RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 046037
(388 letters)
>3p4e_A Phosphoribosylformylglycinamidine cyclo-ligase; structural
genomics, center for structural genomics of infec
diseases, csgid; HET: AMP CIT; 1.77A {Vibrio cholerae}
PDB: 1cli_A
Length = 349
Score = 554 bits (1429), Expect = 0.0
Identities = 167/343 (48%), Positives = 224/343 (65%), Gaps = 16/343 (4%)
Query: 56 SGSGSSTSGGLTYKDSGVDIDAGSELVRRIAKMA---------PGIGGFGGLFPLGDSY- 105
S + S + L+YKD+GVDIDAG+ LV RI G+GGFG L L Y
Sbjct: 1 SNAMSGNNPSLSYKDAGVDIDAGNALVERIKGAVKRTRRPEVMGGLGGFGALCELPTKYK 60
Query: 106 ---LVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSHLEV 162
LV+GTDGVGTKL+LA + HDTIGIDLVAM VND++ GA+PLFFLDY+AT L+V
Sbjct: 61 HPVLVSGTDGVGTKLRLALDMKKHDTIGIDLVAMCVNDLIVQGAEPLFFLDYYATGKLDV 120
Query: 163 DLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIV 222
D A +VI GI DGC Q+ C L+GGETAEMP Y +YD++GF VG+V+K+ +IDG +
Sbjct: 121 DTAAEVISGIADGCLQAGCALIGGETAEMPGMYEGEDYDVAGFCVGVVEKEEIIDGSKVQ 180
Query: 223 PGDVLIGLPSSGVHSNGFSLVRRVLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLD 282
GD LI + SSG HSNG+SLVR++L S ++L T+GE L+APT IY+K L
Sbjct: 181 VGDALIAVGSSGPHSNGYSLVRKILEVSKADKNERLA--GKTIGEHLLAPTKIYIKSGLK 238
Query: 283 IISEGGVKGIAHITGGGFTDNIPRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMR 342
+I+E + I+HITGGGF +NIPRV P+G AVI SW+ P +F+W+Q+ G + EM
Sbjct: 239 LIAEHDIHAISHITGGGFWENIPRVLPEGTKAVIDGKSWEWPVIFQWLQEKGNVTTHEMY 298
Query: 343 RTFNMGIGMVLVVSKETSHTILEGGCGTYE-AYHIGEVVNGEG 384
RTFN G+G+++ + K+ ++ + E A+ IGE+
Sbjct: 299 RTFNCGVGLIIALPKDQANAAVALLQAEGETAWVIGEIAAANS 341
>2btu_A Phosphoribosyl-aminoimidazole synthetase; synthase, PURM, de novo
purine biosynthesis, AIR synthase family, spine, FGAR
amidotransferase; 2.31A {Bacillus anthracis}
Length = 346
Score = 551 bits (1422), Expect = 0.0
Identities = 169/340 (49%), Positives = 218/340 (64%), Gaps = 16/340 (4%)
Query: 65 GLTYKDSGVDIDAGSELVRRIAKMA---------PGIGGFGGLFPLG-----DSYLVAGT 110
YK +GVDI+AG E V R+ K G+GGFGG+F L + LV+GT
Sbjct: 2 ANAYKQAGVDIEAGYEAVSRMKKHVQTTMRKEVLGGLGGFGGMFDLSKFALEEPVLVSGT 61
Query: 111 DGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIK 170
DGVGTKL LAF HDTIGID VAM VNDIV GA+PLFFLDY A E E ++K
Sbjct: 62 DGVGTKLMLAFMADKHDTIGIDAVAMCVNDIVVQGAEPLFFLDYIACGKAEPSKIENIVK 121
Query: 171 GIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLIGL 230
GI +GC+Q+ C L+GGETAEMP Y+ EYDL+GF VGIV K ++ G+ I G VLIGL
Sbjct: 122 GISEGCRQAGCALIGGETAEMPGMYSTEEYDLAGFTVGIVDKKKIVTGEKIEAGHVLIGL 181
Query: 231 PSSGVHSNGFSLVRRVLAQSDLSLKDQLPSE-NTTLGEALMAPTVIYVKQVLDIISEGGV 289
SSG+HSNG+SLVR+VL + D++ LGE L+ PT IYVK +L+++ V
Sbjct: 182 ASSGIHSNGYSLVRKVLLEDGELSLDRIYGRLELPLGEELLKPTKIYVKPILELLKNHEV 241
Query: 290 KGIAHITGGGFTDNIPRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMRRTFNMGI 349
G+AHITGGGF +NIPR+ P+G+GA I SWK+ +F +Q+ G++E+ EM FNMGI
Sbjct: 242 YGMAHITGGGFIENIPRMLPEGIGAEIELGSWKIQPIFSLLQEVGKLEEKEMFNIFNMGI 301
Query: 350 GMVLVVSKETSHTILEGGCGTYE-AYHIGEVVNGEGVSYS 388
GMV+ V +E + I+ E A IG V G GV+++
Sbjct: 302 GMVVAVKEEDAKDIVRLLEEQGETARIIGRTVQGAGVTFN 341
>2z01_A Phosphoribosylformylglycinamidine cyclo-ligase; alpha and beta
proteins, cytoplasm, purine biosynthesis, structural
genomics, NPPSFA; 2.20A {Geobacillus kaustophilus}
Length = 348
