RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 017410
(372 letters)
>2bfd_B 2-oxoisovalerate dehydrogenase beta subunit; oxidoreductase,
multi-enzyme complex, acylation, oxidative
decarboxylation, maple syrup urine disease; HET: TDP;
1.39A {Homo sapiens} SCOP: c.36.1.7 c.48.1.2 PDB:
1dtw_B* 1olu_B* 1ols_B* 1v11_B* 1v16_B* 1v1m_B* 1u5b_B*
1wci_B* 1v1r_B* 1x7x_B* 1x7w_B* 1x7z_B* 1x80_B* 2beu_B*
2bev_B* 2bew_B* 2bfb_B* 2bfc_B* 1x7y_B* 2bfe_B* ...
Length = 342
Score = 579 bits (1496), Expect = 0.0
Identities = 213/316 (67%), Positives = 256/316 (81%), Gaps = 1/316 (0%)
Query: 35 GSGKSLNLYSAINQALHIALETDPRAYVFGEDVGFGGVFRCTTGLADRFGKSRVFNTPLC 94
G + +NL+ ++ AL +L DP A +FGEDV FGGVFRCT GL D++GK RVFNTPLC
Sbjct: 16 GQTQKMNLFQSVTSALDNSLAKDPTAVIFGEDVAFGGVFRCTVGLRDKYGKDRVFNTPLC 75
Query: 95 EQGIVGFAIGLAAMGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNQFNCGGLTVRAP 154
EQGIVGF IG+A G AIAEIQFADYIFPAFDQIVNEAAK+RYRSG+ FNCG LT+R+P
Sbjct: 76 EQGIVGFGIGIAVTGATAIAEIQFADYIFPAFDQIVNEAAKYRYRSGDLFNCGSLTIRSP 135
Query: 155 YGAVGHGGHYHSQSPEAFFCHVPGLKVVIPRSPRQAKGLLLSCIRDPNPVVFFEPKWLYR 214
+G VGHG YHSQSPEAFF H PG+KVVIPRSP QAKGLLLSCI D NP +FFEPK LYR
Sbjct: 136 WGCVGHGALYHSQSPEAFFAHCPGIKVVIPRSPFQAKGLLLSCIEDKNPCIFFEPKILYR 195
Query: 215 LSVEEVPEDDYMLPLSEAEVIREGSDITLVGWGAQLSIMEQAC-LDAEKEGISCELIDLK 273
+ EEVP + Y +PLS+AEVI+EGSD+TLV WG Q+ ++ + + EK G+SCE+IDL+
Sbjct: 196 AAAEEVPIEPYNIPLSQAEVIQEGSDVTLVAWGTQVHVIREVASMAKEKLGVSCEVIDLR 255
Query: 274 TLIPWDKETVEASVRKTGRLLISHEAPVTGGFGAEISASILERCFLRLEAPVARVCGLDT 333
T+IPWD +T+ SV KTGRLLISHEAP+TGGF +EIS+++ E CFL LEAP++RVCG DT
Sbjct: 256 TIIPWDVDTICKSVIKTGRLLISHEAPLTGGFASEISSTVQEECFLNLEAPISRVCGYDT 315
Query: 334 PFPLVFEPFYMPTKNK 349
PFP +FEPFY+P K K
Sbjct: 316 PFPHIFEPFYIPDKWK 331
>1umd_B E1-beta, 2-OXO acid dehydrogenase beta subunit; alpha(2)beta(2)
tetramer, structural genomics; HET: TDP; 1.90A {Thermus
thermophilus} SCOP: c.36.1.7 c.48.1.2 PDB: 1um9_B*
1umc_B* 1umb_B*
Length = 324
Score = 567 bits (1464), Expect = 0.0
Identities = 159/311 (51%), Positives = 204/311 (65%), Gaps = 2/311 (0%)
Query: 40 LNLYSAINQALHIALETDPRAYVFGEDVG-FGGVFRCTTGLADRFGKSRVFNTPLCEQGI 98
+ + A+N+AL + DPR V GEDVG GGVF T GL ++G RV +TPL E I
Sbjct: 4 MTMVQALNRALDEEMAKDPRVVVLGEDVGKRGGVFLVTEGLLQKYGPDRVMDTPLSEAAI 63
Query: 99 VGFAIGLAAMGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNQFNCGGLTVRAPYGAV 158
VG A+G+AA G R +AEIQFADYIFP FDQ+V++ AK RYRSG QF L VR P G
Sbjct: 64 VGAALGMAAHGLRPVAEIQFADYIFPGFDQLVSQVAKLRYRSGGQFTAP-LVVRMPSGGG 122
Query: 159 GHGGHYHSQSPEAFFCHVPGLKVVIPRSPRQAKGLLLSCIRDPNPVVFFEPKWLYRLSVE 218
GGH+HSQSPEA F H GLKVV +P AKGLL + IRD +PVVF EPK LYR E
Sbjct: 123 VRGGHHHSQSPEAHFVHTAGLKVVAVSTPYDAKGLLKAAIRDEDPVVFLEPKRLYRSVKE 182
