RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17909
(140 letters)
>1qh5_A Glyoxalase II, protein (hydroxyacylglutathione hydrolase);
metallo-hydrolase; HET: GSH GBP; 1.45A {Homo sapiens}
SCOP: d.157.1.2 PDB: 1qh3_A*
Length = 260
Score = 146 bits (371), Expect = 6e-45
Identities = 53/99 (53%), Positives = 64/99 (64%), Gaps = 1/99 (1%)
Query: 15 FFEGDGAFVTSPL-SGDTLFVAGAGKFFEGDGAEMHHNLNVKLAKLPNETKVFCGHEYTV 73
F G + +GDTLFVAG GKF+EG EM L L +LP +T+V+CGHEYT+
Sbjct: 118 FVSKPGGSEPPAVFTGDTLFVAGCGKFYEGTADEMCKALLEVLGRLPPDTRVYCGHEYTI 177
Query: 74 NNLYFSKHVEPNNTRIAEKLKWAIEKRERKEPTVPSTIG 112
NNL F++HVEP N I EKL WA EK EPTVPST+
Sbjct: 178 NNLKFARHVEPGNAAIREKLAWAKEKYSIGEPTVPSTLA 216
>1xm8_A Glyoxalase II; structural genomics, protein structure initiative,
CESG, AT2G31350, metallo-hydrolase, zinc/iron binuclear
center; 1.74A {Arabidopsis thaliana} SCOP: d.157.1.2
PDB: 2q42_A
Length = 254
Score = 141 bits (357), Expect = 5e-43
Identities = 38/99 (38%), Positives = 57/99 (57%), Gaps = 7/99 (7%)
Query: 15 FFEGDGA-FVTSPLSGDTLFVAGAGKFFEGDGAEMHHNLNVKLAKLPNETKVFCGHEYTV 73
+F G A F +GDT+F GK FEG +M +L K+ LP++T ++CGHEYT+
Sbjct: 120 YFPGSRAIF-----TGDTMFSLSCGKLFEGTPKQMLASLQ-KITSLPDDTSIYCGHEYTL 173
Query: 74 NNLYFSKHVEPNNTRIAEKLKWAIEKRERKEPTVPSTIG 112
+N F+ +EPNN + E R +K PT+P+T+
Sbjct: 174 SNSKFALSLEPNNEVLQSYAAHVAELRSKKLPTIPTTVK 212
>2qed_A Hydroxyacylglutathione hydrolase; metallo-B- superfamily,
salmonella typhimurium LT2; 1.45A {Salmonella
typhimurium} SCOP: d.157.1.2
Length = 258
Score = 141 bits (357), Expect = 7e-43
Identities = 32/94 (34%), Positives = 55/94 (58%), Gaps = 3/94 (3%)
Query: 21 AFVTSPL--SGDTLFVAGAGKFFEGDGAEMHHNLNVKLAKLPNETKVFCGHEYTVNNLYF 78
+ + P GDTLF G G+ FEG ++M+ +L K+ LP++T + C HEYT+ N+ F
Sbjct: 123 CYFSRPYLFCGDTLFSGGCGRLFEGTPSQMYQSLM-KINSLPDDTLICCAHEYTLANIKF 181
Query: 79 SKHVEPNNTRIAEKLKWAIEKRERKEPTVPSTIG 112
+ + P+++ I E + E R +K+ T+P +
Sbjct: 182 ALSILPHDSFINEYYRKVKELRVKKQMTLPVILK 215
>2p18_A Glyoxalase II; metalloprotein, beta sandwich, alpha-helical domain,
hydrola; HET: SPD; 1.80A {Leishmania infantum} PDB:
2p1e_A*
Length = 311
Score = 132 bits (334), Expect = 4e-39
Identities = 29/112 (25%), Positives = 45/112 (40%), Gaps = 14/112 (12%)
Query: 15 FFEGDGAFVTSPL--SGDTLFVAGAGKFFEGDGAEMHHNLN-------VKLAKLPNETKV 65
+ +GDT+F+AG G FFEGD +M + L T +
Sbjct: 163 KVQHPQHPNDGVALFTGDTMFIAGIGAFFEGDEKDMCRAMEKVYHIHKGNDYALDKVTFI 222
Query: 66 FCGHEYTVNNLYFSKHVEPNN-----TRIAEKLKWAIEKRERKEPTVPSTIG 112