Score = 546 bits (1409), Expect = 0.0
Identities = 166/340 (48%), Positives = 218/340 (64%), Gaps = 16/340 (4%)
Query: 65 GLTYKDSGVDIDAGSELVRRIAKMA---------PGIGGFGGLFPLG-----DSYLVAGT 110
YK +GVDI+AG + V + + GIGGFGGLF L L++GT
Sbjct: 4 AKAYKQAGVDIEAGYQAVALMKEHVQKTMRPEVLGGIGGFGGLFDLSALGYRQPVLISGT 63
Query: 111 DGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIK 170
DGVGTKLKLAF HDTIGID VAM VNDI+ GA+PLFFLDY A + ++K
Sbjct: 64 DGVGTKLKLAFLLDRHDTIGIDCVAMCVNDIIVQGAEPLFFLDYIACGKAVPEKIAAIVK 123
Query: 171 GIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLIGL 230
G+ DGC ++ C L+GGETAEMP Y EYDL+GFAVG+ +K+ +I G+ I GD L+GL
Sbjct: 124 GVADGCVEAGCALIGGETAEMPGMYDEDEYDLAGFAVGVAEKERLITGETIQAGDALVGL 183
Query: 231 PSSGVHSNGFSLVRRVLA-QSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGV 289
PSSG+HSNG+SLVRR++ Q+ LSL + + LGE L+ PT IY K + + +
Sbjct: 184 PSSGLHSNGYSLVRRIVFEQAKLSLDEIYEPLDVPLGEELLKPTRIYAKLLRSVRERFTI 243
Query: 290 KGIAHITGGGFTDNIPRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMRRTFNMGI 349
KG+AHITGGG +NIPR+ P G+GA I SW + +F ++++ G +E+ EM FNMGI
Sbjct: 244 KGMAHITGGGLIENIPRMLPPGIGARIQLGSWPILPIFDFLREKGSLEEEEMFSVFNMGI 303
Query: 350 GMVLVVSKETSHTILEGGCGTYE-AYHIGEVVNGEGVSYS 388
G+VL VS ET+ ++E E AY IGEV G GVS++
Sbjct: 304 GLVLAVSPETAAPLVEWLSERGEPAYIIGEVAKGAGVSFA 343
>3m84_A Phosphoribosylformylglycinamidine cyclo-ligase; alpha-beta fold,
csgid, ATP-binding, nucleotide-BIND purine biosynthesis;
HET: MSE AMP TRS; 1.70A {Francisella tularensis subsp}
PDB: 3qty_A*
Length = 350
Score = 545 bits (1408), Expect = 0.0
Identities = 142/349 (40%), Positives = 205/349 (58%), Gaps = 21/349 (6%)
Query: 60 SSTSGGLTYKDSGVDIDAGSELVRRIAKMA---------PGIGGFGGLFPLG-------D 103
S+ GL Y+D+GV+I+AG++ V R+ + G+G FG L+ L D
Sbjct: 1 SNAMAGLKYEDAGVNIEAGNQAVERMKQHVKKTFTQDVLTGLGSFGSLYSLKNIINNYDD 60
Query: 104 SYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSHLEVD 163
LV DGVGTK K+A G + +G DL + + NDIV GAKP+ FLDY A L+
Sbjct: 61 PVLVQSIDGVGTKTKVAVMCGKFENLGYDLFSAATNDIVVMGAKPITFLDYVAHDKLDPA 120
Query: 164 LAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVP 223
+ E+++KG+ C + L+GGETAEMP Y AGE D+ G GIV + +I+G+NI
Sbjct: 121 IMEELVKGMSKACAECGVSLVGGETAEMPGVYQAGEIDMVGVITGIVDRKRIINGENIKE 180
Query: 224 GDVLIGLPSSGVHSNGFSLVRRVLA-QSDLSLKDQLP-SENTTLGEALMAPTVIYVKQVL 281
GD++ GL SSG+H+NG+S R++ + D P E T+G+ L+ P + Y +
Sbjct: 181 GDIVFGLSSSGLHTNGYSFARKLFFDVAGNKHTDTYPELEGKTIGDVLLEPHINYTNIIH 240
Query: 282 DIISEG-GVKGIAHITGGGFTDNIPRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSE 340
D + G +KG+AHITGGGF +NIPRV P+GLGA I +DS+ PA+FK +Q+ G I + E
Sbjct: 241 DFLDNGVDIKGMAHITGGGFIENIPRVLPQGLGAQIDKDSFATPAIFKLMQRIGDISEFE 300
Query: 341 MRRTFNMGIGMVLVVSKETSHTILE--GGCGTYEAYHIGEVVNGEGVSY 387
M R+FNMGIGM ++ S++ + E + Y IG++ N V
Sbjct: 301 MYRSFNMGIGMTIIASQDQFDKMQELAKKHTNTKLYQIGKITNSGKVEI 349
>2v9y_A Phosphoribosylformylglycinamidine cyclo-ligase; multifunctional
enzyme, structural genomics consortium,
nucleotide-binding, purine biosynthesis; 2.10A {Homo
sapiens}
Length = 334
Score = 503 bits (1299), Expect = e-180
Identities = 154/303 (50%), Positives = 198/303 (65%), Gaps = 9/303 (2%)
Query: 91 GIGGFGGLFPLG-----DSYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSG 145
+GGF GLF L D L +GTDGVGTKLK+A HDTIG DLVAM VNDI+ G
