RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16318
(474 letters)
>2e1b_A PH0108, 216AA long hypothetical alanyl-tRNA synthetase;
zinc-binding motif, trans-editing enzyme, structural
genomics, NPPSFA; 2.70A {Pyrococcus horikoshii} SCOP:
b.43.3.6 d.67.1.2
Length = 216
Score = 103 bits (259), Expect = 1e-25
Identities = 39/150 (26%), Positives = 59/150 (39%), Gaps = 39/150 (26%)
Query: 315 YDEGFMSNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIG--VNDESQIELWFS 372
Y++ ++ K+ V + ILLD++ FY GGQ +D G + G V D
Sbjct: 10 YEDAYL--KEAKGRVLEIRDNAILLDQTIFYPTGGGQPHDRGTINGVEVLDV-------- 59
Query: 373 SLVNLEGSKYALPIFLQFSLSNLKKKKKLVKLLHTL--SHTLRVGDKLKLHIDTARRRPI 430
K + + H + +VGD+++L ID R +
Sbjct: 60 ------------------------YKDEEGNVWHVVKEPEKFKVGDEVELKIDWDYRYKL 95
Query: 431 MSNHTATHILNHALRFVLGPEADQ-KGSLV 459
M HT H+L H L VLG Q GS +
Sbjct: 96 MRIHTGLHLLEHVLNEVLGEGNWQLVGSGM 125
Score = 50.3 bits (121), Expect = 3e-07
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 283 YNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMSNKQFVD 327
Y K+ V + ILLD++ FY GGQ +D G ++ + +D
Sbjct: 14 YLKEAKGRVLEIRDNAILLDQTIFYPTGGGQPHDRGTINGVEVLD 58
Score = 49.9 bits (120), Expect = 4e-07
Identities = 16/43 (37%), Positives = 23/43 (53%)
Query: 231 SYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIGVN 273
+Y K+ V + ILLD++ FY GGQ +D G + GV
Sbjct: 13 AYLKEAKGRVLEIRDNAILLDQTIFYPTGGGQPHDRGTINGVE 55
Score = 39.5 bits (93), Expect = 0.001
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 69 SVEFCGGTHLAMAHHVGDFCISSEEAIAKG 98
V CGGTH+ +G +I +G
Sbjct: 178 EVIPCGGTHVKDIKEIGHIKKLKRSSIGRG 207
>2ztg_A Alanyl-tRNA synthetase; class-II aminoacyl-tRNA synthetase,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase; HET: A5A; 2.20A {Archaeoglobus fulgidus}
Length = 739
Score = 106 bits (266), Expect = 1e-24
Identities = 35/138 (25%), Positives = 59/138 (42%), Gaps = 28/138 (20%)
Query: 323 KQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIGVNDESQIELWFSSLVNLEGSKY 382
+F V ++L++S FY E GGQ D G++I + ++
Sbjct: 515 LEFEAEVIGVEGDFVILNRSAFYPESGGQDNDVGYLIANGGKFEVV-------------- 560
Query: 383 ALPIFLQFSLSNLKKKKKLVKLLHTL-SHTLRVGDKLKLHIDTARRRPIMSNHTATHILN 441
++ + +V LH + VG K+K ID+ R M +H+ATH+L
Sbjct: 561 -----------DVLEADGVV--LHVVKGAKPEVGTKVKGVIDSDVRWRHMRHHSATHVLL 607
Query: 442 HALRFVLGPEADQKGSLV 459
++L+ VLG Q G+
Sbjct: 608 YSLQKVLGNHVWQAGARK 625
Score = 74.2 bits (183), Expect = 3e-14