F GHEYT + FS+ P+ I + + +P+VPS++
Sbjct: 223 FPGHEYTSGFMTFSEKTFPDRASDDLAFIQAQRAKYAAAVKTGDPSVPSSLA 274
>2zwr_A Metallo-beta-lactamase superfamily protein; hydrolase; 2.20A
{Thermus thermophilus} PDB: 2zzi_A
Length = 207
Score = 51.4 bits (124), Expect = 4e-09
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 15 FFEGDGAFVTSPLSGDTLFVAGAGK--FFEGDGAEMHHNLNVKLAKLPNETKVFCGH 69
F++ +GA V SGD LF G+ D + +L +L LP ET+V GH
Sbjct: 132 FYDPEGAQV---FSGDLLFRGSVGRYDLPGADPKALFASLK-RLLSLPPETRVHPGH 184
>2gcu_A Putative hydroxyacylglutathione hydrolase 3; ethylmalonic
encephalopathy, ETHE1, structural genomics, protein
structure initiative; 1.48A {Arabidopsis thaliana}
Length = 245
Score = 50.3 bits (121), Expect = 2e-08
Identities = 16/59 (27%), Positives = 33/59 (55%), Gaps = 5/59 (8%)
Query: 18 GDGAFVTSP---LSGDTLFVAGAGK--FFEGDGAEMHHNLNVKLAKLPNETKVFCGHEY 71
G+GA P +GD + + G G+ F EG +++ +++ ++ LP +T ++ H+Y
Sbjct: 127 GEGADQPQPRMAFTGDAVLIRGCGRTDFQEGSSDQLYESVHSQIFTLPKDTLIYPAHDY 185
>2xf4_A Hydroxyacylglutathione hydrolase; HET: PG4; 2.30A {Salmonella
enterica}
Length = 210
Score = 47.6 bits (114), Expect = 1e-07
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 15 FFEGDGAFVTSPLSGDTLFVAGAGK--FFEGDGAEMHHNLNVKLAKLPNETKVFCGH 69
FF+ + +SGD +F G G+ F GD ++ + KL L ++ GH
Sbjct: 139 FFDEQSQLL---ISGDVIFKGGVGRSDFPRGDHTQLIDAIKRKLLPLGDDVTFIPGH 192
>1jjt_A IMP-1 metallo beta-lactamase; metallo-beta-lactamase inhibitor,
succinic acid inhibitor, I metallo-beta-lactamase,
hydrolase; HET: BDS; 1.80A {Pseudomonas aeruginosa}
SCOP: d.157.1.1 PDB: 1dd6_A* 1vgn_A* 2doo_A* 1wup_A
1wuo_A 1jje_A* 1ddk_A
Length = 228
Score = 44.4 bits (105), Expect = 2e-06
Identities = 12/82 (14%), Positives = 23/82 (28%), Gaps = 10/82 (12%)
Query: 28 SGDTLFVAGAGKFFEGDGAEMHHNLNVKLAKLPNETKVFCGHEYTVNNLYFSKHVEPNNT 87
G + G G + + + + +K V H + +E
Sbjct: 156 GGCFIKPYGLGNLGDANIEAWPKSAKLLKSKYGKAKLVVPSHSEVGDASLLKLTLEQAVK 215
Query: 88 RIAEKLKWAIEKRERKEPTVPS 109
+ E K+P+ PS
Sbjct: 216 GL----------NESKKPSKPS 227
>4efz_A Metallo-beta-lactamase family protein; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; 1.60A {Burkholderia pseudomallei}
Length = 298
Score = 40.1 bits (94), Expect = 8e-05
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 27 LSGDTLFVAGAGK----FFEGDGAEMHHNLNVKLAKLPNETKVFCGHEY 71
GDTLF+ G F GD ++ ++ K+ LP T+++ H+Y
Sbjct: 171 FVGDTLFMPDYGTARCDFPGGDARSLYRSIR-KVLSLPPATRLYMCHDY 218
