0.27
Identities = 28/154 (18%), Positives = 46/154 (29%), Gaps = 63/154 (40%)
Query: 9 NGDGVVLIDSDYLKD-RKVF----GHVLAAFRYGREDLDVLGLTFRKELFVTSDQIFP-P 62
G G DY ++ R ++ V ++ E L L + ++++F
Sbjct: 161 GGQG---NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELI-----RTTLDAEKVFTQG 212
Query: 63 LN--------STTPNK----------PLTRL-Q--------KVLGLIP--------GSCT 87
LN S TP+K PL + Q K+LG P G+
Sbjct: 213 LNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATG 272
Query: 88 VGADI-------------SLIDIDRGDCLDTLFW 108
+ S R + LF+
Sbjct: 273 HSQGLVTAVAIAETDSWESFFVSVR-KAITVLFF 305
>4ax1_B Metallo-beta-lactamase AIM-1; hydrolase, antibiotic resistance,
acquired B3, drug binding; 1.40A {Pseudomonas
aeruginosa} PDB: 4awy_B 4awz_A 4ax0_B
Length = 303
Score = 28.9 bits (64), Expect = 0.36
Identities = 6/46 (13%), Positives = 18/46 (39%)
Query: 2 TNMFVHVNGDGVVLIDSDYLKDRKVFGHVLAAFRYGREDLDVLGLT 47
+ + + G +L+D+ + + A + ED+ + +
Sbjct: 58 ISALLVTSDAGHILVDAATPQAGPQILANIRALGFRPEDVRAIVFS 103
>3r7k_A Probable acyl COA dehydrogenase; ssgcid, structural genomics,
seattle structural genomics CEN infectious disease,
oxidoreductase; HET: FDA; 2.50A {Mycobacterium
abscessus}
Length = 403
Score = 27.5 bits (62), Expect = 1.0
Identities = 4/16 (25%), Positives = 8/16 (50%)
Query: 19 DYLKDRKVFGHVLAAF 34
+ ++R+ FG L
Sbjct: 287 SWARERETFGRPLTGR 302
>3p4t_A Putative acyl-COA dehydrogenase; ssgcid, structural genomics,
seattle structural genomics CEN infectious disease,
oxidoreductase; HET: FAO; 1.70A {Mycobacterium
smegmatis} PDB: 3oib_A*
Length = 403
Score = 27.1 bits (61), Expect = 1.1
Identities = 4/16 (25%), Positives = 9/16 (56%)
Query: 19 DYLKDRKVFGHVLAAF 34
++ ++R FG L +
Sbjct: 284 EWCRNRDTFGRPLISR 299
>2pg0_A Acyl-COA dehydrogenase; GK1316, geobacillus kaustophilus HTA
structural genomics, PSI, protein structure initiative;
HET: FAD; 1.80A {Geobacillus kaustophilus}
Length = 385
Score = 27.1 bits (61), Expect = 1.2
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 19 DYLKDRKVFGHVLAAF 34
Y+K R FG ++ F
Sbjct: 269 QYVKQRTAFGKRVSEF 284
>4eyb_A Beta-lactamase NDM-1; metallo beta lactamase, antibiotic,
hydrolase-antibiotic COM; HET: 0WO; 1.16A {Klebsiella
pneumoniae} PDB: 4ey2_A* 4eyf_A* 4exy_A 4exs_B 4eyl_A*
3spu_A 3q6x_A* 3rkj_A 3sfp_A* 3rkk_A* 3sbl_A* 3srx_A
3zr9_A 3s0z_A 3pg4_A
Length = 270
Score = 26.9 bits (59), Expect = 1.7
Identities = 4/18 (22%), Positives = 11/18 (61%)
Query: 1 MTNMFVHVNGDGVVLIDS 18
+N + +G V+++D+
Sbjct: 74 ASNGLIVRDGGRVLVVDT 91
>4e3x_A Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial; amino
acid metabolism, proline inhibition, oxidoreductase;
HET: 16P PGE; 1.24A {Mus musculus} PDB: 3v9k_A* 3v9l_A*
3v9j_A* 3v9g_A 3v9h_A 3v9i_A
Length = 563
Score = 26.5 bits (59), Expect = 2.0
