RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11993
(630 letters)
>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase,
protein-targeting, transport protein; HET: GDP; 1.97A
{Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*
Length = 328
Score = 272 bits (699), Expect = 7e-87
Identities = 115/327 (35%), Positives = 181/327 (55%), Gaps = 31/327 (9%)
Query: 302 AKKANGKANKGMFSLFRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVAL 361
K+ KG+ + + D+ L++++ L+ +VA ++ L + +
Sbjct: 27 EKEEEEVEKKGLLDRILTVEIKE----KDVDKALDELEIDLLEADVALEVVDALREKIKQ 82
Query: 362 KLEGKVLGTFESVANTVKSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNG 421
KL GK + ++ + +A+ +IL RR+D++ + +A+K P+V+ F G NG
Sbjct: 83 KLVGKKVRIGTDKGKIIEEAVKEAVSEILETSRRIDLIEEIRKAEK---PYVIMFVGFNG 139
Query: 422 VGKSTNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQ 481
GK+T +AK+ WL + +V+IAA DTFRAGA+EQL H R V+
Sbjct: 140 SGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQLEEH-------------AKRIGVK 186
Query: 482 LFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKVNQPDLLL 541
+ + YG DPA +A+ AI HA+ IDVVLIDTAGR + N LM + K+ +V +P+L++
Sbjct: 187 VIKHSYGADPAAVAYDAIQHAKARGIDVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVI 246
Query: 542 FVGEALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVGAAISMTYITG 601
FVG+AL GN V+Q +FN A+ IDGI+LTK D D + GAA+S++Y+
Sbjct: 247 FVGDALAGNAIVEQARQFNEAVK----------IDGIILTKLDA-DARGGAALSISYVID 295
Query: 602 QPIVFVGTGQTYTDLKSLNAKAVVNAL 628
PI+FVG GQ Y DL+ + + +
Sbjct: 296 APILFVGVGQGYDDLRPFEKEWFLERI 322
>2fh5_A Signal recognition particle receptor alpha subunit; endomembrane
targeting, GTPase, GAP, longin domain, SEDL, transport
protein; HET: GTP; 2.45A {Homo sapiens} SCOP: d.110.4.4
PDB: 2go5_1
Length = 185
Score = 196 bits (498), Expect = 2e-59
Identities = 100/177 (56%), Positives = 127/177 (71%), Gaps = 7/177 (3%)
Query: 1 MLDFFTIFSKGGIVLWYFQSASQIFTPSLNALIKSVILQERGGNQVFEHNGLVLKHKLDN 60
M+DFFTIFSKGG+VLW FQ S T +NALI+SV+LQERGGN F H L LK+KLDN
Sbjct: 10 MVDFFTIFSKGGLVLWCFQGVSDSCTGPVNALIRSVLLQERGGNNSFTHEALTLKYKLDN 69
Query: 61 EFDLVFVVGFQKILQLSYVDKLLDDVHLEFRDKYKNELGSDMHLY----DYDFESTYNVL 116
+F+LVFVVGFQKIL L+YVDKL+DDVH FRDKY+ E+ L +DF++ + L
Sbjct: 70 QFELVFVVGFQKILTLTYVDKLIDDVHRLFRDKYRTEIQQQSALSLLNGTFDFQNDFLRL 129
Query: 117 LKEAEEWSKVQACIPKQMRTFEESSKSKKTIASMIIDKNKK-EEKSVPSKKKGKAVE 172
L+EAEE SK++A P M+ FE+S K+KK + SMI + +K +EK+ SKKKG E
Sbjct: 130 LREAEESSKIRA--PTTMKKFEDSEKAKKPVRSMIETRGEKPKEKAKNSKKKGAKKE 184
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A* 3syn_A*
Length = 296
Score = 162 bits (411), Expect = 2e-45
Identities = 57/319 (17%), Positives = 110/319 (34%), Gaps = 47/319 (14%)
Query: 315 SLFRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKVLGTFESV 374
+ +G + +S + L K + L + + T E+V
Sbjct: 22 IPAQQELGDFSAYQSVLPEPLRKAEKLLQETGIKESTKTNTLKKLLRFSVEAGGLTEENV 81
Query: 375 ANTVKSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKIC-F 433
++ L D +L A + ++ + G G GK+T LAK+
Sbjct: 82 VGKLQEILCD-------------MLPSADKWQEPIHSKYIVLFGSTGAGKTTTLAKLAAI 128
Query: 434 WLIENNLNVLIAACDTFRAGAVEQLRTHVRHL-CSLHPAAKHGGREMVQLFEKGYGKDPA 492
++E + + DT+R AVEQL+T+ L L
Sbjct: 129 SMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVC-----------------YTKE 171
Query: 493 EIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKVNQPDLLLFVGEALVGNEA 552
E +A + D V +DTAGR + + L + + V A E
Sbjct: 172 EFQ-QAKELFSE--YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAKYED 228
Query: 553 VDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVGAAISMTYITGQPIVFVGTGQT 612
+ +VK +++ ++ + TK D +G+ ++ + + F+ GQ
Sbjct: 229 MKHIVKRFSSVP----------VNQYIFTKIDE-TTSLGSVFNILAESKIGVGFMTNGQN 277
Query: 613 YT-DLKSLNAKAVVNALMK 630
D+++++ V L +
Sbjct: 278 VPEDIQTVSPLGFVRMLCR 296
>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal
recognition particle, SRP-GTPase, protein targeting,
cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus
furiosus}
Length = 443
Score = 161 bits (409), Expect = 1e-43
Identities = 66/304 (21%), Positives = 138/304 (45%), Gaps = 40/304 (13%)
Query: 317 FRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKVLGT--FESV 374
+ + + ++ ++ +K ++ ++ LI AD+ V+L + +++ + L +
Sbjct: 14 LKKIARASSVDEALIKELVRDIQRALIQ----ADVNVRLVLQLTREIQRRALEEKPPAGI 69
Query: 375 --ANTVKSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKIC 432
+ + + L + L +A + + +P ++ G+ G GK+T +AK+
Sbjct: 70 SKKEHIIKIVYEELTKFLGT--------EAKPIEIKEKPTILLMVGIQGSGKTTTVAKLA 121
Query: 433 FWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQLFEKGYGKDPA 492
+ + V + DT+R GA QLR R +++F KD
Sbjct: 122 RYFQKRGYKVGVVCSDTWRPGAYHQLRQL-------------LDRYHIEVFGNPQEKDAI 168
Query: 493 EIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKVNQPDLLLFVGEALVGNEA 552
++A + + + +D++++DTAGR ++++ L+ + ++ V P ++ V + +G +A
Sbjct: 169 KLAKEGVDYFKSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQA 228
Query: 553 VDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVGAAISMTYITGQPIVFVGTGQT 612
+Q + F A I I++TK D K G A+S TG PI F+GTG+
Sbjct: 229 YNQALAFKEATP----------IGSIIVTKLDG-SAKGGGALSAVAATGAPIKFIGTGEK 277
Query: 613 YTDL 616
D+
Sbjct: 278 IDDI 281
>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A
{Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB:
1j8y_F
Length = 297
Score = 156 bits (396), Expect = 3e-43
Identities = 69/312 (22%), Positives = 128/312 (41%), Gaps = 53/312 (16%)
Query: 317 FRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKVLGTFESVAN 376
R + + ++ +++++ LI+ AD+ VKL S+ K++ ++
Sbjct: 11 VRKFLTGSSSYDKAVEDFIKELQKSLIS----ADVNVKLVFSLTNKIKERLKNE------ 60
Query: 377 TVKSTLT----------DALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKST 426
+ + D L + + + P+V+ GV G GK+T
Sbjct: 61 KPPTYIERREWFIKIVYDELSNLFGGDKE------PKVIPDKI-PYVIMLVGVQGTGKTT 113
Query: 427 NLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQLFEKG 486
K+ ++ + V + D +R A+EQL+ G + V ++ +
Sbjct: 114 TAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQ-------------LGQQIGVPVYGEP 160
Query: 487 YGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQ--DNEPLMRALAKLVKVNQPDLLLFVG 544
KD IA R + ++++++DTAGR + L+ + + + +PD + V
Sbjct: 161 GEKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVI 220
Query: 545 EALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVGAAISMTYITGQPI 604
+A +G +A D KFN A I I++TK D K G A+S TG I
Sbjct: 221 DASIGQKAYDLASKFNQASK----------IGTIIITKMDG-TAKGGGALSAVAATGATI 269
Query: 605 VFVGTGQTYTDL 616
F+GTG+ +L
Sbjct: 270 KFIGTGEKIDEL 281
>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP,
translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A
Length = 504
Score = 160 bits (407), Expect = 7e-43
Identities = 62/300 (20%), Positives = 134/300 (44%), Gaps = 31/300 (10%)
Query: 317 FRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKVLGTFESVAN 376
R L + + + + +L+++ L+ +V + +L ++V ++ + + + +
Sbjct: 14 LRSLSNATIINEEVLNAMLKEVCTALLEADVNIKLVKQLRENVKSAIDLEEMASGLNKRK 73
Query: 377 TVKSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKICFWLI 436
++ + LV+++ P + A K G+ V+ F G+ G GK+T +K+ ++
Sbjct: 74 MIQHAVFKELVKLVDPGVK------AWTPTK-GKQNVIMFVGLQGSGKTTTCSKLAYYYQ 126
Query: 437 ENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQLFEKGYGKDPAEIAF 496
+ DTFRAGA +QL+ + + + + DP IA
Sbjct: 127 RKGWKTCLICADTFRAGAFDQLKQN-------------ATKARIPFYGSYTEMDPVIIAS 173
Query: 497 RAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKVNQPDLLLFVGEALVGNEAVDQL 556
+ ++ + +++++DT+GR + + L + ++ QPD +++V +A +G Q
Sbjct: 174 EGVEKFKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEAQA 233
Query: 557 VKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVGAAISMTYITGQPIVFVGTGQTYTDL 616
F + + + +++TK D K G A+S T PI+F+GTG+ D
Sbjct: 234 KAFKDKVD----------VASVIVTKLDG-HAKGGGALSAVAATKSPIIFIGTGEHIDDF 282
>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase,
ultrahigh resolution, protein transport; 1.10A {Thermus
aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B*
1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B*
2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A
1ffh_A 2ng1_A*
Length = 295
Score = 153 bits (388), Expect = 4e-42
Identities = 69/206 (33%), Positives = 99/206 (48%), Gaps = 24/206 (11%)
Query: 411 PFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHP 470
