RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 019931
(334 letters)
>1bs0_A Protein (8-amino-7-oxonanoate synthase); PLP-dependent acyl-COA
synthase, biotin biosynthesis, 8-AMIN oxonanoate
synthase; 1.65A {Escherichia coli} SCOP: c.67.1.4 PDB:
2g6w_A* 1dje_A* 1dj9_A*
Length = 384
Score = 274 bits (702), Expect = 3e-90
Identities = 79/230 (34%), Positives = 122/230 (53%), Gaps = 24/230 (10%)
Query: 109 KRLLLFSGNDYLGLSSHPTIAKAAA----RHGMGPRGSALICGYTNYHRLLESCLADLKK 164
++ L FS NDYLGLS HP I +A + G+G GS + GY+ H+ LE LA+
Sbjct: 39 RQYLNFSSNDYLGLSHHPQIIRAWQQGAEQFGIGSGGSGHVSGYSVVHQALEEELAEWLG 98
Query: 165 KEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAE 224
LL +GFAAN AVI A + E D I +D L+HAS+++ ++
Sbjct: 99 YSRALLFISGFAANQAVIAA-------MMAKE----D---RIAADRLSHASLLEAASLSP 144
Query: 225 RTKMVEVFVYKHCDMSHLKTLLSCCTMRKKVVVTDSLFSMDGDFAPMVELVKLRRKYGFL 284
++ + H D++HL LL+ +++VVT+ +FSMDGD AP+ E+ ++ +++
Sbjct: 145 ----SQLRRFAHNDVTHLARLLASPCPGQQMVVTEGVFSMDGDSAPLAEIQQVTQQHNGW 200
Query: 285 LVLDDAHGTFVCGKNGGGVAEQFNCERDVDICVGTLSKAAGCQGGFIACR 334
L++DDAHGT V G+ G G + ++ V T K G G + C
Sbjct: 201 LMVDDAHGTGVIGEQGRGSCWLQKVK--PELLVVTFGKGFGVSGAAVLCS 248
>3kki_A CAI-1 autoinducer synthase; quorum sensing, CQSA, P virulence,
acyltransferase, aminotransferase, pyridoxal PHO
transferase; HET: PLP; 1.80A {Vibrio cholerae} PDB:
3hqt_A* 2wk9_A* 2wk8_A* 2wka_A* 2wk7_A
Length = 409
Score = 267 bits (685), Expect = 2e-87
Identities = 55/233 (23%), Positives = 98/233 (42%), Gaps = 24/233 (10%)
Query: 106 RQFKRLLLFSGNDYLGLSSHPTIAKAAA----RHGMGPRGSALICGYTNYHRLLESCLAD 161
+ ++ NDYL L++HP I A SA ++E LA
Sbjct: 56 QASPDDIILQSNDYLALANHPLIKARLAKSLLEEQQSLFMSASFLQNDYDKPMIEKRLAK 115
Query: 162 LKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIR 221
++CLL +G+ AN+ ++ + ++ D H S+ +G R
Sbjct: 116 FTGFDECLLSQSGWNANVGLLQTICQ-----PNT---------NVYIDFFAHMSLWEGAR 161
Query: 222 IAERTKMVEVFVYKHCDMSHLKTLLSCCTMRKKVVVTDSLFSMDGDFAPMVELVKLRRKY 281
A + + H + HL+ L+ ++V DS++S G AP+ ELV + +++
Sbjct: 162 YAN----AQAHPFMHNNCDHLRMLIQRH--GPGIIVVDSIYSTLGTIAPLAELVNISKEF 215
Query: 282 GFLLVLDDAHGTFVCGKNGGGVAEQFNCERDVDICVGTLSKAAGCQGGFIACR 334
G L++D++H G NG G+ + R+V +L+K + G I C
Sbjct: 216 GCALLVDESHSLGTHGPNGAGLLAELGLTREVHFMTASLAKTFAYRAGAIWCN 268
>3a2b_A Serine palmitoyltransferase; vitamin B6-dependent enzyme fold type
I, acyltransferase, PY phosphate; HET: PLP; 2.30A
{Sphingobacterium multivorum}
Length = 398
Score = 264 bits (677), Expect = 2e-86
Identities = 79/231 (34%), Positives = 114/231 (49%), Gaps = 23/231 (9%)
Query: 109 KRLLLFSGNDYLGLSSHPTIAKAAA----RHGMGPRGSALICGYTNYHRLLESCLADLKK 164
+R+L+F N YLGL++ I KAA ++G G GS + G + H LE L+
Sbjct: 43 RRVLMFGSNSYLGLTTDTRIIKAAQDALEKYGTGCAGSRFLNGTLDIHVELEEKLSAYVG 102
Query: 165 KEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAE 224
KE +L TGF +N+ + L G D I D +HASIIDG R++
Sbjct: 103 KEAAILFSTGFQSNLGPLSC-------LMGRN----D---YILLDERDHASIIDGSRLS- 147
Query: 225 RTKMVEVFVYKHCDMSHLKTLLSCCT-MRKKVVVTDSLFSMDGDFAPMVELVKLRRKYGF 283
+V Y H +M L+ LS K++ TD +FSM+GD + EL + ++
Sbjct: 148 ---FSKVIKYGHNNMEDLRAKLSRLPEDSAKLICTDGIFSMEGDIVNLPELTSIANEFDA 204
Query: 284 LLVLDDAHGTFVCGKNGGGVAEQFNCERDVDICVGTLSKAAGCQGGFIACR 334
+++DDAH V G G G A F DVD+ +GT SK+ GGF+A
Sbjct: 205 AVMVDDAHSLGVIGHKGAGTASHFGLNDDVDLIMGTFSKSLASLGGFVAGD 255
>1fc4_A 2-amino-3-ketobutyrate conenzyme A ligase; 2-amino-3-ketobutyrate
COA ligase, pyridoxal phosphate, COEN transferase,
structural genomics; HET: PLP; 2.00A {Escherichia coli}
SCOP: c.67.1.4
Length = 401
Score = 263 bits (674), Expect = 7e-86
Identities = 85/234 (36%), Positives = 115/234 (49%), Gaps = 26/234 (11%)
Query: 109 KRLLLFSGNDYLGLSSHPTIAKAAA----RHGMGPRGSALICGYTNYHRLLESCLADLKK 164
++ F N+YLGL++HP + AA HG G ICG + H+ LE LA
Sbjct: 45 SHVINFCANNYLGLANHPDLIAAAKAGMDSHGFGMASVRFICGTQDSHKELEQKLAAFLG 104
Query: 165 KEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAE 224
ED +L + F AN + L G E D AI SDALNHASIIDG+R+ +
Sbjct: 105 MEDAILYSSCFDANGGLFET-------LLGAE----D---AIISDALNHASIIDGVRLCK 150
Query: 225 RTKMVEVFVYKHCDMSHLKTLL---SCCTMRKKVVVTDSLFSMDGDFAPMVELVKLRRKY 281
+ + Y + DM L+ L R ++ TD +FSMDG A + + L KY
Sbjct: 151 ----AKRYRYANNDMQELEARLKEAREAGARHVLIATDGVFSMDGVIANLKGVCDLADKY 206
Query: 282 GFLLVLDDAHGTFVCGKNGGGVAEQFNCERDVDICVGTLSKA-AGCQGGFIACR 334
L+++DD+H G+NG G E + VDI GTL KA G GG+ A R
Sbjct: 207 DALVMVDDSHAVGFVGENGRGSHEYCDVMGRVDIITGTLGKALGGASGGYTAAR 260
>2w8t_A SPT, serine palmitoyltransferase; HET: LLP; 1.25A {Sphingomonas
paucimobilis} PDB: 2w8u_A* 2w8w_A* 2xbn_A* 2w8j_A*
2w8v_A* 2jg2_A* 2jgt_A 2x8u_A*
Length = 427
Score = 262 bits (673), Expect = 2e-85
Identities = 66/231 (28%), Positives = 108/231 (46%), Gaps = 23/231 (9%)
Query: 109 KRLLLFSGNDYLGLSSHPTIAKAAA----RHGMGPRGSALICGYTNYHRLLESCLADLKK 164
K +L +Y+G++ P + A + G G GS ++ G + H +E L D
Sbjct: 64 KDTILLGTYNYMGMTFDPDVIAAGKEALEKFGSGTCGSRMLNGTFHDHMEVEQALRDFYG 123
Query: 165 KEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAE 224
++ TG+ AN+ +I + G+ + DA +HASI DG +
Sbjct: 124 TTGAIVFSTGYMANLGIISTLAG-----KGE---------YVILDADSHASIYDGCQQGN 169