Identities = 10/43 (23%), Positives = 15/43 (34%), Gaps = 11/43 (25%)
Query: 16 IDSDYLKDRKVFGHVLAAFRYGREDLD-VL---------GLTF 48
+K ++FG VL + Y + L GLT
Sbjct: 439 PQEPIMK-EEIFGPVLTVYVYPDDKYRETLKLVDSTTSYGLTG 480
>3ii9_A Glutaryl-COA dehydrogenase; slipchip, microfluidics, screening,
optimization, protein crystallization, structural
genomics; HET: PGE PG4; 1.74A {Burkholderia pseudomallei
1710B} PDB: 3eon_A* 3eom_A* 3gqt_A* 3gnc_A* 3d6b_A
Length = 396
Score = 26.4 bits (59), Expect = 2.3
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 19 DYLKDRKVFGHVLAAF 34
Y+ DRK FG LAA
Sbjct: 275 QYVLDRKQFGRPLAAN 290
>1sml_A Protein (penicillinase); metallo-beta-lactamase, antibiotic
resistance, binuclear zinc, hydrolase; 1.70A
{Stenotrophomonas maltophilia} SCOP: d.157.1.1 PDB:
2aio_A* 2fm6_A 2fu6_A 2fu7_A* 2fu8_A* 2fu9_A* 2gfj_A*
2gfk_A* 2h6a_A 2hb9_A* 2qdt_A* 2qjs_A 2qin_A
Length = 269
Score = 26.0 bits (57), Expect = 2.5
Identities = 9/46 (19%), Positives = 16/46 (34%)
Query: 2 TNMFVHVNGDGVVLIDSDYLKDRKVFGHVLAAFRYGREDLDVLGLT 47
+ DG VL+D + + A DL ++ L+
Sbjct: 38 LTALLVQTPDGAVLLDGGMPQMASHLLDNMKARGVTPRDLRLILLS 83
>1xrt_A Dihydroorotase, dhoase; amidohydrolase, metalloenzyme, pyrimidine;
1.61A {Aquifex aeolicus} SCOP: b.92.1.3 c.1.9.6 PDB:
1xrf_A 3d6n_A*
Length = 467
Score = 26.4 bits (59), Expect = 2.5
Identities = 7/25 (28%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 77 KVLGLIPGSCTVG--ADISLIDIDR 99
+++G+ G+ +G ADI++ D ++
Sbjct: 403 RIIGVDLGTLKLGSPADITIFDPNK 427
>2ix5_A Acyl-coenzyme A oxidase 4, peroxisomal; FAD, ACX4, flavin,
peroxisome, glyoxysome, fatty acid metabo lipid
metabolism, acyl-COA oxidase; HET: CAA FAD; 2.7A
{Arabidopsis thaliana} PDB: 2ix6_A*
Length = 436
Score = 26.1 bits (58), Expect = 2.7
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 19 DYLKDRKVFGHVLAAF 34
YLK+RK FG LAAF
Sbjct: 308 RYLKERKQFGAPLAAF 323
>1siq_A GCD, glutaryl-COA dehydrogenase; acyl-COA dehydrogenase,
decarboxylation, flavin protein, oxidoreductase; HET:
FAD; 2.10A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1 PDB:
2r0n_A* 1sir_A* 2r0m_A*
Length = 392
Score = 26.0 bits (58), Expect = 3.0
Identities = 7/16 (43%), Positives = 7/16 (43%)
Query: 19 DYLKDRKVFGHVLAAF 34
Y DR FG LA
Sbjct: 268 QYALDRMQFGVPLARN 283
>3mpg_A Dihydroorotase, dhoase; hydrolase; 2.60A {Bacillus anthracis}
Length = 428
Score = 25.9 bits (58), Expect = 3.1
Identities = 9/25 (36%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 77 KVLGLIPGSCTVG--ADISLIDIDR 99
GL G G ADI++ID+++
Sbjct: 359 DTFGLEAGRLKEGRTADITIIDLEQ 383
>2eba_A Putative glutaryl-COA dehydrogenase; thermus thermophilius, FAD,
STRU genomics, NPPSFA; HET: FAD; 2.21A {Thermus
thermophilus}
Length = 385
Score = 26.0 bits (58), Expect = 3.1
Identities = 6/16 (37%), Positives = 7/16 (43%)