+ G+ G GK+T AK+ + L+ A DT R A EQLR
Sbjct: 98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLL--------- 148
Query: 471 AAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAK 530
G + V + E G+ P I R AR D++L+DTAGR+Q +EPLM LA+
Sbjct: 149 ----GEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELAR 204
Query: 531 LVKVNQPDLLLFVGEALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKV 590
L +V PD +L V +A+ G EA+ F+ + + G+VLTK D D +
Sbjct: 205 LKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG----------VTGLVLTKLDG-DARG 253
Query: 591 GAAISMTYITGQPIVFVGTGQTYTDL 616
GAA+S ++TG+PI F G + L
Sbjct: 254 GAALSARHVTGKPIYFAGVSEKPEGL 279
>2og2_A Putative signal recognition particle receptor; nucleotide-binding,
protein transport; 2.00A {Arabidopsis thaliana}
Length = 359
Score = 154 bits (392), Expect = 5e-42
Identities = 83/376 (22%), Positives = 153/376 (40%), Gaps = 62/376 (16%)
Query: 277 EVESSSEEESSDDEEDVRAETSHVSAKKANGKANKGMFS-LFRGLVGSKNLTKSDMKPI- 334
+ ++++ + + K +F G ++ + +
Sbjct: 20 SPDLGTDDDDKAMACSAGPSGFFTRLGRLIKEKAKSDVEKVFSGFSKTRENLAVIDELLL 79
Query: 335 ----------LEKMKDHLIAKNVAADIAVKLCDSVALKLEGKVLGTFESVANTVKSTLTD 384
L+++++ L+ + I V++ + + + L + + +K L +
Sbjct: 80 FWNLAETDRVLDELEEALLVSDFGPKITVRIVERLREDIMSGKLKS----GSEIKDALKE 135
Query: 385 ALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLI 444
+++++L+ K L+ +P V+ GVNG GK+T+L K+ L VL+
Sbjct: 136 SVLEMLAKKNSKTELQLG-----FRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLM 190
Query: 445 AACDTFRAGAVEQL-----RTHVRHLCSLHPAAKHGGREMVQLFEKGYGKDPAEIAFRAI 499
AA DTFRA A +QL RT E+V +G A + +A+
Sbjct: 191 AAGDTFRAAASDQLEIWAERTGC---------------EIVV--AEGDKAKAATVLSKAV 233
Query: 500 SHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKV------NQPDLLLFVGEALVGNEAV 553
++ DVVL DT+GR+ N LM L K P+ +L V + G +
Sbjct: 234 KRGKEEGYDVVLCDTSGRLHTNYSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNML 293
Query: 554 DQLVKFNNAMADHSLSDNPHLIDGIVLTKFD-TIDDKVGAAISMTYITGQPIVFVGTGQT 612
Q +FN + I G++LTK D + + G +S+ G P+ F+G G+
Sbjct: 294 PQAREFNEVVG----------ITGLILTKLDGSA--RGGCVVSVVEELGIPVKFIGVGEA 341
Query: 613 YTDLKSLNAKAVVNAL 628
DL+ + +A VNA+
Sbjct: 342 VEDLQPFDPEAFVNAI 357
>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein
transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A
Length = 320
Score = 151 bits (385), Expect = 2e-41
Identities = 87/331 (26%), Positives = 142/331 (42%), Gaps = 41/331 (12%)
Query: 308 KANKGMFSLFRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKV 367
K+ + L + E+++D LI ++ + +K+ + + K
Sbjct: 13 KSAFNFSKDIKKLSKKYKQADDEF---FEELEDVLIQTDMGMKMVLKVSN----LVRKKT 65
Query: 368 LGTFESVANTVKSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTN 427
++ +K L ++L Q + + + K+ R + GVNG GK+T+
Sbjct: 66 --KRDTSFENIKDALVESLYQAYTDNDWTN--KKYRIDFKENRLNIFMLVGVNGTGKTTS 121
Query: 428 LAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQLFE-KG 486
LAK+ + E VLIAA DTFRAGA +QL K V L +
Sbjct: 122 LAKMANYYAELGYKVLIAAADTFRAGATQQLEEW----------IKTRLNNKVDLVKANK 171
Query: 487 YGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKV------NQPDLL 540
DPA + F AI A++ + D++LIDTAGR+Q+ LM L K+ K+ + P +
Sbjct: 172 LNADPASVVFDAIKKAKEQNYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEV 231
Query: 541 LFVGEALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFD-TIDDKVGAAISMTYI 599
L V +A G V Q +F+ + GI+LTK D T K G +++ +
Sbjct: 232 LLVIDATTGQNGVIQAEEFSKVAD----------VSGIILTKMDSTS--KGGIGLAIKEL 279
Query: 600 TGQPIVFVGTGQTYTDLKSLNAKAVVNALMK 630
PI +G G+ DL + + + L
Sbjct: 280 LNIPIKMIGVGEKVDDLLAFDIDQYIVHLSS 310
>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting,
simibi class GTPase, GTP-BIND membrane,
nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A
2xxa_B* 1fts_A
Length = 503
Score = 156 bits (395), Expect = 2e-41
Identities = 115/511 (22%), Positives = 194/511 (37%), Gaps = 72/511 (14%)
Query: 154 KNKKEEKSVPSKKKGKAVETKVEPVTPPSPVQNGDAGIEEDIIMINRQKLAMKMGSPKNK 213
K + EK + + VE V+ P + + + A + +
Sbjct: 18 KEQTPEKETEVQNEQPVVEEIVQAQEPVKASEQAVEEQPQAHTEAEAETFAADVVEVTEQ 77
Query: 214 TKPKTPKANAKEGKKPRIWELSGDQRDLSTLEYTKDKPSDSNALNITPDTHLVGKMVGGI 273
E + ++ P D NA ++P+ I
Sbjct: 78 VAESEKAQPEAEVVAQPEPVVEETPEPVAIEREELPLPEDVNAEAVSPEEWQAEAETVEI 137
Query: 274 KDLEVESSSEEESSDDEED------------------VRAETSHVSAKKANGKANKGMFS 315
+ E +++EE +D+E + + A++ +G F+
Sbjct: 138 VEAAEEEAAKEEITDEELETALAAEAAEEAVMVVPPAEEEQPVEEIAQEQEKPTKEGFFA 197
Query: 316 -LFRGLVGSKNLTKSDMKPI----------LEKMKDHLIAKNVAADIAVKLCDSVALKLE 364
L R L+ +K S + E++++ L+ +V + K+ ++
Sbjct: 198 RLKRSLLKTKENLGSGFISLFRGKKIDDDLFEELEEQLLIADVGVETTRKIITNLTEGAS 257
Query: 365 GKVLGTFESVANTVKSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGK 424
K L A + L + + +IL+ + PFV+ GVNGVGK
Sbjct: 258 RKQLRD----AEALYGLLKEEMGEILAKVDEPLNVEG-------KAPFVILMVGVNGVGK 306
Query: 425 STNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQLFE 484
+T + K+ + +V++AA DTFRA AVEQL+ G R + +
Sbjct: 307 TTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQV-------------WGQRNNIPVIA 353
Query: 485 KGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKV------NQPD 538
+ G D A + F AI A+ +IDV++ DTAGR+Q+ LM L K+V+V P
Sbjct: 354 QHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPH 413
Query: 539 LLLFVGEALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFD-TIDDKVGAAISMT 597
++ +A G AV Q F+ A+ + GI LTK D T K G S+
Sbjct: 414 EVMLTIDASTGQNAVSQAKLFHEAVG----------LTGITLTKLDGTA--KGGVIFSVA 461
Query: 598 YITGQPIVFVGTGQTYTDLKSLNAKAVVNAL 628
G PI ++G G+ DL+ A + AL
Sbjct: 462 DQFGIPIRYIGVGERIEDLRPFKADDFIEAL 492
>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS
protein structure initiative, PSI, joint center for
structu genomics; HET: CIT; 1.60A {Thermotoga maritima}
SCOP: a.24.13.1 c.37.1.10
Length = 306
Score = 151 bits (383), Expect = 3e-41
Identities = 91/330 (27%), Positives = 148/330 (44%), Gaps = 56/330 (16%)
Query: 308 KANKGMFSLFRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKV 367
K + F L+ K L E++++ LI +V + + + +LE K
Sbjct: 25 KTKETFFGRVVKLLKGKKLDDE----TREELEELLIQADVGVETTEYILE----RLEEKD 76
Query: 368 LGTFESVANTVKSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTN 427
+L + +++IL+ ++++ PFV+ GVNG GK+T+
Sbjct: 77 --------GDALESLKEIILEILNFDTKLNV--------PPEPPFVIMVVGVNGTGKTTS 120
Query: 428 LAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQLFEKGY 487
K+ ++ +V++AA DTFRA A+EQL+ G R +
Sbjct: 121 CGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKI-------------WGERVGATVISHSE 167
Query: 488 GKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKV------NQPDLLL 541
G DPA +AF A++HA + DVV+IDTAGR+ + LM L K+ +V + P L
Sbjct: 168 GADPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETL 227
Query: 542 FVGEALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFD-TIDDKVGAAISMTYIT 600
V +A G + Q F A+ + GI+LTK D T K G +++
Sbjct: 228 LVIDATTGQNGLVQAKIFKEAVN----------VTGIILTKLDGTA--KGGITLAIAREL 275
Query: 601 GQPIVFVGTGQTYTDLKSLNAKAVVNALMK 630
G PI F+G G+ DL+ + +A V L+
Sbjct: 276 GIPIKFIGVGEKAEDLRPFDPEAFVEVLLS 305
>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein
translocation, GTP-binding, nucleotide-binding, protein
transport; 1.75A {Arabidopsis thaliana}
Length = 302
Score = 150 bits (380), Expect = 6e-41
Identities = 82/333 (24%), Positives = 145/333 (43%), Gaps = 53/333 (15%)
Query: 308 KANKGMFSLFRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKV 367
K + + + L+ + L+++++ L+ + I V++ + + +
Sbjct: 9 KTRENLAVIDELLLFWNLAETDRV---LDELEEALLVSDFGPKITVRIVERLREDIMSGK 65
Query: 368 LGTFESVANTVKSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTN 427
L + + +K L ++++++L+ K L+ +P V+ GVNG GK+T+
Sbjct: 66 LKS----GSEIKDALKESVLEMLAKKNSKTELQLG-----FRKPAVIMIVGVNGGGKTTS 116
Query: 428 LAKICFWLIENNLNVLIAACDTFRAGAVEQL-----RTHVRHLCSLHPAAKHGGREMVQL 482
L K+ L VL+AA DTFRA A +QL RT E+V
Sbjct: 117 LGKLAHRLKNEGTKVLMAAGDTFRAAASDQLEIWAERTGC---------------EIVV- 160
Query: 483 FEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKV------NQ 536
+G A + +A+ ++ DVVL DT+GR+ N LM L K
Sbjct: 161 -AEGDKAKAATVLSKAVKRGKEEGYDVVLCDTSGRLHTNYSLMEELIACKKAVGKIVSGA 219
Query: 537 PDLLLFVGEALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFD-TIDDKVGAAIS 595
P+ +L V + G + Q +FN + I G++LTK D + + G +S
Sbjct: 220 PNEILLVLDGNTGLNMLPQAREFNEVVG----------ITGLILTKLDGSA--RGGCVVS 267
