RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2206
(430 letters)
>3a2b_A Serine palmitoyltransferase; vitamin B6-dependent enzyme fold type
I, acyltransferase, PY phosphate; HET: PLP; 2.30A
{Sphingobacterium multivorum}
Length = 398
Score = 178 bits (454), Expect = 5e-52
Identities = 53/143 (37%), Positives = 80/143 (55%), Gaps = 14/143 (9%)
Query: 275 SLEAGLQKALLEGQPHSGKPWRKILIVVEGIFSMDGSIVRLPEIVRLKNKYKAYLYVDEA 334
L A L + LI +GIFSM+G IV LPE+ + N++ A + VD+A
Sbjct: 161 DLRAKLSRL---------PEDSAKLICTDGIFSMEGDIVNLPELTSIANEFDAAVMVDDA 211
Query: 335 HSIGALGPTGRGVTEYFGIDPREVDILMGTYTKSFGSMGGYVAGSKSTIDYIRANSHVRS 394
HS+G +G G G +FG++ VD++MGT++KS S+GG+VAG ID+++ N+ RS
Sbjct: 212 HSLGVIGHKGAGTASHFGLNDD-VDLIMGTFSKSLASLGGFVAGDADVIDFLKHNA--RS 268
Query: 395 Y--ATSMPPPVAMQILTSMRIIM 415
+ SM P L ++ II
Sbjct: 269 VMFSASMTPASVASTLKALEIIQ 291
Score = 32.1 bits (74), Expect = 0.30
Identities = 12/69 (17%), Positives = 25/69 (36%), Gaps = 17/69 (24%)
Query: 64 RPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGFGENTGLCTERSKESV 123
RP+ S + I R L S +YLG +T + + +++++
Sbjct: 28 RPIQSKQDTEVKIDGRRV----------------LMFGSNSYLGLTTDTRI-IKAAQDAL 70
Query: 124 KQSGCALCS 132
++ G
Sbjct: 71 EKYGTGCAG 79
Score = 32.1 bits (74), Expect = 0.30
Identities = 12/69 (17%), Positives = 25/69 (36%), Gaps = 17/69 (24%)
Query: 201 RPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGFGENTGLCTERSKESV 260
RP+ S + I R L S +YLG +T + + +++++
Sbjct: 28 RPIQSKQDTEVKIDGRRV----------------LMFGSNSYLGLTTDTRI-IKAAQDAL 70
Query: 261 KQSGCALCS 269
++ G
Sbjct: 71 EKYGTGCAG 79
>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 = 176 bits (449), Expect = 6e-51
Identities = 50/145 (34%), Positives = 78/145 (53%), Gaps = 14/145 (9%)
Query: 273 PSSLEAGLQKALLEGQPHSGKPWRKILIVVEGIFSMDGSIVRLPEIVRLKNKYKAYLYVD 332
L+ L + L+V+EG++SM G I L E+V + K+ A + VD
Sbjct: 180 VEDLDKRLGRL---------PKEPAKLVVLEGVYSMLGDIAPLKEMVAVAKKHGAMVLVD 230
Query: 333 EAHSIGALGPTGRGVTEYFGIDPREVDILMGTYTKSFGSMGGYVAGSKSTIDYIRANSHV 392
EAHS+G GP GRGV E G++ + +D ++GT++KS G++GG+V + + +R
Sbjct: 231 EAHSMGFFGPNGRGVYEAQGLEGQ-IDFVVGTFSKSVGTVGGFVVSNHPKFEAVRLAC-- 287
Query: 393 RSY--ATSMPPPVAMQILTSMRIIM 415
R Y S+PP V TS+R +M
Sbjct: 288 RPYIFTASLPPSVVATATTSIRKLM 312
>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 = 173 bits (441), Expect = 5e-50
Identities = 33/145 (22%), Positives = 60/145 (41%), Gaps = 17/145 (11%)
Query: 273 PSSLEAGLQKALLEGQPHSGKPWRKILIVVEGIFSMDGSIVRLPEIVRLKNKYKAYLYVD 332
L +Q+ +IVV+ I+S G+I L E+V + ++ L VD
Sbjct: 175 CDHLRMLIQRH------------GPGIIVVDSIYSTLGTIAPLAELVNISKEFGCALLVD 222