Query: 225 RTKMVEVFVYKHCDMSHLKTLLS-CCTMRKKVVVTDSLFSMDGDFAPMVELVKLRRKYGF 283
E+ ++H + L L K+VV + ++SM GD AP+ E+V + +K+G
Sbjct: 170 ----AEIVRFRHNSVEDLDKRLGRLPKEPAKLVVLEGVYSMLGDIAPLKEMVAVAKKHGA 225
Query: 284 LLVLDDAHGTFVCGKNGGGVAEQFNCERDVDICVGTLSKAAGCQGGFIACR 334
++++D+AH G NG GV E E +D VGT SK+ G GGF+
Sbjct: 226 MVLVDEAHSMGFFGPNGRGVYEAQGLEGQIDFVVGTFSKSVGTVGGFVVSN 276
>3tqx_A 2-amino-3-ketobutyrate coenzyme A ligase; energy metabolism,
transferase; HET: PLP; 2.30A {Coxiella burnetii}
Length = 399
Score = 261 bits (670), Expect = 3e-85
Identities = 80/234 (34%), Positives = 113/234 (48%), Gaps = 26/234 (11%)
Query: 109 KRLLLFSGNDYLGLSSHPTIAKAAA----RHGMGPRGSALICGYTNYHRLLESCLADLKK 164
K +L F N+YLGL+ HP + K A ++G G ICG H+ LE +++
Sbjct: 43 KEVLNFCANNYLGLADHPALIKTAQTVVEQYGFGMASVRFICGTQTIHKELEKDISEFLG 102
Query: 165 KEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAE 224
+D +L + F AN + + L D AI SD LNHASIIDGIR+ +
Sbjct: 103 TDDTILYSSCFDANGGLFETL-----LGPED---------AIISDELNHASIIDGIRLCK 148
Query: 225 RTKMVEVFVYKHCDMSHLKTLL---SCCTMRKKVVVTDSLFSMDGDFAPMVELVKLRRKY 281
+ + YK+ M L+ L R K++ TD +FSMDG A + + L KY
Sbjct: 149 ----AQRYRYKNNAMGDLEAKLKEADEKGARFKLIATDGVFSMDGIIADLKSICDLADKY 204
Query: 282 GFLLVLDDAHGTFVCGKNGGGVAEQFNCERDVDICVGTLSKA-AGCQGGFIACR 334
L+++DD+H G+NG G E VDI GTL KA G GG+ +
Sbjct: 205 NALVMVDDSHAVGFIGENGRGTPEYCGVADRVDILTGTLGKALGGASGGYTSGH 258
>2bwn_A 5-aminolevulinate synthase; tetrapyrrole biosynthesis, heme
biosynthesis, pyridoxal PHOS dependent, transferase,
acyltransferase; HET: LLP; 2.1A {Rhodobacter capsulatus}
SCOP: c.67.1.4 PDB: 2bwo_A* 2bwp_A*
Length = 401
Score = 249 bits (639), Expect = 1e-80
Identities = 79/231 (34%), Positives = 124/231 (53%), Gaps = 21/231 (9%)
Query: 109 KRLLLFSGNDYLGLSSHPTIAKAAA----RHGMGPRGSALICGYTNYHRLLESCLADLKK 164
+ + ++ GNDYLG+ HP + A G G G+ I G T YHR LE+ +A L +
Sbjct: 46 QDITVWCGNDYLGMGQHPVVLAAMHEALEAVGAGSGGTRNISGTTAYHRRLEAEIAGLHQ 105
Query: 165 KEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAE 224
KE L+ + + AN A + + L G I+SD+LNHAS+I+GI+
Sbjct: 106 KEAALVFSSAYNANDATLST---LRVLFPGL---------IIYSDSLNHASMIEGIKRNA 153
Query: 225 RTKMVEVFVYKHCDMSHLKTLL-SCCTMRKKVVVTDSLFSMDGDFAPMVELVKLRRKYGF 283
K +++H D++HL+ L+ + K++ +S++SMDGDF P+ E+ + ++G
Sbjct: 154 GPK----RIFRHNDVAHLRELIAADDPAAPKLIAFESVYSMDGDFGPIKEICDIAEEFGA 209
Query: 284 LLVLDDAHGTFVCGKNGGGVAEQFNCERDVDICVGTLSKAAGCQGGFIACR 334
L +D+ H + G G GVAE+ +DI GTL+KA G GG+IA
Sbjct: 210 LTYIDEVHAVGMYGPRGAGVAERDGLMHRIDIFNGTLAKAYGVFGGYIAAS 260
>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 = 52.2 bits (124), Expect = 2e-07
Identities = 46/280 (16%), Positives = 84/280 (30%), Gaps = 67/280 (23%)
Query: 12 EEALSK-LEALKVLRSLRPIYLSPNDRHHRVRNPGHVGEDYEVFDEMQHWDRNAVQISIS 70
E+A + V + I LS + H + + V +F + VQ +
Sbjct: 26 EDAFVDNFDCKDVQDMPKSI-LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVE 84
Query: 71 DSTFQ--RWLHDV-------PSSGDENEIICGDGLANDKTITFARQFKRLLLFSG--NDY 119
+ ++L PS I D L ND + RL +
Sbjct: 85 EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL 144
Query: 120 LGLSSHPTIAKAAARHGMGPRGSALICGYTNYHRLLESCLADLKKKEDCLLCPTGFAANM 179
L L + G+ G G ++ +A + C F
Sbjct: 145 LELRPAKNVLI----DGVL--G----SG--------KTWVALDVCLSYKVQCKMDFK--- 183
Query: 180 AVI--VAVGN----------IASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAERTK 227
I + + N + LL + ++ + L SI +R ++K
Sbjct: 184 --IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 228 MVEVFVYKHC-----DMSHLKTL----LSCCTMRKKVVVT 258
Y++C ++ + K LSC K+++T
Sbjct: 242 P-----YENCLLVLLNVQNAKAWNAFNLSC-----KILLT 271
Score = 48.7 bits (115), Expect = 2e-06
Identities = 50/368 (13%), Positives = 102/368 (27%), Gaps = 116/368 (31%)
Query: 10 WV--------EEALSKLEALKVLRSLRPIYLSPNDRHHRVRNPGHVGEDY--EVFDEMQH 59
W+ E L L+ L L + P + S +D ++ H + + +
Sbjct: 186 WLNLKNCNSPETVLEMLQKL--LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243
Query: 60 ----------WDRNAV-------QISISDSTFQRWLHDVPSSGDENEIICGD---GLAND 99
+ A +I ++ T + + D S+ I L D
Sbjct: 244 ENCLLVLLNVQNAKAWNAFNLSCKILLT--TRFKQVTDFLSAATTTHISLDHHSMTLTPD 301
Query: 100 KTITFARQFKRLLLFSGNDYLGLSSH--PTIAKAAARHGMGPRGSALI--------CGYT 149
+ + L YL P PR ++I +
Sbjct: 302 EVKS---------LLL--KYLDCRPQDLPREVL-----TTNPRRLSIIAESIRDGLATWD 345
Query: 150 NY--------HRLLESCLADLKKKE------DCLLCPTGFAANMAVIVA---------VG 186
N+ ++ES L L+ E + P ++ V
Sbjct: 346 NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405
Query: 187 NIA------SLLAGDEKSFK--------DEKIAIFSDALNHASIIDGIRIAER------- 225
+ SL+ K + K+ + ++ H SI+D I +
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465
Query: 226 TKMVEVFVYKH-------CDMSHLKTLLSCCT-----MRKKVVVTDSLFSMDGDFAPMVE 273
++ + Y H + TL + +K+ + ++ G ++
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQ 525
Query: 274 LVKLRRKY 281
+K + Y
Sbjct: 526 QLKFYKPY 533
Score = 45.6 bits (107), Expect = 2e-05
Identities = 43/273 (15%), Positives = 78/273 (28%), Gaps = 73/273 (26%)
Query: 2 ENSSLWDKWVEEALSKLEALKVLRSLRPIYLSPNDRHHRVRNPGHVGEDYEVFDEMQHWD 61
+ + WD W KL + + SL L P + + VF
Sbjct: 339 DGLATWDNWKHVNCDKLTTI-IESSLN--VLEPAEYRKMF-------DRLSVFPP----S 384