>3tp9_A Beta-lactamase and rhodanese domain protein; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG;
2.70A {Alicyclobacillus acidocaldarius subsp}
Length = 474
Score = 37.7 bits (87), Expect = 6e-04
Identities = 16/89 (17%), Positives = 26/89 (29%), Gaps = 11/89 (12%)
Query: 27 LSGDTLFVAGAG--------KFFEG---DGAEMHHNLNVKLAKLPNETKVFCGHEYTVNN 75
SGD +FV G G A K LP+ +V H
Sbjct: 146 FSGDFVFVGDVGRPDLLERVAGESGSSEALARQMFRSLRKFEALPDHVQVLPAHGAGSAC 205
Query: 76 LYFSKHVEPNNTRIAEKLKWAIEKRERKE 104
V + + + WA++ ++
Sbjct: 206 GKALGAVPSSTVGYEKLVNWALQHKDEDA 234
>2p97_A Hypothetical protein; putative metal-dependent hydrolase,
structural genomics, JOI for structural genomics, JCSG;
HET: MSE; 1.65A {Anabaena variabilis atcc 29413} SCOP:
d.157.1.12
Length = 201
Score = 36.4 bits (84), Expect = 0.001
Identities = 11/65 (16%), Positives = 22/65 (33%), Gaps = 11/65 (16%)
Query: 15 FFEGDGAFVTSPLSGDTLFVAGAGK------FFEGDGAEMHHNLNVKLAKLPNETKVFCG 68
+ +T GD + AG + ++ ++ +LA L V G
Sbjct: 126 LLLEETTLIT----GDLVRAYRAGGLEILPDEKLMNKQKVVASVR-RLAALEKVEAVLVG 180
Query: 69 HEYTV 73
++V
Sbjct: 181 DGWSV 185
>3r2u_A Metallo-beta-lactamase family protein; structural genomics, for
structural genomics of infectious diseases, csgid, HYDR;
2.10A {Staphylococcus aureus}
Length = 466
Score = 36.2 bits (83), Expect = 0.002
Identities = 14/89 (15%), Positives = 27/89 (30%), Gaps = 11/89 (12%)
Query: 27 LSGDTLFVAGAG-----------KFFEGDGAEMHHNLNVKLAKLPNETKVFCGHEYTVNN 75
SGD +FV G + GA+ + LP+ +++ GH
Sbjct: 166 FSGDFIFVGDIGRPDLLEKAVKVEGSSEIGAKQMFKSIESIKDLPDYIQIWPGHGAGSPC 225
Query: 76 LYFSKHVEPNNTRIAEKLKWAIEKRERKE 104
+ + ++ WA +
Sbjct: 226 GKSLGAIPTSTLGYEKQTNWAFSENNEAT 254
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.5 bits (68), Expect = 0.13
Identities = 8/22 (36%), Positives = 12/22 (54%), Gaps = 5/22 (22%)
Query: 83 EPNNTRIAEKLKWAIEKRERKE 104
EP + R KW E+R+R +
Sbjct: 83 EPESIR-----KWREEQRKRLQ 99
>3bt7_A TRNA (uracil-5-)-methyltransferase; methyluridine,
methyltransferase, TRMA, RUMT; HET: 5MU; 2.43A
{Escherichia coli}
Length = 369
Score = 29.9 bits (68), Expect = 0.22
Identities = 13/60 (21%), Positives = 22/60 (36%), Gaps = 11/60 (18%)
Query: 50 HNLNVKLAKLPNETKVFCGHEY-----TVNNLYFSKHVEPN-----NTRIAEKL-KWAIE 98
NLNV L +TK+ +Y V N N + ++ +WA++
Sbjct: 149 QNLNVHLIGRATKTKIELDQDYIDERLPVAGKEMIYRQVENSFTQPNAAMNIQMLEWALD 208
>1r5m_A SIR4-interacting protein SIF2; transcription corepressor, WD40
repeat, beta propeller; 1.55A {Saccharomyces cerevisiae}
Length = 425
