RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 021963
(305 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 = 486 bits (1253), Expect = e-175
Identities = 177/272 (65%), Positives = 213/272 (78%), Gaps = 6/272 (2%)
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 TLIPWDKETVEASVRKTGRLL-----PRSSGY 300
T+IPWD +T+ SV KTGRLL P + G+
Sbjct: 256 TIIPWDVDTICKSVIKTGRLLISHEAPLTGGF 287
>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 = 475 bits (1225), Expect = e-171
Identities = 141/267 (52%), Positives = 178/267 (66%), Gaps = 7/267 (2%)
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 DKETVEASVRKTGRLL-----PRSSGY 300
D E V SV KTGR++ PR + +
Sbjct: 243 DYEAVMNSVAKTGRVVLVSDAPRHASF 269
>1ik6_A Pyruvate dehydrogenase; E1BETA, tetramer, GXXXG, oxidoreductase;
2.00A {Pyrobaculum aerophilum} SCOP: c.36.1.7 c.48.1.2
Length = 369
Score = 472 bits (1216), Expect = e-169
Identities = 137/272 (50%), Positives = 173/272 (63%), Gaps = 10/272 (3%)
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 TLIPWDKETVEASVRKTGRLL-----PRSSGY 300
TL P D +TV SV KTGRL+ P++ G
Sbjct: 282 TLNPLDFDTVLKSVSKTGRLIIAHDSPKTGGL 313
>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 = 463 bits (1193), Expect = e-166
Identities = 124/267 (46%), Positives = 168/267 (62%), Gaps = 7/267 (2%)
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 DKETVEASVRKTGRLL-----PRSSGY 300
D ET+ SV KTGR + R +G
Sbjct: 242 DIETIIGSVEKTGRAIVVQEAQRQAGI 268
>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 = 461 bits (1188), Expect = e-165
Identities = 122/285 (42%), Positives = 175/285 (61%), Gaps = 26/285 (9%)
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 GIVGTAVGMGAYGLRPVVEIQFADYFYPASDQIVSEMARLRYRSAGEFIA-PLTLRMPCG 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 EKEGISCELIDLKTLIPWDKETVEASVRKTGRLL-----PRSSGY 300
E+ G+ E+IDL++L P D +T+ SV+KTGR + R+ G+
Sbjct: 239 EESGVDAEVIDLRSLWPLDLDTIVESVKKTGRCVVVHEATRTCGF 283
>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 = 359 bits (923), Expect = e-125
Identities = 96/263 (36%), Positives = 145/263 (55%), Gaps = 5/263 (1%)
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 EMGFAGIAVGAAMAGLRPICEFMTFNFSMQAIDQVINSAAKTYYMSGGLQPV-PIVFRGP 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 LKTLIPWDKETVEASVRKTGRLL 294
++T+ P D ET+EASV KT L+
Sbjct: 250 MRTIRPMDMETIEASVMKTNHLV 272
>2o1x_A 1-deoxy-D-xylulose-5-phosphate synthase; thiamin, isoprenoid, DXS,
transferase; HET: TDP; 2.90A {Deinococcus radiodurans}
Length = 629
Score = 55.6 bits (135), Expect = 8e-09
Identities = 49/237 (20%), Positives = 92/237 (38%), Gaps = 51/237 (21%)
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 GSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLKTLIPWDKETVEASVRKTGRLL 294
G D+ ++ G L A ++ +++ + + P D+E + + L+
Sbjct: 505 GDDVVILAGGK----ALDYALKAAEDLPGVGVVNARFVKPLDEEMLREVGGRARALI 557
>2o1s_A 1-deoxy-D-xylulose-5-phosphate synthase; DXS, thiamine, isoprenoid,
transferase; HET: TDP; 2.40A {Escherichia coli}
Length = 621
Score = 55.6 bits (135), Expect = 8e-09
Identities = 49/238 (20%), Positives = 89/238 (37%), Gaps = 53/238 (22%)
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 EGSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLKTLIPWDKETVEASVRKTGRLL 294
G + ++ +G + E ++ L+D++ + P D+ + L+
Sbjct: 502 RGEKLAILNFGT----LMPEAAKV-AESLNATLVDMRFVKPLDEALILEMAASHEALV 554
>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 = 42.9 bits (100), Expect = 1e-04
Identities = 57/425 (13%), Positives = 110/425 (25%), Gaps = 147/425 (34%)
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 --GFAIGLAAMGNRAIAE-----------------IQFADYIFPAFDQIVNEAAKFR--- 137
F I + N E +D+ +I + A+ R
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 138 ----YRSG-------------NQFN--CGGL-TVR----APYGAVGHGGH---------- 163
Y + N FN C L T R + + H
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 164 YHSQSPEAFFCHVPGLKVV---IPRSPRQAKG---LLLSCI--RDPNPVVFFEPKWLY-- 213
+ LK + PR+ LS I + + ++ W +
Sbjct: 299 TPDEVKSLL------LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN-WKHVN 351
Query: 214 --------RLSVEEVPEDDYMLPLSEAEVIREGSDITL----VGWGAQLS-----IMEQ- 255
S+ + +Y V + I + W + ++ +
Sbjct: 352 CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL 411
Query: 256 ---ACLDAEKEGISCEL--IDLKTLIPWDKET------VEA-----SVRKTGRLLPRSSG 299
+ ++ + + + + I L+ + + E V+ + + P
Sbjct: 412 HKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ 471
