RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy6089
(313 letters)
>d1pj5a4 d.250.1.1 (A:428-742) N,N-dimethylglycine oxidase domain 3
{Arthrobacter globiformis [TaxId: 1665]}
Length = 315
Score = 121 bits (304), Expect = 7e-33
Identities = 55/249 (22%), Positives = 103/249 (41%), Gaps = 10/249 (4%)
Query: 72 TFFKPKFFDFMEEEYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSNDVNIPVGG 131
+ E V + DM+ +++++ + LQ+L + D+ G
Sbjct: 52 AWSGMFSSPIAAAEAWKTRTAVAMYDMTPLKRLEVSGPGA--LKLLQELTTADLAKKPGA 109
Query: 132 ISHTGMQNERGGYENDCILVRETETSYFMVSPTSQQTRVFEWMKNHLPTKHYITL----S 187
+++T + + GG +D + R +E ++ + + + T FE H T
Sbjct: 110 VTYTLLLDHAGGVRSDITVARLSEDTFQLGANGNIDTAYFERAARHQTQSGSATDWVQVR 169
Query: 188 DVTSKYTVINVVGPKAKQLLSELCDEDI---NLHPFSYKRTDIGYASDVKLMGFTHTGEP 244
D T I + GP A+ L+S++ D+D L F K IG V M ++ GE
Sbjct: 170 DTTGGTCCIGLWGPLARDLVSKVSDDDFTNDGLKYFRAKNVVIGGI-PVTAMRLSYVGEL 228
Query: 245 GYCLYIPSEYALHVYQKIMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTPFES 304
G+ LY ++ ++ + G+ + G +R+EK W D+ + PFE+
Sbjct: 229 GWELYTSADNGQRLWDALWQAGQPFGVIAAGRAAFSSLRLEKGYRSWGTDMTTEHDPFEA 288
Query: 305 GSAYRVKLD 313
G + VK+
Sbjct: 289 GLGFAVKMA 297
>d1vloa2 d.250.1.1 (A:4-277) Glycine cleavage system T protein, GcvT
{Escherichia coli [TaxId: 562]}
Length = 274
Score = 110 bits (276), Expect = 3e-29
Identities = 47/240 (19%), Positives = 102/240 (42%), Gaps = 10/240 (4%)
Query: 76 PKFFDFMEEEYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSNDVNIPVGGIS-- 133
P + +E+ A G+ D+S + + + S ++L+ L +NDV
Sbjct: 24 PLHYGSQIDEHHAVRTDAGMFDVSHMTIVDLRGSRT--REFLRYLLANDVAKLTKSGKAL 81
Query: 134 HTGMQNERGGYENDCILVRETETSYFMVSPTSQQTRVFEWMKNHLPTKHYITLSDVTSKY 193
++GM N GG +D I+ TE + +V ++ + + W+ H V
Sbjct: 82 YSGMLNASGGVIDDLIVYYFTEDFFRLVVNSATREKDLSWITQHAEPFGIEI--TVRDDL 139
Query: 194 TVINVVGPKAKQLLSELCDEDINLHPFSYKRTDIGYASDVKLMGFTHTGEPGYCLYIPSE 253
++I V GP A+ + L ++ K A D+ + +TGE GY + +P+E
Sbjct: 140 SMIAVQGPNAQAKAATLFNDAQRQAVEGMKPFFGVQAGDLFIATTGYTGEAGYEIALPNE 199
Query: 254 YALHVYQKIMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTPFESGSAYRVKLD 313
A ++ ++ G + G+ + +R+E + + ++++ +P + + + +
Sbjct: 200 KAADFWRALVEAG----VKPCGLGARDTLRLEAGMNLYGQEMDETISPLAANMGWTIAWE 255
>d1v5va2 d.250.1.1 (A:3-312) Glycine cleavage system T protein, GcvT
{Pyrococcus horikoshii [TaxId: 53953]}
Length = 310
Score = 105 bits (261), Expect = 7e-27
Identities = 56/266 (21%), Positives = 104/266 (39%), Gaps = 29/266 (10%)
Query: 76 PKFFDFMEEEYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSNDVNIPVGGISHT 135
P ++ ++EE+ A VGI D+S +I D ++ P ++T
Sbjct: 28 PIWYSSIKEEHLAVRNAVGIFDVSHMGEIVFRGKDAL-KFLQYVTTNDISKPPAISGTYT 86
Query: 136 GMQNERGGYENDCILVRETETSYFMVSPTSQQTRVFEWMKNHLP-----TKHYITLSDVT 190
+ NERG +++ ++ Y M+ + +++ W TK + + T
Sbjct: 87 LVLNERGAIKDETLVFNMGNNEYLMICDSDAFEKLYAWFTYLKRTIEQFTKLDLEIELKT 146
Query: 191 SKYTVINVVGPKAKQLLSELCDEDINLHPFSYKRTDIGYASDVKLMGFTHTGEPGYCLYI 250
+ V GPKA+ L +L DIN + R + L +TGE G+ +YI
Sbjct: 147 YDIAMFAVQGPKARDLAKDLFGIDINEMWWFQARWVELDGIKMLLSRSGYTGENGFEVYI 206
Query: 251 PS--------------EYALHVYQKIMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLN 296
E ALHV+++I+ GK Y + G+ + +R+E + +
Sbjct: 207 EDANPYHPDESKRGEPEKALHVWERILEEGKKYGIKPCGLGARDTLRLEAGYTLYGNETK 266
Query: 297 SV---------TTPFESGSAYRVKLD 313
+ TP ++ + + D
Sbjct: 267 ELQLLSTDIDEVTPLQANLEFAIYWD 292
>d1wosa2 d.250.1.1 (A:1-278) Glycine cleavage system T protein, GcvT
{Thermotoga maritima [TaxId: 2336]}
Length = 278
Score = 96.2 bits (238), Expect = 9e-24
Identities = 56/238 (23%), Positives = 113/238 (47%), Gaps = 2/238 (0%)
Query: 76 PKFFDFMEEEYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSNDVNIPVGGISHT 135
P ++ + EE A + VG+ D+S + + E++ + ++ ++P G ++
Sbjct: 26 PLYYTSIFEEVMAVRKSVGMFDVSHMGEFLVK-GPEAVSFIDFLITNDFSSLPDGKAIYS 84
Query: 136 GMQNERGGYENDCILVRETETSYFMVSPTSQQTRVFEWMKNHLPTKHYITLSDVTSKYTV 195
M NE GG +D ++ + + MV + + F W+K+H S+++ +
Sbjct: 85 VMCNENGGIIDDLVVYKVSPDEALMVVNAANIEKDFNWIKSHSKNFDVEV-SNISDTTAL 143
Query: 196 INVVGPKAKQLLSELCDEDINLHPFSYKRTDIGYASDVKLMGFTHTGEPGYCLYIPSEYA 255
I GPKA++ L EL ++ + + R I + + +TGE G+ L + ++ A
Sbjct: 144 IAFQGPKAQETLQELVEDGLEEIAYYSFRKSIVAGVETLVSRTGYTGEDGFELMLEAKNA 203
Query: 256 LHVYQKIMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTPFESGSAYRVKLD 313
V+ +M L + + R G+ + R+E + +D++ T PFE G ++ VKL+
Sbjct: 204 PKVWDALMNLLRKIDGRPAGLGARDVCRLEATYLLYGQDMDENTNPFEVGLSWVVKLN 261
>d1vlya2 d.250.1.1 (A:3-243) Hypothetical protein YgfZ, N-terminal
domain {Escherichia coli [TaxId: 562]}
Length = 241
Score = 76.6 bits (187), Expect = 5e-17
Identities = 27/224 (12%), Positives = 72/224 (32%), Gaps = 18/224 (8%)
Query: 83 EEEYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSNDVN-IPVGGISHTGMQNER 141
+ + + ++ + ++ IT +D ++Q + DV+ + + +
Sbjct: 7 RQPTASARLPLTLMTLDDWALATITGAD--SEKYMQGQVTADVSQMAEDQHLLAAHCDAK 64
Query: 142 GGYENDCILVRETETSYFMVSPTSQQTRVFEWMKNHLPTKHYITLSDVTSKYTVINVVGP 201
G ++ L R+ + ++ + ++ ++ E K + +K I + ++ V G