Score = 28.8 bits (65), Expect = 0.54
Identities = 14/78 (17%), Positives = 21/78 (26%), Gaps = 19/78 (24%)
Query: 16 FEGDGAFVTS-PLSGDTLFVAGAGKFFEGDGAEMHHNLNVKL--AKLPNETKVFCGHEYT 72
GDG+ D FV GA + + T GH
Sbjct: 202 HSGDGSLGVDVEWVDDDKFVIPGP-----KGA-------IFVYQITEKTPTGKLIGHHGP 249
Query: 73 VNNLYFSKHVEPNNTRIA 90
++ L F+ N +
Sbjct: 250 ISVLEFN----DTNKLLL 263
>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 = 27.7 bits (61), Expect = 1.4
Identities = 14/75 (18%), Positives = 22/75 (29%), Gaps = 17/75 (22%)
Query: 61 NETKVFCGH---EYT-------VNNLYFSKHVEPNNTRIAEKLKWAIEKRERKEPTVPST 110
F GH EY V + VE R ++ A+ + E S
Sbjct: 1754 PADATFAGHSLGEYAALASLADV--MSIESLVEVVFYR-GMTMQVAVPRDELGR----SN 1806
Query: 111 IGMVMVMGTVMGMVM 125
GM+ + +
Sbjct: 1807 YGMIAINPGRVAASF 1821
>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 = 1.5
Identities = 18/118 (15%), Positives = 33/118 (27%), Gaps = 42/118 (35%)
Query: 21 AF-------VTSPLSGDTLFVAGAGK-----------FFEGDGAEMHHN-LNVKLAKLPN 61
AF +T+ T F++ A + + L+ + LP
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320
Query: 62 ETKVFCGHEYTVNNLYFSKHVEPNNTRIAEKLK--------WAIEKRERKEPTVPSTI 111
E T N S IAE ++ W ++ + S++
Sbjct: 321 EVL-------TTNPRRLSI--------IAESIRDGLATWDNWKHVNCDKLTTIIESSL 363
>4e54_B DNA damage-binding protein 2; beta barrel, double helix, DDB1:WD40
beta-barrel fold, DNA D DNA repair, HOST-virus
interactions; HET: DNA 3DR; 2.85A {Homo sapiens} PDB:
3ei4_B*
Length = 435
Score = 27.3 bits (61), Expect = 1.7
Identities = 7/38 (18%), Positives = 14/38 (36%), Gaps = 4/38 (10%)
Query: 53 NVKLAKLPNETKVFCGHEYTVNNLYFSKHVEPNNTRIA 90
+++ + H + VN FS P+ R+
Sbjct: 279 DLRQVRGKASFLYSLPHRHPVNAACFS----PDGARLL 312
>4aow_A Guanine nucleotide-binding protein subunit beta-2; receptor,
WD-repeat, beta-propeller; 2.45A {Homo sapiens} PDB:
2zkq_a
Length = 340
Score = 26.3 bits (59), Expect = 3.3
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 4/30 (13%)
Query: 61 NETKVFCGHEYTVNNLYFSKHVEPNNTRIA 90
T+ F GH V ++ FS +N +I
Sbjct: 119 TTTRRFVGHTKDVLSVAFS----SDNRQIV 144
>2xzm_R RACK1; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_R
Length = 343
Score = 26.4 bits (59), Expect = 3.5
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 62 ETKVFCGHEYTVNNLYFSKHVEPNNTRIA 90
K F GH+ V ++ FS P+N +I
Sbjct: 110 TYKRFVGHQSEVYSVAFS----PDNRQIL 134
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 25.9 bits (57), Expect = 5.1
Identities = 6/30 (20%), Positives = 9/30 (30%), Gaps = 4/30 (13%)
