RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9925
(180 letters)
>3q9t_A Choline dehydrogenase and related flavoproteins;
glucose-methanol-choline oxidoreductase family, formate
OXID formyl-FAD, oxidoreductase; HET: FAY; 2.24A
{Aspergillus oryzae}
Length = 577
Score = 126 bits (319), Expect = 1e-34
Identities = 28/126 (22%), Positives = 51/126 (40%), Gaps = 9/126 (7%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEYEKLGATGWGYKNVLPYFLKSEHN-----LQYNSSQ 107
K +GG++ LN + G + +D++E+ G W + ++PY KS L +
Sbjct: 88 KTLGGSSSLNYFTWVPGHKATFDQWEEFGGKEWTWDPLVPYLRKSATYHDDPRLYSPELE 147
Query: 108 NHARGGLLTVSHYNDLPD---LGHTLLAAGRELGYPTDVDIGHGRLREGFYRAQMTTRNG 164
GG + +SH + + L A + +G P +I + +G T G
Sbjct: 148 KIGGGGPIPISHAELIDEMAPFRENLTKAWKSMGQPLIENI-YDGEMDGLTHCCDTIYRG 206
Query: 165 ARLSAA 170
R +
Sbjct: 207 QRSGSF 212
>3fim_B ARYL-alcohol oxidase; AAO, lignin degradation, oxidoreductase,
flavoprotein; HET: FAD; 2.55A {Pleurotus eryngii}
Length = 566
Score = 126 bits (318), Expect = 2e-34
Identities = 29/132 (21%), Positives = 59/132 (44%), Gaps = 13/132 (9%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEYEKL-GATGWGYKNVLPYFLKSEHNLQYNSSQN--- 108
+++GG++ ++ ++ RG + D+D Y + G GW + N+ + K+E + + N
Sbjct: 82 RMLGGSSSVHYMVMMRGSTEDFDRYAAVTGDEGWNWDNIQQFVRKNEMVVPPADNHNTSG 141
Query: 109 ------HARGGLLTVSHYNDLPDLGHTLLAAGRELG--YPTDVDIGHGRLREGFYRAQMT 160
H G +++S L +LA +E + + D+G G + +
Sbjct: 142 EFIPAVHGTNGSVSISLPGFPTPLDDRVLATTQEQSEEFFFNPDMG-TGHPLGISWSIAS 200
Query: 161 TRNGARLSAAKA 172
NG R S++ A
Sbjct: 201 VGNGQRSSSSTA 212
>1gpe_A Protein (glucose oxidase); oxidoreductase(flavoprotein); HET: NAG
BMA MAN FAD; 1.80A {Penicillium amagasakiense} SCOP:
c.3.1.2 d.16.1.1
Length = 587
Score = 125 bits (316), Expect = 3e-34
Identities = 33/135 (24%), Positives = 52/135 (38%), Gaps = 16/135 (11%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEYEKL-GATGWGYKNVLPYFLKSEHNLQYNSSQN--- 108
K +GG+T++NG + R D D +EK+ G GW + N+ Y K+E ++Q
Sbjct: 102 KGLGGSTLINGDSWTRPDKVQIDSWEKVFGMEGWNWDNMFEYMKKAEAARTPTAAQLAAG 161
Query: 109 -------HARGGLLTVSHYNDLP---DLGHTLLAAGRELGYPTDVDIGHGRLREGFYRAQ 158
H G + ++ + L+ LG P D G G
Sbjct: 162 HSFNATCHGTNGTVQSGARDNGQPWSPIMKALMNTVSALGVPVQQDFLCGH-PRGVSMIM 220
Query: 159 MTT-RNGARLSAAKA 172
N R+ AA+A
Sbjct: 221 NNLDENQVRVDAARA 235
>3qvp_A Glucose oxidase; oxidoreductase; HET: NAG BMA MAN FAD; 1.20A
{Aspergillus niger} PDB: 1gal_A* 1cf3_A* 3qvr_A*
Length = 583
Score = 123 bits (311), Expect = 2e-33
Identities = 32/135 (23%), Positives = 52/135 (38%), Gaps = 16/135 (11%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEYEKL-GATGWGYKNVLPYFLKSEHNLQYNSSQN--- 108