Query: 62 RNAVQISISDSTFQR-WLHDVPSSGDENEIICGDGLANDKTITFARQFKRLLLFSGNDYL 120
+ I W + S D ++ + L + +Q K + + YL
Sbjct: 385 AH-----IPTILLSLIWFDVIKS--DVMVVV--NKLHKYSLV--EKQPKESTISIPSIYL 433
Query: 121 GLSSHP--------------TIAKAAARHGMGP-RGSALICGYTNYH----------RLL 155
L I K + P + +H L
Sbjct: 434 ELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF 493
Query: 156 ESCLAD---LKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKD---EKIAIFSD 209
D L++K + A N A G+I + L K +K + +
Sbjct: 494 RMVFLDFRFLEQK----IRHDSTAWN-----ASGSILNTL-QQLKFYKPYICDNDPKYER 543
Query: 210 ALNHASIIDGIRIAERTKMVEVFVYKHCDMSHL 242
+N +I+D + E ++ K+ D+ +
Sbjct: 544 LVN--AILDFLPKIE-ENLIC---SKYTDLLRI 570
Score = 38.7 bits (89), Expect = 0.003
Identities = 32/166 (19%), Positives = 60/166 (36%), Gaps = 35/166 (21%)
Query: 151 YHRLLESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDA 210
Y +L DC ++ + + + I + DA
Sbjct: 18 YKDILSVFEDAFVDNFDC-----------------KDVQDMPKSILSKEEIDHIIMSKDA 60
Query: 211 LNHASIIDGIRIAERTKMVEVFV-------YKHCDMSHLKTLLSCCTMRKKVVVT--DSL 261
++ + ++++ +MV+ FV YK MS +KT +M ++ + D L
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL-MSPIKTEQRQPSMMTRMYIEQRDRL 119
Query: 262 FSMDGDFAPM----VELV-KLRRKYGFLLVLDDAHGTFVCGKNGGG 302
++ + FA ++ KLR+ LL L A + G G G
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQA---LLELRPAKNVLIDGVLGSG 162
Score = 28.7 bits (63), Expect = 3.7
Identities = 33/233 (14%), Positives = 66/233 (28%), Gaps = 62/233 (26%)
Query: 1 MENSSLWDKWVEEALSKLEALKVLRSLRPIYLSPNDR-HHRVRNPGHVGEDYEVFDEMQH 59
+ SL +K +E+ + ++ L + N+ HR + + Y +
Sbjct: 411 LHKYSLVEKQPKESTISIPSIY-LELKVKL---ENEYALHRS-----IVDHYNIPKTFDS 461
Query: 60 WDRNAVQISISDSTFQRWL--HDVPSSGDENEIICGDGLANDKTITFARQFKRLLLFSGN 117
D + D F + H L N +R+ LF
Sbjct: 462 DDLIPPYL---DQYFYSHIGHH----------------LKN------IEHPERMTLFR-M 495
Query: 118 DYLGLSSHPTIAKAAARHGMGPRGSALICGYTNYHRLLESCLADLKKKED--CLLCPTGF 175
+L + RH +A + + + L LK + C P
Sbjct: 496 VFLDFR----FLEQKIRHD----STAWNASGS-----ILNTLQQLKFYKPYICDNDPK-- 540
Query: 176 AANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHAS---IIDGIRIAER 225
++ A+ + L +E + + AL + + +R
Sbjct: 541 --YERLVNAILDF--LPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589
>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 = 48.1 bits (114), Expect = 3e-06
Identities = 54/343 (15%), Positives = 93/343 (27%), Gaps = 107/343 (31%)
Query: 26 SLRPIYLSPNDRHHRVRNPGHVGEDYEVFDEMQHWDRNAVQISISDSTFQRWLHDVPSSG 85
S RP+ LS H + + V Q ++ + + T D P++
Sbjct: 5 STRPLTLS----HGSLEHVLLVPTASFFIAS-QLQEQ--FNKILPEPTEGFAADDEPTTP 57
Query: 86 DE----------NEIICGDGLANDKTITFA-RQFKRLLLFSGND------YLGLSSHPTI 128
E + + D+ + +F+ L GND L + T+
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYL-EGNDIHALAAKLLQENDTTL 116
Query: 129 AKA--------AARHGMG-----PRGSAL-------------ICG--------------- 147
K AR SAL I G
Sbjct: 117 VKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDL 176
Query: 148 YTNYHRLLE-------SCLADL-KKKEDC-LLCPTGFAANMAVIVAVGNIASLLAGDEKS 198
Y YH L+ L++L + D + G NI L +
Sbjct: 177 YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL-----------NILEWLENPS-N 224
Query: 199 FKDEKIAIFSDALNHASI----IDGIRIAERTKMVEVFVY-KHCDMSH--LKTLLSCCTM 251
D+ D L I I G+ ++ V K + L++ L T
Sbjct: 225 TPDK------DYLLSIPISCPLI-GV-----IQLAHYVVTAKLLGFTPGELRSYLKGATG 272
Query: 252 RKKVVVTDSLFSMDGDFAPMVELVKLRRKYGFLLVLDDAHGTF 294
+ +VT + + V+ F + + + +
Sbjct: 273 HSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGV-RCYEAY 314
Score = 45.0 bits (106), Expect = 3e-05
Identities = 49/270 (18%), Positives = 72/270 (26%), Gaps = 109/270 (40%)
Query: 105 ARQ-FKRLLLFSGNDYLGLS------SHPTIAKAAARHGMGPRGSALICGYTNYHRLLES 157
A+ + R + Y G S ++P H G +G + NY ++
Sbjct: 1642 AQDVWNRADNHFKDTY-GFSILDIVINNP---VNLTIHFGGEKGKRI---RENYSAMIFE 1694
Query: 158 CLADLKKK-------------------EDCLLCPTGFA--ANMAVIVAV-------GNI- 188
+ D K K E LL T F A + A G I
Sbjct: 1695 TIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIP 1754
Query: 189 -ASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAERTKMVEVFVYKHCDMSHLKTLLS 247
+ AG H S+ G E Y L+
Sbjct: 1755 ADATFAG------------------H-SL--G----------E---Y---------AALA 1771
Query: 248 CCTMRKKVVVTDSLFSMDGDFAPMVELVKLRRKYGFLLVLDDAHGTF---VCGKNGGGVA 304
D + +VE+V R + V D G + N G VA
Sbjct: 1772 SLA--------DVM-----SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVA 1818
Query: 305 EQFNCERDVDICVGTLSKAAG--CQGGFIA 332
F+ E + V + K G + I
Sbjct: 1819 ASFSQE-ALQYVVERVGKRTGWLVE---IV 1844
Score = 44.7 bits (105), Expect = 4e-05
Identities = 56/335 (16%), Positives = 89/335 (26%), Gaps = 128/335 (38%)
Query: 12 EEALSKLEALK-VLRSLRPIYLSPNDRH------------------HRVRN--------- 43
+ + L L YL ND H ++N
Sbjct: 75 SKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAK 134
Query: 44 -P---------------GHV-------G----EDYEVFDEMQH-WD--RNAVQ--ISISD 71
P G+ G +DY F+E++ + V I S
Sbjct: 135 RPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY--FEELRDLYQTYHVLVGDLIKFSA 192
Query: 72 STFQRWLHDVPSSGDENEIICGDGLANDKTITFARQFKRLL----LFSGNDYLGLS--SH 125
T + + E + GL L DYL S