Query: 61 NETKVFCGHEYTVNNLYFSKHVEPNNTRIA 90
+ GH V FS + +A
Sbjct: 1118 SPLHELKGHNGCVRCSAFS----LDGILLA 1143
>1erj_A Transcriptional repressor TUP1; beta-propeller, transcription
inhibitor; 2.30A {Saccharomyces cerevisiae} SCOP:
b.69.4.1
Length = 393
Score = 26.0 bits (58), Expect = 5.2
Identities = 6/35 (17%), Positives = 17/35 (48%), Gaps = 4/35 (11%)
Query: 56 LAKLPNETKVFCGHEYTVNNLYFSKHVEPNNTRIA 90
+ +L +E + GH+ +V ++ F+ + +
Sbjct: 242 VERLDSENESGTGHKDSVYSVVFT----RDGQSVV 272
>3frx_A Guanine nucleotide-binding protein subunit beta- like protein;
RACK1, WD40, beta propeller, ribosome, translation,
acetylation; 2.13A {Saccharomyces cerevisiae} PDB:
3izb_a 3o2z_T 3o30_T 3u5c_g 3u5g_g 3rfg_A 3rfh_A 1trj_A
3jyv_R*
Length = 319
Score = 25.6 bits (57), Expect = 6.1
Identities = 5/29 (17%), Positives = 10/29 (34%), Gaps = 4/29 (13%)
Query: 62 ETKVFCGHEYTVNNLYFSKHVEPNNTRIA 90
+ F GH+ V ++ + I
Sbjct: 99 TYQRFVGHKSDVMSVDID----KKASMII 123
>1nr0_A Actin interacting protein 1; beta propeller, WD40 repeat, ADF,
cofilin, structural genomics, PSI, protein structure
initiative; 1.70A {Caenorhabditis elegans} SCOP:
b.69.4.1 b.69.4.1 PDB: 1pev_A
Length = 611
Score = 25.2 bits (56), Expect = 9.5
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 4/33 (12%)
Query: 58 KLPNETKVFCGHEYTVNNLYFSKHVEPNNTRIA 90
T + H V + +S P+N R+A
Sbjct: 524 FELAHTNSWTFHTAKVACVSWS----PDNVRLA 552
>2c5a_A GDP-mannose-3', 5'-epimerase; short chain dehydratase/reductase,
GDP-gulose, GDP-galactose, keto intermediate, vitamin C,
SDR; HET: GDC NAD BTB; 1.4A {Arabidopsis thaliana} SCOP:
c.2.1.2 PDB: 2c59_A* 2c54_A* 2c5e_A*
Length = 379
Score = 25.0 bits (55), Expect = 9.9
Identities = 7/25 (28%), Positives = 9/25 (36%), Gaps = 8/25 (32%)
Query: 84 PNNTRIAEKLKWAIEKRERKEPTVP 108
+N I EKL W P +
Sbjct: 310 SDNNLIKEKLGW--------APNMR 326
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
0.319 0.135 0.400
Gapped
Lambda K H
0.267 0.0703 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,162,808
Number of extensions: 121862
Number of successful extensions: 337
Number of sequences better than 10.0: 1
Number of HSP's gapped: 327
Number of HSP's successfully gapped: 29
Length of query: 140
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 56
Effective length of database: 4,356,429
Effective search space: 243960024
Effective search space used: 243960024
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 (21.8 bits)
S2: 52 (23.9 bits)