Query: 219 EVPEDDYMLPLSEAEVIREGSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLKTLIPW 278
EVPE+DY LP+ +A + REG D+TL+ +G + + QA + K G+S E++DL+TL+PW
Sbjct: 183 EVPEEDYTLPIGKAALRREGKDLTLICYGTVMPEVLQAAAELAKAGVSAEVLDLRTLMPW 242
Query: 279 DKETVEASVRKTGRLLISHEAPVTGGFGAEISASILERCFLRLEAPVARVCGLDTPFPLV 338
D E V SV KTGR+++ +AP F +E++A+I E L AP RV G DTP+P
Sbjct: 243 DYEAVMNSVAKTGRVVLVSDAPRHASFVSEVAATIAEDLLDMLLAPPIRVTGFDTPYPYA 302
Query: 339 FEPFYMPTKNK 349
+ Y+PT +
Sbjct: 303 QDKLYLPTVTR 313
>1ik6_A Pyruvate dehydrogenase; E1BETA, tetramer, GXXXG, oxidoreductase;
2.00A {Pyrobaculum aerophilum} SCOP: c.36.1.7 c.48.1.2
Length = 369
Score = 558 bits (1439), Expect = 0.0
Identities = 158/317 (49%), Positives = 201/317 (63%), Gaps = 6/317 (1%)
Query: 35 GSGKSLNLYSAINQALHIALETDPRAYVFGEDVG-FGGVFRCTTGLADRFGKSRVFNTPL 93
G N+ AIN ALH +E D R V GEDVG GGVF T GL +RFG RV +TPL
Sbjct: 46 GVVMMANMAKAINMALHEEMERDERVVVLGEDVGKKGGVFLVTEGLYERFGPERVIDTPL 105
Query: 94 CEQGIVGFAIGLAAMGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNQFNCGGLTVRA 153
E GI+GFA+G+A G + +AEIQF D+I+ D+++N AK RYRSG + L VR
Sbjct: 106 NEGGILGFAMGMAMAGLKPVAEIQFVDFIWLGADELLNHIAKLRYRSGGNYKAP-LVVRT 164
Query: 154 PYGAVGHGGHYHSQSPEAFFCHVPGLKVVIPRSPRQAKGLLLSCIRDPNPVVFFEPKWLY 213
P G+ GG YHS SPEA F H PGL VV+P +P AKGLL + IR +PVVF EPK LY
Sbjct: 165 PVGSGTRGGLYHSNSPEAIFVHTPGLVVVMPSTPYNAKGLLKAAIRGDDPVVFLEPKILY 224
Query: 214 RLSVEEVPEDDYMLPLSEAEVIREGSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLK 273
R EEVPE DY++ + +A V REG D+TLV +GA + +A AE+ S E++DL+
Sbjct: 225 RAPREEVPEGDYVVEIGKARVAREGDDVTLVTYGAVVHKALEA---AERVKASVEVVDLQ 281
Query: 274 TLIPWDKETVEASVRKTGRLLISHEAPVTGGFGAEISASILERCFLRLEAPVARVCGLDT 333
TL P D +TV SV KTGRL+I+H++P TGG GAE+ A + E+ RL APV R+ G D
Sbjct: 282 TLNPLDFDTVLKSVSKTGRLIIAHDSPKTGGLGAEVRALVAEKALDRLTAPVIRLAGPDV 341
Query: 334 PFPL-VFEPFYMPTKNK 349
P + Y PT +
Sbjct: 342 PQSPIAADAAYAPTVER 358
>1qs0_B 2-oxoisovalerate dehydrogenase beta-subunit; heterotetramer, THDP
cofactor, oxidoreductase; HET: TDP; 2.40A {Pseudomonas
putida} SCOP: c.36.1.7 c.48.1.2 PDB: 2bp7_B
Length = 338
Score = 553 bits (1428), Expect = 0.0
Identities = 146/329 (44%), Positives = 205/329 (62%), Gaps = 21/329 (6%)
Query: 38 KSLNLYSAINQALHIALETDPRAYVFGEDVG-FGGVFRCTTGLADRFGKSRVFNTPLCEQ 96
++ + A+ A+ + LE D V+G+DVG FGGVFRCT GL ++GKSRVF+ P+ E
Sbjct: 3 TTMTMIQALRSAMDVMLERDDNVVVYGQDVGYFGGVFRCTEGLQTKYGKSRVFDAPISES 62
Query: 97 GIVGFAIGLAAMGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNQFNCGGLTVRAPYG 156
GIVG A+G+ A G R + EIQFADY +PA DQIV+E A+ RYRS +F LT+R P G
Sbjct: 63 GIVGTAVGMGAYGLRPVVEIQFADYFYPASDQIVSEMARLRYRSAGEFIAP-LTLRMPCG 121
Query: 157 AVGHGGHYHSQSPEAFFCHVPGLKVVIPRSPRQAKGLLLSCIRDPNPVVFFEPKWLYRLS 216
+GG HSQSPEA F V GL+ V+P +P AKGLL++ I +PV+F EPK LY
