RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8428
(328 letters)
>3ga4_A Dolichyl-diphosphooligosaccharide-protein glycosyltransferase
subunit OST6; oxidoreductase, active site loop, redox
state, membrane; HET: PG4; 1.30A {Saccharomyces
cerevisiae} PDB: 3g7y_A 3g9b_A*
Length = 178
Score = 153 bits (388), Expect = 4e-46
Identities = 31/165 (18%), Positives = 52/165 (31%), Gaps = 15/165 (9%)
Query: 31 SLGDRVLHLSEMNAKKAVLRFDGQKYKEYIKNGPRNYSAIVMFTALAPQ---RNCHICVS 87
+ + + ++ V+ Y + G Y I+ T +C +C
Sbjct: 3 TASHNIDDILQLKDDTGVITVTADNYPL-LSRGVPGYFNILYITMRGTNSNGMSCQLCHD 61
Query: 88 ASDEYTIVANSFRYSQMYSNKLFFILVDFDEGSDVFQMLRLNTAPIFMHFPAKGKPKPSD 147
Y VA+ R S LFF VD +E + + L+L P + +P K S
Sbjct: 62 FEKTYHAVADVIRSQAPQSLNLFFT-VDVNEVPQLVKDLKLQNVPHLVVYPPAESNKQSQ 120
Query: 148 TLDIQRVGYS----------AEAIVKWIADRTDIQIRVFRPPNYS 182
Y ++A +I I V + N
Sbjct: 121 FEWKTSPFYQYSLVPENAENTLQFGDFLAKILNISITVPQAFNVQ 165
>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 = 37.0 bits (85), Expect = 0.010
Identities = 31/166 (18%), Positives = 48/166 (28%), Gaps = 60/166 (36%)
Query: 31 SLGDRVLHLSEMNAKKAVLRFDGQKYKEYIKNGPRNYSAIVMFTALAPQRNCHICVSASD 90
+ G +L + N + F G+K K I+ NYSA+ I + D
Sbjct: 1656 TYGFSILDIVINNPVNLTIHFGGEKGK-RIR---ENYSAM-------------IFETIVD 1698
Query: 91 EYTIVANSFRYSQMYSNKLFFILVDFDEGSDVFQMLRL--NTAP--------IFMHFPAK 140
F+ +S F L T P F +K
Sbjct: 1699 GKLKTEKIFKEINEHSTSYTF------RSEKGL--LSATQFTQPALTLMEKAAFEDLKSK 1750
Query: 141 G-KPKP------SDTLDIQRVG-YSA----------EAIVKWIADR 168
G P S +G Y+A E++V+ + R
Sbjct: 1751 GLIPADATFAGHS-------LGEYAALASLADVMSIESLVEVVFYR 1789
Score = 34.6 bits (79), Expect = 0.047
Identities = 48/246 (19%), Positives = 75/246 (30%), Gaps = 88/246 (35%)
Query: 102 SQ---M----YSN----KLFFILVD--FDE--GSDVFQMLRLNTAPIFMHF-PAKGKPKP 145
SQ M Y + + D F + G + ++ N + +HF KGK
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGK--- 1682
Query: 146 SDTLDIQRVGYSAEAIVKWIADRTDIQIRVFRPPN-------YSGPMAFIML--FAIVAV 196
I R YSA I + I D ++F+ N + + F A+
Sbjct: 1683 ----RI-RENYSA-MIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL 1736
Query: 197 FLYVKRNNLEFLYNKLM--WGVAAVLFCFAMISGQMWNHIRGPPFIHKNQNGIAYIHGSS 254
L +E + + G+ FA G H S
Sbjct: 1737 TL------MEKAAFEDLKSKGLIPADATFA---------------------G----H--S 1763
Query: 255 QGQF--------VLETYIVILLNAAI-VV---GMILISEAATRKNDVRVRRTMAVVGLGL 302
G++ V+ + + + VV GM + A R R M + G
Sbjct: 1764 LGEYAALASLADVMS------IESLVEVVFYRGM-TMQVAVPRDELGRSNYGMIAINPGR 1816
Query: 303 VAFFFS 308
VA FS
Sbjct: 1817 VAASFS 1822
>3f8u_A Protein disulfide-isomerase A3ERP57; endoplasmic reticulum,
glycoprotein, immunoglobulin domain, microsome, protein
disulfide isomerase, thioredoxin-like FO like domain;
HET: NAG; 2.60A {Homo sapiens} PDB: 2dmm_A 2alb_A
Length = 481
Score = 36.4 bits (83), Expect = 0.012
Identities = 19/129 (14%), Positives = 35/129 (27%), Gaps = 16/129 (12%)