Sbjct: 65 GKMWSNLRLFRDGDGFAWIERRSVREPQLTELKKYAVFSKVTI---APDDERVLLGVAGF 121
Query: 202 KAKQLLSELCDEDINLHPFSYKRTDIGYASDVKLMGFTHTGEPGYCLYIPSEYALHVYQK 261
+A+ L+ L E + K + + + + A + K
Sbjct: 122 QARAALANLFSELPSKEKQVVKEGAT-------TLLWFEHPAERFLIVTDEATANMLTDK 174
Query: 262 IMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTPFESG 305
+ A + IE P + P +
Sbjct: 175 LR-----GEAELNNSQQWLALNIEAGFPVIDAANSGQFIPQATN 213
>d1pj5a2 c.3.1.2 (A:4-219,A:339-427) N,N-dimethylglycine oxidase
{Arthrobacter globiformis [TaxId: 1665]}
Length = 305
Score = 47.1 bits (110), Expect = 1e-06
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 11 GIGRAVAEWMTHGEATQELLSFDVQRFLDLHNNRQYLQQRIREVVGSTYRVGDPRPEMPP 70
G+ +A+AE +T G + +L D+ RF D+ +Y+ + ++ Y V P P
Sbjct: 245 GVAKAMAELLTTGRSETDLGECDITRFEDVQLTPEYVSETSQQNFVEIYDV--LHPLQPR 302
Query: 71 GT 72
+
Sbjct: 303 LS 304
>d2gf3a1 c.3.1.2 (A:1-217,A:322-385) Sarcosine oxidase {Bacillus
sp., strain b0618 [TaxId: 1409]}
Length = 281
Score = 29.7 bits (65), Expect = 0.46
Identities = 6/35 (17%), Positives = 17/35 (48%)
Query: 3 GNSLQGAGGIGRAVAEWMTHGEATQELLSFDVQRF 37
G+ + + G+G +++ G+ ++ F + R
Sbjct: 240 GHGFKFSSGVGEVLSQLALTGKTEHDISIFSINRP 274
>d2fr1a1 c.2.1.2 (A:1657-1915) Erythromycin synthase, eryAI, 1st
ketoreductase module {Saccharopolyspora erythraea
[TaxId: 1836]}
Length = 259
Score = 28.1 bits (61), Expect = 1.3
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 8 GAGGIGRAVAEWM 20
G GG+G +A W+
Sbjct: 17 GTGGVGGQIARWL 29
>d1exqa_ c.55.3.2 (A:) Retroviral integrase, catalytic domain {Human
immunodeficiency virus type 1 [TaxId: 11676]}
Length = 154
Score = 27.1 bits (59), Expect = 1.8
Identities = 12/84 (14%), Positives = 18/84 (21%)
Query: 177 HLPTKHYITLSDVTSKYTVINVVGPKAKQLLSELCDEDINLHPFSYKRTDIGYASDVKLM 236
HL K + V S Y V+ + Q + + P TD G +
Sbjct: 12 HLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGSNFTGATV 71
Query: 237 GFTHTGEPGYCLYIPSEYALHVYQ 260
Sbjct: 72 RAACDWAGIKQEDGIPYNPQSQGV 95
>d1zs8a2 d.19.1.1 (A:1-180) Class I MHC, alpha-1 and alpha-2 domains
{Mouse (Mus musculus), H-2M10 [TaxId: 10090]}
Length = 180
Score = 26.9 bits (59), Expect = 2.8
Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 1/53 (1%)
Query: 249 YIPSEYALHVYQKIMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTP 301
+ H Q++ ++ +G +I EDLNS TT
Sbjct: 84 NNNKKNDYHTLQEVFGCNVAHDGSFLGGHYGLTYYGYDYIIL-NEDLNSWTTE 135
>d1c6va_ c.55.3.2 (A:) Retroviral integrase, catalytic domain
{Simian immunodeficiency virus [TaxId: 11723]}
Length = 159
Score = 26.4 bits (57), Expect = 3.4