Query: 19 DYLKDRKVFGHVLAAF 34
+ K R FG LA
Sbjct: 265 AFAKSRSTFGEPLAKK 280
>3sf6_A Glutaryl-COA dehydrogenase; ssgcid, NIH, niaid, SBRI, UW, emerald
biostructures, structu genomics; HET: FDA; 1.70A
{Mycobacterium smegmatis}
Length = 403
Score = 26.0 bits (58), Expect = 3.3
Identities = 4/16 (25%), Positives = 6/16 (37%)
Query: 19 DYLKDRKVFGHVLAAF 34
Y R+ F + F
Sbjct: 282 AYACSREQFDRPIGGF 297
>3gri_A Dihydroorotase, dhoase; hydrolase, IDP00795, metal-binding,
pyrimidine biosynthesis, structural genomics; 2.00A
{Staphylococcus aureus subsp}
Length = 424
Score = 25.9 bits (58), Expect = 3.3
Identities = 7/25 (28%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 77 KVLGLIPGSCTVG--ADISLIDIDR 99
+ L G+ AD+++ID+D
Sbjct: 358 ETFNLEYGTLKENGYADLTIIDLDS 382
>3swo_A Glutaryl-COA dehydrogenase; ssgcid, glutaryl-COA dehdrogenase,
mycobacerium smegmatis, S genomics; HET: FDA; 1.45A
{Mycobacterium smegmatis}
Length = 399
Score = 25.6 bits (57), Expect = 4.5
Identities = 5/16 (31%), Positives = 9/16 (56%)
Query: 19 DYLKDRKVFGHVLAAF 34
Y + R+VF L+ +
Sbjct: 277 AYTQSREVFDKPLSNY 292
>3m8t_A 'BLR6230 protein; subclass B3 beta-lactamase, zinc enzyme,
sulfonamide complex hydrolase-hydrolase inhibitor
complex; HET: 4NZ; 1.33A {Bradyrhizobium japonicum} PDB:
3lvz_A* 2gmn_A
Length = 294
Score = 25.3 bits (55), Expect = 5.4
Identities = 7/46 (15%), Positives = 20/46 (43%)
Query: 2 TNMFVHVNGDGVVLIDSDYLKDRKVFGHVLAAFRYGREDLDVLGLT 47
++V G++L+D+ + + +A + D+ ++ T
Sbjct: 55 IAVYVIKTSQGLILMDTAMPQSTGMIKDNIAKLGFKVADIKLILNT 100
>3haz_A Proline dehydrogenase; proline utilization A, PUTA, flavoenzyme,
1-pyrroline-5-carboxylate dehydrogenase, oxidoreductase;
HET: FAD NAD; 2.10A {Bradyrhizobium japonicum usda 110}
Length = 1001
Score = 25.5 bits (56), Expect = 5.5
Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 9/46 (19%)
Query: 12 GVVLIDSDYLKDRKVFGHVLAAFRYGREDLDVL---------GLTF 48
+ + +VFG +L RY E+L+ + GLT
Sbjct: 873 HIFELTEAGQLTEEVFGPILHVVRYRPENLERVLRAIERTGYGLTL 918
>3m9v_A FAD-dependent oxidoreductase; KIJD3, fatty acyl-COA dehydrogenase
family, kijanose, kijani FAD, flavoprotein; HET: TYD;
2.05A {Actinomadura kijaniata}
Length = 439
Score = 25.3 bits (56), Expect = 5.8
Identities = 3/17 (17%), Positives = 4/17 (23%)
Query: 19 DYLKDRKVFGHVLAAFR 35
L+ R A
Sbjct: 280 AALERRPEPPQAAALTL 296
>3h6x_A Dutpase; jelly-roll beta-barrel, hydrolase; 1.70A {Streptococcus
mutans}
Length = 148
Score = 24.9 bits (55), Expect = 6.0
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 3/37 (8%)
Query: 8 VNGDGVVLIDSDYLKDRKVFGHVLAAFR-YGREDLDV 43
+N GV ID DY + GH+ A + + + +
Sbjct: 79 INSVGV--IDGDYYNNPNNEGHIFAQMKNMTDQTVVL 113
>2nz0_B Potassium voltage-gated channel subfamily D membe; KV4.3, kchip1,
membrane protein; 3.20A {Homo sapiens} PDB: 2i2r_A
Length = 140