Identities = 16/58 (27%), Positives = 25/58 (43%)
Query: 8 LGESKVLPGDVAWRLYDTYGFPVDLTQLMVEEKGLSVDMEVYEDAKKKAQSEPESQAG 65
+ K L D LYD++G PV+L + EKG V+M A+ + +
Sbjct: 434 VERKKKLEKDDLIELYDSHGIPVELAVGIAAEKGAEVEMPKDIYAELAKRHSKAEKVQ 491
Score = 46.5 bits (111), Expect = 1e-05
Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 1/65 (1%)
Query: 232 YNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIGVNDEGTVVG-LRYNKQFVDS 290
+F V ++L++S FY E GGQ D G++I + VV L + +
Sbjct: 513 TLLEFEAEVIGVEGDFVILNRSAFYPESGGQDNDVGYLIANGGKFEVVDVLEADGVVLHV 572
Query: 291 VSSGT 295
V
Sbjct: 573 VKGAK 577
Score = 43.0 bits (102), Expect = 2e-04
Identities = 13/47 (27%), Positives = 20/47 (42%)
Query: 283 YNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMSNKQFVDSV 329
+F V ++L++S FY E GGQ D G++ V
Sbjct: 513 TLLEFEAEVIGVEGDFVILNRSAFYPESGGQDNDVGYLIANGGKFEV 559
Score = 41.9 bits (99), Expect = 5e-04
Identities = 11/33 (33%), Positives = 15/33 (45%)
Query: 66 METSVEFCGGTHLAMAHHVGDFCISSEEAIAKG 98
+ V+ CGGTH +G I E+I G
Sbjct: 696 VGDDVQACGGTHCRSTGEIGMLKILKVESIQDG 728
>3kew_A DHHA1 domain protein; structural genomics, PSI-2, tRNA synthase,
protein structure initiative; 2.00A {Clostridium
perfringens}
Length = 241
Score = 94.5 bits (236), Expect = 3e-22
Identities = 28/158 (17%), Positives = 55/158 (34%), Gaps = 42/158 (26%)
Query: 326 VDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIGVNDESQIELWFSSLVNLEGSKYALP 385
++ + +LLD++ F+ GGQ+ D G + G+
Sbjct: 21 IEVKEIDGKFHVLLDQTAFFPGGGGQMGDLGLIDGIK----------------------- 57
Query: 386 IFLQFSLSNLKKKKKLVKLLHTLSHTLRVGDKLKLHIDTARRRPIMSNHTATHILNHALR 445
+ ++ +++ V H L + L+ +D RR M H H+L+
Sbjct: 58 ------VLDVYEEEGKV--YHVLEKEPKKLKNLQCELDWERRFDGMQQHLGQHLLSGCFY 109
Query: 446 FVLGPEADQKGSLVYRYHLH---------ENIMECEEE 474
+ G A+ G + + + I E E+E
Sbjct: 110 DLFG--ANTCGFHLGKEISTVDIVGFLDEKTIREAEKE 145
Score = 44.5 bits (106), Expect = 3e-05
Identities = 13/47 (27%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 231 SYNKQF----VDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIGVN 273
Y K+F ++ + +LLD++ F+ GGQ+ D G + G+
Sbjct: 11 QYIKEFKGEIIEVKEIDGKFHVLLDQTAFFPGGGGQMGDLGLIDGIK 57
Score = 43.3 bits (103), Expect = 7e-05
Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 283 YNKQF----VDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMSNKQFVD 327
Y K+F ++ + +LLD++ F+ GGQ+ D G + + +D
Sbjct: 12 YIKEFKGEIIEVKEIDGKFHVLLDQTAFFPGGGGQMGDLGLIDGIKVLD 60