Sbjct: 122 GGIYGGQTHSQSPEAMFTQVCGLRTVMPSNPYDAKGLLIASIECDDPVIFLEPKRLYNGP 181
Query: 217 VE----------------EVPEDDYMLPLSEAEVIREGSDITLVGWGAQLSIMEQACLDA 260
+ VP+ Y +PL +A + R G+D++++ +G + + + A A
Sbjct: 182 FDGHHDRPVTPWSKHPHSAVPDGYYTVPLDKAAITRPGNDVSVLTYGTTVYVAQVA---A 238
Query: 261 EKEGISCELIDLKTLIPWDKETVEASVRKTGRLLISHEAPVTGGFGAEISASILERCFLR 320
E+ G+ E+IDL++L P D +T+ SV+KTGR ++ HEA T GFGAE+ + + E CF
Sbjct: 239 EESGVDAEVIDLRSLWPLDLDTIVESVKKTGRCVVVHEATRTCGFGAELVSLVQEHCFHH 298
Query: 321 LEAPVARVCGLDTPFPLVFEPFYMPTKNK 349
LEAP+ RV G DTP+P E Y P ++
Sbjct: 299 LEAPIERVTGWDTPYPHAQEWAYFPGPSR 327
>1w85_B Pyruvate dehydrogenase E1 component, beta subunit; dehydrogenase,
multienzyme complex, oxidoreductase; HET: TDP; 2.0A
{Geobacillus stearothermophilus} SCOP: c.36.1.7 c.48.1.2
PDB: 1w88_B* 3dva_B* 3dv0_B* 3duf_B*
Length = 324
Score = 547 bits (1413), Expect = 0.0
Identities = 143/312 (45%), Positives = 191/312 (61%), Gaps = 3/312 (0%)
Query: 40 LNLYSAINQALHIALETDPRAYVFGEDVG-FGGVFRCTTGLADRFGKSRVFNTPLCEQGI 98
+ + AI AL I L+ DP +FGEDVG GGVFR T GL FG+ RVF+TPL E GI
Sbjct: 3 MTMVQAITDALRIELKNDPNVLIFGEDVGVNGGVFRATEGLQAEFGEDRVFDTPLAESGI 62
Query: 99 VGFAIGLAAMGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNQFNCGGLTVRAPYGAV 158
G AIGLA G R + EIQF +++ D I + A+ RYR+G +++ +T+R+P+G
Sbjct: 63 GGLAIGLALQGFRPVPEIQFFGFVYEVMDSICGQMARIRYRTGGRYHMP-ITIRSPFGGG 121
Query: 159 GHGGHYHSQSPEAFFCHVPGLKVVIPRSPRQAKGLLLSCIRDPNPVVFFEPKWLYRLSVE 218
H HS S E PGLKVVIP +P AKGLL+S IRD +PV+F E LYR +
Sbjct: 122 VHTPELHSDSLEGLVAQQPGLKVVIPSTPYDAKGLLISAIRDNDPVIFLEHLKLYRSFRQ 181
Query: 219 EVPEDDYMLPLSEAEVIREGSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLKTLIPW 278
EVPE +Y +P+ +A++ REG DIT++ +GA + +A + EKEGIS E++DL+T+ P
Sbjct: 182 EVPEGEYTIPIGKADIKREGKDITIIAYGAMVHESLKAAAELEKEGISAEVVDLRTVQPL 241
Query: 279 DKETVEASVRKTGRLLISHEAPVTGGFGAEISASILERCFLRLEAPVARVCGLDTPFPLV 338
D ET+ SV KTGR ++ EA G A + A I ER L LEAPV RV DT +P
Sbjct: 242 DIETIIGSVEKTGRAIVVQEAQRQAGIAANVVAEINERAILSLEAPVLRVAAPDTVYPFA 301
Query: 339 -FEPFYMPTKNK 349
E ++P
Sbjct: 302 QAESVWLPNFKD 313
>2ozl_B PDHE1-B, pyruvate dehydrogenase E1 component subunit beta;
pyruvate_dehydrogenase_complex, human,
multienzyme_complex_component; HET: TPP; 1.90A {Homo
sapiens} SCOP: c.36.1.7 c.48.1.2 PDB: 1ni4_B* 3exe_B*
3exf_B* 3exg_B 3exh_B* 3exi_B
Length = 341
Score = 417 bits (1075), Expect = e-147
Identities = 116/321 (36%), Positives = 169/321 (52%), Gaps = 8/321 (2%)
Query: 36 SGKSLNLYSAINQALHIALETDPRAYVFGEDVG-FGGVFRCTTGLADRFGKSRVFNTPLC 94
+ + AINQ + LE D + ++ GE+V + G ++ + GL ++G R+ +TP+
Sbjct: 11 GSLQVTVRDAINQGMDEELERDEKVFLLGEEVAQYDGAYKVSRGLWKKYGDKRIIDTPIS 70
Query: 95 EQGIVGFAIGLAAMGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNQFNCGGLTVRAP 154
E G G A+G A G R I E ++ A DQ++N AAK Y SG + R P