Sbjct: 9 DLGGFAGLFDLKAAGFKDPLLASGTDGVGTKLKIAQLCNKHDTIGQDLVAMCVNDILAQG 68
Query: 146 AKPLFFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGF 205
A+PLFFLDYF+ L++ + E V+ GI C ++ C LLGGETAEMPD Y GEYDL+GF
Sbjct: 69 AEPLFFLDYFSCGKLDLSVTEAVVAGIAKACGKAGCALLGGETAEMPDMYPPGEYDLAGF 128
Query: 206 AVGIVKKDSVIDG-KNIVPGDVLIGLPSSGVHSNGFSLVRRVLAQSDLSLKDQLPSE--N 262
AVG +++D + + I GDV++G+ SSG+HSNGFSLVR+++A+S L P +
Sbjct: 129 AVGAMERDQKLPHLERITEGDVVVGIASSGLHSNGFSLVRKIVAKSSLQYSSPAPDGCGD 188
Query: 263 TTLGEALMAPTVIYVKQVLDIISEGGVKGIAHITGGGFTDNIPRVFPKGLGAVIYEDSWK 322
TLG+ L+ PT IY +L ++ G VK AHITGGG +NIPRV P+ LG + +W+
Sbjct: 189 QTLGDLLLTPTRIYSHSLLPVLRSGHVKAFAHITGGGLLENIPRVLPEKLGVDLDAQTWR 248
Query: 323 VPAVFKWIQQAGRIEDSEMRRTFNMGIGMVLVVSKETSHTILEGGCGTYE-AYHIGEVVN 381
+P VF W+QQ G + + EM RTFN G+G VLVVSKE + IL G E A+ IG VV
Sbjct: 249 IPRVFSWLQQEGHLSEEEMARTFNCGVGAVLVVSKEQTEQILRGIQQHKEEAWVIGSVVA 308
Query: 382 GEG 384
Sbjct: 309 RAE 311
>3kiz_A Phosphoribosylformylglycinamidine cyclo-ligase; STR genomics, joint
center for structural genomics, JCSG; 1.50A {Cytophaga
hutchinsonii atcc 33406}
Length = 394
Score = 404 bits (1040), Expect = e-140
Identities = 81/382 (21%), Positives = 142/382 (37%), Gaps = 67/382 (17%)
Query: 63 SGGLTYKDSGVDIDAGSELVRRIAKMAPGI--GGFGGLFPL-----GDSYLVAGTDGVGT 115
S Y GV ++ + I + GI F + P + + DG GT
Sbjct: 3 SSSDRYMQRGVSSQKE-DVHKAIKSIDKGIYPRAFCKIIPDILGGDPEYCNIMHADGAGT 61
Query: 116 KLKLAF-------ETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKV 168
K LA+ + + I D V M+++D++ GA L + + +V
Sbjct: 62 KSSLAYVYWKETGDISVWKGIAQDAVIMNIDDLICVGAVDNILLSS-TIGRNKNLIPGEV 120
Query: 169 IKGIVDGCQQS---------DCVLLGGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGK 219
+ I++G ++ GGETA++ D D + +K+ VI +
Sbjct: 121 LAAIINGTEEVLQMLRDNGIGIYSTGGETADVGDLVRTIIVDSTV--TCRMKRQDVISNE 178
Query: 220 NIVPGDVLIGLPS-----------SGVHSNGFSLVRRVLAQSDL---------------- 252
NI G+V++G S G+ SNG + R + + L
Sbjct: 179 NIKAGNVIVGFASYGQTSYETEYNGGMGSNGLTSARHDVFNNVLASKYPESFDPKVPENL 238
Query: 253 ------SLKDQLPSENTTLGEALMAPTVIYVKQVLDIISE--GGVKGIAHITGGGFTDNI 304
+L D + G+ +++PT Y + +II + G + G+ H +GGG T +
Sbjct: 239 VYSGEMNLTDPYLNVPLDAGKLVLSPTRTYAPLMKEIIHQYKGKLDGVVHCSGGGQTKVL 298
Query: 305 PRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMRRTFNMGIGMVLVVSKETSHTIL 364
+I ++ + VP +F+ IQ EM + FNMG + + + ++
Sbjct: 299 HF--TDATTHIIKDNLFDVPPLFQLIQGQSNTPWEEMYKVFNMGHRLEIYTDAAHAEGMI 356
Query: 365 E--GGCGTYEAYHIGEVVNGEG 384
EA IG V
Sbjct: 357 AIAKKFN-IEAKIIGRVEAPVA 377
>3mdo_A Putative phosphoribosylformylglycinamidine cyclo-; structural
genomics, joint center for structural genomics; HET: MSE
PGE P6G PG4; 1.91A {Parabacteroides distasonis}
Length = 389
Score = 385 bits (992), Expect = e-133
Identities = 83/380 (21%), Positives = 147/380 (38%), Gaps = 72/380 (18%)
Query: 67 TYKDSGVDI---DAGSELVRRIAKMAPG------IGGFGGLFPLGDSYLVAGTDGVGTKL 117
Y GV D + + + P GG + + DG GTK
Sbjct: 6 RYNLRGVSASKEDVHNAIKNIDKGIFPKAFCKIIPDILGGD---PEYCNIMHADGAGTKS 62
Query: 118 KLAF-------ETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIK 170
LA+ + + I D + M+++D++ GA + ++ + +VI
Sbjct: 63 SLAYMYWKETGDLSVWKGIAQDALIMNIDDLLCVGAVDNILVSS-TIGRNKLLVPGEVIS 121
Query: 171 GIVDGCQQ---------SDCVLLGGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNI 221
I++G + C GGETA++ D D + +K+ VID KNI