Query: 48 VLRFDGQKYKEYIKNGPRNYSAIVMFTALAPQRNCHICVSASDEYTIVANSFRYSQMYSN 107
VL ++ I + +V F A P C + EY A +
Sbjct: 3 VLELTDDNFESRISDTGSAGLMLVEFFA--PW--CGHAKRLAPEYEAAATRLK------G 52
Query: 108 KLFFILVDFDEGSDVFQMLRLNTAPIFMHFPAKGKPKPSDTLDIQRVGYSAEAIVKWIAD 167
+ VD ++ ++ P F + D +A+ IV +
Sbjct: 53 IVPLAKVDCTANTNTCNKYGVSGYPTLKIFRDGEEAGAYDGPR------TADGIVSHLKK 106
Query: 168 RTDIQIRVF 176
+
Sbjct: 107 QAGPASVPL 115
>2b5e_A Protein disulfide-isomerase; 2.40A {Saccharomyces cerevisiae} SCOP:
c.47.1.2 c.47.1.2 c.47.1.2 c.47.1.2 PDB: 3boa_A
Length = 504
Score = 35.6 bits (81), Expect = 0.019
Identities = 25/138 (18%), Positives = 45/138 (32%), Gaps = 16/138 (11%)
Query: 44 AKKAVLRFDGQKYKEYIKNGPRNYSAIVMFTALAPQRNCHICVSASDEYTIVANSFRYSQ 103
AV++ + EYI++ + F A P C C + + EY A +
Sbjct: 12 EDSAVVKLATDSFNEYIQSHD---LVLAEFFA--PW--CGHCKNMAPEYVKAAETLV--- 61
Query: 104 MYSNKLFFILVDFDEGSDVFQMLRLNTAPIFMHFPAKGKPKPSDTLDIQRVGYSAEAIVK 163
+ +D E D+ + P F D +AEAIV+
Sbjct: 62 --EKNITLAQIDCTENQDLCMEHNIPGFPSLKIFKNSDVNNSIDY----EGPRTAEAIVQ 115
Query: 164 WIADRTDIQIRVFRPPNY 181
++ ++ + V
Sbjct: 116 FMIKQSQPAVAVVADLPA 133
>2r2j_A Thioredoxin domain-containing protein 4; CRFS motif, chaperone,
endoplasmic reticulum, S response; 2.60A {Homo sapiens}
Length = 382
Score = 31.5 bits (71), Expect = 0.42
Identities = 29/149 (19%), Positives = 48/149 (32%), Gaps = 24/149 (16%)
Query: 32 LGDRVLHLSEMNAKKAVLRFDGQKYKEYIKNGPRNYSAIVMFTALAPQRNCHICVSASDE 91
LG + L N E + N A+V F A C
Sbjct: 3 LGSEITSLDTEN------------IDEILNNAD---VALVNFYA--DW--CRFSQMLHPI 43
Query: 92 YTIVANSFRYSQMYSNKLFFILVDFDEGSDVFQMLRLNTAPIFMHFPAKGKPKPSDTLDI 151
+ ++ + N++ F VD D+ SD+ Q R++ P F G +
Sbjct: 44 FEEASDVIKEEFPNENQVVFARVDCDQHSDIAQRYRISKYPTLKLFR-NGMMMKREY--- 99
Query: 152 QRVGYSAEAIVKWIADRTDIQIRVFRPPN 180
R S +A+ +I + I+ R
Sbjct: 100 -RGQRSVKALADYIRQQKSDPIQEIRDLA 127
>3nuz_A Putative acetyl xylan esterase; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-biology; 2.30A {Bacteroides fragilis}
Length = 398
Score = 30.5 bits (68), Expect = 0.76
Identities = 16/68 (23%), Positives = 23/68 (33%), Gaps = 1/68 (1%)
Query: 124 QMLRLNTAPIFMHFPAKGKPKPSDTLDIQRVGYSAEAIVKWIADRTDIQIRVFRPPNYSG 183
+ LR I K P P QR GY E + + V P N +
Sbjct: 58 KGLRHAMEEIMKFPQIKNSPAPVCIKREQREGYRLEKWEFYPLPKCVSTFLVLIPDNINK 117
Query: 184 PM-AFIML 190
P+ A + +
Sbjct: 118 PVPAILCI 125
>2c0g_A ERP29 homolog, windbeutel protein; PDI-dbeta, PDI, protein
disulfide isomerase, PIPE, dorsal-ventral patterning,
chaperone, WIND mutants; 1.75A {Drosophila melanogaster}
SCOP: a.71.1.1 c.47.1.7 PDB: 1ovn_A 2c0f_A 2c1y_A 2c0e_A
Length = 248
Score = 29.6 bits (66), Expect = 1.1
Identities = 17/148 (11%), Positives = 43/148 (29%), Gaps = 22/148 (14%)
Query: 33 GDRVLHLSEMNAKKAVLRFDGQKYKEYIKNGPRNYSAIVMFTALAPQRNCHICVSASDEY 92
G H + D +++ ++ P ++V F +P H + +