Sbjct: 193 ETLSELIRTTLDA----EKVFTQGL----------NILEWLENPSNTPDKDYLLSIPISC 238
Query: 126 PTIAKAAARHGMGPRGSALICGYTNYHRLLESCLADLKKKEDCLLCPTGFAANMAVIVAV 185
P I H Y +LL +L+ L TG + ++ AV
Sbjct: 239 PLIGVIQLAH------------YVVTAKLLGFTPGELR---SYLKGATGHSQ--GLVTAV 281
Query: 186 GNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAERTKMVEVFVYKHCDMSHLKTL 245
IA +SF A+ I G+R E Y + +
Sbjct: 282 A-IAE--TDSWESFFV----SVRKAITVLFFI-GVRCYE--------AYPNTSLPPS--- 322
Query: 246 LSCCTMRKKVVVTDSLFSMDGDFAPMVELVKLRRK 280
++ DSL + +G +PM+ + L ++
Sbjct: 323 ----------ILEDSLENNEGVPSPMLSISNLTQE 347
Score = 37.0 bits (85), Expect = 0.009
Identities = 51/319 (15%), Positives = 86/319 (26%), Gaps = 145/319 (45%)
Query: 4 SSLWDKWVEEALSKLEALKVL-----RSLR---PIYLSPNDRHHRVRN----PGH----V 47
+ W+ + +A+ VL R L P+ + N P
Sbjct: 286 TDSWESFFVSV---RKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 48 GEDYEVFDEM-----QHWDRNAVQISISDSTFQRWLHDVPSSGDENEIICG-----DGLA 97
E + H Q+ IS L + G +N ++ G GL
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGK-QVEIS-------LVN----GAKNLVVSGPPQSLYGLN 390
Query: 98 N-----------DKT-ITFARQFKRLLLFSGNDYLGLSSHPTIAKAAARHGMGPRGSALI 145
D++ I F+ +R L FS N +L P + P
Sbjct: 391 LTLRKAKAPSGLDQSRIPFS---ERKLKFS-NRFL-----PVAS---------P------ 426
Query: 146 CGYTNYH-RLLESC----LADLKKKE------DCLLCP---TGFAANMAVIVAVGNIASL 191
+H LL DL K D + P T +++ V+ G+I+
Sbjct: 427 -----FHSHLLVPASDLINKDLVKNNVSFNAKD-IQIPVYDTFDGSDLRVL--SGSISER 478
Query: 192 LAGDEKSFKDEKIAIFSDALN----------HASIID--------------------GIR 221
+ D I + H I+D G+R
Sbjct: 479 IV-D---------CIIRLPVKWETTTQFKATH--ILDFGPGGASGLGVLTHRNKDGTGVR 526
Query: 222 IAE----RTKMVEVFVYKH 236
+ + + +K
Sbjct: 527 VIVAGTLDINPDDDYGFKQ 545
>2aeu_A Hypothetical protein MJ0158; selenocysteine synthase, PLP,
pyridoxal phosphate, HOMO- oligomerization, unknown
function; 1.70A {Methanocaldococcus jannaschii} SCOP:
c.67.1.8 PDB: 2aev_A*
Length = 374
Score = 40.2 bits (94), Expect = 6e-04
Identities = 27/170 (15%), Positives = 55/170 (32%), Gaps = 30/170 (17%)
Query: 166 EDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAER 225
+ C+ F + I+A I +L I + H SI
Sbjct: 77 DKCVG----FNRTSSAILAT--ILALKPKKV-------IHYLPELPGHPSIERS------ 117
Query: 226 TKMVEVFVYKHCDMSHLKTLLSCCTMRKKVV--VTDSLFSMDGDFAPMVELVKLRRKYGF 283
K+V K+ + + +L+ V+ + + +++ +
Sbjct: 118 CKIVNA---KYFESDKVGEILNKIDKDTLVIITGSTMDLKVIE-LENFKKVINTAKNKEA 173
Query: 284 LLVLDDAHGTFVCGKNGGGVAEQFNCERDVDICVGTLSKA-AGCQGGFIA 332
++ +DDA G V + + D+ V + K G +GG +A
Sbjct: 174 IVFVDDASGARVRLLFN----QPPALKLGADLVVTSTDKLMEGPRGGLLA 219
>2ez2_A Beta-tyrosinase, tyrosine phenol-lyase; PLP-dependent enzyme,
pyridoxal-5'-phosphate, domain lyase; 1.85A {Citrobacter
freundii} PDB: 2ez1_A 2vlf_A* 2vlh_A* 2yct_A* 1tpl_A
2tpl_A* 2ycn_A* 2yhk_A* 2ycp_A* 1c7g_A*
Length = 456
Score = 36.3 bits (83), Expect = 0.012
Identities = 35/228 (15%), Positives = 66/228 (28%), Gaps = 20/228 (8%)
Query: 122 LSSHPTIAKAAARHGMGPRGSALICGYTNYHRLLESCLADLKKKEDCLLCPTGFAANMAV 181
L+ T A + + G G N++ L E + +L + + G A +
Sbjct: 48 LTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHL-ERTVQELFGFKHIVPTHQGRGAENLL 106
Query: 182 IVAVGNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAERTKMVEVFVYKHCDMSH 241
+AG+ F + N A +D +R + + D+
Sbjct: 107 SQLAIKPGQYVAGN-MYFTTTRYHQ---EKNGAVFVDIVRDEAHDAGLNIAFKGDIDLKK 162
Query: 242 LKTLLSCCTMRKK--VVVTDSLFSMDGDFAPMVELVKLR---RKYGFLLVLDDAH----- 291
L+ L+ + + ++ G M + +R +G + D
Sbjct: 163 LQKLIDEKGAENIAYICLAVTVNLAGGQPVSMANMRAVRELTEAHGIKVFYDATRCVENA 222
Query: 292 ---GTFVCGKNGGGVAE-QFNCERDVDICVGTLSKAAGC-QGGFIACR 334
G +AE D C + K GGF+
Sbjct: 223 YFIKEQEQGFENKSIAEIVHEMFSYADGCTMSGKKDCLVNIGGFLCMN 270
>2fq6_A Cystathionine beta-lyase; protein-inhibitor complex, PLP cofactor
covalently bound to inhibitor; HET: P3F; 1.78A
{Escherichia coli} SCOP: c.67.1.3 PDB: 2gqn_A* 1cl1_A*
1cl2_A*
Length = 415
Score = 35.3 bits (82), Expect = 0.022
Identities = 21/95 (22%), Positives = 34/95 (35%), Gaps = 24/95 (25%)
Query: 152 HRLLESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDE--------------- 196
H L+ + +L+ C+L P G AA I+A + GD
Sbjct: 84 HFSLQQAMCELEGGAGCVLFPCGAAAVANSILAF-----IEQGDHVLMTNTAYEPSQDFC 138
Query: 197 -KSFKDEKIAI-FSDALNHASIIDGIRIAERTKMV 229
K + + D L A I+ ++ TK+V
Sbjct: 139 SKILSKLGVTTSWFDPLIGADIVKHLQ--PNTKIV 171
>3jtx_A Aminotransferase; NP_283882.1, structural genomics, joint CE
structural genomics, JCSG, protein structure initiative;
HET: LLP MES; 1.91A {Neisseria meningitidis Z2491}
Length = 396
Score = 33.7 bits (78), Expect = 0.064
Identities = 20/76 (26%), Positives = 32/76 (42%), Gaps = 9/76 (11%)
Query: 264 MDGDFAPMVELVKLRRKYGFLLVLDDAHG--TFVCGKNGGGVAEQFNCERDVDICV--GT 319
+D D E+ L+ KYGF++ D+ + F K G + R + +
Sbjct: 185 LDLDG--WKEVFDLQDKYGFIIASDECYSEIYFDGNKPLGCLQAAAQLGRSRQKLLMFTS 242
Query: 320 LSK---AAGCQGGFIA 332
LSK G + GF+A
Sbjct: 243 LSKRSNVPGLRSGFVA 258
>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 = 32.6 bits (73), Expect = 0.075
Identities = 8/24 (33%), Positives = 14/24 (58%), Gaps = 7/24 (29%)
Query: 12 EEALSKLEALKVLRSLRPIYLSPN 35