Query: 596 MTYITGQPIVFVGTGQTYTDLKSLNAKAVVNAL 628
+ G P+ F+G G+ DL+ + +A VNA+
Sbjct: 268 VVEELGIPVKFIGVGEAVEDLQPFDPEAFVNAI 300
>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding,
signal recognition particle, GTP-binding, RNA-binding;
2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B
Length = 432
Score = 153 bits (388), Expect = 7e-41
Identities = 72/305 (23%), Positives = 135/305 (44%), Gaps = 41/305 (13%)
Query: 317 FRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKVLGT--FESV 374
L + + K +K +++ ++ LI AD+ VKL ++ ++E + L + +
Sbjct: 12 LNKLKAAAFVDKKLIKEVIKDIQRALIQ----ADVNVKLVLKMSKEIERRALEEKTPKGL 67
Query: 375 --ANTVKSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKIC 432
+ + + LV++L + + LE + V+ G+ G GK+T AK+
Sbjct: 68 SKKEHIIKIVYEELVKLLGEEAK------KLELNPKK-QNVILLVGIQGSGKTTTAAKLA 120
Query: 433 FWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQLFEKGYG-KDP 491
++ + L + A DT+R A EQL+ + V ++ K P
Sbjct: 121 RYIQKRGLKPALIAADTYRPAAYEQLKQL-------------AEKIHVPIYGDETRTKSP 167
Query: 492 AEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKVNQPDLLLFVGEALVGNE 551
+I + + DV++IDTAGR ++ + L+ + ++ ++ PD ++ V + +G +
Sbjct: 168 VDIVKEGMEKFKKA--DVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ 225
Query: 552 AVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVGAAISMTYITGQPIVFVGTGQ 611
A Q F A+ + I I++TK D K G A+S T PI F+G G+
Sbjct: 226 AGIQAKAFKEAVGE---------IGSIIVTKLDG-SAKGGGALSAVAETKAPIKFIGIGE 275
Query: 612 TYTDL 616
DL
Sbjct: 276 GIDDL 280
>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M
domain, RNA-binding, signal sequence-binding,
helix-turn-helix, protein targeting; 3.20A {Thermus
aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB:
2iy3_A
Length = 425
Score = 152 bits (386), Expect = 2e-40
Identities = 69/206 (33%), Positives = 99/206 (48%), Gaps = 24/206 (11%)
Query: 411 PFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHP 470
+ G+ G GK+T AK+ + L+ A DT R A EQLR
Sbjct: 98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLL--------- 148
Query: 471 AAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAK 530
G + V + E G+ P I R AR D++L+DTAGR+Q +EPLM LA+
Sbjct: 149 ----GEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELAR 204
Query: 531 LVKVNQPDLLLFVGEALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKV 590
L +V PD +L V +A+ G EA+ F+ + + G+VLTK D D +
Sbjct: 205 LKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG----------VTGLVLTKLDG-DARG 253
Query: 591 GAAISMTYITGQPIVFVGTGQTYTDL 616
GAA+S ++TG+PI F G + L
Sbjct: 254 GAALSARHVTGKPIYFAGVSEKPEGL 279
>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition
particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A
{Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A
Length = 433
Score = 151 bits (385), Expect = 2e-40
Identities = 70/312 (22%), Positives = 132/312 (42%), Gaps = 53/312 (16%)
Query: 317 FRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKVLGTFESVAN 376
R + + + ++ ++ LI+ +D+ VKL S+ K++ ++
Sbjct: 10 VRKFLTGSTPYEKAVDEFIKDLQKSLIS----SDVNVKLVFSLTAKIKERLNKE------ 59
Query: 377 TVKSTLT----------DALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKST 426
S L D L ++ + ++ PF++ GV G GK+T
Sbjct: 60 KPPSVLERKEWFISIVYDELSKLFGGDKEPNVN-------PTKLPFIIMLVGVQGSGKTT 112
Query: 427 NLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQLFEKG 486
K+ ++ + V + A D +R A +QL G + VQ++ +
Sbjct: 113 TAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQL-------------GNQIGVQVYGEP 159
Query: 487 YGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNE--PLMRALAKLVKVNQPDLLLFVG 544
++P EIA + + +D++++DTAGR E L+ + ++ V +PD ++ V
Sbjct: 160 NNQNPIEIAKKGVDIFVKNKMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVI 219
Query: 545 EALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVGAAISMTYITGQPI 604
+A +G +A D +F+ A I +++TK D K G A+S TG I
Sbjct: 220 DASIGQKAYDLASRFHQASP----------IGSVIITKMDG-TAKGGGALSAVVATGATI 268
Query: 605 VFVGTGQTYTDL 616
F+GTG+ +L
Sbjct: 269 KFIGTGEKIDEL 280
>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer,
nucleotide twinning, protein complex, protein transport;
HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1
c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D
2iyl_D* 2cnw_D* 2j7p_D*
Length = 304
Score = 148 bits (375), Expect = 4e-40
Identities = 80/308 (25%), Positives = 132/308 (42%), Gaps = 48/308 (15%)
Query: 335 LEKMKDHLIAKNVAADIAVKLCDSVALKLEGKVLGTFESVANTVKSTLTDALVQILSPKR 394
LE+++ L+A +V ++ V S +K + + LV +L P
Sbjct: 32 LEELEMALLAADVGLSATEEILQEVR-----------ASGRKDLKEAVKEKLVGMLEPDE 80
Query: 395 RVDILRDALEAKKQ-----GRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDT 449
R LR ++ + V+ GVNGVGK+T +AK+ + V+ A DT
Sbjct: 81 RRATLRKLGFNPQKPKPVEPKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDT 140
Query: 450 FRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDV 509
FRA QL G R + + + G D A +A+ A+ + D+
Sbjct: 141 FRAAGGTQLSE-------------WGKRLSIPVIQGPEGTDSAALAYDAVQAMKARGYDL 187
Query: 510 VLIDTAGRMQDNEPLMRALAKLVKV------NQPDLLLFVGEALVGNEAVDQLVKFNNAM 563
+ +DTAGR+ LM L K+ + +P + V +A+ G ++Q KF+ A+
Sbjct: 188 LFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV 247
Query: 564 ADHSLSDNPHLIDGIVLTKFD-TIDDKVGAAISMTYITGQPIVFVGTGQTYTDLKSLNAK 622
+ G+++TK D T K G I + PI FVG G+ DL+ + +
Sbjct: 248 G----------LTGVIVTKLDGTA--KGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDPE 295
Query: 623 AVVNALMK 630
A V AL++
Sbjct: 296 AFVEALLE 303
>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA
binding protein, hydrolase, gtpas; HET: GCP; 3.94A
{Escherichia coli} PDB: 2j28_9
Length = 433
Score = 149 bits (378), Expect = 2e-39
Identities = 65/207 (31%), Positives = 105/207 (50%), Gaps = 25/207 (12%)
Query: 411 PFVMAFCGVNGVGKSTNLAKICFWLIE-NNLNVLIAACDTFRAGAVEQLRTHVRHLCSLH 469
P V+ G+ G GK+T++ K+ +L E + VL+ + D +R A++QL T
Sbjct: 100 PAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETL-------- 151
Query: 470 PAAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALA 529
+ V F G+ P +I A+ A+ DV+L+DTAGR+ +E +M +
Sbjct: 152 -----AEQVGVDFFPSDVGQKPVDIVNAALKEAKLKFYDVLLVDTAGRLHVDEAMMDEIK 206
Query: 530 KLVKVNQPDLLLFVGEALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDK 589
++ P LFV +A+ G +A + FN A+ + G+VLTK D D +
Sbjct: 207 QVHASINPVETLFVVDAMTGQDAANTAKAFNEALP----------LTGVVLTKVDG-DAR 255
Query: 590 VGAAISMTYITGQPIVFVGTGQTYTDL 616
GAA+S+ +ITG+PI F+G G+ L
Sbjct: 256 GGAALSIRHITGKPIKFLGVGEKTEAL 282
>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 = 59.5 bits (143), Expect = 3e-09
Identities = 49/310 (15%), Positives = 82/310 (26%), Gaps = 89/310 (28%)
Query: 371 FESVANTVKSTLT----DALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKST 426
+ V + KS L+ D ++ L L +K V F V V
Sbjct: 35 CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK--QEEMVQKF--VEEV---- 86
Query: 427 NLAKICFWLIE-----------------------NNLNVLIAACDTFRAGAVEQLRTHVR 463
L +L+ N N + A + R +LR
Sbjct: 87 -LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA-- 143
Query: 464 HLCSLHPAAK---HGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLID-----TA 515
L L PA G + G GK + A+ + +
Sbjct: 144 -LLELRPAKNVLIDG---V-----LGSGK-----TWVALDVCLSYKVQCKMDFKIFWLNL 189
Query: 516 GRMQDNEPLMRALAKLVKVNQPDLL----LFVGEALVGNEAVDQLVKFNNAMADHSLSDN 571
E ++ L KL+ P+ L + +L + L
Sbjct: 190 KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL--------LKSK 241
Query: 572 PH----LI-DGI----VLTKFD--------TIDDKVGAAISMTYITGQPIVFVGTGQTYT 614
P+ L+ + F+ T +V +S T + T
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301
Query: 615 DLKSLNAKAV 624
++KSL K +
Sbjct: 302 EVKSLLLKYL 311
Score = 54.1 bits (129), Expect = 1e-07
Identities = 54/412 (13%), Positives = 116/412 (28%), Gaps = 131/412 (31%)
Query: 273 IKDLEVESSSEEESSDDEEDV--RAETSHVSAKKANGKANKGMFSLFRGLVGSKNLTKSD 330
+ + + + + D + + + E H+ K +F SK
Sbjct: 30 VDNFDCK-----DVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL----SKQ----- 75
Query: 331 MKPILEKMKDHLIAKN---VAADIAVKLCDSVALKLEGKVLGTFESVANTVKSTLTDALV 387
+ +++K + ++ N + + I + ++ + + + +
Sbjct: 76 -EEMVQKFVEEVLRINYKFLMSPIKTE-QRQPSMMTR-----MYIEQRDRLYND-----N 123
Query: 388 QILSP-----KRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKIC---------- 432
Q+ + + LR AL + V GV G GK+ +C
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPA-KNV-LIDGVLGSGKTWVALDVCLSYKVQCKMD 181