+GG+T++NG + R + D +E + G GW + NV Y L++E N+ Q
Sbjct: 98 NGLGGSTLVNGGTWTRPHKAQVDSWETVFGNEGWNWDNVAAYSLQAERARAPNAKQIAAG 157
Query: 109 -------HARGGLLTVSHYNDLPD---LGHTLLAAGRELGYPTDVDIGHGRLREGFYRAQ 158
H G + + D + L++A + G PT D G
Sbjct: 158 HYFNASCHGVNGTVHAGPRDTGDDYSPIVKALMSAVEDRGVPTKKDF-GCGDPHGVSMFP 216
Query: 159 MTT-RNGARLSAAKA 172
T + R AA+
Sbjct: 217 NTLHEDQVRSDAARE 231
>2jbv_A Choline oxidase; alcohol oxidation, flavoenyzme oxidase, covalently
linked FAD, C4A-adduct, flavoprotein, oxidoreductase;
HET: FAO; 1.86A {Arthrobacter globiformis} PDB: 3nne_A*
3ljp_A*
Length = 546
Score = 117 bits (296), Expect = 2e-31
Identities = 32/123 (26%), Positives = 50/123 (40%), Gaps = 3/123 (2%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEYEK-LGATGWGYKNVLPYFLKSEHNLQ-YNSSQNHA 110
KVMGG + N + D DE+E GATGW + P + + E N + +H
Sbjct: 91 KVMGGCSSHNSCIAFWAPREDLDEWEAKYGATGWNAEAAWPLYKRLETNEDAGPDAPHHG 150
Query: 111 RGGLLTVSHYNDLPDLGHTLLAAGRELGYPTDVDIGHGRLREGFYRAQMTTR-NGARLSA 169
G + + + G LL A + G P + G Q+ R +G R S+
Sbjct: 151 DSGPVHLMNVPPKDPTGVALLDACEQAGIPRAKFNTGTTVVNGANFFQINRRADGTRSSS 210
Query: 170 AKA 172
+ +
Sbjct: 211 SVS 213
>3t37_A Probable dehydrogenase; BET alpha beta fold, ADP binding,
oxidoreductase; HET: FAD; 2.19A {Mesorhizobium loti}
Length = 526
Score = 116 bits (294), Expect = 3e-31
Identities = 33/122 (27%), Positives = 53/122 (43%), Gaps = 4/122 (3%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDE-YEKLGATGWGYKNVLPYFLKSEHNLQYNSSQNHAR 111
+++GG++ L+ + Y RG SD+ + G WG+ +LP F E + H +
Sbjct: 95 RLIGGSSCLHAMGYMRGHPSDFQAWVDASGDRRWGWDELLPVFQAIEDH-PLGGDGIHGK 153
Query: 112 GGLLTVSHYNDLPD-LGHTLLAAGRELGYPTDVDIGHGRLREGFYRAQMTTRNGARLSAA 170
GG L + D L + AG LG P + G + R+G R++AA
Sbjct: 154 GGPLPIHLPADEVSPLARAFIEAGASLGLPRLEGH-NSGEMIGVTPNSLNIRDGRRVTAA 212
Query: 171 KA 172
A
Sbjct: 213 DA 214
>1ju2_A HydroxynitrIle lyase; flavin, GMC oxidoreductase, almond,
cyanogenesis; HET: NAG NDG FUC BMA MAN FAD; 1.47A
{Prunus dulcis} SCOP: c.3.1.2 d.16.1.1 PDB: 3gdp_A*
3gdn_A*
Length = 536
Score = 100 bits (252), Expect = 2e-25
Identities = 25/126 (19%), Positives = 39/126 (30%), Gaps = 24/126 (19%)
Query: 49 YNVR-KVMGGTTVLNGLMYCRGDSSDYDEYEKLGATGWGYKNVLPYFLKSEHNLQYNSSQ 107
NVR +V+GGT+++N +Y R ++S Y W V + E + Y +
Sbjct: 96 DNVRGRVLGGTSIINAGVYARANTSIYSA----SGVDWDMDLVNQTYEWVEDTIVYKPNS 151
Query: 108 NHARGGLLTVSHYNDLPDLGHTLLAAGRELGYP-TDVDIGHGRLREGFYRAQMTTRNGAR 166
+ L AG + + EG T N
Sbjct: 152 QSWQS------------VTKTAFLEAGVHPNHGFSLDHE------EGTRITGSTFDNKGT 193
Query: 167 LSAAKA 172
AA
Sbjct: 194 RHAADE 199