++AL KL+A SL+ Y + +
Sbjct: 19 KQALKKLQA-----SLKL-Y-ADD 35
>2e7j_A SEP-tRNA:Cys-tRNA synthase; seven-stranded BETE-strand, lyase,
structural genomics; HET: PLP; 2.40A {Archaeoglobus
fulgidus} SCOP: c.67.1.9 PDB: 2e7i_A*
Length = 371
Score = 32.0 bits (73), Expect = 0.27
Identities = 17/124 (13%), Positives = 36/124 (29%), Gaps = 25/124 (20%)
Query: 177 ANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHASIIDGIRIAERTKMVEVFVYK- 235
A AV+ ++ + D H S ER + V K
Sbjct: 81 AKFAVMHSLAK-----KDAW---------VVMDENCHYSSYVAA---ERAGLNIALVPKT 123
Query: 236 -----HCDMSHLKTLLSCCTMRKKV--VVTDSLFSMDGDFAPMVELVKLRRKYGFLLVLD 288
+ + R +V + G+ + ++ K+ +Y L+++
Sbjct: 124 DYPDYAITPENFAQTIEETKKRGEVVLALITYPDGNYGNLPDVKKIAKVCSEYDVPLLVN 183
Query: 289 DAHG 292
A+
Sbjct: 184 GAYA 187
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 30.0 bits (67), Expect = 0.74
Identities = 8/30 (26%), Positives = 12/30 (40%), Gaps = 5/30 (16%)
Query: 285 LVLDDAHGTFVCGKNGGGVAEQFNCERDVD 314
+V + G VC G V ++ VD
Sbjct: 34 IVERFSEGDVVCA-LCGLVLS----DKLVD 58
>1ax4_A Tryptophanase; tryptophan biosynthesis, tryptophan indole-lyase,
pyridoxal 5'-phosphate, monovalent cation binding site;
HET: LLP; 2.10A {Proteus vulgaris} SCOP: c.67.1.2
Length = 467
Score = 30.5 bits (68), Expect = 0.83
Identities = 29/202 (14%), Positives = 58/202 (28%), Gaps = 25/202 (12%)
Query: 155 LESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKSFKDEKIAIFSDALNHA 214
L+ +L + + G A + + + K+ I+ F A
Sbjct: 81 LKDKAKELFNYDYIIPAHQGRGAEN---ILFPVLLKYKQKEGKAKNPVFISNFHFDTTAA 137
Query: 215 SI-------IDGIRIAERTKMVEVFVYKHCDMSHLKTLLSCCTMRKK--VVVTDSLFSMD 265
+ I+ + D+ LK ++ +V T + S
Sbjct: 138 HVELNGCKAINIVTEKAFDSETYDDWKGDFDIKKLKENIAQHGADNIVAIVSTVTCNSAG 197
Query: 266 GDFAPMVELVKLR---RKYGFLLVLDDAHGTFVC--------GKNGGGVAEQF-NCERDV 313
G M L ++ +++G +V+D A + E + +
Sbjct: 198 GQPVSMSNLKEVYEIAKQHGIFVVMDSARFCENAYFIKARDPKYKNATIKEVIFDMYKYA 257
Query: 314 DICVGTLSKAAGC-QGGFIACR 334
D + K GG +A R
Sbjct: 258 DALTMSAKKDPLLNIGGLVAIR 279
>3ezs_A Aminotransferase ASPB; NP_207418.1, structural genomics, JOI for
structural genomics, JCSG; HET: MSE; 2.19A {Helicobacter
pylori 26695}
Length = 376
Score = 29.8 bits (68), Expect = 1.1
Identities = 17/76 (22%), Positives = 31/76 (40%), Gaps = 9/76 (11%)
Query: 264 MDGDFAPMVELVKLRRKYGFLLVLDDAHGTFVCGKNGGGVAEQFNCE----RDVDICVGT 319
+ + ++ VKL K+ F+L+ D+ + + E + + +
Sbjct: 171 LSLEE--LISWVKLALKHDFILINDECYSEIYENTPPPSLLEACMLAGNEAFKNVLVIHS 228
Query: 320 LSK---AAGCQGGFIA 332
LSK A G + GFIA
Sbjct: 229 LSKRSSAPGLRSGFIA 244
>1qgn_A Protein (cystathionine gamma-synthase); methionine biosynthesis,
pyridoxal 5'-phosphate, gamma-famil; HET: PLP; 2.90A
{Nicotiana tabacum} SCOP: c.67.1.3 PDB: 1i41_A* 1i48_A*
1i43_A*
Length = 445
Score = 29.9 bits (68), Expect = 1.3
Identities = 11/44 (25%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 153 RLLESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDE 196
+LE ++ L+ E LL +G A+ +++A+ + AG
Sbjct: 117 VVLEEKISALEGAESTLLMASGMCASTVMLLAL-----VPAGGH 155
>1fcd_A Flavocytochrome C sulfide dehydrogenase (flavin- binding subunit);
electron transport(flavocytochrome); HET: FAD HEM; 2.53A
{Allochromatium vinosum} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
Length = 401
Score = 29.3 bits (66), Expect = 1.6
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 173 TGFAANMAVIVAVGNIASLLAGDE 196
+G++AN VA + LL G+E
Sbjct: 304 SGYSANSQGKVAAAAVVVLLKGEE 327
>3ndn_A O-succinylhomoserine sulfhydrylase; seattle structural genomics
center for infectious disease, S mycobacterium, PLP,
schiff base; HET: LLP; 1.85A {Mycobacterium
tuberculosis}
Length = 414
Score = 29.5 bits (67), Expect = 1.7
Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 5/44 (11%)
Query: 153 RLLESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDE 196
+ E L ++ +G AA + A+ L AGD
Sbjct: 84 SVFEERLRLIEGAPAAFATASGMAAVFTSLGAL-----LGAGDR 122
>2i0q_B Telomere-binding protein beta subunit; single strand DNA-protein
complex, structural protein/DNA complex; 1.91A
{Sterkiella nova} SCOP: b.40.4.3
Length = 385
Score = 29.2 bits (64), Expect = 1.9
Identities = 18/73 (24%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 14 ALSKLEALKVLRSLRPIYLSPNDRHHRVRNPGHVGEDYEVFDEMQHWDRNAVQISISDST 73
+ + LEA ++ S +P + +R + R P ++ D E +QH+ A+Q +I+ +
Sbjct: 108 SYANLEARLIVHSFKP---NLQERLNPTRYPVNLFRDDEFKTTIQHFRHTALQAAINKTV 164
Query: 74 FQRWLHDVPSSGD 86
L D+ D
Sbjct: 165 KGDNLVDISKVAD 177
>1jb7_B Telomere-binding protein beta subunit; DNA-protein interactions,
DNA HYDR sodium ION, quadruplex DNA, DNA-binding
protein-DNA complex; 1.86A {Sterkiella nova} SCOP:
b.40.4.3 PDB: 1otc_B* 1ph6_B 1ph1_B 1ph3_B 1ph2_B 1pa6_B
1ph4_B 1ph5_B* 1ph7_B 1ph8_B 1ph9_B 1phj_B*
Length = 260
Score = 29.0 bits (64), Expect = 2.0
Identities = 18/73 (24%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 14 ALSKLEALKVLRSLRPIYLSPNDRHHRVRNPGHVGEDYEVFDEMQHWDRNAVQISISDST 73
+ + LEA ++ S +P + +R + R P ++ D E +QH+ A+Q +I+ +
Sbjct: 108 SYANLEARLIVHSFKP---NLQERLNPTRYPVNLFRDDEFKTTIQHFRHTALQAAINKTV 164
Query: 74 FQRWLHDVPSSGD 86