Sbjct: 71 EMGFAGIAVGAAMAGLRPICEFMTFNFSMQAIDQVINSAAKTYYMSGGLQPVP-IVFRGP 129
Query: 155 YGAVGHGGHYHSQSPEAFFCHVPGLKVVIPRSPRQAKGLLLSCIRDPNPVVFFEPKWLYR 214
GA HSQ A++ H PGLKVV P + AKGL+ S IRD NPVV E + +Y
Sbjct: 130 NGASAGVAAQHSQCFAAWYGHCPGLKVVSPWNSEDAKGLIKSAIRDNNPVVVLENELMYG 189
Query: 215 LSVE---EVPEDDYMLPLSEAEVIREGSDITLVGWGAQLSIMEQACLDAEKEGISCELID 271
+ E E D+++P+ +A++ R+G+ IT+V + +A KEG+ CE+I+
Sbjct: 190 VPFEFPPEAQSKDFLIPIGKAKIERQGTHITVVSHSRPVGHCLEAAAVLSKEGVECEVIN 249
Query: 272 LKTLIPWDKETVEASVRKTGRLLISHEAPVTGGFGAEISASILE-RCFLRLEAPVARVCG 330
++T+ P D ET+EASV KT L+ G GAEI A I+E F L+AP RV G
Sbjct: 250 MRTIRPMDMETIEASVMKTNHLVTVEGGWPQFGVGAEICARIMEGPAFNFLDAPAVRVTG 309
Query: 331 LDTPFP--LVFEPFYMPTKNK 349
D P P + E +P
Sbjct: 310 ADVPMPYAKILEDNSIPQVKD 330
>2o1s_A 1-deoxy-D-xylulose-5-phosphate synthase; DXS, thiamine, isoprenoid,
transferase; HET: TDP; 2.40A {Escherichia coli}
Length = 621
Score = 64.8 bits (159), Expect = 1e-11
Identities = 53/254 (20%), Positives = 97/254 (38%), Gaps = 53/254 (20%)
Query: 77 TGLADRFGK---SRVFNTPLCEQGIVGFAIGLAAMGNRAIAEI-----QFADYIFPAFDQ 128
+G+ F + R F+ + EQ V FA GLA G + I I Q A+DQ
Sbjct: 350 SGM-VEFSRKFPDRYFDVAIAEQHAVTFAAGLAIGGYKPIVAIYSTFLQ------RAYDQ 402
Query: 129 IVNEAAKFRYRSGNQFNCGGLTV-----RAPYGAVG-----HGGHYHSQSPEAFFCHVPG 178
++++ A Q L V RA G VG H G + ++ +P
Sbjct: 403 VLHDVAI-------Q----KLPVLFAIDRA--GIVGADGQTHQGAFDL----SYLRCIPE 445
Query: 179 LKVVIPRSPRQAKGLLLSCIR-DPNPVVFFEPKWLYRLSVEEVPEDDY-MLPLSEAEVIR 236
+ ++ P + + +L + + P P R + V LP+ + V R
Sbjct: 446 MVIMTPSDENECRQMLYTGYHYNDGPSAVRYP----RGNAVGVELTPLEKLPIGKGIVKR 501
Query: 237 EGSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLKTLIPWDKETVEASVRKTGRLLIS 296
G + ++ +G + E ++ L+D++ + P D+ + L+
Sbjct: 502 RGEKLAILNFGT----LMPEAAKV-AESLNATLVDMRFVKPLDEALILEMAASHEALVTV 556
Query: 297 HEAPVTGGFGAEIS 310
E + GG G+ ++
Sbjct: 557 EENAIMGGAGSGVN 570
>2o1x_A 1-deoxy-D-xylulose-5-phosphate synthase; thiamin, isoprenoid, DXS,
transferase; HET: TDP; 2.90A {Deinococcus radiodurans}
Length = 629
Score = 64.8 bits (159), Expect = 1e-11
Identities = 54/253 (21%), Positives = 99/253 (39%), Gaps = 51/253 (20%)
Query: 77 TGLADRFGK---SRVFNTPLCEQGIVGFAIGLAAMGNRAIAEI-----QFADYIFPAFDQ 128
+GL F + R + + E+ V A G+A G R + I Q A+DQ
Sbjct: 353 SGL-VEFSRVHPHRYLDVGIAEEVAVTTAAGMALQGMRPVVAIYSTFLQ------RAYDQ 405
Query: 129 IVNEAAKFRYRSGNQFNCGGLTV-----RAPYGAVG-----HGGHYHSQSPEAFFCHVPG 178
++++ A + L V RA G VG H G + +F +PG
Sbjct: 406 VLHDVAI-------E----HLNVTFCIDRA--GIVGADGATHNGVFDL----SFLRSIPG 448
Query: 179 LKVVIPRSPRQAKGLLLSCIRDPNPVVFFEPKWLYRLSVEEVPEDDY-MLPLSEAEVIRE 237
+++ +P+ + +G+L P P R + +VP + L E E ++
Sbjct: 449 VRIGLPKDAAELRGMLKYAQTHDGPFAIRYP----RGNTAQVPAGTWPDLKWGEWERLKG 504