Sbjct: 122 AIINGTDELLAELREMGVGCYATGGETADVGDLVRTIIVDSTV--TCRMKRSDVIDNKNI 179
Query: 222 VPGDVLIGLPSSG-----------VHSNGFSLVRRVLAQSDL------------------ 252
GDV++GL SSG + SNG + R + L
Sbjct: 180 QGGDVIVGLASSGQATYEKEYNGGMGSNGLTSARHDVFSKYLAKKYPESYDAAVPKELVY 239
Query: 253 ----SLKDQLPSENTTLGEALMAPTVIYVKQVLDIISE--GGVKGIAHITGGGFTDNIPR 306
L D++ G+ +++PT Y + ++ + + G+ H +GG T +
Sbjct: 240 SGGLKLTDKIEELGIDAGKMVLSPTRTYAPVIKVLLDKLRSQIHGMVHCSGGAQTKVMHF 299
Query: 307 VFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMRRTFNMGIGMVLVVSKETSHTILE- 365
V K V ++ + +P +F+ IQ+ + SEM + FNMG M + ++ E + ++
Sbjct: 300 VENKR---VTKDNLFPIPPLFRTIQEQSGTDWSEMYKVFNMGHRMEIYIAPEHAEEVIGI 356
Query: 366 -GGCGTYEAYHIGEVVNGEG 384
G +A +G V +
Sbjct: 357 SKSFG-IDAQIVGFVEEADK 375
>2z1e_A Hydrogenase expression/formation protein HYPE; [NIFE] hydrogenase
maturation, ATPase, transferase; 1.55A {Thermococcus
kodakarensis} SCOP: d.79.4.1 d.139.1.1 PDB: 2z1f_A
Length = 338
Score = 70.8 bits (174), Expect = 7e-14
Identities = 43/219 (19%), Positives = 84/219 (38%), Gaps = 23/219 (10%)
Query: 82 VRRIAKMAPGIGGFGGLFPLGDSYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDI 141
++ + G P GD ++V DG K L F G IG V+ +VND+
Sbjct: 30 LKSAGGIGLDALDDGATIPFGDKHIVFTIDGHTVKP-LFFPGG---DIGRLAVSGTVNDL 85
Query: 142 VTSGAKPLFFLDYFAT-SHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEY 200
GA+P+ + L++++ ++V+K + + ++ ++ G+T + D
Sbjct: 86 AVMGAEPIALANSMIIGEGLDMEVLKRVLKSMDETAREVPVPIVTGDTKVVED----KIE 141
Query: 201 DLSGFAVGIVKKDSVIDGKNIVPGDVLIGLPSSGVHSNGFSLVRRVLAQSDLSLKDQLPS 260
+ GI + + GD ++ + G H R ++ + +L S
Sbjct: 142 -MFVITAGIGIAEHPVSDAGAKVGDAVLVSGTIGDHGIALMSHRE-----GIAFETELKS 195
Query: 261 ENTTLGEALMAPTVIYVKQVLDIISEGGVKGIAHITGGG 299
+ +AP VK V + I + + T G
Sbjct: 196 D--------VAPIWDVVKAVAETIGWENIHAMKDPTRAG 226
>3vti_C Hydrogenase maturation factor; transferase, carbamoyltransfer,
maturation of [NIFE]-hydroge nitrIle synthesis, iron;
2.56A {Thermoanaerobacter tengcongensis}
Length = 314
Score = 68.8 bits (169), Expect = 3e-13
Identities = 60/277 (21%), Positives = 107/277 (38%), Gaps = 55/277 (19%)
Query: 129 IGIDLVAMSVNDIVTSGAKPLFFLDYFATS-HLEVDLAEKVIKGIVDGCQQSDCVLLGGE 187
IG V +VND GAKPLF F V+ +K++K + + +++ ++ G+
Sbjct: 49 IGKLAVCGTVNDASMRGAKPLFLTAAFIIEEGFPVEDLKKIVKSMAEAAKEAGVKIVAGD 108
Query: 188 TAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI-----GLPSSGVHSNGFSL 242
T + + ++ +G++ + + + KN PGD+++ G V S L
Sbjct: 109 TKVVEKGSVDRIF-INTSGIGVLYEGANVSIKNAKPGDIVLISGTIGDHGMAVMSAREEL 167
Query: 243 VRRVLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGV-KGIAHITGGGFT 301
SD++ + L E LM +K + D GGV + + I+
Sbjct: 168 QFDTPIFSDVAPLNGLI-------EKLMTLG-EAIKVLRDPT-RGGVAEVLYEISKMS-- 216
Query: 302 DNIPRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMRRTFNM-GI---------GM 351
G+G IYE+ K+P ++ GI +
Sbjct: 217 ---------GVGIKIYEE--KLPV------------KESVKSACEFMGIDFLHLANEGKV 253
Query: 352 VLVVSKETSHTILE---GGCGTYEAYHIGEVVNGEGV 385
V+VV ++ + LE +A IGEV + + V
Sbjct: 254 VVVVERDYAEKALEIMKSHEYGKDAEIIGEVNDSKLV 290
>2rb9_A HYPE protein; hydrogenase maturation, dimer, enzyme, X- RAY
crystallography, structural genomics, BSGI; 2.00A
{Escherichia coli O157} PDB: 2i6r_A
Length = 334
Score = 66.2 bits (162), Expect = 3e-12
Identities = 61/334 (18%), Positives = 113/334 (33%), Gaps = 60/334 (17%)