L D+ D
Sbjct: 165 KGDNLVDISKVAD 177
>1gc0_A Methionine gamma-lyase; pyridoxal-5'-phosphate; HET: LLP; 1.70A
{Pseudomonas putida} SCOP: c.67.1.3 PDB: 1gc2_A* 1pg8_A*
1ukj_A* 2o7c_A*
Length = 398
Score = 29.0 bits (66), Expect = 2.0
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 5/44 (11%)
Query: 153 RLLESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDE 196
LLE+ +A L+ E L +G A + + + L GDE
Sbjct: 68 NLLEARMASLEGGEAGLALASGMGAITSTLWTL-----LRPGDE 106
>3bc8_A O-phosphoseryl-tRNA(SEC) selenium transferase; disorder-order
transition, phosphate-loop, pyridoxal phospha
selenocysteine synthase (SECS, sepsecs); HET: LLP; 1.65A
{Mus musculus} SCOP: c.67.1.9 PDB: 3bca_A* 3bcb_A*
Length = 450
Score = 29.2 bits (65), Expect = 2.0
Identities = 27/163 (16%), Positives = 57/163 (34%), Gaps = 27/163 (16%)
Query: 141 GSALICGYTNYHRLLESCL--ADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDEKS 198
GS+L+ TN L+ + + A + C + P +A G +L +
Sbjct: 92 GSSLLNKITNS--LVLNVIKLAGVHSVASCFVVP----------MATGMSLTLCFLTLRH 139
Query: 199 FKDEKIAIFSDALNHASIIDGIRIAE-RTKMVEVFVYKH---CDMSHLKTLLSCCTMRKK 254
+ + I ++ S + A ++E + D+ ++ +
Sbjct: 140 KRPKAKYIIWPRIDQKSCFKSMVTAGFEPVVIENVLEGDELRTDLKAVEAKIQELGPEHI 199
Query: 255 VVVTDSLFSMDGDFAP-----MVELVKLRRKYGFLLVLDDAHG 292
+ + S FAP + EL + Y V+++A+G
Sbjct: 200 LCL----HSTTACFAPRVPDRLEELAVICANYDIPHVVNNAYG 238
>1dpg_A G6PD, glucose 6-phosphate dehydrogenase; oxidoreductase, NADP/NAD,
glucose metabolism, oxidoreductase (CHOH(D) - NAD(P));
2.00A {Leuconostoc mesenteroides} SCOP: c.2.1.3 d.81.1.5
PDB: 1e7y_A* 1e7m_A* 1h93_A 1h94_A* 1h9a_A* 1e77_A*
1h9b_A 2dpg_A*
Length = 485
Score = 29.0 bits (66), Expect = 2.2
Identities = 3/25 (12%), Positives = 7/25 (28%), Gaps = 3/25 (12%)
Query: 19 EALKVLRSLRPIYLSPND-RHHRVR 42
+L+ + + VR
Sbjct: 264 AKNAAFNALKIY--DEAEVNKYFVR 286
>1e5e_A MGL, methionine gamma-lyase; methionine biosynthesis, PLP-dependent
enzymes, C-S gamma lyase; HET: PPJ; 2.18A {Trichomonas
vaginalis} SCOP: c.67.1.3 PDB: 1e5f_A*
Length = 404
Score = 29.0 bits (66), Expect = 2.4
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 153 RLLESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDE 196
LE +A L+K E C+ +G A A ++ + L AGD
Sbjct: 65 SNLEGKIAFLEKTEACVATSSGMGAIAATVLTI-----LKAGDH 103
>1u58_A MHC-I homolog M144; MCMV, MHC-I homolog, immune system; 1.90A
{Murid herpesvirus 1} SCOP: b.1.1.2 d.19.1.1 PDB: 1pqz_A
Length = 253
Score = 28.3 bits (63), Expect = 3.1
Identities = 6/44 (13%), Positives = 13/44 (29%), Gaps = 1/44 (2%)
Query: 50 DYEVFDEMQHWDRNAVQISIS-DSTFQRWLHDVPSSGDENEIIC 92
D + + S + +Q+ + G E+ C
Sbjct: 182 DDGGGGALPQTSKQHHDPLPSGNGLYQKHIDVYVDGGLEHVYSC 225
>3qhx_A Cystathionine gamma-synthase METB (CGS); structural genomics,
seattle structural genomics center for infectious
disease, ssgcid, CGS_LIKE; HET: LLP EPE; 1.65A
{Mycobacterium ulcerans} PDB: 3qi6_A*
Length = 392
Score = 28.6 bits (65), Expect = 3.2
Identities = 16/92 (17%), Positives = 30/92 (32%), Gaps = 24/92 (26%)
Query: 155 LESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGD----------------EKS 198
LE+ LA ++ +G AA + A+ L GD +K
Sbjct: 71 LEAALAAVEDAAFGRAFSSGMAAADCALRAM-----LRPGDHVVIPDDAYGGTFRLIDKV 125
Query: 199 FKDEKIAI-FSDALNHASIIDGIRIAERTKMV 229
F + + ++ IR T+++
Sbjct: 126 FTGWNVEYTPVALADLDAVRAAIR--PTTRLI 155
>3cog_A Cystathionine gamma-lyase; CTH, PLP, propargylglycine, SGC,
inhibitor, structural genom stockholm, structural
genomics consortium; HET: PLP; 2.00A {Homo sapiens} PDB:
2nmp_A* 3elp_B
Length = 403
Score = 28.3 bits (64), Expect = 3.4
Identities = 20/92 (21%), Positives = 31/92 (33%), Gaps = 25/92 (27%)
Query: 155 LESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDE----------------KS 198
LE +A L + CL +G AA + + L AGD+ +
Sbjct: 72 LEKAVAALDGAKYCLAFASGLAATVTI------THLLKAGDQIICMDDVYGGTNRYFRQV 125
Query: 199 FKDEKIAI-FSDALNHASIIDGIRIAERTKMV 229
+ + I F D + I TK+V
Sbjct: 126 ASEFGLKISFVDCSKIKLLEAAIT--PETKLV 155
>2rfv_A Methionine gamma-lyase; pyridoxal-5'-phosphate, PLP-dependent
enzyme; HET: LLP; 1.35A {Citrobacter freundii} PDB:
1y4i_A* 3jwa_A* 3jw9_A* 3jwb_A* 3mkj_A*
Length = 398
Score = 28.3 bits (64), Expect = 3.5
Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 7/45 (15%)
Query: 153 RLLESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLL-AGDE 196
LE LA L++ E L A+ ++ I + +L GD
Sbjct: 67 DALEKKLAVLERGEAGL----ATASGISAITTT--LLTLCQQGDH 105
>3nwm_A Peptide/beta-2microglobulin/MHC class I H-2KD CHI protein;
peptide-MHC complex, immunoglobulin fold system; 2.70A
{Synthetic}
Length = 443
Score = 28.6 bits (64), Expect = 3.5
Identities = 11/60 (18%), Positives = 18/60 (30%), Gaps = 3/60 (5%)
Query: 70 SDSTFQRWLHDVPSSGDENEIICG---DGLANDKTITFARQFKRLLLFSGNDYLGLSSHP 126
D +F H + + + C +A KT+ + R G G S
Sbjct: 84 KDWSFYILAHTEFTPTETDTYACRVKHASMAEPKTVYWDRDMGGGGSGGGGSGGGGSGGG 143
>2qrt_A H-2KB, H-2 class I histocompatibility antigen K-B alpha chain,
beta-2 microglobulin, ovalbumin-derived...; MHC-I,
single chain MHC-I, glycoprotein; 1.80A {Mus musculus}
PDB: 2qrs_A 2qri_A
Length = 422