Query: 433 ---FWL-------------IENNLNVLIAACDTFRAGA-------VEQLRTHVRHLCSLH 469
FWL + L I T R+ + ++ +R L
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL---- 237
Query: 470 PAAKHGGREMVQLFEKGYGK---------DPAEI-AF----RAISHARDMHI-------- 507
L K Y + AF + + R +
Sbjct: 238 ------------LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAAT 285
Query: 508 --DVVLIDTAGRMQDNEPLMRALAKLVKVNQPDLLLFVGEALVGNEAVDQLVKFNNAMAD 565
+ L + + +E + L K + DL E L N + + ++
Sbjct: 286 TTHISLDHHSMTLTPDE-VKSLLLKYLDCRPQDLPR---EVLTTNP---RRL----SIIA 334
Query: 566 HSLSDNPHLIDGIVLTKFDTID-DKVGAAISMTYITGQPIVFVGTGQTYTDL 616
S+ D D + ++ DK+ I + +P + + + L
Sbjct: 335 ESIRDGLATWDN-----WKHVNCDKLTTIIESSLNVLEPAEY---RKMFDRL 378
Score = 47.5 bits (112), Expect = 1e-05
Identities = 77/626 (12%), Positives = 167/626 (26%), Gaps = 159/626 (25%)
Query: 44 NQVFEHNGLVLKHKLDN---EFDLVFVVGFQK-ILQLSYVDKLLDDVHLE---------F 90
+ +L D FD V K IL +D ++
Sbjct: 12 GEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTL 71
Query: 91 RDKYKN---ELGSDMHLYDYDF-------------------ESTYNVLLKEAEEWSKVQA 128
K + + ++ +Y F + L + + ++K
Sbjct: 72 LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV 131
Query: 129 CIPKQMRTFEESSKSKKTIASMIIDKNKKEEKSVPSKKKGKAVETKVEPVTPPSPVQNGD 188
+ ++ + +++ID K+ A++ D
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW------VALDV----CLSYKVQCKMD 181
Query: 189 AGI---------EEDIIMINRQKLAMKMGS-----PKNKTKPKTPKANAKEGKKPRIWEL 234
I + ++ QKL ++ + + K + + + R+ +
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR-RLLKS 240
Query: 235 SGDQRDLSTLEYTKDKPSDSNALNI-------TPDTHLVGKMVGGIKDLEVESSSEEESS 287
+ L L ++ NA N+ T + D +++ S
Sbjct: 241 KPYENCLLVLLNVQN-AKAWNAFNLSCKILLTTRFK--------QVTDFLSAATTTHISL 291
Query: 288 DDEEDV--RAETSHVSAKKANGKANK------GMFSLFRGLVGS------------KNLT 327
D E + K + + ++ K++
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVN 351
Query: 328 KSDMKPILEKMKDHL---IAKNVAADIAVKLCDSVALKLEGKVLGTF------ESVANTV 378
+ I+E + L + + ++V S + +L V V
Sbjct: 352 CDKLTTIIESSLNVLEPAEYRKMFDRLSV-FPPSA--HIPTILLSLIWFDVIKSDVMVVV 408
Query: 379 KSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIEN 438
+LV+ + + I LE K + L + +++
Sbjct: 409 NKLHKYSLVEKQPKESTISIPSIYLELKVKLE-------------NEYALHRS---IVD- 451
Query: 439 NLNVLIAAC-DTFRAGAVEQ-LRTHV-RHLCSLHPAAKHGGREMVQLFEKGY-------G 488
+ N+ D ++Q +H+ HL ++ E + LF +
Sbjct: 452 HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP------ERMTLFRMVFLDFRFLEQ 505
Query: 489 K-DPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEP------------LMRALAKLVKVN 535
K A+ A + L + DN+P L + L+
Sbjct: 506 KIRHDSTAWNASGSILNTLQQ--LKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSK 563
Query: 536 QPDLL---LFVGEALVGNEAVDQLVK 558
DLL L + + EA Q+ +
Sbjct: 564 YTDLLRIALMAEDEAIFEEAHKQVQR 589
Score = 35.6 bits (81), Expect = 0.061
Identities = 25/136 (18%), Positives = 43/136 (31%), Gaps = 37/136 (27%)
Query: 1 MLDFFTIFSKG-GI------VLWYFQSASQIFTPSLNALIKSVILQERGGNQVFE-HNG- 51
M D ++F I ++W+ +N L K +++++ +
Sbjct: 374 MFDRLSVFPPSAHIPTILLSLIWF-DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY 432
Query: 52 LVLKHKLDNEFDLVFVVGFQKILQLSYVDKLLDDVHLEFRDKYKNELGSDMH--LYDYDF 109
L LK KL+NE+ L H D Y D + Y
Sbjct: 433 LELKVKLENEYAL----------------------HRSIVDHYNIPKTFDSDDLIPPYLD 470
Query: 110 ESTYNVL---LKEAEE 122
+ Y+ + LK E
Sbjct: 471 QYFYSHIGHHLKNIEH 486
Score = 29.1 bits (64), Expect = 6.0
Identities = 27/189 (14%), Positives = 58/189 (30%), Gaps = 40/189 (21%)
Query: 461 HVRHLCSLHPAAKHGGREMVQLFEKGYGKD----PAEIAFRAISHARDMHIDVVLIDTAG 516
H H+ ++ ++++ +FE + + + ++I + ID +++
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEE--IDHIIM---- 56
Query: 517 RMQDNEPLMRALAKLVKVNQPDLL-LFVGEALVGN----------EAVD---QLVKFNNA 562
+D L + Q +++ FV E L N E +
Sbjct: 57 -SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115
Query: 563 MADHSLSDNPHLIDGIV--LTKFDTIDDKVGAAISMTYIT--GQPIVFVGTGQTYTDLKS 618
D +DN V L + + + + G G+G K+
Sbjct: 116 R-DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL----GSG------KT 164
Query: 619 LNAKAVVNA 627
A V +
Sbjct: 165 WVALDVCLS 173
>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 = 51.6 bits (123), Expect = 7e-07
Identities = 66/402 (16%), Positives = 122/402 (30%), Gaps = 121/402 (30%)
Query: 278 VESSSEEESSDDEEDVRAETSHVSAKKANGKANKGMFSLFRGLVGSK--NLTKSDMKPIL 335
+ +E ++DDE AE + F G V S +L
Sbjct: 41 LPEPTEGFAADDEPTTPAE----------------LVGKFLGYVSSLVEPSKVGQFDQVL 84
Query: 336 EKMKDHL----IAKNVAADIAVKLCDSVALKLEGKVLGTFESVANTVKSTLTDALVQILS 391
+ N DI ++A KL + T +K+ +T A +
Sbjct: 85 NLCLTEFENCYLEGN---DI-----HALAAKLLQENDTTLVKTKELIKNYIT-ARIMAKR 135
Query: 392 PKRRVDILRDAL-EAKKQGRPFVMAFCGVNGVGKSTN----LAKI----------CFWLI 436
P + AL A +G ++A G G G + + L +
Sbjct: 136 PFDKKS--NSALFRAVGEGNAQLVAIFG--GQGNTDDYFEELRDLYQTYHVLVGDLIKFS 191
Query: 437 ENNLNVLIAACDTFRAGAVEQLRTHVRHLCS-LHPAAKHGGRE-------------MVQL 482
L+ LI E++ T ++ L + ++ ++QL
Sbjct: 192 AETLSELIRT-----TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQL 246
Query: 483 -----FEKGYGKDPAEIA--FRAIS-HARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKV 534
K G P E+ + + H++ + + V I E ++ K +
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGL-VTAVAIAETD---SWESFFVSVRKAIT- 301
Query: 535 NQPDLLLFVGEALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVGAAI 594
+L F+G + EA SL P +++ D++++ G
Sbjct: 302 ----VLFFIG--VRCYEAYPNT----------SLP--PSILE-------DSLENNEGVPS 336
Query: 595 SMTYITGQPIVFVGTGQTYTDLKSLNAK---------AVVNA 627
M I+ V Q Y + N+ ++VN
Sbjct: 337 PMLSISNLTQEQV---QDY--VNKTNSHLPAGKQVEISLVNG 373
Score = 47.0 bits (111), Expect = 2e-05
Identities = 120/716 (16%), Positives = 201/716 (28%), Gaps = 303/716 (42%)
Query: 5 FTIFSKGGI-----V---LWYFQSASQI---FTPSLNALIKSVILQERGGNQVFEHNGLV 53
T+ S G + V ++ ASQ+ F L + + E LV
Sbjct: 9 LTL-SHGSLEHVLLVPTASFFI--ASQLQEQFNKILPEPTEGFAADDEPTTPA-E---LV 61
Query: 54 LKHKLDNEFDLVFVVGFQKILQLSYVDKLLDDVHLEFRDKYKNEL-GSDMHLYDYDFEST 112
K F L +V + ++ D++L+ EF + Y L G+D+H
Sbjct: 62 GK------F-LGYVSSLVEPSKVGQFDQVLNLCLTEFENCY---LEGNDIHA-------- 103
Query: 113 YNVLLKEAEEWSKVQACIPKQMRTFEESSKSKKTIASMIIDKNKKEEKSVPSKKKGKAVE 172
+ A + ++ T K+K+ I + I A
Sbjct: 104 -------------LAAKLLQENDT--TLVKTKELIKNYI-----------------TARI 131
Query: 173 TKVEPVTPPSP------VQNGDAGI--------------EE-------------DIIMIN 199
P S V G+A + EE D+I +
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFS 191
Query: 200 RQKLAMKMGSPKNKTKPKTPKANAKEGKKPRIWELSGDQRDLSTLEYTKDKPSDSNALNI 259
+ L S +T K + G W LE + P L+I
Sbjct: 192 AETL-----SELIRTTLDAEKVFTQ-GLNILEW-----------LENPSNTPDKDYLLSI 234
Query: 260 T---PDTHLVGKMVGGIKDLEVESSSEEESSDDEEDVRAETSH--VSAKKANGKANKGMF 314
P L+G + + +H V+AK G +
Sbjct: 235 PISCP---LIG--------V------------------IQLAHYVVTAKLL-GFTPGELR 264
Query: 315 SLFRGLVGSKNLTKSDMKPILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKVLGTFESV 374
S +G G + + + + ++ES
Sbjct: 265 SYLKGATG------------------------HSQGLVTAVAIAET--------DSWESF 292
Query: 375 ANTVKSTLTDALVQI------------LSPKRRVDILRDALEAKKQGRPFVMAFCGVNGV 422
+V+ +T L I L P IL D+LE +G P M ++ +
Sbjct: 293 FVSVRKAIT-VLFFIGVRCYEAYPNTSLPPS----ILEDSLEN-NEGVPSPML--SISNL 344
Query: 423 GKS--------TNL-----AKICFWLIEN---NLNV------LIAACDTFRAGAV----E 456
+ TN ++ L+ N NL V L T R +
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLV-NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403
Query: 457 QLRT---------HVR--------HLCS--LHPAAKHGGREMVQLFEKGYGKDPAEIAFR 497
Q R R H S L PA+ +++V+ ++F
Sbjct: 404 QSRIPFSERKLKFSNRFLPVASPFH--SHLLVPASDLINKDLVK----------NNVSF- 450
Query: 498 AISHARDMHIDVVLIDTAGRMQD-NEPLMRALAKLVKVNQPDLLLFVGEALVGNEAVD-- 554
+A+D+ I V ++ + + + + + P V
Sbjct: 451 ---NAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI-IRLP---------------VKWE 491
Query: 555 QLVKFNNAMADHSLSDNPHLIDGI-VLTKFDTIDDKVGAAISMTYITGQPIVFVGT 609
+F A H L P G+ VLT +K G TG ++ GT
Sbjct: 492 TTTQFK---ATHILDFGPGGASGLGVLTH----RNKDG--------TGVRVIVAGT 532
Score = 39.3 bits (91), Expect = 0.004
Identities = 43/197 (21%), Positives = 64/197 (32%), Gaps = 65/197 (32%)
Query: 462 VRHLCSLHPAAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDN 521
R L +L HG E V L P F A S ++ ++ T G D+
Sbjct: 6 TRPL-TLS----HGSLEHVLLV-------PTASFFIA-SQLQEQFNKILPEPTEGFAADD 52
Query: 522 EPLMRALAKLVKVNQPDLLLFVGEALVGNEA--VDQLVK-----FNNAMADHSLSDNP-H 573
EP A+LV L +V + ++ DQ++ F N L N H