Score = 71.1 bits (175), Expect = 4e-15
Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 4/51 (7%)
Query: 2 GGTTVLNGLMYCRGDSSDYDEYEKLGATGWGYKNVLPYFLKSEHNLQYNVR 52
GGT+++N +Y R ++S Y W V + E + Y
Sbjct: 104 GGTSIINAGVYARANTSIYSA----SGVDWDMDLVNQTYEWVEDTIVYKPN 150
>1kdg_A CDH, cellobiose dehydrogenase; GMC oxidoreductase, PHBH fold,
alpha/beta structure, rossman 6-hydroxylated FAD,
oxidoreductase; HET: NAG MAN 6FA EMT; 1.50A
{Phanerochaete chrysosporium} SCOP: c.3.1.2 d.16.1.1
PDB: 1naa_A*
Length = 546
Score = 95.7 bits (239), Expect = 1e-23
Identities = 24/122 (19%), Positives = 40/122 (32%), Gaps = 14/122 (11%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEYEKLGATGW--GYKNVLPYFLKSEHNLQYNSSQNHA 110
++GG T +NG +Y + D+ + GW + N PY K L S+ + +
Sbjct: 91 CLVGGGTSVNGALYWYPNDGDFS-----SSVGWPSSWTNHAPYTSKLSSRLP--STDHPS 143
Query: 111 RGGLLTVSHYNDLPDLGHTLLAAGRELGYPTDVDIGHGRLREGFYRAQMTTRNGARLSAA 170
G + ++ L G+ T D F + NG R
Sbjct: 144 TDGQRYLEQSFNVVS----QLLKGQGYNQATINDN-PNYKDHVFGYSAFDFLNGKRAGPV 198
Query: 171 KA 172
Sbjct: 199 AT 200
>1k7c_A Rhamnogalacturonan acetylesterase; N-linked glycosylation,
SGNH-hydrolase, hydrolase; HET: NAG MAN; 1.12A
{Aspergillus aculeatus} SCOP: c.23.10.4 PDB: 1dex_A*
1deo_A* 1pp4_A* 3c1u_A*
Length = 233
Score = 30.8 bits (69), Expect = 0.21
Identities = 17/65 (26%), Positives = 22/65 (33%), Gaps = 14/65 (21%)
Query: 58 TTVLNGLMYCRGDSSDYDEYEKLGATGWGYKNVLPYFLKSEHNLQYNSSQNHARGGLLTV 117
TTV Y GDS+ G GWG L +L + N A G
Sbjct: 1 TTV-----YLAGDSTMAKNGGGSGTNGWG--EYLASYLSAT-------VVNDAVAGRSAR 46
Query: 118 SHYND 122
S+ +
Sbjct: 47 SYTRE 51
>2od0_A Hypothetical protein VP1028; structural genomics, unknown functi 2,
protein structure initiative, midwest center for structu
genomics; 1.95A {Vibrio parahaemolyticus} SCOP:
d.198.5.2
Length = 105
Score = 27.2 bits (60), Expect = 1.3
Identities = 14/67 (20%), Positives = 23/67 (34%), Gaps = 15/67 (22%)
Query: 51 VRKVMGGT----------TVLNGLMYCRGDSSDYDEYEKLGATGWGYKN-----VLPYFL 95
R + GG V+N ++ R D ++E G + YK V Y+
Sbjct: 21 SRSMFGGFGLFADETMFALVVNNQLHIRADQQTSSDFETQGLKPYVYKKRGFPVVTKYYA 80
Query: 96 KSEHNLQ 102
S +
Sbjct: 81 ISSELWE 87
Score = 26.8 bits (59), Expect = 2.2
Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 5/48 (10%)
Query: 6 VLNGLMYCRGDSSDYDEYEKLGATGWGYKN-----VLPYFLKSEHNLQ 48
V+N ++ R D ++E G + YK V Y+ S +
Sbjct: 40 VVNNQLHIRADQQTSSDFETQGLKPYVYKKRGFPVVTKYYAISSELWE 87
>1p91_A Ribosomal RNA large subunit methyltransferase A; RLMA, RRMA, 23S
rRNA, NESG, structural genomics, PSI, protein structure
initiative; HET: SAM; 2.80A {Escherichia coli} SCOP:
c.66.1.33
Length = 269