Score = 28.2 bits (63), Expect = 4.3
Identities = 19/91 (20%), Positives = 29/91 (31%), Gaps = 14/91 (15%)
Query: 70 SDSTFQRWLHDVPSSGDENEIICG---DGLANDKTITFARQFKRLLLFSGNDYLGLSSHP 126
D +F H + + + C +A KT+ + R G G S
Sbjct: 81 KDWSFYILAHTEFTPTETDTYACRVKHASMAEPKTVYWDRDMGGGGSGGGGSGGGGSGGG 140
Query: 127 TIAK--------AAARHGMG-PRGSALICGY 148
A +R G+G PR + GY
Sbjct: 141 GSGPHSLRYFVTAVSRPGLGEPRYMEV--GY 169
>1a6z_A HFE; HFE, hereditary hemochromatosis, MHC class I, MHC class I
complex; 2.60A {Homo sapiens} SCOP: b.1.1.2 d.19.1.1
PDB: 1de4_A*
Length = 275
Score = 28.0 bits (63), Expect = 4.5
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 70 SDSTFQRWLHDVPSSGDENEIIC 92
D T+Q W+ G+E C
Sbjct: 238 GDGTYQGWITLAVPPGEEQRYTC 260
>3acz_A Methionine gamma-lyase; L-methionine; HET: LLP; 1.97A {Entamoeba
histolytica} PDB: 3aej_A* 3ael_A* 3aem_A* 3aen_A*
3aeo_A* 3aep_A*
Length = 389
Score = 27.9 bits (63), Expect = 4.5
Identities = 7/44 (15%), Positives = 13/44 (29%), Gaps = 5/44 (11%)
Query: 153 RLLESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDE 196
E + ++ +G A + +A L GD
Sbjct: 62 EQFEEMVCSIEGAAGSAAFGSGMGAISSSTLAF-----LQKGDH 100
>1va0_A Uroporphyrin-III C-methyltransferase; structural genomics, riken
structural genomics/proteomics initiative, RSGI; 1.97A
{Thermus thermophilus} SCOP: c.90.1.1 PDB: 1v9a_A
Length = 239
Score = 27.8 bits (63), Expect = 4.8
Identities = 14/75 (18%), Positives = 30/75 (40%), Gaps = 10/75 (13%)
Query: 119 YLGLSSHPTIAKAAARHGMGPRG-SALIC-GYTNYHRLLESCLADLKKKEDCLLCPTGFA 176
+G+ IAK R G PR + + T R + + L ++ + + + P
Sbjct: 158 LMGVGRRVWIAKELLRLGRDPREPTLFVERASTPKERRVHARLEEVAEGKVEVRPP---- 213
Query: 177 ANMAVIVAVGNIASL 191
A+ + +G + +
Sbjct: 214 ---ALWI-LGEVVRV 224
>3fru_A Neonatal FC receptor; complex (immunoglobulin-binding protein),
complex (immunoglo binding protein) complex; HET: NAG
FUL NDG BMA MAN GAL FUC; 2.20A {Rattus norvegicus} SCOP:
b.1.1.2 d.19.1.1 PDB: 1frt_A* 1i1a_A*
Length = 269
Score = 27.6 bits (62), Expect = 5.0
Identities = 7/23 (30%), Positives = 9/23 (39%)
Query: 70 SDSTFQRWLHDVPSSGDENEIIC 92
D +F W GDE+ C
Sbjct: 232 GDGSFHAWSLLEVKRGDEHHYQC 254
>3bev_A Major histocompatibility complex class I glycoprotein haplotype
B21; MHC class I, chicken, BF21, 11MER, peptide, bulge,
water cushion, immune response, immunoglobulin domain,
MHC I; 2.10A {Gallus gallus} PDB: 3bew_A
Length = 274
Score = 27.6 bits (62), Expect = 6.1
Identities = 6/23 (26%), Positives = 10/23 (43%)
Query: 70 SDSTFQRWLHDVPSSGDENEIIC 92
D T+ W+ GD ++ C
Sbjct: 233 GDGTYHTWVTIDAQPGDGDKYQC 255
>1pff_A Methionine gamma-lyase; homocysteine; 2.50A {Trichomonas vaginalis}
SCOP: c.67.1.3
Length = 331
Score = 27.5 bits (62), Expect = 6.1
Identities = 19/92 (20%), Positives = 31/92 (33%), Gaps = 24/92 (26%)
Query: 155 LESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGD----------------EKS 198
LE +A L+ E C +G A A + L AGD E
Sbjct: 3 LEGKIAKLEHAEACAATASGMGAIAASVWTF-----LKAGDHLISDDCLYGCTHALFEHQ 57
Query: 199 FKDEKIAI-FSDALNHASIIDGIRIAERTKMV 229
+ + + F D +I ++ T++V
Sbjct: 58 LRKFGVEVDFIDMAVPGNIEKHLK--PNTRIV 87
>3m17_A IGG receptor FCRN large subunit P51; immunoglobulin binding
protein, cell membrane, disulfide BON glycoprotein,
IGG-binding protein, immunoglobulin domain; 2.60A {Homo
sapiens} PDB: 1exu_A 3m1b_A
Length = 267
Score = 27.2 bits (61), Expect = 6.4
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 70 SDSTFQRWLHDVPSSGDENEIIC 92
SD +F SGDE+ C
Sbjct: 230 SDGSFHASSSLTVKSGDEHHYCC 252
>2yf1_A Major histocompatibility complex class I glycoPro haplotype B21;
immune system, BF21, immune response, immunoglobulin
domain; 2.75A {Gallus gallus} PDB: 2yez_A 2yf5_A 2yf6_A
Length = 329
Score = 27.3 bits (61), Expect = 6.6
Identities = 6/23 (26%), Positives = 10/23 (43%)
Query: 70 SDSTFQRWLHDVPSSGDENEIIC 92
D T+ W+ GD ++ C
Sbjct: 254 GDGTYHTWVTIDAQPGDGDKYQC 276
>1ibj_A CBL, cystathionine beta-lyase; PLP-dependent enzyme, methionine
biosynthesis, transsulfurat lyase; HET: PLP; 2.30A
{Arabidopsis thaliana} SCOP: c.67.1.3
Length = 464
Score = 27.6 bits (62), Expect = 7.2
Identities = 18/92 (19%), Positives = 29/92 (31%), Gaps = 25/92 (27%)
Query: 155 LESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDE----------------KS 198
LES LA L K + +G AA AV + G+E +
Sbjct: 138 LESLLAKLDKADRAFCFTSGMAALSAV------THLIKNGEEIVAGDDVYGGSDRLLSQV 191
Query: 199 FKDEKIAI-FSDALNHASIIDGIRIAERTKMV 229
+ + + + I +TK+V
Sbjct: 192 VPRSGVVVKRVNTTKLDEVAAAIG--PQTKLV 221
>1cs1_A CGS, protein (cystathionine gamma-synthase); lyase, LLP-dependent
enzymes, methionine biosynthesis; HET: LLP DHD; 1.50A
{Escherichia coli} SCOP: c.67.1.3
Length = 386
Score = 27.5 bits (62), Expect = 7.3
Identities = 17/92 (18%), Positives = 31/92 (33%), Gaps = 24/92 (26%)
Query: 155 LESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGD----------------EKS 198
++ LA+L+ +L TG +A V L GD +
Sbjct: 57 VQRALAELEGGAGAVLTNTGMSAIHLVTTVF-----LKPGDLLVAPHDCYGGSYRLFDSL 111
Query: 199 FKDEKIAI-FSDALNHASIIDGIRIAERTKMV 229
K + F D + ++ + E+ K+V
Sbjct: 112 AKRGCYRVLFVDQGDEQALRAALA--EKPKLV 141