Query: 333 EAHSIGALGPTGRGVTEYFGIDPREVDILMGTYTKSFGSMGGYVAGSKSTIDYIRANSHV 392
E+HS+G GP G G+ G+ V + + K+F G + + +
Sbjct: 223 ESHSLGTHGPNGAGLLAELGLTRE-VHFMTASLAKTFAYRAGAIWCNNEVNRCVP--FIS 279
Query: 393 RSY--ATSMPPPVAMQILTSMRIIM 415
++++ P A + T++ II
Sbjct: 280 YPAIFSSTLLPYEAAGLETTLEIIE 304
Score = 27.6 bits (62), Expect = 8.4
Identities = 16/114 (14%), Positives = 32/114 (28%), Gaps = 21/114 (18%)
Query: 19 CLPSAQHTGTQEVSRMVKFGYPDLYEKFVLFYSRYVYRRIVDCFNRPVTSVPGAIITIKD 78
H + V R P L + Y+ + G + +
Sbjct: 3 SSHHHHHHSSGLVPRGSHMNKPQLPDFIQNKIDHYIENYFD-------INKNGKHLVLGK 55
Query: 79 RETPDYGWTFKYTGTESTCLNLASYNYLGFGENTGLCTERSKESVKQSGCALCS 132
+ +PD + L S +YL + + R +S+ + +L
Sbjct: 56 QASPDD-------------IILQSNDYLALANHPLI-KARLAKSLLEEQQSLFM 95
>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 = 170 bits (434), Expect = 5e-49
Identities = 49/144 (34%), Positives = 77/144 (53%), Gaps = 13/144 (9%)
Query: 275 SLEAGLQKALLEGQPHSGKPWRKILIVVEGIFSMDGSIVRLPEIVRLKNKYKAYLYVDEA 334
LEA L++A R +LI +G+FSMDG I L + L +KY A + VD++
Sbjct: 163 ELEARLKEA-------REAGARHVLIATDGVFSMDGVIANLKGVCDLADKYDALVMVDDS 215
Query: 335 HSIGALGPTGRGVTEYFGIDPREVDILMGTYTKSF-GSMGGYVAGSKSTIDYIRANSHVR 393
H++G +G GRG EY + R VDI+ GT K+ G+ GGY A K ++++R S R
Sbjct: 216 HAVGFVGENGRGSHEYCDVMGR-VDIITGTLGKALGGASGGYTAARKEVVEWLRQRS--R 272
Query: 394 SY--ATSMPPPVAMQILTSMRIIM 415
Y + S+ P + + + ++
Sbjct: 273 PYLFSNSLAPAIVAASIKVLEMVE 296
Score = 29.1 bits (66), Expect = 3.0
Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 20/54 (37%)
Query: 55 YRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGF 108
++ R +TS A IT+ D +N + NYLG
Sbjct: 25 FKEE-----RIITSAQQADITVADGSH---------------VINFCANNYLGL 58
Score = 29.1 bits (66), Expect = 3.0
Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 20/54 (37%)
Query: 192 YRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGF 245
++ R +TS A IT+ D +N + NYLG
Sbjct: 25 FKEE-----RIITSAQQADITVADGSH---------------VINFCANNYLGL 58
>3tqx_A 2-amino-3-ketobutyrate coenzyme A ligase; energy metabolism,
transferase; HET: PLP; 2.30A {Coxiella burnetii}
Length = 399
Score = 168 bits (428), Expect = 3e-48
Identities = 54/144 (37%), Positives = 79/144 (54%), Gaps = 13/144 (9%)
Query: 275 SLEAGLQKALLEGQPHSGKPWRKILIVVEGIFSMDGSIVRLPEIVRLKNKYKAYLYVDEA 334
LEA L++A K R LI +G+FSMDG I L I L +KY A + VD++
Sbjct: 161 DLEAKLKEA-------DEKGARFKLIATDGVFSMDGIIADLKSICDLADKYNALVMVDDS 213
Query: 335 HSIGALGPTGRGVTEYFGIDPREVDILMGTYTKSF-GSMGGYVAGSKSTIDYIRANSHVR 393
H++G +G GRG EY G+ R VDIL GT K+ G+ GGY +G K I+++R S R
