RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9569
(156 letters)
>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV,
proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV
DMU; 1.95A {Bos taurus}
Length = 152
Score = 163 bits (412), Expect = 1e-52
Identities = 66/152 (43%), Positives = 95/152 (62%), Gaps = 8/152 (5%)
Query: 1 MFRALASRLAASSSQVLRQTAVSKVKPL-------TFAPIRSFSHAVEESDEEFVKRYVA 53
M A R + +++ V R + + P +R +SH E+DEEF R+V
Sbjct: 1 MLGAAVRRCSVAAAAVARASPRGLLHPTPAPGQAAAVQSLRCYSHGSHETDEEFDARWVT 60
Query: 54 FFNQPDIDGWDIRRGLMNLAHDDCVPDPEIIIAALKAIRRVNDYALAIRFLETTEFKTGG 113
+FN+PDID W++R+G+ L D VP+P+II AAL+A RR+ND+A A+R LE + K G
Sbjct: 61 YFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-G 119
Query: 114 SHDKIWPYIVQEITPTLKELGIETPAQLGYDK 145
H +I+PY++QE+ PTL ELGI TP +LG DK
Sbjct: 120 PHKEIYPYVIQELRPTLNELGISTPEELGLDK 151
>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO
HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus}
SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E*
1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E*
2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E*
3ag1_E* 3ag2_E* ...
Length = 109
Score = 153 bits (389), Expect = 1e-49
Identities = 59/109 (54%), Positives = 80/109 (73%), Gaps = 1/109 (0%)
Query: 37 SHAVEESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCVPDPEIIIAALKAIRRVND 96
SH E+DEEF R+V +FN+PDID W++R+G+ L D VP+P+II AAL+A RR+ND
Sbjct: 1 SHGSHETDEEFDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLND 60
Query: 97 YALAIRFLETTEFKTGGSHDKIWPYIVQEITPTLKELGIETPAQLGYDK 145
+A A+R LE + K G H +I+PY++QE+ PTL ELGI TP +LG DK
Sbjct: 61 FASAVRILEVVKDKA-GPHKEIYPYVIQELRPTLNELGISTPEELGLDK 108
>3i0y_A Putative polyketide cyclase; cystatin-like fold, structural
genomics, joint center for ST genomics, JCSG, protein
structure initiative; HET: MSE UNL; 1.50A {Xanthomonas
campestris PV}
Length = 140
Score = 30.7 bits (69), Expect = 0.11
Identities = 9/46 (19%), Positives = 15/46 (32%), Gaps = 6/46 (13%)
Query: 36 FSHAVEESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCVPDP 81
S + + V+ Y FN+ D D + +D D
Sbjct: 2 MSESNRQRATGLVQAYYEAFNRGDWDAM------LAFLAEDVAHDL 41
>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 = 31.0 bits (69), Expect = 0.18
Identities = 21/136 (15%), Positives = 40/136 (29%), Gaps = 53/136 (38%)
Query: 40 VEESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCVPDPEIIIAALKAIRRVNDYAL 99
+ EE V+++V + + + LM+ + P
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYK-F-----LMSPIKTEQR-QPS----------------- 106
Query: 100 AIRFLETTEFKTGGSHDKIW-------PYIV------QEITPTLKELGIETPAQ------ 140
+ T + D+++ Y V ++ L EL PA+
Sbjct: 107 ----MMTRMYIE--QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL---RPAKNVLIDG 157
Query: 141 -LGYDKPELALESVYD 155
LG K +AL+
Sbjct: 158 VLGSGKTWVALDVCLS 173
>1nww_A Limonene-1,2-epoxide hydrolase; HET: MES; 1.20A {Rhodococcus
erythropolis} SCOP: d.17.4.8 PDB: 1nu3_A*
Length = 149
Score = 29.7 bits (66), Expect = 0.23
Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 6/56 (10%)
Query: 23 SKVKPLTFAPIRSFSHAVEESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
SK++ +A S + A DE+ V ++ D L+ +D +
Sbjct: 3 SKIEQPRWASKDSAAGAASTPDEKIVLEFMDALTSNDAA------KLIEYFAEDTM 52
>3k0z_A Putative polyketide cyclase; structural genomics, joint CENT
structural genomics, JCSG, protein structure
initiative, PS lipoprotein; HET: NHE; 1.91A {Bacillus
cereus}
Length = 159