Query: 238 GSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLKTLIPWDKETVEASVRKTGRLLISH 297
G D+ ++ G L A ++ +++ + + P D+E + + L+
Sbjct: 505 GDDVVILAGGK----ALDYALKAAEDLPGVGVVNARFVKPLDEEMLREVGGRARALITVE 560
Query: 298 EAPVTGGFGAEIS 310
+ V GGFG +
Sbjct: 561 DNTVVGGFGGAVL 573
>3mos_A Transketolase, TK; thiamin diphosphate TPP THDP enzyme catalysis
sugar metaboli transferase; HET: TPP; 1.75A {Homo
sapiens} PDB: 3ooy_A*
Length = 616
Score = 48.7 bits (117), Expect = 2e-06
Identities = 33/187 (17%), Positives = 67/187 (35%), Gaps = 31/187 (16%)
Query: 171 AFFCHVPGLKVVIPRSPRQAKGLLLSCIRDPNPVVFFEPKWLYRLSVEEVP---EDDYML 227
A F VP V P + + R S E ++
Sbjct: 433 AMFRSVPTSTVFYPSDGVATEKAVELAANTKGICFI-------RTSRPENAIIYNNNEDF 485
Query: 228 PLSEAEVIREGS--DITLVGWGAQLSIMEQACLDA----EKEGISCELIDLKTLIPWDKE 281
+ +A+V+ + +T++G G L L A +KE I+ ++D T+ P D++
Sbjct: 486 QVGQAKVVLKSKDDQVTVIGAGVTLHE----ALAAAELLKKEKINIRVLDPFTIKPLDRK 541
Query: 282 TVEASVRKTGRLLISHE-APVTGGFGAEISASILERCFLRLEAPVARVCGLDT-----PF 335
+ S R T +++ E GG G +S++++ + + ++
Sbjct: 542 LILDSARATKGRILTVEDHYYEGGIGEAVSSAVVGEPGITV-----THLAVNRVPRSGKP 596
Query: 336 PLVFEPF 342
+ + F
Sbjct: 597 AELLKMF 603
>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 = 44.8 bits (105), Expect = 4e-05
Identities = 63/373 (16%), Positives = 105/373 (28%), Gaps = 123/373 (32%)
Query: 2 ASGLRRFVGSLSRRN-------LSTACANKQL-----IQQHDGGVGSGKSLN-------- 41
+++FV + R N + T + I+Q D +
Sbjct: 76 EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 42 LYSAINQALHIALETDPRAYVFGEDV-GFGGVFRCTTGLADRFGKSRVFNTPLCEQGIV- 99
Y + QAL LE P V + G G GK+ V +
Sbjct: 136 PYLKLRQAL---LELRPAKNVL---IDGVLG-----------SGKTWVALDVCLSYKVQC 178
Query: 100 --GFAIGLAAMGN----RAIAEIQFADY--IFPAFDQIVNEAAKFRYRSGN-QFNCGGLT 150
F I + N + E+ I P + + ++ + R + Q L
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 151 VRAPYGA-------VGHGGHYHSQSPEAF-F-C---------------------HVPGLK 180
PY V ++++ AF C H+
Sbjct: 239 KSKPYENCLLVLLNV-----QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDH 293
Query: 181 VVIPRSPRQAKGLLLSCIRDPNPVVFFEPKWLYRLSVEEVP-EDDYMLPLSE---AEVIR 236
+ +P + K LLL K+L +++P E P AE IR
Sbjct: 294 HSMTLTPDEVKSLLL--------------KYL-DCRPQDLPREVLTTNPRRLSIIAESIR 338
Query: 237 EGSDITLVGW----GAQLSIMEQACLDAEKEGI------SCELIDLKTLIP-------W- 278
+G T W +L+ + ++ L+ + + IP W
Sbjct: 339 DGLA-TWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWF 397
Query: 279 --DKETVEASVRK 289
K V V K
Sbjct: 398 DVIKSDVMVVVNK 410
Score = 34.4 bits (78), Expect = 0.063
Identities = 32/324 (9%), Positives = 70/324 (21%), Gaps = 146/324 (45%)
Query: 180 KVVIPRSPRQAKGLLLSCIRD-PNPVV--FFEP------KWLY-RLSVEEV-PEDDYML- 227
+++ + L + +V F E K+L + E+ P +
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 228 ------------PLSEAEVIRE---------------GSDITLVG--------------- 245