Sbjct: 214 HAVGFIGENGRGTPEYCGVADR-VDILTGTLGKALGGASGGYTSGHKEIIEWLRNRS--R 270
Query: 394 SY--ATSMPPPVAMQILTSMRIIM 415
Y + ++ P + L + ++
Sbjct: 271 PYLFSNTVAPVIVATSLKVLELLK 294
Score = 30.6 bits (70), Expect = 1.1
Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 22/73 (30%)
Query: 55 YRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGFGENTGL 114
Y+ R +TS A I + ++E LN + NYLG ++ L
Sbjct: 24 YKSE-----RIITSPQNAEIKVGEKE----------------VLNFCANNYLGLADHPAL 62
Query: 115 CTERSKESVKQSG 127
+ ++ V+Q G
Sbjct: 63 -IKTAQTVVEQYG 74
Score = 30.6 bits (70), Expect = 1.1
Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 22/73 (30%)
Query: 192 YRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGFGENTGL 251
Y+ R +TS A I + ++E LN + NYLG ++ L
Sbjct: 24 YKSE-----RIITSPQNAEIKVGEKE----------------VLNFCANNYLGLADHPAL 62
Query: 252 CTERSKESVKQSG 264
+ ++ V+Q G
Sbjct: 63 -IKTAQTVVEQYG 74
>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 = 166 bits (422), Expect = 2e-47
Identities = 44/152 (28%), Positives = 69/152 (45%), Gaps = 17/152 (11%)
Query: 273 PSSLEAGLQKALLEGQPHSGKPWRKILIVVEGIFSMDGSIVRLPEIVRLKNKYKAYLYVD 332
+ L L + ++V EG+FSMDG L EI ++ ++ +L VD
Sbjct: 155 VTHLARLLASP----------CPGQQMVVTEGVFSMDGDSAPLAEIQQVTQQHNGWLMVD 204
Query: 333 EAHSIGALGPTGRGVTEYFGIDPREVDILMGTYTKSFGSMGGYVAGSKSTIDYIRANSHV 392
+AH G +G GRG + + ++L+ T+ K FG G V S + DY+ +
Sbjct: 205 DAHGTGVIGEQGRGSCWLQKV---KPELLVVTFGKGFGVSGAAVLCSSTVADYLLQFA-- 259
Query: 393 RS--YATSMPPPVAMQILTSMRIIMGLENGDE 422
R Y+TSMPP A + S+ +I E
Sbjct: 260 RHLIYSTSMPPAQAQALRASLAVIRSDEGDAR 291
Score = 31.7 bits (73), Expect = 0.45
Identities = 15/74 (20%), Positives = 24/74 (32%), Gaps = 22/74 (29%)
Query: 55 YRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGFGENTGL 114
RR PV G + DR+ LN +S +YLG + +
Sbjct: 20 LRRR-----YPVAQGAGRWLVADDRQ----------------YLNFSSNDYLGLSHHPQI 58
Query: 115 CTERSKESVKQSGC 128
++ +Q G
Sbjct: 59 -IRAWQQGAEQFGI 71
Score = 31.7 bits (73), Expect = 0.45
Identities = 15/74 (20%), Positives = 24/74 (32%), Gaps = 22/74 (29%)
Query: 192 YRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGFGENTGL 251
RR PV G + DR+ LN +S +YLG + +
Sbjct: 20 LRRR-----YPVAQGAGRWLVADDRQ----------------YLNFSSNDYLGLSHHPQI 58
Query: 252 CTERSKESVKQSGC 265
++ +Q G
Sbjct: 59 -IRAWQQGAEQFGI 71
>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 = 157 bits (400), Expect = 3e-44
Identities = 46/139 (33%), Positives = 70/139 (50%), Gaps = 5/139 (3%)
Query: 285 LEGQPHSGKPWRKILIVVEGIFSMDGSIVRLPEIVRLKNKYKAYLYVDEAHSIGALGPTG 344
L + P LI E ++SMDG + EI + ++ A Y+DE H++G GP G