Query: 77 AGSELVRRI----------AKMAPGIGGFGGLFPLGDSYLVAGTDG-VGTKLKLAFETGI 125
+ +L+ + A+ L TD V L
Sbjct: 12 SMQQLINSLFMEAFANPWLAEQEDQARLDLAQLVAEGDRLAFSTDSYVIDPLFFPGGN-- 69
Query: 126 HDTIGIDLVAMSVNDIVTSGAKPLFFLDYFA-TSHLEVDLAEKVIKGIVDGCQQSDCVLL 184
IG + + ND+ SGA P + F L ++ + V+ + + + + ++
Sbjct: 70 ---IGKLAICGTANDVAVSGAIPRYLSCGFILEEGLPMETLKAVVTSMAETARTAGIAIV 126
Query: 185 GGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI--GLPSSGVHSNGFSL 242
G+T + AA + ++ +G + + + + GD+L+ G G H G ++
Sbjct: 127 TGDTKVVQR-GAADKLFINTAGMGAIPTNIHWGAQTLTAGDILLVSGTL--GDH--GATI 181
Query: 243 VRRVLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGV-KGIAHITGGGFT 301
+ + L L +L S+ L + I + L + GGV +
Sbjct: 182 ---LNLREQLGLDGELVSDCAVLTPLIQTLRDIPGVKALRDATRGGVNAVVHEFAAAC-- 236
Query: 302 DNIPRVFPKGLGAVIYEDSWKV-PAVFKWIQQAGR-----IEDSEMRRTFNMGIGMVLVV 355
G G I E + V PAV + G + + +V+ V
Sbjct: 237 ---------GCGIEISESALPVKPAVRGVCELLGLDALNFANEGK----------LVIAV 277
Query: 356 SKETSHTILE----GGCGTYEAYHIGEVVNGEGV 385
+ + +L G +A IGEVV +GV
Sbjct: 278 ERNAAEQVLAALHSHPLGK-DAALIGEVVERKGV 310
>2z1u_A Hydrogenase expression/formation protein HYPE; alpha-beta fold,
beta barrel, lyase; HET: ATP; 2.00A {Desulfovibrio
vulgaris subsp} PDB: 2z1t_A*
Length = 343
Score = 63.1 bits (154), Expect = 3e-11
Identities = 44/244 (18%), Positives = 81/244 (33%), Gaps = 41/244 (16%)
Query: 91 GIGGFGGLFPLGDSYLVAGTDGVGTKLKLAFETGIH---DTIGIDLVAMSVNDIVTSGAK 147
G L ++ TD I IG V +VND+ GA+
Sbjct: 37 GTLNDAARLDLTGPLAMS-TDSY-------TVDPIFFPGGDIGTLAVHGTVNDVSMLGAR 88
Query: 148 PLFFLDYFATS-HLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFA 206
P + F L++D+ E+V+ + +++ ++ G+T +P + ++
Sbjct: 89 PRYLSCGFILEEGLDMDILERVVASMGKAAREAGVFIVTGDTKVVPRGACDKMF-INTTG 147
Query: 207 VGIVKKDSVIDGKNIVPGDVLI-----GLPSSGVHSNGFSLVRRVLAQSDLSLKDQLPSE 261
+G + D G PGD ++ G + S L SD + +++
Sbjct: 148 IGEILVDPAPSGDRARPGDAILISGSMGDHGLTILSQRQGLNFAADVCSDSASLNRVV-- 205
Query: 262 NTTLGEALMAPTVIYVKQVLDIISEGGVKG-IAHITGGGFTDNIPRVFPKGLGAVIYEDS 320
E L+ V + + D GG+ + I G + E
Sbjct: 206 -----EKLVLE-VGDIHVLRDPT-RGGLATTLNEIAGQS-----------QAVCHVLET- 246
Query: 321 WKVP 324
VP
Sbjct: 247 -AVP 249
>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 = 51.0 bits (121), Expect = 5e-07
Identities = 53/366 (14%), Positives = 114/366 (31%), Gaps = 84/366 (22%)
Query: 8 NTELSSRFFASKLNPTNNVLLN-CAYECKLPFLSMASRRVSVNRCVLSMSGSGSSTSGGL 66
E+ +F L L++ E + P + +R + +
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR----LYNDNQVFA--- 127
Query: 67 TYKDSGVDIDAGSELVRRIAKMAP-------GIGGFGGLFPLGDSYLVAGT--DGVGTKL 117
K + + +L + + ++ P G+ G G +++ K+
Sbjct: 128 --KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS------GKTWVALDVCLS---YKV 176
Query: 118 KLAFETGIH-DTIG----IDLVAMSVNDIVTSGAKPLFFL-DYFATSHLEVDLAEKVIKG 171
+ + I + + V + ++ D+ + L + + ++
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236
Query: 172 IVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAVG----IVKKD-SVIDG-KNIVPGD 225
++ +C+L+ + + A ++ F + + + V D
Sbjct: 237 LLKSKPYENCLLV------LLNVQNAKAWN--AFNLSCKILLTTRFKQVTDFLSAATTTH 288
Query: 226 VLIGLPSSGV-HSNGFSLVRRVLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDII 284
+ + S + SL+ + L D +D LP E T P + L II
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYL---DCRPQD-LPREVLTT-----NP------RRLSII 333