Score = 29.2 bits (65), Expect = 0.34
Identities = 7/54 (12%), Positives = 14/54 (25%), Gaps = 6/54 (11%)
Query: 25 VKPLTFAPIRSFSHAVEESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
KP S S +R+ AF++ + ++
Sbjct: 17 PKPKAMTIDPSLSQKEATEMVHAAQRFYAFWDTGKEELIP------QTVTENFF 64
>3fh1_A Uncharacterized NTF2-like protein; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI-2; HET: MSE; 1.60A {Mesorhizobium loti}
Length = 129
Score = 28.9 bits (64), Expect = 0.39
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 6/38 (15%)
Query: 41 EESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
E E ++R+ F D L L ++CV
Sbjct: 16 SEQTAEIMRRFNDVFQLHDPA------ALPELIAEECV 47
>1s5a_A Hypothetical protein YESE; structural genomics, PSI, protein STRU
initiative, midwest center for structural genomics,
MCSG, U function; 1.70A {Bacillus subtilis} SCOP:
d.17.4.10
Length = 150
Score = 28.4 bits (63), Expect = 0.71
Identities = 7/41 (17%), Positives = 17/41 (41%), Gaps = 6/41 (14%)
Query: 38 HAVEESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
E E +++++A+ + D+ W L ++ V
Sbjct: 6 MNEFEKACETLRKFMAYMLEKDMKSW------TELWDENAV 40
>3f8h_A Putative polyketide cyclase; structural genomics, joint center
for structural genomics, J protein structure
initiative, PSI-2, unknown function; HET: MSE; 2.00A
{Silicibacter SP}
Length = 150
Score = 26.9 bits (59), Expect = 1.9
Identities = 8/34 (23%), Positives = 13/34 (38%), Gaps = 6/34 (17%)
Query: 45 EEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
+ + RY FN D D G++ +D
Sbjct: 21 NDTIARYFDAFNAGDTD------GMLACLSEDVA 48
>1ohp_A Steroid delta-isomerase; inhibitor; HET: ESR; 1.53A {Pseudomonas
testosteroni} SCOP: d.17.4.3 PDB: 1qjg_A* 8cho_A*
1ohs_A* 1ocv_A 1isk_A 3nuv_A* 1ogz_A* 3nhx_A* 3m8c_A*
3nxj_A* 3myt_A* 3mki_A 3mhe_A 1buq_A* 3nbr_A* 3t8u_A
3ov4_A* 3nm2_A
Length = 125
Score = 27.0 bits (59), Expect = 1.9
Identities = 13/38 (34%), Positives = 16/38 (42%), Gaps = 6/38 (15%)
Query: 41 EESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
E V+RYVA N D+DG + L DD
Sbjct: 4 PEHMTAVVQRYVAALNAGDLDGI------VALFADDAT 35
>1tuh_A BAL32A, hypothetical protein EGC068; unknown function; 1.85A
{Uncultured bacterium} SCOP: d.17.4.11
Length = 156
Score = 26.9 bits (59), Expect = 2.0
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 6/38 (15%)
Query: 41 EESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
E + E V+R A FN D+ L ++
Sbjct: 28 AEQNAETVRRGYAAFNSGDMKTL------TELFDENAS 59
>3snr_A Extracellular ligand-binding receptor; structural genomics,
APC102214, PSI-biology, midwest center structural
genomics, MCSG; HET: MSE TYR PHE; 1.49A
{Rhodopseudomonas palustris} PDB: 3uk0_A* 3t23_A*
3ukj_A* 3tx6_A*
Length = 362
Score = 27.3 bits (61), Expect = 2.6
Identities = 13/113 (11%), Positives = 26/113 (23%), Gaps = 19/113 (16%)
Query: 27 PLTFAPIRSFSHAVEESDEEFVKRYVAFFNQPDID-----GWD--------IRRGLMNLA 73
P+ + + ++ VK Y + +D + L A
Sbjct: 247 PVMDPEGQDDTALTKKPGMALVKVYEEKYGPSSRSQFAGHSYDAFKVLERVVPVAL-KKA 305
Query: 74 HDDCVPDPEIIIAALKAIRRVNDYALAIRFLETTEFKTGGSHDKIWPYIVQEI 126
E + A + + F ET I+ +
Sbjct: 306 KPGTQEFREALREAFLTEKDIAASQGVYNFTETDR-----YGLDDRSRILLTV 353
>1oh0_A Steroid delta-isomerase; ketosteroid isomerase, KSI, equilenin,
PI, LBHB; HET: EQU; 1.1A {Pseudomonas putida} SCOP:
d.17.4.3 PDB: 1e3v_A* 1opy_A 1dmq_A 1dmm_A 1ea2_A
3cpo_A 1e3r_A* 1ogx_A 2inx_A 2pzv_A 1c7h_A 1dmn_A
1k41_A 1oho_A* 3fzw_A* 1cqs_A* 1w00_A 1e97_A 1w6y_A*
3ipt_A* ...