Sbjct: 167 LRELIAADDPAAPKLIAFESVYSMDGDFGPIKEICDIAEEFGALTYIDEVHAVGMYGPRG 226
Query: 345 RGVTEYFGIDPREVDILMGTYTKSFGSMGGYVAGSKSTIDYIRANSHVRSY--ATSMPPP 402
GV E G+ R +DI GT K++G GGY+A S +D +R S+ + +TS+PP
Sbjct: 227 AGVAERDGLMHR-IDIFNGTLAKAYGVFGGYIAASARMVDAVR--SYAPGFIFSTSLPPA 283
Query: 403 VAMQILTSMRIIMGLENGD 421
+A S+ + E
Sbjct: 284 IAAGAQASIAFLKTAEGQK 302
Score = 28.0 bits (63), Expect = 6.2
Identities = 21/122 (17%), Positives = 37/122 (30%), Gaps = 35/122 (28%)
Query: 55 YRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGFGENTGL 114
YR + GA + G + +YLG G++ +
Sbjct: 20 YRTF-----IDIEREKGAFPKAQWNRP---------DGGKQDITVWCGNDYLGMGQHPVV 65
Query: 115 CTERSKESVKQSGCALCSP---SG----------EIASMLSKGASKSNILFQAHTNGF-A 160
E+++ G SG EIA + K A+ ++F + + A
Sbjct: 66 -LAAMHEALEAVGAGSGGTRNISGTTAYHRRLEAEIAGLHQKEAA---LVFSS---AYNA 118
Query: 161 NG 162
N
Sbjct: 119 ND 120
>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 = 49.5 bits (117), Expect = 2e-06
Identities = 43/307 (14%), Positives = 92/307 (29%), Gaps = 92/307 (29%)
Query: 72 AIITIKDRETPDYGW-TFKYTGTE------STCLNL-------ASYNYLG-FGENTGLCT 116
+II R+ W +K+ + + LN+ ++ L F + +
Sbjct: 331 SIIAESIRDGLAT-WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI-- 387
Query: 117 ERSKESVKQSGCALC-----SPSGEIASMLSKGASKSNILFQAHTNGFANGISKSNGLLS 171
+ L ++ +++K S L + I
Sbjct: 388 ---PTIL------LSLIWFDVIKSDVMVVVNKLHKYS--LVEKQPKESTISI-------- 428
Query: 172 SNGGYPDLY--EKFVLFYSRYVYRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTG 229
P +Y K L ++R IVD +N P T D P + +Y
Sbjct: 429 -----PSIYLELKVKLENEYALHRSIVDHYNIPKTFDS-------DDLIPP--YLDQY-- 472
Query: 230 TESTCLNLASYNYLGF-------GENTGLCTE--------RSKESVKQSGCALCSPSAPS 274
Y+++G E L K ++ A + +
Sbjct: 473 ---------FYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK--IRHDSTAWNASGSIL 521
Query: 275 SLEAGLQKALLEGQPHSGKPWRKILIVVEGIFSMDGSIVRLPE--IVR--LKNKYKAYLY 330
+ L+ + K R + +++ + ++ +++ ++R L + +A
Sbjct: 522 NTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEA--I 579
Query: 331 VDEAHSI 337
+EAH
Sbjct: 580 FEEAHKQ 586
Score = 42.1 bits (98), Expect = 3e-04
Identities = 19/125 (15%), Positives = 41/125 (32%), Gaps = 34/125 (27%)
Query: 193 RRIVDCF-NRPVTSVPGAIITIKDRETPDYGWTFKYTGTES--TCLNLASYNYLGFGENT 249
R+ ++ V + ++ +Y + TE + Y +
Sbjct: 65 LRLFWTLLSKQEEMVQKFV---EEVLRINYKFLMSPIKTEQRQPSMMTRMYIE----QRD 117
Query: 250 GLCTER---SKESVKQSGCALCSPSAPSSLEAGLQKALLEGQPHSGKPWRKILIVVEGIF 306
L + +K +V L+ L++ALLE +P ++++G
Sbjct: 118 RLYNDNQVFAKYNV---------SRLQPYLK--LRQALLELRPAKN-------VLIDG-- 157
Query: 307 SMDGS 311