>3p73_A MHC RFP-Y class I alpha chain; IG-like C1-type
(immunoglobulin-like) domain, histocompatibi antigen,
immune system; HET: 16A; 1.32A {Gallus gallus} PDB:
3p77_A*
Length = 275
Score = 27.2 bits (61), Expect = 7.4
Identities = 5/38 (13%), Positives = 12/38 (31%), Gaps = 1/38 (2%)
Query: 56 EMQHWDRNAVQISIS-DSTFQRWLHDVPSSGDENEIIC 92
++ + I + D T+ D ++ C
Sbjct: 220 MVRDQETRWGGIVPNSDGTYHASAAIDVLPEDGDKYWC 257
>1mhc_A MHC class I antigen H2-M3; histocompatibility antigen/peptide,
histocompatibility antig peptide complex; HET: FME NAG;
2.10A {Mus musculus} SCOP: b.1.1.2 d.19.1.1
Length = 282
Score = 27.2 bits (61), Expect = 7.5
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 70 SDSTFQRWLHDVPSSGDENEIIC 92
D TFQ+W V SG+E C
Sbjct: 237 GDGTFQKWAAVVVPSGEEQRYTC 259
>1r3h_A MHC H2-TL-T10-129; class IB MHC, gammadelta T cell ligand, immune
system; 2.50A {Mus musculus} SCOP: b.1.1.2 d.19.1.1 PDB:
1c16_A 1ypz_A*
Length = 260
Score = 27.3 bits (61), Expect = 8.0
Identities = 8/23 (34%), Positives = 9/23 (39%)
Query: 70 SDSTFQRWLHDVPSSGDENEIIC 92
D TFQ+W V G C
Sbjct: 221 GDGTFQKWAAVVVPLGKVQSYTC 243
>2oqx_A Tryptophanase; lyase, pyridoxal phosphate, tryptophan catabolism;
HET: CME EPE; 1.90A {Escherichia coli} SCOP: c.67.1.2
PDB: 2c44_A 2v1p_A* 2v0y_A*
Length = 467
Score = 27.3 bits (60), Expect = 8.8
Identities = 37/229 (16%), Positives = 70/229 (30%), Gaps = 22/229 (9%)
Query: 127 TIAKAAARHGMGPRGSALICGYTNYHRLLESCLADLKKKEDCLLCPTGFAANMAVIVAVG 186
T A + RG G +Y+ L + ++ + + G A I +
Sbjct: 52 TGAVTQSMQAAMMRGDEAYSGSRSYYAL-AESVKNIFGYQYTIPTHQGRGAEQIYIPVLI 110
Query: 187 NIASLLAGDEKSFKDEKIAIFSDALNHASIIDG-----IRIAERTKMVEVFVYK-HCDMS 240
G ++S F D S I+G + I E + +K + D+
Sbjct: 111 KKREQEKGLDRSKMVAFSNYFFDTTQGHSQINGCTVRNVYIKEAFDTGVRYDFKGNFDLE 170
Query: 241 HLKTLLSCCTMRKK--VVVTDSLFSMDGDFAPMVELVKLR---RKYGFLLVLDDA----- 290
L+ + +V T + S G + L + +KY +V+D A
Sbjct: 171 GLERGIEEVGPNNVPYIVATITSNSAGGQPVSLANLKAMYSIAKKYDIPVVMDSARFAEN 230
Query: 291 ---HGTFVCGKNGGGVAEQFN-CERDVDICVGTLSKAAGCQ-GGFIACR 334
+ + + D+ + K A GG + +
Sbjct: 231 AYFIKQREAEYKDWTIEQITRETYKYADMLAMSAKKDAMVPMGGLLCMK 279
>1s7q_A H-2KB, H-2 class I histocompatibility antigen, K-B alpha chain;
LCMV, MHC class I, immune escape, immune system; 1.99A
{Mus musculus} SCOP: b.1.1.2 d.19.1.1 PDB: 1s7r_A 1s7s_A
1s7t_A 1bii_A 3qul_A 1s7v_A 1s7w_A 1s7x_A 3quk_A 1s7u_A
1nez_A*
Length = 348
Score = 27.1 bits (60), Expect = 9.3
Identities = 9/23 (39%), Positives = 10/23 (43%)
Query: 70 SDSTFQRWLHDVPSSGDENEIIC 92
D TFQ+W V G E C
Sbjct: 237 GDGTFQKWASVVVPLGKEQYYTC 259
>1n8p_A Cystathionine gamma-lyase; three open alpha/beta structures; HET:
PLP; 2.60A {Saccharomyces cerevisiae} SCOP: c.67.1.3
Length = 393
Score = 27.1 bits (61), Expect = 9.3
Identities = 10/42 (23%), Positives = 16/42 (38%), Gaps = 6/42 (14%)
Query: 155 LESCLADLKKKEDCLLCPTGFAANMAVIVAVGNIASLLAGDE 196
LE +A L+ + L +G A + + SL G
Sbjct: 60 LERAVAALENAQYGLAFSSGSATTATI------LQSLPQGSH 95
>1k5n_A Major histocompatibility complex molecule HLA-B*2; MHC(major
histocompatibility complex), HLA(human leukocyte A
immune system; 1.09A {Homo sapiens} SCOP: b.1.1.2
d.19.1.1 PDB: 1jgd_A 1of2_A 1uxw_A 1w0w_A 3b3i_A* 3bp7_A
3czf_A* 3hcv_A* 3d18_A* 2bss_A 2bsr_A 2a83_A 1jge_A
1hsa_A 1uxs_A 1w0v_A 1ogt_A 2bst_A 3b6s_A* 3bp4_A ...
Length = 276
Score = 26.9 bits (60), Expect = 9.5
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 70 SDSTFQRWLHDVPSSGDENEIIC 92
D TFQ+W V SG+E C
Sbjct: 237 GDRTFQKWAAVVVPSGEEQRYTC 259
>2bm8_A Cephalosporin hydroxylase CMCI; cephamycin biosynthesis; 2.5A
{Streptomyces clavuligerus} SCOP: c.66.1.50 PDB: 2bm9_A*
2br5_A* 2br4_A* 2br3_A*
Length = 236
Score = 26.7 bits (58), Expect = 9.6
Identities = 16/86 (18%), Positives = 30/86 (34%), Gaps = 14/86 (16%)
Query: 220 IRIAERTKMVEVFVYKHCDMSHLKTLLSCCTMRKKVVVTDSLFSM--------------D 265
+ +VE+ VY ++ + L + +V+ D S
Sbjct: 77 LWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQ 136
Query: 266 GDFAPMVELVKLRRKYGFLLVLDDAH 291
GD + + LR L+ +D+AH
Sbjct: 137 GDCSDLTTFEHLREMAHPLIFIDNAH 162
>1t7v_A Zinc-alpha-2-glycoprotein; MHC class I homolog, PEG, lipid binding
protein; HET: NAG P6G; 1.95A {Homo sapiens} SCOP:
b.1.1.2 d.19.1.1 PDB: 1t7w_A* 1t7x_A* 1t7y_A* 1t7z_A*
1t80_A* 2icn_A* 3es6_A* 1zag_A*
Length = 278
Score = 26.8 bits (60), Expect = 9.8
Identities = 5/23 (21%), Positives = 8/23 (34%)
Query: 70 SDSTFQRWLHDVPSSGDENEIIC 92
+ T+Q W+ D C
Sbjct: 238 GNGTYQSWVVVAVPPQDTAPYSC 260
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
0.323 0.138 0.423
Gapped
Lambda K H
0.267 0.0769 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,407,721
Number of extensions: 338068
Number of successful extensions: 1013
Number of sequences better than 10.0: 1
Number of HSP's gapped: 974
Number of HSP's successfully gapped: 74
Length of query: 334
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 240
Effective length of database: 4,077,219
Effective search space: 978532560
Effective search space used: 978532560
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 (25.7 bits)