Sbjct: 3 GSHHHHHHGSVTCTGCVDLDELSFEKTVERFP---YSVVKFDIASPYGEKH------EAF 53
Query: 93 TIVANSFRYSQMYSNKLFFILVDFDEGSDVFQM-------LRLNTAPIFMHFPAKGKPKP 145
T + S + + L V + ++ + P F +
Sbjct: 54 TAFSKSAHKA---TKDLLIATVGVKDYGELENKALGDRYKVDDKNFPSIFLFK-GNADEY 109
Query: 146 SDTLDIQRVGYSAEAIVKWIADRTDIQI 173
L + + + +++ T + I
Sbjct: 110 VQ-LPSHV-DVTLDNLKAFVSANTPLYI 135
>3g8y_A SUSD/RAGB-associated esterase-like protein; structural genom joint
center for structural genomics, JCSG; HET: MSE; 1.90A
{Bacteroides vulgatus atcc 8482}
Length = 391
Score = 29.5 bits (65), Expect = 1.5
Identities = 11/68 (16%), Positives = 23/68 (33%)
Query: 124 QMLRLNTAPIFMHFPAKGKPKPSDTLDIQRVGYSAEAIVKWIADRTDIQIRVFRPPNYSG 183
+R I K +P P ++ GY E + ++ V +P + G
Sbjct: 53 DGVRAAMVEIMKFPEIKRQPSPVCVKTEKKEGYILEKWEFYPFPKSVSTFLVLKPEHLKG 112
Query: 184 PMAFIMLF 191
+ ++
Sbjct: 113 AVPGVLCI 120
>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 = 29.4 bits (65), Expect = 1.9
Identities = 21/110 (19%), Positives = 36/110 (32%), Gaps = 33/110 (30%)
Query: 20 HAQVKKQSTSLSLGDRV-LHLSEMNAKKAVLRFDG----------------QKYKEYI-K 61
H + + ++L V L + K +R D + YK YI
Sbjct: 480 HLKNIEHPERMTLFRMVFLDFRFLEQK---IRHDSTAWNASGSILNTLQQLKFYKPYICD 536
Query: 62 NGP---RNYSAIVMFTALAPQRNCHICVSASDEYT-IV--ANSFRYSQMY 105
N P R +AI+ F + N +YT ++ A ++
Sbjct: 537 NDPKYERLVNAILDFL-PKIEENLICS-----KYTDLLRIALMAEDEAIF 580
>4dqv_A Probable peptide synthetase NRP (peptide synthase; GXXGXXG motif,
rossmann fold, short chain dehydrogenase/REDU family,
reductase; 2.30A {Mycobacterium tuberculosis}
Length = 478
Score = 28.7 bits (64), Expect = 3.2
Identities = 7/35 (20%), Positives = 12/35 (34%), Gaps = 5/35 (14%)
Query: 155 GYS-----AEAIVKWIADRTDIQIRVFRPPNYSGP 184
GY E +++ D + + VFR
Sbjct: 248 GYGTSKWAGEVLLREANDLCALPVAVFRCGMILAD 282
>1ep7_A Thioredoxin CH1, H-type; electron transport; 2.10A {Chlamydomonas
reinhardtii} SCOP: c.47.1.1 PDB: 1tof_A 1ep8_A
Length = 112
Score = 26.9 bits (60), Expect = 4.2
Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 7/65 (10%)
Query: 102 SQMYSNKLFFILVDFDEGSDVFQMLRLNTAPIFMHFPAKGKPKPSDTLDIQRVGYSAEAI 161
S Y+ K+ F+ VD D + V + + P F + K +D L VG S + +
Sbjct: 50 SNDYAGKVIFLKVDVDAVAAVAEAAGITAMPTFHVY--KDG-VKADDL----VGASQDKL 102
Query: 162 VKWIA 166
+A
Sbjct: 103 KALVA 107
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
0.328 0.140 0.421
Gapped
Lambda K H
0.267 0.0591 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,968,547
Number of extensions: 295559
Number of successful extensions: 673
Number of sequences better than 10.0: 1
Number of HSP's gapped: 664
Number of HSP's successfully gapped: 17
Length of query: 328
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 234
Effective length of database: 4,077,219
Effective search space: 954069246
Effective search space used: 954069246
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 57 (26.0 bits)