+ GS
Sbjct: 158 -VLGS 161
Score = 35.6 bits (81), Expect = 0.038
Identities = 26/175 (14%), Positives = 44/175 (25%), Gaps = 55/175 (31%)
Query: 36 KFGYPDLY--EKFVLFYSRYVYRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTGT 93
P +Y K L ++R IVD +N P T D P + +Y
Sbjct: 425 TISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS-------DDLIPP--YLDQY--- 472
Query: 94 ESTCLNLASYNYLGF-------GENTGLCTE--------RSKESVKQSGCALCSPSGEIA 138
Y+++G E L K ++ A +
Sbjct: 473 --------FYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK--IRHDSTAWNASG---- 518
Query: 139 SMLSKGASKSNILFQAHTNGFANGISKSNGLLSSNGGYPDLYEKFVLFYSRYVYR 193
S N L Q + I ++ + F+ +
Sbjct: 519 -------SILNTLQQLKF--YKPYICDNDPKYER---LVNAILDFLPKIEENLIC 561
>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 = 38.5 bits (90), Expect = 0.003
Identities = 17/98 (17%), Positives = 41/98 (41%), Gaps = 15/98 (15%)
Query: 293 KPWRKILIVVEGIFSMDGSIVRLPEIVRLKNKYKAYLYVDEAHSIGALGPTGRGVTEYFG 352
K +L ++ G++ + +I ++ ++Y L V+ A++IG
Sbjct: 144 KRGEVVLALITYPDGNYGNLPDVKKIAKVCSEYDVPLLVNGAYAIG-----------RMP 192
Query: 353 IDPRE--VDILMGTYTKSFGSMG--GYVAGSKSTIDYI 386
+ +E D ++G+ KS + G G + + + +
Sbjct: 193 VSLKEIGADFIVGSGHKSMAASGPIGVMGMKEEWAEIV 230
>1c4k_A Protein (ornithine decarboxylase); lyase; HET: PLP GTP; 2.70A
{Lactobacillus SP} SCOP: c.23.1.4 c.67.1.5 d.125.1.1
PDB: 1ord_A*
Length = 730
Score = 36.2 bits (83), Expect = 0.020
Identities = 25/169 (14%), Positives = 48/169 (28%), Gaps = 13/169 (7%)
Query: 267 LCSPSAPSSLEAGLQKALLEGQPHSGKPWRKILIVVEGIFSMDGSIVRLPEIVRLKNKYK 326
+ E +++ + P K R + V + + DG+I E+V+
Sbjct: 251 IGGIYDSDFDEKKIRELAAKVDPERAKWKRPFRLAVIQLGTYDGTIYNAHEVVKRIGHLC 310
Query: 327 AYLYVDEAH-SIGALGPTGRGVTEYFGIDPREVDILMGTYT---KSFGSM---------G 373
Y+ D A P R + D D + K
Sbjct: 311 DYIEFDSAWVGYEQFIPMMRNSSPLLIDDLGPEDPGIIVVQSVHKQQAGFSQTSQIHKKD 370
Query: 374 GYVAGSKSTIDYIRANSHVRSYATSMPPPVAMQILTSMRIIMGLENGDE 422
++ G D+ N+ + ++ P L + E G +
Sbjct: 371 SHIKGQLRYCDHKHFNNSFNLFMSTSPFYPMYAALDVNAAMQEGEAGRK 419
>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate,
PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A
{Escherichia coli}
Length = 755
Score = 34.3 bits (78), Expect = 0.077
Identities = 28/156 (17%), Positives = 46/156 (29%), Gaps = 12/156 (7%)
Query: 277 EAGLQKALLEGQPHSGKPWRKILIVVEGIFSMDGSIVRLPEIVRLKNKYKAYLYVDEAHS 336
LQK + E K +K V + DG E L K L+ DEA
Sbjct: 292 PETLQKKISESPLTKDKAGQKPSYCVVTNCTYDGVCYNAKEAQDLLEKTSDRLHFDEAW- 350
Query: 337 IGALGPTGRGVTEYFGIDPREVDILMGTYT------KSFGSMGG----YVAGSKSTIDYI 386
+++ + D T K ++ +V + I++