Query: 285 SEGGVKGIAHITGGGFTDNIPRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMRRT 344
+E G+A DN V L +I E S V +E +E R+
Sbjct: 334 AESIRDGLATW------DNWKHVNCDKLTTII-ESSLNV------------LEPAEYRKM 374
Query: 345 F-NMGI 349
F + +
Sbjct: 375 FDRLSV 380
>2yyd_A Selenide, water dikinase; FULL-length selenophosphate synthetase,
structural genomics, NPPSFA; 1.98A {Aquifex aeolicus}
PDB: 2yye_A* 2zod_A 2zau_A
Length = 345
Score = 45.1 bits (107), Expect = 2e-05
Identities = 23/94 (24%), Positives = 41/94 (43%), Gaps = 8/94 (8%)
Query: 137 SVNDIVTSGAKPLFFLDY--FATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDF 194
+++D+ G P+ L F L++++ +VI+G +D +++ VLLGG T +
Sbjct: 89 ALSDVYAMGGIPVNALAISCFNNCELDIEIFREVIRGALDKLREAKTVLLGGHTIDDK-- 146
Query: 195 YAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI 228
E GI + I G +LI
Sbjct: 147 ----EPKFGLSVAGICPEGKYITQSGAQVGQLLI 176
>3fd5_A Selenide, water dikinase 1; selenophosphate synthetase, SELD,
ATP-binding, nucleotide-binding, selenium, transferase;
HET: AP2; 1.90A {Homo sapiens} PDB: 3fd6_A*
Length = 394
Score = 44.9 bits (106), Expect = 2e-05
Identities = 42/274 (15%), Positives = 84/274 (30%), Gaps = 44/274 (16%)
Query: 137 SVNDIVTSGAKP------LFFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAE 190
++D+ G L + T + +I+G D +++ + GG+T
Sbjct: 109 VLSDLYAMGVTECDNMLMLLGVSNKMTDRERDKVMPLIIQGFKDAAEEAGTSVTGGQTVL 168
Query: 191 MPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI-----GLPSSGVHSNGFSLVRR 245
P L G A + + + I N VPGDVL+ G + V +
Sbjct: 169 NP------WIVLGGVATTVCQPNEFIMPDNAVPGDVLVLTKPLG---TQVAVAVHQWLDI 219
Query: 246 VLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGVKGIAHITGGGF---TD 302
+ + L EA+M + + ++ ITG G
Sbjct: 220 PEKWNKIKLVVTQEDVELAYQEAMMNMARL-NRTAAGLMHTFNAHAATDITGFGILGHAQ 278
Query: 303 NIPRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMRRTFNMGI-------GMVLVV 355
N+ + + +P + + + + M G+++ +
Sbjct: 279 NLAK--QQRNEVSFVIH--NLP----VLAKMAAVSKACGNMFGLMHGTCPETSGGLLICL 330
Query: 356 SKETSHTILE-----GGCGTYEAYHIGEVVNGEG 384
+E + ++A+ IG V G
Sbjct: 331 PREQAARFCAEIKSPKYGEGHQAWIIGIVEKGNR 364
>3u0o_A Selenide, water dikinase; ATP binding protein, selenophosphate
synthesis, transferase; 2.25A {Escherichia coli}
Length = 347
Score = 41.7 bits (98), Expect = 3e-04
Identities = 22/94 (23%), Positives = 38/94 (40%), Gaps = 8/94 (8%)
Query: 137 SVNDIVTSGAKPLFFLDY--FATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDF 194
+++DI G KP+ + + + L ++A +V +G C+Q+ L GG + + P
Sbjct: 88 AISDIFAMGGKPIMAIAILGWPINKLSPEIAREVTEGGRYACRQAGIALAGGHSIDAP-- 145
Query: 195 YAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI 228
E GIV + V G L
Sbjct: 146 ----EPIFGLAVTGIVPTERVKKNSTAQAGCKLF 175
>3ac6_A Phosphoribosylformylglycinamidine synthase 2; purine metabolism,
ATP-binding, ligase, nucleotide-binding, biosynthesis;
HET: ADP; 2.35A {Thermus thermophilus} PDB: 3viu_A*
Length = 725
Score = 39.2 bits (92), Expect = 0.002
Identities = 18/97 (18%), Positives = 38/97 (39%), Gaps = 15/97 (15%)
Query: 140 DIVTSGAKPLFFLDYFATSHLEVD----LAEKVIKGIVDGCQQSDCVLLGGETAEMPDFY 195
DI++ GA+P+ LD E L + V+ GI +GG+ F+
Sbjct: 109 DIMSMGARPIALLDSLRFGPPEEARSRYLLKGVVSGIAFYGNAIGVPTVGGDLY----FH 164
Query: 196 AAGEYD----LSGFAVGIVKKDSVIDGKNIVPGDVLI 228