Sbjct: 53 EP--TTPAELVG----KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCY----LEGNDIH 102
Query: 574 LIDGIVLTKFDTIDDKVGAAISMTY-----ITGQPI---------------------VFV 607
+ +L + DT K I Y + +P +F
Sbjct: 103 ALAAKLLQENDTTLVKTKELIK-NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF- 160
Query: 608 GTGQ----TY-TDLKSL 619
G GQ Y +L+ L
Sbjct: 161 G-GQGNTDDYFEELRDL 176
Score = 34.3 bits (78), Expect = 0.17
Identities = 21/138 (15%), Positives = 38/138 (27%), Gaps = 38/138 (27%)
Query: 463 RHLCSLHPAAKHGGREMVQLFEKGYG--------KDPAEIAF-------RAISHARDMHI 507
L AA+ F+ YG +P + + I R+ +
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRI---RENYS 1689
Query: 508 DVVLIDTAGRMQDNEPLMRAL-AKLVKVN--------------QPDLLLFVGEALVGNEA 552
++ E + + + QP L L + +A E
Sbjct: 1690 AMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTL-MEKAAF--ED 1746
Query: 553 V--DQLVKFNNAMADHSL 568
+ L+ + A HSL
Sbjct: 1747 LKSKGLIPADATFAGHSL 1764
Score = 31.6 bits (71), Expect = 0.98
Identities = 47/309 (15%), Positives = 80/309 (25%), Gaps = 114/309 (36%)
Query: 102 MHLYDYDFESTYNV---LLKEAEEWSKVQACIPKQMRTFEESSKSKKTIASMIIDKNKKE 158
M LY T + A+ T+ S I I+ N
Sbjct: 1633 MDLYK-----TSKAAQDVWNRADN---------HFKDTYGFS------ILD-IVINNPVN 1671
Query: 159 EKSVPSKKKGKAVETKVEPVTPPSPVQNGDAGIEEDIIMINRQKLAMKMGSPK---NKTK 215
+KGK + + + V +G E+ IN + S K + T
Sbjct: 1672 LTIHFGGEKGKRIRENYSAMIFETIV-DGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT- 1729
Query: 216 PKTPKANA----------------KEGKKPRIWELSGDQRDLSTL-EYT---KDKPSDSN 255
+G P +G S L EY S ++
Sbjct: 1730 -----QFTQPALTLMEKAAFEDLKSKGLIPADATFAG----HS-LGEYAALA----SLAD 1775
Query: 256 ALNITPDT-HLV---GKMVGGI--KDLEVESS--------SEEESSDDEEDVRAETSHVS 301
++I +V G + +D S+ +S +E ++ V
Sbjct: 1776 VMSIE-SLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVG 1834
Query: 302 AKK------AN-----------GKANKGMFSLFRGL-VGSKNLTKSDMKPI--------- 334
+ N G R L + L ++ I
Sbjct: 1835 KRTGWLVEIVNYNVENQQYVAAGDL--------RALDTVTNVLNFIKLQKIDIIELQKSL 1886
Query: 335 -LEKMKDHL 342
LE+++ HL
Sbjct: 1887 SLEEVEGHL 1895
>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI,
protein structure initiative; 1.90A {Geobacillus
stearothermophilus} SCOP: c.37.1.6
Length = 201
Score = 36.9 bits (86), Expect = 0.009
Identities = 14/61 (22%), Positives = 27/61 (44%)
Query: 390 LSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDT 449
+ + R+D L + A K V+ G++ GK+T ++ L E ++V + D
Sbjct: 1 MELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDD 60
Query: 450 F 450
Sbjct: 61 H 61
>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate
hydrolases fold, S genomics, joint center for structural
genomics, JCSG; HET: MSE; 1.70A {Chloroflexus
aurantiacus}
Length = 193
Score = 34.9 bits (80), Expect = 0.046
Identities = 14/122 (11%), Positives = 38/122 (31%), Gaps = 24/122 (19%)
Query: 409 GRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSL 468
P ++ G GK+T L++ + L + + + D F+ + L R
Sbjct: 3 QTPALIIVTGHPATGKTT-LSQ----ALATGLRLPLLSKDAFKEVMFDGLGWSDRE---- 53
Query: 469 HPAAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRAL 528
++ + + + +++ ++ R+ + M+ L
Sbjct: 54 ---------WSRRVGATAI-----MMLYHTAATILQSGQSLIM-ESNFRVDLDTERMQNL 98
Query: 529 AK 530
Sbjct: 99 HT 100
>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer,
immunology, signaling protein; HET: GDP; 1.95A {Mus
musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A*
1tq2_A*
Length = 413
Score = 35.1 bits (80), Expect = 0.070
Identities = 25/182 (13%), Positives = 53/182 (29%), Gaps = 26/182 (14%)
Query: 361 LKLEGKVLGTFESVANTVKSTLTDALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVN 420
K++ + + N ++ + +Q+ + DAL+ V A G
Sbjct: 27 FNTGRKIIS--QEILNLIELRMRAGNIQLT-----NSAISDALKEIDSSVLNV-AVTGET 78
Query: 421 GVGKSTNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMV 480
G GKS+ I + + G VE + KH V
Sbjct: 79 GSGKSS--------FINTLRGIGNEEEGAAKTGVVEVTMERHPY--------KHPNIPNV 122
Query: 481 QLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKVNQPDLL 540
++ + + D +I +A R + N+ + + + +
Sbjct: 123 VFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKND--IDIAKAISMMKKEFYF 180
Query: 541 LF 542
+
Sbjct: 181 VR 182
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 34.5 bits (78), Expect = 0.079
Identities = 21/136 (15%), Positives = 47/136 (34%), Gaps = 19/136 (13%)
Query: 397 DILRDALEAKK-QGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDTFRAGAV 455
LR KK +P + G +G GK+T + +I + N+ ++ D+FR
Sbjct: 17 RNLRSLTRGKKSSKQPIAILLGGQSGAGKTT-IHRIKQKEFQGNIVIIDG--DSFR---- 69
Query: 456 EQLRTHVRHLCSLHPAAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTA 515
S HP +E + + ++ ++ + ++++ T
Sbjct: 70 -----------SQHPHYLELQQEYGKDSVEYTKDFAGKMVESLVTKLSSLGYNLLIEGTL 118
Query: 516 GRMQDNEPLMRALAKL 531
+ + + L
Sbjct: 119 RTVDVPKKTAQLLKNK 134
>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system
kinase, STRU genomics, joint center for structural
genomics, JCSG; 1.95A {Silicibacter SP}
Length = 208
Score = 33.9 bits (78), Expect = 0.085
Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 1/61 (1%)
Query: 390 LSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDT 449
++ + + L+ +Q ++A G G GKST + L L + D
Sbjct: 2 MTLAALCQGVLERLD-PRQPGRQLVALSGAPGSGKSTLSNPLAAALSAQGLPAEVVPMDG 60
Query: 450 F 450
F
Sbjct: 61 F 61
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 33.9 bits (78), Expect = 0.16
Identities = 21/152 (13%), Positives = 48/152 (31%)
Query: 102 MHLYDYDFESTYNVLLKEAEEWSKVQACIPKQMRTFEESSKSKKTIASMIIDKNKKEEKS 161
+ L DY+ + E+ + ++ + T S+K IA + EKS
Sbjct: 10 LDLDDYELDEEPGEEELTEEQEEEFRSAVATVRETLLGVPISEKEIADTVWYYYFDVEKS 69
Query: 162 VPSKKKGKAVETKVEPVTPPSPVQNGDAGIEEDIIMINRQKLAMKMGSPKNKTKPKTPKA 221
V + + + + + ++ + + L KN + K +
Sbjct: 70 VNYLLQKASSKAGAKEKQNTDSQKEKKQNKSKEALADAKDPLDESSNGIKNLSLNKNDEP 129
Query: 222 NAKEGKKPRIWELSGDQRDLSTLEYTKDKPSD 253
+ + ++ S + K P+D
Sbjct: 130 AFQTNGEVKMKNSSESDNQPEKKKIKKQNPTD 161
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 33.2 bits (75), Expect = 0.17
Identities = 27/136 (19%), Positives = 47/136 (34%), Gaps = 16/136 (11%)
Query: 418 GVNGVGKSTNLAKICFWLIENNLNVLIAACDTFRAGA------VEQLRTHVRHLCSLHPA 471
G GVGK+T + K L + + V + R G V L L +
Sbjct: 8 GPPGVGKTTLIHKASEVLKSSGVPVDGFYTEEVRQGGRRIGFDVVTLSGTRGPLSRVGLE 67
Query: 472 AKHGGREMVQLFEKGYGKDPA---EIAFRAISHAR---DMHIDVVLIDTAGRMQDNEP-L 524
G R + Y D ++A + +A V +ID G+M+
Sbjct: 68 PPPGKR---ECRVGQYVVDLTSFEQLALPVLRNADCSSGPGQRVCVIDEIGKMELFSQLF 124
Query: 525 MRALAKLVKVNQPDLL 540
++A+ + + +L
Sbjct: 125 IQAVRQTLSTPGTIIL 140
>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 = 32.2 bits (72), Expect = 0.22
Identities = 7/36 (19%), Positives = 16/36 (44%), Gaps = 7/36 (19%)
Query: 158 EEKSVPSKKKGKAVETKVEPVTPPS-PVQNGDAGIE 192
E++++ KK ++ ++ S P A +E
Sbjct: 18 EKQAL---KK---LQASLKLYADDSAPALAIKATME 47
>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping;
1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB:
1qmp_A*
Length = 130
Score = 31.7 bits (73), Expect = 0.23
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 8/51 (15%)
Query: 505 MHIDVVLIDTAGRMQDNEPLMRALAKLVKVNQPDLLLFVGEALVGNEAVDQ 555
M I V + D DN + +L +QPD+ + +G A G + +
Sbjct: 1 MSIKVCIAD------DN-RELVSLLDEYISSQPDMEV-IGTAYNGQDCLQM 43
>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport
protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo
sapiens}
Length = 349
Score = 32.9 bits (75), Expect = 0.29
Identities = 31/171 (18%), Positives = 49/171 (28%), Gaps = 35/171 (20%)
Query: 385 ALVQILSPKRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLI 444
L Q+L K + K + F + G G GKST + L E + +
Sbjct: 48 ELAQVLLQKVLLYHREQEQSNKGKPLAFRVGLSGPPGAGKSTFIEYFGKMLTERGHKLSV 107
Query: 445 AACD---TFRAGAV-------EQLRTHVRHLCSLHPAAKHGG------REMVQLFEKGYG 488
A D G++ +L + P G E + L E
Sbjct: 108 LAVDPSSCTSGGSLLGDKTRMTELSRDMNAYIRPSPTRGTLGGVTRTTNEAILLCEG--- 164
Query: 489 KDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKLVKVNQPDL 539
D++LI+T G Q + + V + P
Sbjct: 165 ----------------AGYDIILIETVGVGQSEFAVADMVDMFVLLLPPAG 199
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 32.7 bits (73), Expect = 0.29
Identities = 27/147 (18%), Positives = 42/147 (28%), Gaps = 23/147 (15%)
Query: 390 LSPKRRVDILRDALE-----AKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLI 444
+ K+ + L D LE K P G G GK++ + I E NV++