Sbjct: 351 -YGYARFNPIYADHYAMRGEPGDHNGPTVFATHSTHKLLNALSQASYIHVREGRGAINFS 409
Query: 387 RANSHVRSYATSMPPPVAMQILTSMRIIMGLENGDE 422
R N +AT+ P +M +G
Sbjct: 410 RFNQAYMMHATTSPLYAICASNDVAVSMMDGNSGLS 445
>1w61_A B-cell mitogen; racemase, racemase pyridoxal phosphate-independent,
stereo inversion, acid/base catalysis, homodimer,
alpha/beta domains; 2.1A {Trypanosoma cruzi} PDB: 1w62_A
Length = 414
Score = 32.1 bits (72), Expect = 0.34
Identities = 25/120 (20%), Positives = 39/120 (32%), Gaps = 11/120 (9%)
Query: 25 HTGTQEVSRMVKFGYPDLYEKFVLFYSRYVYRRIVDCFNRPVTSVP-------GAIITIK 77
HT E +R+V G P + + Y+ +D R + P GA +
Sbjct: 52 HTEG-EAARIVTSGLPHIPGSNMAEKKAYLQEN-MDYLRRGIMLEPRGHDDMFGAFLFDP 109
Query: 78 DRETPDYGWTFKYTGTESTCLNLASYNYLGFGENTGLCTERSKESVKQSGCALCSPSGEI 137
E D G F TG S + TG+ + L +P+G +
Sbjct: 110 IEEGADLGIVFMDTGGYLNMCGHNSIAAVTAAVETGIVS--VPAKATNVPVVLDTPAGLV 167
>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 = 30.2 bits (68), Expect = 1.2
Identities = 19/104 (18%), Positives = 38/104 (36%), Gaps = 12/104 (11%)
Query: 312 IVRLPEIVRLKNKYKAYLYVDEAHSIGALGPTGRGVTEY--FGIDPREVDILMGTYTKSF 369
+ +++ +A ++VD+A GA G D+++ + K
Sbjct: 158 LENFKKVINTAKNKEAIVFVDDA--SGARVRLLFNQPPALKLG-----ADLVVTSTDKLM 210
Query: 370 GS-MGGYVAGSKSTIDYIRANSHVRSYATSMPPPVAMQILTSMR 412
GG +AG K +D I + PP+ I +++
Sbjct: 211 EGPRGGLLAGKKELVDKIY--IEGTKFGLEAQPPLLAGIYRALK 252
>1brw_A PYNP, protein (pyrimidine nucleoside phosphorylase); domain
movement, transferase; HET: MES; 2.10A {Geobacillus
stearothermophilus} SCOP: a.46.2.1 c.27.1.1 d.41.3.1
Length = 433
Score = 29.2 bits (66), Expect = 2.9
Identities = 5/30 (16%), Positives = 14/30 (46%)
Query: 109 GENTGLCTERSKESVKQSGCALCSPSGEIA 138
G + + + V ++G A+ +G++
Sbjct: 129 GFHVEISKDEFIRLVNENGIAIIGQTGDLT 158
>2dsj_A Pyrimidine-nucleoside (thymidine) phosphorylase;
pyrimidine-nucleoside phosphorylase, structural
genomics; 1.80A {Thermus thermophilus}
Length = 423
Score = 28.8 bits (65), Expect = 3.3
Identities = 5/30 (16%), Positives = 12/30 (40%)
Query: 109 GENTGLCTERSKESVKQSGCALCSPSGEIA 138
G + E ++ G + + S ++A
Sbjct: 128 GWRGEMTEAEFLERARRVGLVIAAQSPDLA 157
>3iax_B Colicin-A; TOLB, TOLB BOX, complex, protein transport, trans
antibiotic, antimicrobial, bacteriocin, cell membrane,
MEMB transmembrane; 2.60A {Citrobacter freundii}
Length = 115
Score = 27.5 bits (60), Expect = 4.0
Identities = 17/80 (21%), Positives = 33/80 (41%), Gaps = 3/80 (3%)
Query: 237 LASYNYLGFGENTGLCTERSKESVKQSGCALCSPSAPSSLEAGLQKA---LLEGQPHSGK 293
+ +NY G G+ TG +ER G S + + +++
Sbjct: 1 MPGFNYGGKGDGTGWSSERGSGPEPGGGSHGNSGGHDRGDSSNVGNESVTVMKPGDSYNT 60