Y ++ +G+++++ + + G +
Sbjct: 165 E--GYRENPLVNAMCLGLLREEHLKRSR-ASLGRPIY 198
>1vk3_A Phosphoribosylformylglycinamidine synthase II; TM1246, structural
genomics, JCSG, PSI, protein structure initiative; 2.15A
{Thermotoga maritima} SCOP: d.79.4.1 d.79.4.1 d.139.1.1
d.139.1.1 PDB: 3d54_A* 2hs3_A* 2hs0_A* 2hs4_A* 2hru_A*
2hry_A*
Length = 615
Score = 38.5 bits (90), Expect = 0.003
Identities = 21/97 (21%), Positives = 38/97 (39%), Gaps = 22/97 (22%)
Query: 140 DIVTSGAKPLFFLD--YFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDF--- 194
D++ GA+P D + + + + +I+GI D +GGE +
Sbjct: 106 DVLAMGARPTAIFDSLHMS------RIIDGIIEGIADYGNSIGVPTVGGELRISSLYAHN 159
Query: 195 ---YAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI 228
A G+V+ D ++D K PG V++
Sbjct: 160 PLVNV--------LAAGVVRNDMLVDSKASRPGQVIV 188
Score = 28.8 bits (65), Expect = 3.9
Identities = 12/57 (21%), Positives = 23/57 (40%), Gaps = 4/57 (7%)
Query: 134 VAMSVNDIVTSGAKPLFFLDYF---ATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGE 187
V SV ++ GA+PL + V L+ ++ + + C+ S + G
Sbjct: 435 VLESVRKTLSVGAEPLAITNCVNYGDPDVDPVGLSA-MMTALKNACEFSGVPVASGN 490
>2yxz_A Thiamin-monophosphate kinase; alpha/beta structure, transferase;
1.90A {Thermus thermophilus}
Length = 311
Score = 37.5 bits (88), Expect = 0.005
Identities = 25/123 (20%), Positives = 43/123 (34%), Gaps = 22/123 (17%)
Query: 80 ELVRRIAKMAP------GIGGFGGLFPLGDSYLVAGTDGVGTKLKLAFETGIH------- 126
L+ R+A + G G + TD F
Sbjct: 10 ALLARLAPLGYPPEAPLPPGDDAGGVWAEGRAWLLKTD--------GFLYREVALKGMGP 61
Query: 127 DTIGIDLVAMSVNDIVTSGAKPLFF-LDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLG 185
+G VA + +D++ +PL F L F LE ++++G + ++ LLG
Sbjct: 62 FEVGFRGVAATASDLLAKMGRPLGFTLGLFLPEDLEEGFVLELVRGAAEAAKRLGAFLLG 121
Query: 186 GET 188
G+T
Sbjct: 122 GDT 124
>3c9u_A Thiamine monophosphate kinase; beta barrel, alpha-beta structure,
transferase; HET: TPP ADP; 1.48A {Aquifex aeolicus}
SCOP: d.79.4.1 d.139.1.1 PDB: 3c9r_A* 3c9t_A* 3c9s_A*
1vqv_A
Length = 342
Score = 36.4 bits (85), Expect = 0.012
Identities = 26/119 (21%), Positives = 46/119 (38%), Gaps = 18/119 (15%)
Query: 80 ELVRRIAKMAP--GIGGFGGLFPLGDSYLVAGTDGVGTKLKLAFETGIH-------DTIG 130
L+ I K IG L+ TD + E G+H + +G
Sbjct: 46 GLIDLIKKTLESKVIGDDTAPVEYCSKKLLLTTD-------VLNE-GVHFLRSYIPEAVG 97
Query: 131 IDLVAMSVNDIVTSGAKPLFFLDYFATS-HLEVDLAEKVIKGIVDGCQQSDCVLLGGET 188
++++V+D++ +G P + L LEV E+ G+ C+ C ++GG
Sbjct: 98 WKAISVNVSDVIANGGLPKWALISLNLPEDLEVSYVERFYIGVKRACEFYKCEVVGGNI 156
>3mcq_A Thiamine-monophosphate kinase; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: MSE PGE PG4 1PE; 1.91A {Methylobacillus
flagellatus}
Length = 319
Score = 35.6 bits (83), Expect = 0.019
Identities = 20/96 (20%), Positives = 31/96 (32%), Gaps = 15/96 (15%)
Query: 132 DLVAMSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEM 191
D+ AM GA+P + A + D K G Q D L+GG+T
Sbjct: 72 DMAAM--------GAQPRWATLTIALPEADEDWISKFAAGFFACAAQFDIALIGGDT--- 120
Query: 192 PDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVL 227
G +S +G + + D +
Sbjct: 121 ----TRGPLTISVQIMGETPPGASLLRSTARADDDI 152
>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 = 33.1 bits (75), Expect = 0.083
Identities = 9/59 (15%), Positives = 21/59 (35%), Gaps = 21/59 (35%)
Query: 163 DLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAV----GIVKKDSVID 217