Score = 38.3 bits (90), Expect = 0.003
Identities = 7/38 (18%), Positives = 10/38 (26%)
Query: 69 SVEFCGGTHLAMAHHVGDFCISSEEAIAKGSNIVSYCG 106
+ C G H + I E + I G
Sbjct: 191 DLNACCGVHPRNTRDLQVIKIRRWEKHKNATRIEYVAG 228
>1yfs_A Alanyl-tRNA synthetase; alpha-beta fold, helix-loop-helix motif,
amino acid binding, ligase; 2.08A {Aquifex aeolicus}
SCOP: a.203.1.1 d.104.1.1 PDB: 1yfr_A* 1riq_A 1yft_A
1ygb_A 3htz_A
Length = 465
Score = 76.1 bits (188), Expect = 5e-15
Identities = 28/94 (29%), Positives = 40/94 (42%), Gaps = 16/94 (17%)
Query: 6 AKLGESKVLPGDVAWRLYDTYGFPVDLTQLMVEEKGLSVDMEVYEDA----KKKAQSEPE 61
A K L G + YDTYGFPVDL + EKGL +D+E ++ +++A+ +
Sbjct: 371 ALEEGRKTLSGKEVFTAYDTYGFPVDLIDEIAREKGLGIDLEGFQCELEEQRERARKHFK 430
Query: 62 SQAGMETSV-----------EFCGGTHL-AMAHH 83
+A V F G L HH
Sbjct: 431 VEAKKVKPVYSHLKELGKTSAFVGAAALEHHHHH 464
>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A
{Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A*
Length = 752
Score = 74.8 bits (182), Expect = 2e-14
Identities = 35/136 (25%), Positives = 50/136 (36%), Gaps = 25/136 (18%)
Query: 324 QFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIGVNDESQIELWFSSLVNLEGSKYA 383
+F V ++LD + FY E GGQ YD G +I E
Sbjct: 528 EFDAXVLRVIXDWVILDATAFYPEGGGQPYDTGVLIVNGRE------------------- 568
Query: 384 LPIFLQFSLSNLKKKKKLVKLLHTLSHTLRVGDKLKLHIDTARRRPIMSNHTATHILNHA 443
++N++ ++ G + ID RR M +HT TH+L A
Sbjct: 569 ------VXVTNVQXVGXVIIHXVEDPGAFXEGMIVHGXIDWXRRIQHMRHHTGTHVLMGA 622
Query: 444 LRFVLGPEADQKGSLV 459
L VLG Q GS +
Sbjct: 623 LVRVLGRHVWQAGSQL 638
Score = 54.7 bits (130), Expect = 4e-08
Identities = 12/66 (18%), Positives = 30/66 (45%)
Query: 7 KLGESKVLPGDVAWRLYDTYGFPVDLTQLMVEEKGLSVDMEVYEDAKKKAQSEPESQAGM 66
K K +P + Y+++G ++ + E++G+ V++ + ++E +
Sbjct: 442 KKKGIKEIPVEXLVTFYESHGLTPEIVXEIAEKEGVKVNIPDNFYSMVAKEAERTKEEKG 501
Query: 67 ETSVEF 72
E V+F
Sbjct: 502 EELVDF 507
Score = 37.0 bits (84), Expect = 0.012
Identities = 13/32 (40%), Positives = 15/32 (46%)
Query: 67 ETSVEFCGGTHLAMAHHVGDFCISSEEAIAKG 98
+ V+ CGGTHL VG I E I G
Sbjct: 711 DWDVQACGGTHLPSTGLVGPIXILRTERIQDG 742
Score = 37.0 bits (84), Expect = 0.015
Identities = 15/54 (27%), Positives = 24/54 (44%)
Query: 286 QFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMSNKQFVDSVSSGTEAGILL 339
+F V ++LD + FY E GGQ YD G + V++ G ++
Sbjct: 528 EFDAXVLRVIXDWVILDATAFYPEGGGQPYDTGVLIVNGREVXVTNVQXVGXVI 581