Length = 131
Score = 26.5 bits (58), Expect = 2.8
Identities = 6/38 (15%), Positives = 14/38 (36%), Gaps = 6/38 (15%)
Query: 41 EESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
+ + + RY+ + DI+ + + DD
Sbjct: 6 AQEVQGLMARYIELVDVGDIEAI------VQMYADDAT 37
>3fgy_A Uncharacterized NTF2-like protein; structural genomics, joint
center for STR genomics, JCSG, protein structure
initiative, PSI-2; HET: MSE; 1.59A {Burkholderia
xenovorans LB400}
Length = 135
Score = 26.3 bits (58), Expect = 3.1
Identities = 6/38 (15%), Positives = 15/38 (39%), Gaps = 6/38 (15%)
Query: 41 EESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
+ + + VK + A + D G + ++ +D
Sbjct: 4 TQENVQIVKDFFAAMGRGDKKGL------LAVSAEDIE 35
>3ian_A Chitinase; structural genomics, hydrolase, glycosidase, PSI-2,
protein structure initiative; 1.75A {Lactococcus lactis
subsp}
Length = 321
Score = 26.9 bits (59), Expect = 3.2
Identities = 6/23 (26%), Positives = 10/23 (43%)
Query: 43 SDEEFVKRYVAFFNQPDIDGWDI 65
+ +FV + + DG DI
Sbjct: 99 QESDFVNEIIRLVDTYGFDGLDI 121
>3sm3_A SAM-dependent methyltransferases; NESG, structural genomics,
PSI-biology, protein structure in northeast structural
genomics; 2.20A {Methanosarcina mazei}
Length = 235
Score = 26.7 bits (59), Expect = 3.6
Identities = 8/30 (26%), Positives = 14/30 (46%), Gaps = 6/30 (20%)
Query: 65 IRRGLMNLAHDDCVPDPEIIIAALKAIRRV 94
++ L + VPDP+ +K + RV
Sbjct: 107 MQAFLTS------VPDPKERSRIIKEVFRV 130
>4fix_A UDP-galactofuranosyl transferase GLFT2; CAZY GT-2 family,
glycosyltrans carbohydrate binding, membrane; 2.45A
{Mycobacterium tuberculosis} PDB: 4fiy_A*
Length = 657
Score = 26.5 bits (58), Expect = 4.1
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 3/31 (9%)
Query: 69 LMNLAHDDCVPDPEIIIAALKAIRRVNDYAL 99
M+ DD +P+ I+ L R L
Sbjct: 274 FMD---DDIRLEPDSILRVLAMHRFAKAPML 301
>2k54_A Protein ATU0742; protein of unknown function, structural
genomics, PSI-2, Pro structure initiative; NMR
{Agrobacterium tumefaciens str} SCOP: d.17.4.29
Length = 123
Score = 25.7 bits (56), Expect = 4.6
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 6/39 (15%)
Query: 40 VEESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
+ E V++ + +N DID + M DDC
Sbjct: 1 MNSEIELPVQKQLEAYNARDIDAF------MAWWADDCQ 33
>4ap5_A GDP-fucose protein O-fucosyltransferase 2; GT-B, GT68; HET: NAG;
3.00A {Homo sapiens} PDB: 4ap6_A*
Length = 408
Score = 26.2 bits (57), Expect = 5.1
Identities = 9/59 (15%), Positives = 20/59 (33%)
Query: 38 HAVEESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCVPDPEIIIAALKAIRRVND 96
+ D +K + G +RR H VP E + ++++ + +
Sbjct: 245 RIPFQEDWMKMKVKLGSALGGPYLGVHLRRKDFIWGHRQDVPSLEGAVRKIRSLMKTHR 303
>2gey_A ACLR protein; alpha+beta barrel, oxidoreductase; HET: PG4; 1.80A
{Streptomyces galilaeus} SCOP: d.17.4.9
Length = 158
Score = 25.6 bits (56), Expect = 5.3
Identities = 10/52 (19%), Positives = 16/52 (30%), Gaps = 9/52 (17%)
Query: 42 ESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV---PDPEIIIAALKA 90
+ VA +N+ D+ G D V D E+ A +
Sbjct: 4 AERKALCLEMVAAWNRWDLSGII------KHWSPDIVHYSEDNEVSSADMVK 49
>1jyo_E Protein tyrosine phosphatase SPTP; bacterial pathogenesis,
infectious disease, virulence factor, type III
secretion, chaperone, unfolded; 1.90A {Salmonella
typhimurium} SCOP: d.184.1.2
Length = 105
Score = 25.2 bits (54), Expect = 5.4
Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 3 RALASRLAASSS-QVLRQTAVSKVKPLTFAPIRSFSHAVEESDEEFVK 49
AL + ++ L + ++ KPLT + V+ +DE F+
Sbjct: 51 HALTEKYGETAVNDALLMSRINMNKPLTQRLAVQITECVKAADEGFIN 98
>3f7x_A Putative polyketide cyclase; structural genomics, joint center
for structural genomics, J protein structure
initiative, PSI-2; HET: MSE UNL; 1.24A {Pseudomonas
putida KT2440}
Length = 151
Score = 25.8 bits (56), Expect = 5.5
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 6/34 (17%)
Query: 43 SDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDD 76
+ E V Y A FN D+ + + L +D
Sbjct: 21 TATELVNAYYAAFNAGDMPAF------LALLSED 48
>3rza_A Tripeptidase; phosphorylase/hydrolase-like, structural genomics,
joint CEN structural genomics, JCSG, protein structure
initiative; HET: CIT PG4 PGE; 2.10A {Staphylococcus
aureus subsp}
Length = 396
Score = 25.8 bits (57), Expect = 7.7
Identities = 5/68 (7%), Positives = 18/68 (26%), Gaps = 11/68 (16%)
Query: 33 IRSFSHAVEESDEEFVKRYVAFFNQP-----DIDGWDIRRGLMNLAHDDCVPDPEIIIAA 87
RS ++ + + ++ G + + ++ A
Sbjct: 270 ARSHDPERIKTQVKHMTDVFETTASELGGKAEVTVEQSYPG-FKIN-----DNEAVVKIA 323
Query: 88 LKAIRRVN 95
++ R +
Sbjct: 324 QESARNLG 331
>2ebn_A Endo-beta-N-acetylglucosaminidase F1; hydrolase(glucosidase); 2.00A
{Elizabethkingia meningoseptica} SCOP: c.1.8.5
Length = 289
Score = 25.4 bits (55), Expect = 8.5
Identities = 3/31 (9%), Positives = 10/31 (32%)
Query: 35 SFSHAVEESDEEFVKRYVAFFNQPDIDGWDI 65
++ + F + + ++DG
Sbjct: 99 GIANLSTARAKAFAQELKNTCDLYNLDGVFF 129
>1edt_A Endo-beta-N-acetylglucosaminidase H, endo H; hydrolase
(glucosidase); 1.90A {Streptomyces plicatus} SCOP:
c.1.8.5 PDB: 1c90_A 1c8x_A 1c91_A 1c3f_A 1c92_A 1c8y_A
1c93_A
Length = 271
Score = 25.3 bits (55), Expect = 9.0
Identities = 6/31 (19%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 36 FSHAV-EESDEEFVKRYVAFFNQPDIDGWDI 65
F++ +++ F K+ + +DG D
Sbjct: 99 FANFPSQQAASAFAKQLSDAVAKYGLDGVDF 129
>3poh_A Endo-beta-N-acetylglucosaminidase F1; TIM barrel, structural
genomics, joint center for structural genomics, JCSG;
1.55A {Bacteroides thetaiotaomicron}
Length = 451
Score = 25.7 bits (55), Expect = 9.2
Identities = 4/30 (13%), Positives = 13/30 (43%)
Query: 36 FSHAVEESDEEFVKRYVAFFNQPDIDGWDI 65
+ E+ ++F + + ++DG +
Sbjct: 257 LAQLSEQGAKDFAREVAQYCKAYNLDGVNY 286
>3ebt_A Uncharacterized NTF2-like protein; structural genomics, joint
center for structural genomics, J protein structure
initiative; 1.30A {Burkholderia pseudomallei K96243}
SCOP: d.17.4.9
Length = 132
Score = 24.8 bits (54), Expect = 9.4
Identities = 5/37 (13%), Positives = 13/37 (35%), Gaps = 6/37 (16%)
Query: 42 ESDEEFVKRYVAFFNQPDIDGWDIRRGLMNLAHDDCV 78
++ + V+ F++ D+ G + D
Sbjct: 3 SNNMQTVRESYEAFHRRDLPGV------LAALAPDVR 33
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
0.320 0.136 0.397
Gapped
Lambda K H
0.267 0.0548 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,520,039
Number of extensions: 156438
Number of successful extensions: 486
Number of sequences better than 10.0: 1
Number of HSP's gapped: 484
Number of HSP's successfully gapped: 45
Length of query: 156
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 70
Effective length of database: 4,300,587
Effective search space: 301041090
Effective search space used: 301041090
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: 53 (24.6 bits)