Query: 300 YWRFW 304
Y+ +
Sbjct: 472 YF-YS 475
Score = 30.2 bits (67), Expect = 1.0
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
>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 = 42.5 bits (101), Expect = 1e-04
Identities = 27/130 (20%), Positives = 47/130 (36%), Gaps = 20/130 (15%)
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 TVEASVRKTG 291
+ S R T
Sbjct: 542 LILDSARATK 551
>3ju3_A Probable 2-oxoacid ferredoxin oxidoreductase, ALP; structural
genomics, PSI-2, protein structu initiative; 1.90A
{Thermoplasma acidophilum}
Length = 118
Score = 37.3 bits (87), Expect = 0.001
Identities = 18/58 (31%), Positives = 30/58 (51%)
Query: 237 EGSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLKTLIPWDKETVEASVRKTGRLL 294
+ +DIT V WG+Q + D ++EGIS L+ LK P+ E V+ + ++
Sbjct: 12 KEADITFVTWGSQKGPILDVIEDLKEEGISANLLYLKMFSPFPTEFVKNVLSSANLVI 69
>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 = 39.6 bits (92), Expect = 0.001
Identities = 44/318 (13%), Positives = 92/318 (28%), Gaps = 84/318 (26%)
Query: 8 FVGSLSRRNLSTACANKQLIQQH-DGGVGSGKSLNLY--SAINQALHIALETDPRAY-VF 63
L + N +T K+LI+ + + + + + SA+ +A E + + +F
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA---VGEGNAQLVAIF 160
Query: 64 GEDVGFGGVFRCTTGLADRFGKSRVFNTPLCEQGIVGFAIGLAAMGNRAIAEIQFADYIF 123
G G G L D + V L + A + I A+ +F
Sbjct: 161 G---GQGNTDDYFEELRDLYQTYHVLVGDLIKF--------SAETLSELIRTTLDAEKVF 209
Query: 124 P-AFD--QIVNEAAKFRYRSGNQFNCGGLTVRAPYGAVGHG----GHY------HSQSPE 170
+ + + + + + P G HY +P
Sbjct: 210 TQGLNILEWLENPSN---TPDKDY-----LLSIPISCPLIGVIQLAHYVVTAKLLGFTPG 261
Query: 171 AFFCHVPGLKVVIPRSPRQAKGLLLSCIRDPNPVVFFEPKW--LYRLSVEEVPEDDYMLP 228
++ G ++GL+ + + W + + +
Sbjct: 262 ELRSYLKGATGH-------SQGLVTAV------AIAETDSWESFFVSVRK-------AIT 301
Query: 229 LSEAEVIREGSDITLVGWGAQ-----LSI---MEQACLDAEKEGISCELIDLKTLIPWDK 280
+ +G S+ + + L+ EG+ ++ + L +
Sbjct: 302 VL-----------FFIGVRCYEAYPNTSLPPSILEDSLENN-EGVPSPMLSISNL---TQ 346
Query: 281 ETVEASVRKTGRLLPRSS 298
E V+ V KT LP
Sbjct: 347 EQVQDYVNKTNSHLPAGK 364
Score = 38.1 bits (88), Expect = 0.004
Identities = 31/218 (14%), Positives = 51/218 (23%), Gaps = 84/218 (38%)
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---GNQFNCGGLTVRAPYGAVGHGGHYHSQSPEAFFCHVPGLKVVIPRS-- 186
F R N+F L V +P+ H H + + + V
Sbjct: 405 SRIPFSERKLKFSNRF----LPVASPF----H-SHLLVPASDLINKDLVKNNVSFNAKDI 455
Query: 187 --P----------RQAKGLLLSCIRDPNPVVFFEP-KW 211
P R G + I D + P KW
Sbjct: 456 QIPVYDTFDGSDLRVLSGSISERIVD---CIIRLPVKW 490
>1yd7_A 2-keto acid:ferredoxin oxidoreductase subunit alpha; structural
genomics, southeast collaboratory for structural
genomics, secsg; 2.30A {Pyrococcus furiosus}
Length = 395
Score = 38.3 bits (90), Expect = 0.002
Identities = 15/58 (25%), Positives = 28/58 (48%)
Query: 237 EGSDITLVGWGAQLSIMEQACLDAEKEGISCELIDLKTLIPWDKETVEASVRKTGRLL 294
E ++I +V G +A +EGI L+ ++T+ P+D E +E + +L
Sbjct: 290 EDAEIGVVATGIVARSALRAVKMLREEGIKAGLLKIETIWPFDFELIERIAERVDKLY 347
>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 = 31.5 bits (70), Expect = 0.20
Identities = 12/37 (32%), Positives = 16/37 (43%), Gaps = 13/37 (35%)
Query: 24 KQLIQQHDGGVGSGKSLNLY---SAINQALHI--ALE 55
KQ +++ SL LY SA AL I +E
Sbjct: 19 KQALKKLQA------SLKLYADDSA--PALAIKATME 47
>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 = 3.8
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
>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 = 26.9 bits (60), Expect = 3.9
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
>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 = 7.0
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
>2qa2_A CABE, polyketide oxygenase CABE; FAD, angucycline, aromatic
hydroxylase, oxidored; HET: FAD; 2.70A {Streptomyces}
Length = 499
Score = 27.3 bits (61), Expect = 8.3
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
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 0.435
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: 4,902,228
Number of extensions: 302738
Number of successful extensions: 647
Number of sequences better than 10.0: 1
Number of HSP's gapped: 630
Number of HSP's successfully gapped: 32
Length of query: 305
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 212
Effective length of database: 4,105,140
Effective search space: 870289680
Effective search space used: 870289680
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: 57 (25.6 bits)