Score = 36.6 bits (83), Expect = 0.017
Identities = 16/58 (27%), Positives = 25/58 (43%)
Query: 231 SYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIGVNDEGTVVGLRYNKQFV 288
+ +F V ++LD + FY E GGQ YD G +I E V ++ +
Sbjct: 524 PFMXEFDAXVLRVIXDWVILDATAFYPEGGGQPYDTGVLIVNGREVXVTNVQXVGXVI 581
>3hy0_A Alanyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase, protein
biosynthesis, NUC binding, amino acid-binding,
ATP-binding, metal-binding; HET: G5A EPE; 1.90A
{Escherichia coli} PDB: 3hxz_A* 3hy1_A* 3hxv_A* 3hxu_A*
3hxw_A* 3hxx_A* 3hxy_A*
Length = 441
Score = 71.5 bits (176), Expect = 1e-13
Identities = 24/53 (45%), Positives = 34/53 (64%), Gaps = 1/53 (1%)
Query: 3 QTIAKLGESKVLPGDVAWRLYDTYGFPVDLTQLMVEEKGLSVDMEVYEDAKKK 55
+ +AKL L G+ A+RLYDTYGFPVDLT + E+ + VD +E A ++
Sbjct: 379 EELAKLS-GDTLDGETAFRLYDTYGFPVDLTADVCRERNIKVDEAGFEAAMEE 430
>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 = 69.3 bits (169), Expect = 1e-12
Identities = 85/459 (18%), Positives = 141/459 (30%), Gaps = 177/459 (38%)
Query: 93 EAIAKGS-NIVSYCGSKGTFQSHSGSIN---DEMVNKYPSLYRLFRTVHKQKYVQDALNV 148
A+ +G+ +V+ G G Q G+ + +E+ LY+ + V D +
Sbjct: 147 RAVGEGNAQLVAIFG--G--Q---GNTDDYFEELR----DLYQTYHV-----LVGDLIKF 190
Query: 149 S--CL--------SFRGVWEHGMSV-GWTGVAIGALPFGLTVPLTFGPSLGLVFLAVAEF 197
S L V+ G+++ W L P P +L
Sbjct: 191 SAETLSELIRTTLDAEKVFTQGLNILEW-----------LENPSNT-PDKD--YLLSIPI 236
Query: 198 LFLVSSCGFIGSDTGLGDLSQTKH-TPFVKRLRFSYNKQFVDSVS--SGTEAGILL---- 250
SC IG + Q H K L F+ + + +G G++
Sbjct: 237 -----SCPLIG-------VIQLAHYVVTAKLLGFTP-GELRSYLKGATGHSQGLVTAVAI 283
Query: 251 ----DKSNFYAEQGGQIYDEGFMIGV---------------------NDEGT------VV 279
+F+ + F IGV N+EG +
Sbjct: 284 AETDSWESFF-VSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 280 GLRYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMS--N--KQFVDSVSSGTEA 335
L ++ V ++K+N + G Q+ +S N K V VS ++
Sbjct: 343 NL--TQEQVQD---------YVNKTNSHLPAGKQVE----ISLVNGAKNLV--VSGPPQS 385
Query: 336 --GILLDKSNFYAEQGGQIYDEGFMIGVNDESQIELWFSSLVNLEGSKYALPIF------ 387
G+ L A G D+S+I FS L+ S LP+
Sbjct: 386 LYGLNLTLRKAKAPSG------------LDQSRIP--FSER-KLKFSNRFLPVASPFHSH 430
Query: 388 -----------------LQFSLSNLKKKKKLVKLLHTLS-HTLRV--GDKLKLHIDTARR 427
+ F+ +++ + + T LRV G + +D R
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDIQ-----IPVYDTFDGSDLRVLSGSISERIVDCIIR 485
Query: 428 RPI----MSNHTATHILNHALRFVLGP-EADQKGSLVYR 461
P+ + ATHIL GP A G L +R