++ V R ++ + G
Sbjct: 113 IEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCL 172
Query: 246 -------------W---------GAQLSIMEQACLDAEKEGISCELID------------ 271
W L ++++ + D
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW--TSRSDHSSNIKLRIHSI 230
Query: 272 ---LKTLIP--------------WDKETVEA-SVR-KTGRLLISHEAPVT---------- 302
L+ L+ + + A ++ K LL + VT
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI--LLTTRFKQVTDFLSAATTTH 288
Query: 303 -------GGFGAEISASILERCF------LRLEA----PVA-RVCG-LDTPFPLVFEPFY 343
+ S+L + L E P + ++ +
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK 348
Query: 344 MPTKNK-----ASCLESFKVPAQH 362
+K S L + PA++
Sbjct: 349 HVNCDKLTTIIESSLNVLE-PAEY 371
Score = 31.4 bits (70), Expect = 0.58
Identities = 25/179 (13%), Positives = 47/179 (26%), Gaps = 69/179 (38%)
Query: 21 CANKQLIQQHDGGVGSGKSLNLYS---------AINQALHIAL--------------ETD 57
L+++ ++++ S ALH ++
Sbjct: 411 LHKYSLVEKQ----PKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP 466
Query: 58 PRA--YVF-------------GEDVGFGGVFRCTTGLADRF--GKSRVFNTPLCEQGIVG 100
P Y + F VF L RF K R +T G +
Sbjct: 467 PYLDQYFYSHIGHHLKNIEHPERMTLFRMVF-----LDFRFLEQKIRHDSTAWNASGSI- 520
Query: 101 FAIGLAAMGNRAIAEIQF-ADYIF---PAFDQIVNEAAKFRYRSGNQFNCGGLTVRAPY 155
+ +++F YI P ++++VN F + + Y
Sbjct: 521 ---------LNTLQQLKFYKPYICDNDPKYERLVNAILDF------LPKIEENLICSKY 564
>3ju3_A Probable 2-oxoacid ferredoxin oxidoreductase, ALP; structural
genomics, PSI-2, protein structu initiative; 1.90A
{Thermoplasma acidophilum}
Length = 118
Score = 41.2 bits (97), Expect = 5e-05
Identities = 22/96 (22%), Positives = 40/96 (41%), Gaps = 5/96 (5%)
Query: 237 EGSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLKTLIPWDKETVEASVRKTGRLLIS 296
+ +DIT V WG+Q + D ++EGIS L+ LK P+ E V+ + ++
Sbjct: 12 KEADITFVTWGSQKGPILDVIEDLKEEGISANLLYLKMFSPFPTEFVKNVLSSANLVIDV 71
Query: 297 HEAPVTGGFGAEISASILERCFLRLEAPVARVCGLD 332
E+ T I + ++ + + G
Sbjct: 72 -ESNYTAQAAQMIKLYTG----IDIKNKILKYNGRH 102
>1yd7_A 2-keto acid:ferredoxin oxidoreductase subunit alpha; structural
genomics, southeast collaboratory for structural
genomics, secsg; 2.30A {Pyrococcus furiosus}
Length = 395
Score = 38.7 bits (91), Expect = 0.002
Identities = 15/59 (25%), Positives = 29/59 (49%)
Query: 237 EGSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLKTLIPWDKETVEASVRKTGRLLI 295
E ++I +V G +A +EGI L+ ++T+ P+D E +E + +L +
Sbjct: 290 EDAEIGVVATGIVARSALRAVKMLREEGIKAGLLKIETIWPFDFELIERIAERVDKLYV 348
>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 = 38.9 bits (90), Expect = 0.003
Identities = 62/396 (15%), Positives = 104/396 (26%), Gaps = 154/396 (38%)
Query: 36 SGKSLNL-YSAINQALHIALETDPRA-YVFGEDVGFGGVFRCTTGLADRFGKSRVFNTPL 93
S + L L + ++ L + P A + L ++F K T