Score = 24.8 bits (54), Expect = 6.0
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 23 DRKVFGHVLAAFRYGREDL--DVLGLTFRKEL 52
D +VF VL +R G+ + EL
Sbjct: 82 DPEVFRCVLNFYRTGKLHYPRYECISAYDDEL 113
>1rx0_A Acyl-COA dehydrogenase family member 8, mitochondrial;
flavoprotein, coenzyme A, oxidoreductase; HET: FAD 2MC;
1.77A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1
Length = 393
Score = 24.8 bits (55), Expect = 6.7
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 19 DYLKDRKVFGHVLAAF 34
D+L RK FG LA+
Sbjct: 275 DHLNVRKQFGEPLASN 290
>2y8b_A Metallo-B-lactamase; hydrolase, cephalosporins, antibiotic
recognition; 1.70A {Pseudomonas aeruginosa} PDB: 2y8a_A
2y87_A 2yz3_A* 2whg_A* 2wrs_A* 1ko3_A 1ko2_A
Length = 265
Score = 24.8 bits (54), Expect = 7.7
Identities = 5/18 (27%), Positives = 11/18 (61%)
Query: 1 MTNMFVHVNGDGVVLIDS 18
+N + + D ++LID+
Sbjct: 67 SSNGLIVRDADELLLIDT 84
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition,
helix-coil dynamics, inhibitor design, complex
(polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP:
a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A*
1taq_A*
Length = 832
Score = 24.8 bits (55), Expect = 7.8
Identities = 6/25 (24%), Positives = 9/25 (36%), Gaps = 7/25 (28%)
Query: 29 HVLAAFRYGREDLDVLGLTFRKELF 53
V+ F D +FR E +
Sbjct: 61 AVIVVF-------DAKAPSFRHEAY 78
>1mqo_A Beta-lactamase II; alpha-beta/BETA-alpha fold, hydrolase; HET:
CIT; 1.35A {Bacillus cereus} SCOP: d.157.1.1 PDB:
1bc2_A 1bvt_A* 3i0v_A 3i11_A 3i13_A 3i14_A 3i15_A
2uyx_A 2bc2_A 3bc2_A 2bfl_A 2bfk_A 2bfz_B 2bg2_A 2bg7_A
2bg8_A 1dxk_A 3kns_A 3knr_A 2bfz_A ...
Length = 227
Score = 24.7 bits (54), Expect = 8.0
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 1 MTNMFVHVNGDGVVLIDS 18
+N V G+VL+DS
Sbjct: 40 PSNGLVLNTSKGLVLVDS 57
>1a7t_A Metallo-beta-lactamase; hydrolase (beta-lactamase), zinc; HET:
MES; 1.85A {Bacteroides fragilis} SCOP: d.157.1.1 PDB:
1a8t_A* 2bmi_A 1kr3_A 1znb_A 2znb_A 3znb_A 4znb_A
1hlk_A*
Length = 232
Score = 24.3 bits (53), Expect = 9.2
Identities = 4/17 (23%), Positives = 9/17 (52%)
Query: 2 TNMFVHVNGDGVVLIDS 18
+N + +N L+D+
Sbjct: 37 SNGMIVINNHQAALLDT 53
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
0.325 0.145 0.465
Gapped
Lambda K H
0.267 0.0569 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,834,736
Number of extensions: 99018
Number of successful extensions: 364
Number of sequences better than 10.0: 1
Number of HSP's gapped: 364
Number of HSP's successfully gapped: 44
Length of query: 112
Length of database: 6,701,793
Length adjustment: 76
Effective length of query: 36
Effective length of database: 4,579,797
Effective search space: 164872692
Effective search space used: 164872692
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.8 bits)