Sbjct: 7 FTDKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAI---FEETQGNVIV 63
Query: 445 AACDTFRAGAVEQLRTHVRHLCSLHPAAKHGGREMVQLFEKGYGKDPAEIAFRAISHARD 504
DTF+ HP + + K + IS D
Sbjct: 64 IDNDTFKQ---------------QHPNFDELVKLYEKDVVKHVTPYSNRMTEAIISRLSD 108
Query: 505 MHIDVVLIDTAGRMQDNEPLMRALAKL 531
++V+ T L
Sbjct: 109 QGYNLVIEGTGRTTDVPIQTATMLQAK 135
>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic
region; yeast protein, ATP binding protein; 2.25A
{Saccharomyces cerevisiae} SCOP: c.37.1.6
Length = 290
Score = 32.3 bits (72), Expect = 0.38
Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 3/62 (4%)
Query: 406 KKQGRPFVMAFCGVNGVGKSTNLAKICFWLIE---NNLNVLIAACDTFRAGAVEQLRTHV 462
P + F G G GKS +I L+E ++ A+ D F +QL+ +
Sbjct: 26 TGNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNE 85
Query: 463 RH 464
+
Sbjct: 86 QF 87
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 32.0 bits (72), Expect = 0.41
Identities = 29/133 (21%), Positives = 49/133 (36%), Gaps = 15/133 (11%)
Query: 413 VMAFCGVNGVGKSTNLAKICFWLIENNLNV-LIAACDTFRAGAVEQLRTHVRHLCSLHPA 471
+ G+ GVGKST LAK+ L +N +I D A A++ R
Sbjct: 3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINYGDFMLATALKLGYAKDR-------- 54
Query: 472 AKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRAL-AK 530
EM +L + K + A AR + IDT ++ + L +
Sbjct: 55 -----DEMRKLSVEKQKKLQIDAAKGIAEEARAGGEGYLFIDTHAVIRTPSGYLPGLPSY 109
Query: 531 LVKVNQPDLLLFV 543
++ P ++ +
Sbjct: 110 VITEINPSVIFLL 122
>2z0h_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide
biosynthesis, nucleotide-binding, transferase,
structural genomics, NPPSFA; HET: ADP TYD; 2.10A
{Thermotoga maritima} PDB: 3hjn_A*
Length = 197
Score = 31.3 bits (72), Expect = 0.60
Identities = 9/30 (30%), Positives = 17/30 (56%)
Query: 415 AFCGVNGVGKSTNLAKICFWLIENNLNVLI 444
F G++G GKST + + +L + V++
Sbjct: 4 TFEGIDGSGKSTQIQLLAQYLEKRGKKVIL 33
>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide
biosynthesis, TMP-binding, A binding, structural
genomics, NPPSFA; 1.96A {Aquifex aeolicus}
Length = 195
Score = 31.3 bits (72), Expect = 0.62
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 415 AFCGVNGVGKSTNLAKICFWLIENNLNVLI 444
AF G++G GK+T K+ +L + V +
Sbjct: 4 AFEGIDGSGKTTQAKKLYEYLKQKGYFVSL 33
>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET:
MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10
PDB: 2qm7_A*
Length = 337
Score = 31.7 bits (72), Expect = 0.64
Identities = 31/156 (19%), Positives = 49/156 (31%), Gaps = 45/156 (28%)
Query: 405 AKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACD---TFRAGAV------ 455
+ GR + GV GVGKST + + L V + A D T G++
Sbjct: 49 LPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTR 108
Query: 456 -EQLRTH----VR------HLCSLHPAAKHGGREMVQLFEK-GYGKDPAEIAFRAISHAR 503
+L +R L + RE + L E G+
Sbjct: 109 MARLAIDRNAFIRPSPSSGTLGGVAAKT----RETMLLCEAAGF---------------- 148
Query: 504 DMHIDVVLIDTAGRMQDNEPLMRALAKLVKVNQPDL 539
DV+L++T G Q + + + P
Sbjct: 149 ----DVILVETVGVGQSETAVADLTDFFLVLMLPGA 180
>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology;
HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB:
4e5u_A* 4esh_A* 3uwk_A* 3uwo_A* 3uxm_A*
Length = 213
Score = 31.4 bits (72), Expect = 0.65
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 418 GVNGVGKSTNLAKICFWLIENNLNVLI 444
G G GKSTN + L E + V +
Sbjct: 13 GPEGAGKSTNRDYLAERLRERGIEVQL 39
>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP;
1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A*
2wwi_A*
Length = 212
Score = 31.4 bits (72), Expect = 0.67
Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 404 EAKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLI 444
+ KK+G+ F+ F G++ GKST + +L NN+ V
Sbjct: 5 DDKKKGK-FI-VFEGLDRSGKSTQSKLLVEYLKNNNVEVKH 43
>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium
tuberculosis} PDB: 3md0_A* 3nxs_A* 3tk1_A*
Length = 355
Score = 31.8 bits (72), Expect = 0.70
Identities = 43/196 (21%), Positives = 60/196 (30%), Gaps = 56/196 (28%)
Query: 405 AKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACD---TFRAGAV------ 455
G + GV GVGKST + + LIE V + A D T G++
Sbjct: 73 LPDSGNAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVDPSSTRTGGSILGDKTR 132
Query: 456 -EQLRTHVRHLCSLHPAAKHGG------REMVQLFEKGYGKDPAEIAFRAISHARDMHID 508
+L H P + G RE V L E D
Sbjct: 133 MARLAVHPNAYIRPSPTSGTLGGVTRATRETVVLLEA-------------------AGFD 173
Query: 509 VVLIDTAGRMQDNEPLMRALAKLVKVNQPDLLLFVGEALVGNEAVDQLVKFNNAMADHSL 568
V+LI+T G Q + + V + G+ L Q +K
Sbjct: 174 VILIETVGVGQSEVAVANMVDTFVLLTLART----GDQL-------QGIK---------- 212
Query: 569 SDNPHLIDGIVLTKFD 584
L D +V+ K D
Sbjct: 213 KGVLELADIVVVNKAD 228
>2xdt_A Endoplasmic reticulum aminopeptidase 1; glycoprotein,
metal-binding, metalloprotease, protease, hydrolase,
adaptive immunity; HET: NAG; 2.70A {Homo sapiens} PDB:
2yd0_A* 3qnf_A* 3mdj_A*
Length = 897
Score = 31.3 bits (71), Expect = 1.1
Identities = 17/96 (17%), Positives = 34/96 (35%), Gaps = 13/96 (13%)
Query: 28 SLNAL---IKSVILQERGGNQVFEHNGLVLKHKLDNEFDLV-------FVVGFQKILQLS 77
L++ I L++ G ++ E L+ + + +VG + +
Sbjct: 49 ILHSHHLQISRATLRKGAGERLSEE---PLQVLEHPRQEQIALLAPEPLLVGLPYTVVIH 105
Query: 78 YVDKLLDDVHLEFRDKYKNELGSDMHLYDYDFESTY 113
Y L + H ++ Y+ + G L FE T
Sbjct: 106 YAGNLSETFHGFYKSTYRTKEGELRILASTQFEPTA 141
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 31.2 bits (71), Expect = 1.1
Identities = 17/83 (20%), Positives = 32/83 (38%), Gaps = 13/83 (15%)
Query: 509 VVLIDTAGRMQDNEPLMRALAKLVK--VNQPDLLLFVGEALVGNEAVDQLVKFNNAMADH 566
V L+DT G + D L R + + + D + V ++ D + F
Sbjct: 85 VTLVDTPG-LDDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYEDDVVNLFKEM---- 139
Query: 567 SLSDNPHLIDGIVLTKFDTIDDK 589
+ P + +V+ K D + +K
Sbjct: 140 ---EIPFV---VVVNKIDVLGEK 156
>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP,
transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP:
c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A*
1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A*
1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A*
1e9f_A*
Length = 215
Score = 30.3 bits (69), Expect = 1.4
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 405 AKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLI 444
A ++G + GV+ GKST K+ L +
Sbjct: 5 AARRGA-LI-VLEGVDRAGKSTQSRKLVEALCAAGHRAEL 42
>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein
structure initiative, NEW YORK SGX research for
structural genomics; 1.80A {Escherichia coli} SCOP:
c.37.1.10
Length = 341
Score = 30.5 bits (69), Expect = 1.4
Identities = 14/44 (31%), Positives = 16/44 (36%)
Query: 405 AKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACD 448
G + G G GKST L LI L V + A D
Sbjct: 50 MPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVD 93
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP:
a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*
Length = 549
Score = 30.3 bits (68), Expect = 2.0
Identities = 18/158 (11%), Positives = 42/158 (26%), Gaps = 10/158 (6%)
Query: 273 IKDLEVESSSEEESSDDEEDVRAETSHVSAKKANGKANKGMFSLFRGLVGSKNLTKSDMK 332
+D + ++D ++ ++ S + AN R + +
Sbjct: 23 PRDALTYLEGKNIFTEDHSELISKMSTRLERIAN---------FLRIYRRQASELGPLID 73
Query: 333 PILEKMKDHLIAKNVAADIAVKLCDSVALKLEGKVLGTFESVANTVKSTLTDALVQILSP 392
+ HL + + + + + + +
Sbjct: 74 FFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIR 133
Query: 393 KRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAK 430
+ VD + L+ F + G G GKS +A
Sbjct: 134 EYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSV-IAS 170
>2ii1_A Acetamidase; 10172637, structural genomics, joint center for
structural genomics, PSI-2, protein structure
initiative, J hydrolase; 1.95A {Bacillus halodurans}
Length = 301
Score = 30.0 bits (67), Expect = 2.2
Identities = 9/41 (21%), Positives = 15/41 (36%), Gaps = 1/41 (2%)
Query: 467 SLHPAAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHI 507
+L AA + M E A +S A D+++
Sbjct: 234 TLDAAAVQATKNMATFLANRTALSIEE-AGMLLSGAGDLYV 273
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 30.3 bits (68), Expect = 2.4
Identities = 13/94 (13%), Positives = 29/94 (30%), Gaps = 7/94 (7%)
Query: 421 GVGKSTNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHL-CSLHPAAKHGGREM 479
G GK+ +++ N ++ A + + QL + + ++
Sbjct: 291 GTGKTLLVSRFVENACANKERAILFAYEE----SRAQLLRNAYSWGMDFEEMERQNLLKI 346