+L + C +C ++ + ++ G+ V G+V D ++D
Sbjct: 17 NLNIVLT------C--PEC---KVYPPKIVERFSEGDV------VCALCGLVLSDKLVD 58
>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 = 32.3 bits (73), Expect = 0.31
Identities = 31/181 (17%), Positives = 51/181 (28%), Gaps = 63/181 (34%)
Query: 234 GVHSNG--------FSLVRRVLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDIIS 285
G G + V ++D KD T G ++ LDI+
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKD-------TYGFSI-----------LDIVI 1666
Query: 286 EGGVKGIAHITG-GGFTDNIPRVFPKGLGAVIYED----SWKVPAVFKWIQQAGRI---- 336
V H G G + + A+I+E K +FK I +
Sbjct: 1667 NNPVNLTIHFGGEKG------KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR 1720
Query: 337 -EDSEMRRTFN----MGIGMVLVVSKETSHTILEGGCGTYEAY---H-IGEVVNGEGVSY 387
E + T + ++ K + G +A H +GE Y
Sbjct: 1721 SEKGLLSATQFTQPAL-----TLMEKAAFEDLKSKGLIPADATFAGHSLGE--------Y 1767
Query: 388 S 388
+
Sbjct: 1768 A 1768
>1p5d_X PMM, phosphomannomutase; alpha/beta protein, phosphohexomutase,
phosphoserine, enzyme complex, enzyme-metal complex,
isomerase; HET: SEP G1P; 1.60A {Pseudomonas aeruginosa}
SCOP: c.84.1.1 c.84.1.1 c.84.1.1 d.129.2.1 PDB: 1k35_A*
1p5g_X* 1pcj_X* 1pcm_X* 1k2y_X* 2h5a_X* 2h4l_X* 2fkf_A*
3rsm_A 3bkq_X* 3c04_A* 2fkm_X*
Length = 463
Score = 30.3 bits (69), Expect = 1.0
Identities = 22/97 (22%), Positives = 34/97 (35%), Gaps = 25/97 (25%)
Query: 72 GVDIDAGSELVRRIAKMAPGIGGFGGLF-PLGDSYLVAGTDG--VGTKLKLAFETGIHDT 128
G + A E I + G G+ + G DG G +L G+ D
Sbjct: 24 GDTLTA--ETAYWIGR------AIGSESLARGEPCVAVGRDGRLSGPELVKQLIQGLVDC 75
Query: 129 IGIDLVAMSVNDI--VTSGAKPLFFLDYFATSHLEVD 163
G V+D+ V + P+ Y+A + LE
Sbjct: 76 -GCQ-----VSDVGMVPT---PVL---YYAANVLEGK 100
>3zue_A VP1, capsid structural protein VP60; CAGE design, molecular switch,
protein engineering, structural polymorphism; 10.30A
{Rabbit hemorrhagic disease virus}
Length = 579
Score = 28.7 bits (63), Expect = 3.4
Identities = 13/65 (20%), Positives = 22/65 (33%), Gaps = 10/65 (15%)
Query: 62 TSGGLTYKDSGVDIDAGSELVRRIAKMAPGIGGFGGLFPLG---DSYLVAGTDGVGTKLK 118
+ GL+ + + G V ++ G +G D Y AGT + T +
Sbjct: 494 VTIGLSLNNYSSSLMPGQFFVWQLT-------FASGFMEIGLSVDGYFYAGTGALTTLID 546
Query: 119 LAFET 123
L
Sbjct: 547 LTELI 551
>1y80_A Predicted cobalamin binding protein; corrinoid, factor IIIM, methyl
transferase, structural genomics, PSI, protein structure
initiative; HET: B1M; 1.70A {Moorella thermoacetica}
Length = 210
Score = 27.6 bits (62), Expect = 6.4
Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 268 ALMAPTVIYVKQVLDIISEGGVKGIAHITGGGFTDNIPRVFPKGLGAVIY 317
AL+ T++ +K +D + G++ + GG + + F +GA Y
Sbjct: 147 ALLTTTMMNMKSTIDALIAAGLRDRVKVIVGGAP--LSQDFADEIGADGY 194
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 0.137 0.398
Gapped
Lambda K H
0.267 0.0447 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,022,469
Number of extensions: 388827
Number of successful extensions: 905
Number of sequences better than 10.0: 1
Number of HSP's gapped: 843
Number of HSP's successfully gapped: 47
Length of query: 388
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 293
Effective length of database: 4,049,298
Effective search space: 1186444314
Effective search space used: 1186444314
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: 58 (26.8 bits)