Identities = 12/94 (12%), Positives = 23/94 (24%)
Query: 177 HLPTKHYITLSDVTSKYTVINVVGPKAKQLLSELCDEDINLHPFSYKRTDIGYASDVKLM 236
HL K I V S + V+ + + + + P ++ TD G + +
Sbjct: 13 HLEGKIVIVAVHVASGFIEAEVIPQETGRQTALFLLKLAGRWPITHLHTDNGANFASQEV 72
Query: 237 GFTHTGEPGYCLYIPSEYALHVYQKIMTLGKDYN 270
+ N
Sbjct: 73 KMVAWWAGIEHTFGVPYNPQSQGVVEAMNHHLKN 106
>d1guza1 c.2.1.5 (A:1-142) Malate dehydrogenase {Chlorobium
vibrioforme [TaxId: 1098]}
Length = 142
Score = 25.8 bits (56), Expect = 4.6
Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 6/58 (10%)
Query: 8 GAGGIGRAVAEWMTHGEATQELLSFDVQRF------LDLHNNRQYLQQRIREVVGSTY 59
GAG +G A + + +EL+ DV LD++ + + + Y
Sbjct: 7 GAGNVGATTAFRLAEKQLARELVLLDVVEGIPQGKALDMYESGPVGLFDTKVTGSNDY 64
>d1jaya_ c.2.1.6 (A:) Coenzyme F420H2:NADP+ oxidoreductase (FNO)
{Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
Length = 212
Score = 26.2 bits (56), Expect = 5.0
Identities = 4/11 (36%), Positives = 7/11 (63%)
Query: 8 GAGGIGRAVAE 18
G G +G+ +A
Sbjct: 8 GTGNLGKGLAL 18
>d1y6ja1 c.2.1.5 (A:7-148) Lactate dehydrogenase {Clostridium
thermocellum [TaxId: 1515]}
Length = 142
Score = 25.7 bits (56), Expect = 5.3
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 8 GAGGIGRAVAEWMTHGEATQELLSFDV 34
GAG +G + A M + EL+ DV
Sbjct: 8 GAGFVGASAAFTMALRQTANELVLIDV 34
>d1o6za1 c.2.1.5 (A:22-162) Malate dehydrogenase {Archaeon
Haloarcula marismortui [TaxId: 2238]}
Length = 142
Score = 25.3 bits (55), Expect = 6.9
Identities = 7/33 (21%), Positives = 13/33 (39%)
Query: 8 GAGGIGRAVAEWMTHGEATQELLSFDVQRFLDL 40
AG +G A + + E++ D+ D
Sbjct: 8 AAGTVGAAAGYNIALRDIADEVVFVDIPDKEDD 40
>d1a5za1 c.2.1.5 (A:22-163) Lactate dehydrogenase {Thermotoga
maritima [TaxId: 2336]}
Length = 140
Score = 25.0 bits (54), Expect = 9.2
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 8 GAGGIGRAVAEWMTHGEATQELLSFDV 34
G G +G + A + +E++ DV
Sbjct: 7 GLGRVGSSTAFALLMKGFAREMVLIDV 33
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.320 0.137 0.418
Gapped
Lambda K H
0.267 0.0552 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,235,500
Number of extensions: 57726
Number of successful extensions: 244
Number of sequences better than 10.0: 1
Number of HSP's gapped: 235
Number of HSP's successfully gapped: 19
Length of query: 313
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 228
Effective length of database: 1,240,546
Effective search space: 282844488
Effective search space used: 282844488
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)