Query: 294 PWRKILIVVEGIFSMDGSIV 313
PW K++I G +M+G+++
Sbjct: 61 PWGKVIINAAGQPTMNGTVM 80
>1vp8_A Hypothetical protein AF0103; putative pyruvate kinase, structural
genomics, joint center structural genomics, JCSG; HET:
MSE FMN; 1.30A {Archaeoglobus fulgidus} SCOP: c.49.1.2
Length = 201
Score = 28.4 bits (63), Expect = 4.2
Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 3/55 (5%)
Query: 110 ENTGLCTERSKESVKQSGCA---LCSPSGEIASMLSKGASKSNILFQAHTNGFAN 161
ENT + E K+ G + S G+ A + A ++ + GF
Sbjct: 26 ENTEETLRLAVERAKELGIKHLVVASSYGDTAMKALEMAEGLEVVVVTYHTGFVR 80
>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 = 27.6 bits (60), Expect = 5.1
Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 5/26 (19%)
Query: 317 EIVRLKNKYKAYLYVDE---AHSIGA 339
+ +L+ K LY D+ A +I A
Sbjct: 21 ALKKLQASLK--LYADDSAPALAIKA 44
Score = 27.6 bits (60), Expect = 5.2
Identities = 5/27 (18%), Positives = 13/27 (48%), Gaps = 2/27 (7%)
Query: 380 KSTIDYIRANSHVRSYATSMPPPVAMQ 406
K + + + ++ YA P +A++
Sbjct: 19 KQALK--KLQASLKLYADDSAPALAIK 43
>2dm1_A Protein VAV-2; RHO family guanine nucleotide exchange factor,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 73
Score = 26.1 bits (58), Expect = 5.2
Identities = 6/17 (35%), Positives = 8/17 (47%)
Query: 70 PGAIITIKDRETPDYGW 86
G ++ I R D GW
Sbjct: 28 EGDVVRIYSRIGGDQGW 44
Score = 26.1 bits (58), Expect = 5.2
Identities = 6/17 (35%), Positives = 8/17 (47%)
Query: 207 PGAIITIKDRETPDYGW 223
G ++ I R D GW
Sbjct: 28 EGDVVRIYSRIGGDQGW 44
>3h5q_A PYNP, pyrimidine-nucleoside phosphorylase; structural genomics,
glycosyltransferase, transferase; HET: MSE THM; 1.94A
{Staphylococcus aureus}
Length = 436
Score = 28.4 bits (64), Expect = 5.4
Identities = 5/30 (16%), Positives = 12/30 (40%)
Query: 109 GENTGLCTERSKESVKQSGCALCSPSGEIA 138
G + + + V ++ A+ SG +
Sbjct: 132 GFHVEIDEATFVKLVNENKVAVVGQSGNLT 161
>2cjl_A Chitinase G, secreted chitinase; hydrolase, plant enzymes; 1.5A
{Streptomyces coelicolor}
Length = 204
Score = 27.8 bits (61), Expect = 5.6
Identities = 16/88 (18%), Positives = 31/88 (35%)
Query: 103 YNYLGFGENTGLCTERSKESVKQSGCALCSPSGEIASMLSKGASKSNILFQAHTNGFANG 162
+NY G+ G+ + + V+ + + + + + GF
Sbjct: 103 FNYKAAGDALGIDLLNNPDLVQNDSAVAWKTGLWYWNTQTGPGTMTPHDAMVNGAGFGET 162
Query: 163 ISKSNGLLSSNGGYPDLYEKFVLFYSRY 190
I NG L +GG P + + Y R+
Sbjct: 163 IRSINGSLECDGGNPGQVQSRIDNYERF 190
>2tpt_A Thymidine phosphorylase; transferase, salvage pathway; 2.60A
{Escherichia coli} SCOP: a.46.2.1 c.27.1.1 d.41.3.1 PDB:
1azy_A 1tpt_A 1otp_A
Length = 440
Score = 28.1 bits (63), Expect = 5.6