Query: 480 VQLFEKGYGKDPAEIAFRAISHARDMHIDVVLID 513
V + + G + S D + ID
Sbjct: 347 VCAYPESAG--LEDHLQIIKSEINDFKPARIAID 378
>3b9t_A Twin-arginine translocation pathway signal protei; YP_546212.1,
predicted acetamidase/formamidase,
acetamidase/formamidase family; 1.58A {Methylobacillus
flagellatus KT}
Length = 484
Score = 30.0 bits (66), Expect = 2.4
Identities = 11/44 (25%), Positives = 14/44 (31%), Gaps = 1/44 (2%)
Query: 464 HLCSLHPAAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHI 507
SL A K R+M + E A +S D I
Sbjct: 418 SKSSLDLALKDAFRKMRHFLMQTQNLTEDE-AVSLMSIGVDFGI 460
>2jfz_A Glutamate racemase; cell WALL, isomerase, cell shape, peptidoglycan
synthesis, peptidoglycan biosynthesis; HET: 003 DGL;
1.86A {Helicobacter pylori} PDB: 2jfx_A* 2jfy_A* 2w4i_A*
Length = 255
Score = 29.9 bits (68), Expect = 2.5
Identities = 8/30 (26%), Positives = 18/30 (60%)
Query: 430 KICFWLIENNLNVLIAACDTFRAGAVEQLR 459
+ + + + +LI AC+T A A+E+++
Sbjct: 53 EALDFFKPHEIELLIVACNTASALALEEMQ 82
>3gwz_A MMCR; methyltransferase, mitomycin, S-adenosyl methionine,
transferase; HET: MSE SAH; 1.91A {Streptomyces
lavendulae} PDB: 3gxo_A*
Length = 369
Score = 30.0 bits (68), Expect = 2.6
Identities = 9/33 (27%), Positives = 14/33 (42%), Gaps = 1/33 (3%)
Query: 559 FNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVG 591
FN AM SL++ + + T D +G
Sbjct: 179 FNRAMGSVSLTEAGQVAAAYDFSGAATAVD-IG 210
>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, MTBI,
transferase; HET: ATM; 1.85A {Staphylococcus aureus
subsp} PDB: 4dwj_A* 4f4i_A
Length = 229
Score = 29.5 bits (67), Expect = 2.9
Identities = 11/50 (22%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 395 RVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLI 444
VD+ + L + + F G G GK+T + ++ L + +V++
Sbjct: 10 GVDLGTENLYFQSNAMSAFITFEGPEGSGKTTVINEVYHRL-VKDYDVIM 58
>2f4l_A Acetamidase, putative; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2, hydrolase; 2.50A {Thermotoga maritima} SCOP:
b.23.3.1
Length = 297
Score = 29.2 bits (65), Expect = 3.4
Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 1/41 (2%)
Query: 467 SLHPAAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHI 507
+ A K RE V ++ + A+ S + D+ I
Sbjct: 236 DIEEALKEVTRETVWFIQRRKTIPFTD-AYMLASLSVDVGI 275
>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB);
structural genomics, PSI, protein structure initiative;
2.10A {Archaeoglobus fulgidus}
Length = 171
Score = 28.9 bits (64), Expect = 3.4
Identities = 20/152 (13%), Positives = 50/152 (32%), Gaps = 10/152 (6%)
Query: 411 PFVMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRT-HVRHLCSLH 469
+++ G + GK+T + ++ L E L V + +++ + S
Sbjct: 2 SLILSIVGTSDSGKTTLITRMMPILRERGLRVAVVKRHAHGDFEIDKEGKDSWKIYNSGA 61
Query: 470 PAAKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEP-LMRAL 528
++ + + I D+V+ + + + +++
Sbjct: 62 DVVIASPVKLAFIRRV---SEEEGNDLDWIYERYLSDYDLVITEGFSKAGKDRIVVVKKP 118
Query: 529 AKLVKVNQPDLLLFVGEALVGNEAVDQLVKFN 560
++ Q +L A+V +E VD F
Sbjct: 119 EEVEHFRQGRIL-----AVVCDERVDGHKWFR 145
>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase,
transferase; HET: T5A; 1.98A {Escherichia coli} SCOP:
c.37.1.1 PDB: 5tmp_A*
Length = 213
Score = 29.1 bits (66), Expect = 3.4
Identities = 6/27 (22%), Positives = 13/27 (48%)
Query: 418 GVNGVGKSTNLAKICFWLIENNLNVLI 444
G+ G GK+T + L + + ++
Sbjct: 10 GLEGAGKTTARNVVVETLEQLGIRDMV 36
>3lst_A CALO1 methyltransferase; calicheamicin, enediyne, SAH, STRU
genomics, PSI-2, protein structure initiative; HET: SAH;
2.40A {Micromonospora echinospora}
Length = 348
Score = 29.6 bits (67), Expect = 3.4
Identities = 7/33 (21%), Positives = 12/33 (36%), Gaps = 1/33 (3%)
Query: 559 FNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVG 591
+ M S +++ L T+ D VG
Sbjct: 161 YYEGMETVSAAEHLILARAGDFPATGTVAD-VG 192
>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases,
center for structural genomics of infectious DISE
ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1
biovar eltor} PDB: 3n2i_A*
Length = 236
Score = 29.2 bits (66), Expect = 3.6
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 418 GVNGVGKSTNLAKICFWLIENNLNVLI 444
G+ G GKST + + L +N ++ +
Sbjct: 34 GLEGAGKSTAIQVVVETLQQNGIDHIT 60
>2iw1_A Lipopolysaccharide core biosynthesis protein RFAG; transferase,
lipopolysaccharide biosynthesis, family GT-4,
glycosyltransferase, LPS; HET: U2F; 1.5A {Escherichia
coli} SCOP: c.87.1.8 PDB: 2iv7_A*
Length = 374
Score = 29.6 bits (67), Expect = 3.6
Identities = 16/63 (25%), Positives = 22/63 (34%), Gaps = 11/63 (17%)
Query: 508 DVVLIDTAGRMQDN---EPLMRALAKLVKVNQPDLLLFVG--------EALVGNEAVDQL 556
L+ G + + ALA L + + + LLFV EAL V
Sbjct: 195 QQNLLLQVGSDFGRKGVDRSIEALASLPESLRHNTLLFVVGQDKPRKFEALAEKLGVRSN 254
Query: 557 VKF 559
V F
Sbjct: 255 VHF 257
>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed
alpha-beta fold, elongated beta-sheet, walker A motif,
P-loop structural motif; 1.90A {Escherichia coli} SCOP:
c.37.1.10 PDB: 1p9n_A
Length = 174
Score = 28.7 bits (63), Expect = 4.0
Identities = 14/105 (13%), Positives = 36/105 (34%), Gaps = 1/105 (0%)
Query: 413 VMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAA 472
++AF +G GK+T L K+ L + + + + +
Sbjct: 8 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHDMDVDKPGKDSYELRKAGAAQT 67
Query: 473 KHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGR 517
++ L + ++ ++ F S +D++L++
Sbjct: 68 IVASQQRWALMTETPDEEELDLQF-LASRMDTSKLDLILVEGFKH 111
>3uhf_A Glutamate racemase; structural genomics, center for structural
genomics of infec diseases, csgid, alpha-beta sandwich
fold, isomerase; HET: DGL; 1.83A {Campylobacter jejuni}
PDB: 3uho_A* 3uhp_A
Length = 274
Score = 29.1 bits (66), Expect = 4.6
Identities = 9/30 (30%), Positives = 18/30 (60%)
Query: 430 KICFWLIENNLNVLIAACDTFRAGAVEQLR 459
+ + + +++LI AC+T A A++ LR
Sbjct: 77 EALDFFEQFQIDMLIIACNTASAYALDALR 106
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 28.4 bits (63), Expect = 4.8
Identities = 20/134 (14%), Positives = 44/134 (32%), Gaps = 15/134 (11%)
Query: 418 GVNGVGKSTNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLH----PAAK 473
G GVGK+T + KI L + + T E + + + +
Sbjct: 7 GEPGVGKTTLVKKIVERLGKRAIGFW-----TEEVRDPETKKRTGFRIITTEGKKKIFSS 61
Query: 474 HGGREMV-----QLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGRMQDNEP-LMRA 527
+ + + + I RA A+ V++ID G+M+
Sbjct: 62 KFFTSKKLVGSYGVNVQYFEELAIPILERAYREAKKDRRKVIIIDEIGKMELFSKKFRDL 121
Query: 528 LAKLVKVNQPDLLL 541
+ +++ +++
Sbjct: 122 VRQIMHDPNVNVVA 135
>1tw3_A COMT, carminomycin 4-O-methyltransferase; anthracycline, methylate,
tailoring enzyme, polyketide, S-adenosyl-L-homocystein;
HET: SAH ERT; 2.35A {Streptomyces peucetius} SCOP:
a.4.5.29 c.66.1.12 PDB: 1tw2_A*
Length = 360
Score = 28.8 bits (65), Expect = 4.9
Identities = 9/47 (19%), Positives = 14/47 (29%), Gaps = 3/47 (6%)
Query: 545 EALVGNEAVDQLVKFNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVG 591
E L G + F++ +A T + D VG
Sbjct: 148 EDLAGRPDLRAS--FDSLLACDQDVAFDAPAAAYDWTNVRHVLD-VG 191
>3ht4_A Aluminum resistance protein; lyase, putative cystathionine
BEAT-lyase, aluminium resistance protein, Q81A77_baccr,
NESG, BCR213; 2.90A {Bacillus cereus atcc 14579}
Length = 431
Score = 28.9 bits (65), Expect = 5.3
Identities = 9/50 (18%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 498 AISHARDMHIDVVLIDTAGRMQDNEPL----MRALAKLVKVNQPDLLLFV 543
A++ A + ++ I + ++ + VK +PD+++FV
Sbjct: 157 AVAAAIHSNTKMIGIQRSKGYATRPSFTISQIKEMIAFVKEIKPDVVVFV 206
>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP
phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium
tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A*
1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A*
1w2h_A*
Length = 214
Score = 28.4 bits (64), Expect = 5.3
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 418 GVNGVGKSTNLAKICFWLIENNLNVLI 444
GV+G GK T + K+ +V
Sbjct: 7 GVDGAGKRTLVEKLSGAFRAAGRSVAT 33
>2oho_A Glutamate racemase; isomerase; 2.25A {Streptococcus pyogenes m1
gas} PDB: 2ohg_A 2ohv_A*
Length = 273
Score = 28.7 bits (65), Expect = 5.7
Identities = 8/30 (26%), Positives = 20/30 (66%)
Query: 430 KICFWLIENNLNVLIAACDTFRAGAVEQLR 459
++ +L+ N+ +++ AC+T A A E+++
Sbjct: 65 ELVNFLLTQNVKMIVFACNTATAVAWEEVK 94
>2dwu_A Glutamate racemase; isomerase; HET: DGL; 1.60A {Bacillus anthracis}
Length = 276