Sbjct: 5 STRPLTLSHGSLEHVLLV-----PTASFFIASQ------------LQEQFNKILPEPTE- 46
Query: 94 CEQGIVGFA--------IGLAA--MG--NRAIAEIQFADY------IFPAFDQIV---NE 132
GFA L +G + + + + F+ N+
Sbjct: 47 ------GFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND 100
Query: 133 ----AAKFRYRSGNQFNCGGLTVRAPYGAVGHGGH-YHSQSPEAFFCHV----------- 176
AAK + ++ A + +S A F V
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF 160
Query: 177 ---------------------PGLKVVIPRSPRQAKGLLLSCIRDPNPVVFFEPK----- 210
+ +I + + L IR +
Sbjct: 161 GGQGNTDDYFEELRDLYQTYHVLVGDLI----KFSAETLSELIRTTLDAEKVFTQGLNIL 216
Query: 211 -WLYRLSVEEVPEDDYM------LPLSEAEVIREGSDITLVGWGAQLSIMEQACLDAEKE 263
WL P+ DY+ PL I ++ QL+ + A+
Sbjct: 217 EWLEN--PSNTPDKDYLLSIPISCPL-----------IGVI----QLA---HYVVTAKLL 256
Query: 264 GIS-CELIDL--------KTLIP---------WDKETVEASVRKTGRLLI-----SHEA- 299
G + EL + L+ W E+ SVRK +L +EA
Sbjct: 257 GFTPGELRSYLKGATGHSQGLVTAVAIAETDSW--ESFFVSVRKAITVLFFIGVRCYEAY 314
Query: 300 PVTGGFGAEISASILERCFLRLE---APVARVCGLD 332
P T + SILE E +P+ + L
Sbjct: 315 PNT-----SLPPSILEDSLENNEGVPSPMLSISNLT 345
Score = 38.5 bits (89), Expect = 0.004
Identities = 50/321 (15%), Positives = 78/321 (24%), Gaps = 142/321 (44%)
Query: 12 LSRRNLSTACANKQLIQQHDGGVGSGKSLNLYSAINQALHIALETDPRAYVFGEDVGFGG 71
LS NL+ + N + + + I+L + V
Sbjct: 339 LSISNLTQEQVQDYV-----------NKTNSHLPAGKQVEISLVNGAKNLV--------- 378
Query: 72 VFRCTTGLADRFGKSRVFNTPLCEQGIVGFAIGLAAMGNRAIAEIQFADYIFPAFDQIVN 131
+ G L + N + + + DQ
Sbjct: 379 --------------------------VSGPPQSLYGL-NLTLRKAKAP----SGLDQ--- 404
Query: 132 EAAKFRYRS---GNQFNCGGLTVRAPYGAVGHGGHYHSQSPEAFFCHVPGLKVVIPRSPR 188
F R N+F L V +P +HS L
Sbjct: 405 SRIPFSERKLKFSNRF----LPVASP---------FHS----------HLLV-------- 433
Query: 189 QAKGLLLSCIRDPNPVVFFEPKWLYRLSVEEVPEDDYMLPLSEAEV--IREGSDITLVGW 246
A L+ + N V F K + ++P V +GSD
Sbjct: 434 PASDLINKDLVKNN--VSFNAKDI------QIP------------VYDTFDGSD------ 467
Query: 247 GAQLSIMEQACLDAEKEGISCELIDLKTLIP--WDKETVEASVRKT-----GRLLISHEA 299
L IS ++D +P W+ T + T G S
Sbjct: 468 -----------LRVLSGSISERIVDCIIRLPVKWETTT---QFKATHILDFGPGGASGLG 513
Query: 300 PVTG----GFGAE-ISASILE 315
+T G G I A L+
Sbjct: 514 VLTHRNKDGTGVRVIVAGTLD 534
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.7 bits (68), Expect = 0.39
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 9/35 (25%)
Query: 24 KQLIQQHDGGVGSGKSLNLY---SAINQALHIALE 55
KQ +++ SL LY SA A+ +E
Sbjct: 19 KQALKKLQA------SLKLYADDSAPALAIKATME 47
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 1.6
Identities = 22/91 (24%), Positives = 37/91 (40%), Gaps = 24/91 (26%)
Query: 230 SEAEVIREGSDITLVGWGA-QLSIMEQACLDAEKEGISCELID--LKTLIPWDK---ETV 283
E E IR+ W Q +++ LDA + + E + K L W++ E V
Sbjct: 82 QEPESIRK--------WREEQRKRLQE--LDAASKVMEQEWREKAKKDLEEWNQRQSEQV 131