Score = 28.0 bits (62), Expect = 1.9
Identities = 21/77 (27%), Positives = 28/77 (36%), Gaps = 3/77 (3%)
Query: 86 GYKNVLPYFLKSEHNLQYNSSQNHARGGLLTVSHYNDLPDLGHTLLAAGRELGYPTDVDI 145
GY N+LP K + ++ AR L HY L D L + +DI
Sbjct: 33 GYVNLLPVQHKRSRDPGDSAEMMQARRAFLDAGHYQPLRDAIVAQLRERLDDKATAVLDI 92
Query: 146 GHGRLREGFYRAQMTTR 162
G G EG+Y
Sbjct: 93 GCG---EGYYTHAFADA 106
>3k7d_A Glutamate-ammonia-ligase adenylyltransferase; nucleotidyl
transferase domain, ATP-binding, nucleotide-BIND
nucleotidyltransferase; 2.40A {Escherichia coli}
Length = 498
Score = 28.0 bits (62), Expect = 1.9
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 101 LQYNSSQNHARGGLLTVSHYNDLPDLGHTLLAAGR----ELGYPTDVDI 145
+Q Q AR G +H N+ G ++ G+ ELGY +D+D+
Sbjct: 210 VQQAWVQMVARYG--KPNHLNEREGRGFAVVGYGKLGGWELGYSSDLDL 256
>1zkp_A Hypothetical protein BA1088; zinc binding protein, structural
genomics, PSI, protein STRU initiative; 1.50A {Bacillus
anthracis str} SCOP: d.157.1.9
Length = 268
Score = 27.7 bits (62), Expect = 2.2
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 119 HYNDLPDLGHTLLAAGRELGYPTDVDI-GHGRLREGFYRAQM 159
H D+ L + L G ++ I GH GF+
Sbjct: 88 HVADIGVLQYARLITSATKGQLPELPIYGHTFDENGFHSLTH 129
>3okg_A Restriction endonuclease S subunits; coiled-coil, type I
methyltransferase, DNA binding, DNA BIND protein; 1.95A
{Thermoanaerobacter tengcongensis}
Length = 412
Score = 26.6 bits (59), Expect = 5.8
Identities = 5/26 (19%), Positives = 9/26 (34%)
Query: 37 LPYFLKSEHNLQYNVRKVMGGTTVLN 62
L + +S+ M GT+
Sbjct: 133 LFHLCRSDFITNQLTASKMRGTSYPA 158
>1vpa_A 2-C-methyl-D-erythritol 4-phosphate cytidylyltran; TM1393, JCSG,
joint center for structural GENO PSI, protein structure
initiative; HET: CTP; 2.67A {Thermotoga maritima} SCOP:
c.68.1.13
Length = 234
Score = 26.0 bits (58), Expect = 7.3
Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 4/40 (10%)
Query: 39 YFLKSEHNLQYNVRKVMGGTT----VLNGLMYCRGDSSDY 74
++ + + V GG T V + L + S Y
Sbjct: 70 EVVEKRVFHEKVLGIVEGGDTRSQSVRSALEFLEKFSPSY 109
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
0.318 0.138 0.424
Gapped
Lambda K H
0.267 0.0845 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,834,201
Number of extensions: 160661
Number of successful extensions: 394
Number of sequences better than 10.0: 1
Number of HSP's gapped: 365
Number of HSP's successfully gapped: 28
Length of query: 180
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 92
Effective length of database: 4,244,745
Effective search space: 390516540
Effective search space used: 390516540
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (24.4 bits)