Score = 28.7 bits (65), Expect = 5.8
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 430 KICFWLIENNLNVLIAACDTFRAGAVEQLR 459
++ +L + L L+ AC+T A + L+
Sbjct: 60 EMVEFLKQFPLKALVVACNTAAAATLAALQ 89
>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A
{Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*
Length = 184
Score = 28.3 bits (64), Expect = 5.8
Identities = 9/48 (18%), Positives = 14/48 (29%), Gaps = 4/48 (8%)
Query: 416 FCGVNGVGKSTNLAKICFWLIENNLNVLI--AACDTFRAGAVEQLRTH 461
G GK+T L V + D+ R + +H
Sbjct: 8 ITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDS-RYH-STMIVSH 53
>2jfq_A Glutamate racemase; cell WALL, isomerase, cell shape, peptidoglycan
synthesis, peptidoglycan biosynthesis; HET: DGL; 2.15A
{Staphylococcus aureus}
Length = 286
Score = 28.7 bits (65), Expect = 5.8
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 430 KICFWLIENNLNVLIAACDTFRAGAVEQLR 459
+I L+E ++ +L+ AC+T A A+E L+
Sbjct: 75 EIARKLMEFDIKMLVIACNTATAVALEYLQ 104
>3c6a_A Terminase large subunit; terminase nuclease, viral protein; 1.16A
{Enterobacteria phage RB49} PDB: 3c6h_A
Length = 232
Score = 28.4 bits (62), Expect = 5.9
Identities = 16/148 (10%), Positives = 30/148 (20%), Gaps = 7/148 (4%)
Query: 25 FTPSLNALIKSVILQERGGNQVFEHNGLVLKHKLDNEFDLVFVVGFQKILQLSY------ 78
+ LI++ L V NG K V + + Y
Sbjct: 22 LEDPMGTLIRATTLSRLSFIDVVNDNGFYQFEKPKEGRKYVATLDCSEGRGQDYHALQII 81
Query: 79 -VDKLLDDVHLEFRDKYKNELGSDMHLYDYDFESTYNVLLKEAEEWSKVQACIPKQMRTF 137
+ + + + ++ Y + E A +
Sbjct: 82 DITEFPYKQVAVYHSNTTSHFILPDIVFKYLMMYNECPVYIELNSTGVSIAKSLAMDLEY 141
Query: 138 EESSKSKKTIASMIIDKNKKEEKSVPSK 165
+ M K K K
Sbjct: 142 DNIICDSFIDLGMKQSKRSKAMGCSALK 169
>1xjc_A MOBB protein homolog; structural genomics, midwest center for
structural GEN PSI, protein structure initiative, MCSG;
2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10
Length = 169
Score = 28.1 bits (62), Expect = 6.1
Identities = 18/106 (16%), Positives = 36/106 (33%), Gaps = 5/106 (4%)
Query: 413 VMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDTFR-AGAVEQLRTHVRHLCSLHPA 471
V G GK+T + K + V A + VRH + A
Sbjct: 6 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHGGEPARPEGVDSVRHERAGAVA 65
Query: 472 AKHGGREMVQLFEKGYGKDPAEIAFRAISHARDMHIDVVLIDTAGR 517
G ++QL + ++ ++ + +D+VL++ +
Sbjct: 66 TAVEGDGLLQLHLRRPLWRLDDV----LALYAPLRLDLVLVEGYKQ 107
>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase
domains, sensor 1, sensor 2, transferase; HET: DNA;
2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*
Length = 250
Score = 28.3 bits (64), Expect = 6.2
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 396 VDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKI 431
+ L + L + ++ F G GVGK T++A++
Sbjct: 32 LTALANGLSLGRIHHAYL--FSGTRGVGK-TSIARL 64
>3i53_A O-methyltransferase; CO-complex, rossmann-like fold; HET: SAH;
2.08A {Streptomyces carzinostaticus subsp} PDB: 3i58_A*
3i5u_A* 3i64_A*
Length = 332
Score = 28.4 bits (64), Expect = 6.6
Identities = 7/33 (21%), Positives = 11/33 (33%), Gaps = 1/33 (3%)
Query: 559 FNNAMADHSLSDNPHLIDGIVLTKFDTIDDKVG 591
F+ M+ H D + + D VG
Sbjct: 146 FDTLMSHHLELDYTGIAAKYDWAALGHVVD-VG 177
>2gzm_A Glutamate racemase; enzyme, isomerase; HET: DGL; 1.99A {Bacillus
anthracis}
Length = 267
Score = 28.3 bits (64), Expect = 6.7
Identities = 8/30 (26%), Positives = 20/30 (66%)
Query: 430 KICFWLIENNLNVLIAACDTFRAGAVEQLR 459
++ L++ N+ +L+ AC+T A +E+++
Sbjct: 56 EMTEHLLDLNIKMLVIACNTATAVVLEEMQ 85
>1b73_A Glutamate racemase; isomerase; 2.30A {Aquifex pyrophilus} SCOP:
c.78.2.1 c.78.2.1 PDB: 1b74_A*
Length = 254
Score = 28.2 bits (64), Expect = 7.1
Identities = 8/30 (26%), Positives = 20/30 (66%)
Query: 430 KICFWLIENNLNVLIAACDTFRAGAVEQLR 459
+ +L + +++++ AC+T A A+E+L+
Sbjct: 53 ECAGFLKDKGVDIIVVACNTASAYALERLK 82
>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome
condensation, condensin, SMC, N subunit, ABC-type
ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus
ducreyi} PDB: 3euk_A*
Length = 483
Score = 28.7 bits (63), Expect = 7.3
Identities = 11/28 (39%), Positives = 13/28 (46%)
Query: 411 PFVMAFCGVNGVGKSTNLAKICFWLIEN 438
V G NG GKST +A LI +
Sbjct: 29 ELVTTLSGGNGAGKSTTMAGFVTALIPD 56
>3out_A Glutamate racemase; structural genomics, center for structural
genomics of infec diseases, csgid, MURI, cell envelope;
HET: MSE DGL; 1.65A {Francisella tularensis subsp}
Length = 268
Score = 28.3 bits (64), Expect = 7.4
Identities = 8/30 (26%), Positives = 17/30 (56%)
Query: 430 KICFWLIENNLNVLIAACDTFRAGAVEQLR 459
+ +LI+ + +I AC+T A A + ++
Sbjct: 60 QTAKFLIDQEVKAIIIACNTISAIAKDIVQ 89
>3se6_A Endoplasmic reticulum aminopeptidase 2; thermolysin-like catalytic
domain, zinc BIND glycosylation, hydrolase; HET: LYS NAG
MES MAN; 3.08A {Homo sapiens}
Length = 967
Score = 28.6 bits (64), Expect = 7.7
Identities = 18/96 (18%), Positives = 36/96 (37%), Gaps = 11/96 (11%)
Query: 28 SLNAL---IKSVILQERGGNQVFEHNGLVLKHKLDNEFDLVFVVGFQKI-------LQLS 77
L++ I + LQ ++ + G LK + + ++ +K+ + +
Sbjct: 109 ILHSKDLEITNATLQSEEDSRYMK-PGKELKVLSYPAHEQIALLVPEKLTPHLKYYVAMD 167
Query: 78 YVDKLLDDVHLEFRDKYKNELGSDMHLYDYDFESTY 113
+ KL D ++ Y+ G L DFE T
Sbjct: 168 FQAKLGDGFEGFYKSTYRTLGGETRILAVTDFEPTQ 203
>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like
domain, protein binding; 1.31A {Homo sapiens} SCOP:
c.37.1.1
Length = 180
Score = 27.8 bits (63), Expect = 8.3
Identities = 8/35 (22%), Positives = 12/35 (34%), Gaps = 6/35 (17%)
Query: 405 AKKQGRPFVMAFCGVNGVGKSTNLAKICFWLIENN 439
+ V G +GVG+ I LI +
Sbjct: 1 GSHMRKTLV--LLGAHGVGRRH----IKNTLITKH 29
>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG,
structural genomics, midwest center for structural
genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB:
3h0k_A
Length = 179
Score = 27.5 bits (61), Expect = 8.5
Identities = 23/127 (18%), Positives = 39/127 (30%), Gaps = 21/127 (16%)
Query: 413 VMAFCGVNGVGKSTNLAKICFWLIENNLNVLIAACDTFRAGAVEQLRTHVRHLCSLHPAA 472
V+ G+ G GKS L E V++ + D R +
Sbjct: 3 VILITGMPGSGKSE----FAKLLKERGAKVIVMS-DVVRKRYSIE-----------AKPG 46
Query: 473 KHGGREMVQLFEKGYGKD-PAEIAFRAISHARDMHIDVVLIDTAGRMQDNEPLMRALAKL 531
+ +L E YG A + + + D+V+ D + + E R L
Sbjct: 47 ERLMDFAKRLREI-YGDGVVARLCVEELGTSNH---DLVVFDGVRSLAEVEEFKRLLGDS 102
Query: 532 VKVNQPD 538
V +
Sbjct: 103 VYIVAVH 109
>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase,
cyclin dependent kinase inhibitory protein, CDK, cell
cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A
1dc2_A 2a5e_A
Length = 156
Score = 27.4 bits (62), Expect = 8.9
Identities = 9/47 (19%), Positives = 17/47 (36%), Gaps = 10/47 (21%)
Query: 468 LHPAAKHGGREMVQ-LFEKG---YGKDPAEIAFRAISHARDMHIDVV 510
+ A + G R++ + L G + A I A + D+
Sbjct: 115 VDLAEELGHRDVARYLRAAAGGTRGSNHARID------AAEGPSDIP 155
>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis,
nucleotide binding binding, cytoplasm,
nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium
tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A*
2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A*
2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A*
3avo_A* 3avq_A*
Length = 312
Score = 27.9 bits (62), Expect = 9.6
Identities = 13/60 (21%), Positives = 24/60 (40%), Gaps = 2/60 (3%)
Query: 393 KRRVDILRDALEAKKQGRPFVMAFCGVNGVGKSTNLAKICFWL--IENNLNVLIAACDTF 450
+ L + + + PF++ G VGKST + L +++ V + D F
Sbjct: 72 AATAEFLGEPQQNPDRPVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDGF 131
>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane
protein; HET: ADP; 2.11A {Methanothermobacter
thermautotrophicusorganism_taxid}
Length = 324
Score = 27.9 bits (62), Expect = 9.9
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 399 LRDALEAKKQGRPFVMAFCGVNGVGKST 426
+D + K FV G GVGK+T
Sbjct: 3 FKDLFKFNKGKTTFVF-IGGKGGVGKTT 29
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
0.316 0.133 0.373
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,333,869
Number of extensions: 585581
Number of successful extensions: 2058
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1995
Number of HSP's successfully gapped: 133
Length of query: 630
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 531
Effective length of database: 3,937,614
Effective search space: 2090873034
Effective search space used: 2090873034
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 (21.6 bits)
S2: 60 (26.8 bits)