Query: 284 EASVRKTGRLLISHEAPVTGGFGAEISASIL 314
E + + R I+ +A F + A I+
Sbjct: 132 EKN-KINNR--IADKA-----FYQQPDADII 154
>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA
binding protein, structure, protein-RNA complex, RNA
stem-loop, structural protein/RNA complex; NMR {Homo
sapiens}
Length = 116
Score = 27.3 bits (61), Expect = 3.4
Identities = 19/89 (21%), Positives = 28/89 (31%), Gaps = 18/89 (20%)
Query: 81 DRFGKSRVFNTPLCEQGIVGFAIGLAAMGNRAIAEIQFADYIFPAFD--QI-VNEA-AKF 136
DR KSR F + F A A ++ I V +A
Sbjct: 42 DRTSKSRGF-------AFITFENPADA--KNAAKDMNGKS-----LHGKAIKVEQAKKPS 87
Query: 137 RYRSGNQFNCGGLTVRAPYGAVGHGGHYH 165
G + R+P G++ H H+H
Sbjct: 88 FQSGGRRRPPASSRNRSPSGSLEHHHHHH 116
>3g9q_A Ferrichrome-binding protein; alpha-beta protein, structural
genomics, PSI-2, protein STRU initiative; 2.60A
{Bacillus subtilis subsp} PDB: 3hxp_A
Length = 279
Score = 28.1 bits (63), Expect = 4.3
Identities = 21/113 (18%), Positives = 41/113 (36%), Gaps = 9/113 (7%)
Query: 24 KQLIQQHDGGVGSGKSLNLYSAINQALHIALETDPRAYVFGEDVGFGGVFRCTTGLADRF 83
++ + + D V + K+ + ++ + I YVFG+D G GG +
Sbjct: 122 EKWLAKWDKKVAAAKTKIKKAVGDKTISIMQTNGKDIYVFGKDFGRGGSI-----IYKDL 176
Query: 84 GKSRVFNTPLCEQGIVGFAIGLAAMGNRAIAEIQFADYIFPAFDQIVNEAAKF 136
G T L ++ + G ++ + + DYIF Q +
Sbjct: 177 GLQA---TKLTKEKAIDQGPGYTSISLEKLPDFA-GDYIFAGPWQSGGDDGGV 225
>2qa2_A CABE, polyketide oxygenase CABE; FAD, angucycline, aromatic
hydroxylase, oxidored; HET: FAD; 2.70A {Streptomyces}
Length = 499
Score = 27.3 bits (61), Expect = 8.7
Identities = 6/33 (18%), Positives = 11/33 (33%), Gaps = 5/33 (15%)
Query: 62 VFGEDVGFG-----GVFRCTTGLADRFGKSRVF 89
+ G+D+ G F + + RV
Sbjct: 249 LTGQDISHGEPVWVSAFGDPARQVSAYRRGRVL 281
>1mkz_A Molybdenum cofactor biosynthesis protein B; MAD, WEAK anomalous
signal, molybdopterin synthesis, structural genomics,
PSI; HET: MSE; 1.60A {Escherichia coli} SCOP: c.57.1.1
PDB: 1r2k_B
Length = 172
Score = 26.8 bits (60), Expect = 9.8
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 10/42 (23%)
Query: 92 PLCEQGIVGFA----------IGLAAMGNRAIAEIQFADYIF 123
PL ++ + GF IG + + +RA+A + I
Sbjct: 93 PLFDREVEGFGEVFRMLSFEEIGTSTLQSRAVAGVANKTLIL 134
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
0.322 0.139 0.429
Gapped
Lambda K H
0.267 0.0806 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,854,979
Number of extensions: 365581
Number of successful extensions: 757
Number of sequences better than 10.0: 1
Number of HSP's gapped: 737
Number of HSP's successfully gapped: 29
Length of query: 372
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 277
Effective length of database: 4,049,298
Effective search space: 1121655546
Effective search space used: 1121655546
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 (21.9 bits)
S2: 58 (26.0 bits)