Identities = 7/30 (23%), Positives = 13/30 (43%)
Query: 109 GENTGLCTERSKESVKQSGCALCSPSGEIA 138
G + R +E +K G A+ + +A
Sbjct: 132 GFDIFPDDNRFREIIKDVGVAIIGQTSSLA 161
>2z37_A Chitinase; family 19, conformational changes, hydrolase; 1.53A
{Brassica juncea} PDB: 2z38_A 2z39_A
Length = 244
Score = 27.9 bits (61), Expect = 5.9
Identities = 18/100 (18%), Positives = 33/100 (33%), Gaps = 12/100 (12%)
Query: 103 YNYLGFGENTGLCTERSKESVKQSG-----CAL---CSPSGEIAS----MLSKGASKSNI 150
YNY G + GL ++ + A+ +P S + + +
Sbjct: 124 YNYGPCGRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPSAAD 183
Query: 151 LFQAHTNGFANGISKSNGLLSSNGGYPDLYEKFVLFYSRY 190
+ G+ + NG L G + + FY+RY
Sbjct: 184 ISAGRLPGYGVITNIINGGLECAGRDVAKVQDRISFYTRY 223
>3hvy_A Cystathionine beta-lyase family protein, YNBB B.S ortholog;
NP_348457.1, putative cystathionine beta-lyase involved
in A resistance; HET: LLP MSE; 2.00A {Clostridium
acetobutylicum}
Length = 427
Score = 28.2 bits (63), Expect = 5.9
Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 6/59 (10%)
Query: 350 YFGIDPREV--DILMGTYTKSFG----SMGGYVAGSKSTIDYIRANSHVRSYATSMPPP 402
+P +V DI+ G+ K+ G + GGY+AG + + V
Sbjct: 225 VEEKEPTDVGADIIAGSLIKNIGGGIATTGGYIAGKEEYVTQATFRVTVPGIGGECGST 283
>3lxq_A Uncharacterized protein VP1736; alkaline, phosphatase, MDOB,
sulfatase, PSI, MCSG, structural genomics; 1.95A {Vibrio
parahaemolyticus}
Length = 450
Score = 28.3 bits (63), Expect = 6.2
Identities = 9/44 (20%), Positives = 17/44 (38%), Gaps = 3/44 (6%)
Query: 146 SKSNILFQAHTNGFANGISKSNGLLSSNGGYPDLYEKFVLFYSR 189
+ F T +A G G+ + G+P + V+ S+
Sbjct: 117 MQEGWQF---TQMYATGTRSVRGIEAVTTGFPPSPSRAVVKLSK 157
>4adn_A FAR1; antibiotic resistance; 1.65A {Staphylococcus aureus} PDB:
4ado_A
Length = 222
Score = 27.6 bits (61), Expect = 6.9
Identities = 5/31 (16%), Positives = 12/31 (38%)
Query: 118 RSKESVKQSGCALCSPSGEIASMLSKGASKS 148
V + C +C+ ++ + K + S
Sbjct: 156 EISNQVVKGFCTICNKESNVSLFMKKSKTNS 186
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 0.136 0.409
Gapped
Lambda K H
0.267 0.0571 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,584,286
Number of extensions: 398165
Number of successful extensions: 990
Number of sequences better than 10.0: 1
Number of HSP's gapped: 970
Number of HSP's successfully gapped: 45
Length of query: 430
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 334
Effective length of database: 4,021,377
Effective search space: 1343139918
Effective search space used: 1343139918
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 (21.7 bits)
S2: 59 (26.9 bits)