Sbjct: 486 LPVKWETTTQFKATHIL------DFGPGGASGLGVLTHR 518
Score = 65.1 bits (158), Expect = 3e-11
Identities = 66/424 (15%), Positives = 109/424 (25%), Gaps = 190/424 (44%)
Query: 22 LYDTYGFPV--------DLTQLMVEEKGLSVDMEVYEDAKKKAQSEPESQAGMETSVEFC 73
LY T D + G S+ V + + F
Sbjct: 1635 LYKT--SKAAQDVWNRAD--NHFKDTYGFSILDIVINNPVNLT-------------IHF- 1676
Query: 74 GGT--------HLAMA-HHVGDFCISSEEAIAKGSNIVSYCGSKGTFQSHSGSINDEMVN 124
GG + AM + D + +E+ I K N S + TF+S G
Sbjct: 1677 GGEKGKRIRENYSAMIFETIVDGKLKTEK-IFKEINEHS---TSYTFRSEKG-------- 1724
Query: 125 KYPSLYRLFRTVHKQKYVQDAL-NVSCLSFRGVWEHGMSVGWTGVAIGALPFGLTVPLTF 183
L T ++ Q AL + +F + G+ A
Sbjct: 1725 ------LLSAT----QFTQPALTLMEKAAFEDLKSKGLIPADATFA-------------- 1760
Query: 184 GPSLG----LVFLAVAEFLFLVSSCGFIGSDTGLGDLSQTKHTPFVK--RLRFSYNKQFV 237
G SLG L ++A+ + + V+ R
Sbjct: 1761 GHSLGEYAALA--SLADVMSI--------ESL-------------VEVVFYR-------- 1789
Query: 238 DSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIGVNDEGTVVGLRYN--KQFVDSVSSGT 295
G+ + + E G Y MI +N + V+ V T
Sbjct: 1790 ---------GMTMQVAVPRDELGRSNYG---MIAINPGRVAASFSQEALQYVVERVGKRT 1837
Query: 296 EAGILLDKSNFYAEQGGQIYDEGFMSNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDE 355
G L++ N+ E Q V++G LD
Sbjct: 1838 --GWLVEIVNYNVE-NQQY--------------VAAGDLRA--LDT-------------- 1864
Query: 356 GFMIGVNDESQIELWFSSLVNLEGSKYALPIFLQFSLSNLKKKK-KLVKLLHTLSHTLRV 414
+ N+ L+ +K +K +++L +LS V
Sbjct: 1865 ------------------VTNV--------------LNFIKLQKIDIIELQKSLS-LEEV 1891
Query: 415 GDKL 418
L
Sbjct: 1892 EGHL 1895
Score = 48.9 bits (116), Expect = 4e-06
Identities = 63/387 (16%), Positives = 111/387 (28%), Gaps = 123/387 (31%)
Query: 180 PLTFGPSLGLVFLAVAEF--LFLVSSCGFIGSD--TGLGDLSQTKHTPFVKR---LRFSY 232
P G ++ L + EF +L G+D L Q T VK ++
Sbjct: 74 PSKVGQFDQVLNLCLTEFENCYLE------GNDIHALAAKLLQENDTTLVKTKELIKNYI 127
Query: 233 N-KQFVDSVSSGTEAGILLD-----KSNFYAEQGGQ-IYDEGFMIGVNDEGTVVGLR--Y 283
+ L + A GGQ D+ F +E LR Y
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF-----EE-----LRDLY 177
Query: 284 N------KQFVDSVSS--GTEAGILLDKSNFYAEQGGQIY----------DEGFMSN--- 322
+ + LD + QG I D+ ++ +
Sbjct: 178 QTYHVLVGDLIKFSAETLSELIRTTLDAEKVF-TQGLNILEWLENPSNTPDKDYLLSIPI 236
Query: 323 ------------------------KQFVDSVS--SGTEAGILL--------DKSNFYAEQ 348
+ + +G G++ +F+
Sbjct: 237 SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF-VS 295
Query: 349 GGQIYDEGFMIGVNDESQ-----IELWFS----SLVNLEGSKYALPIFLQFSLSNLKKKK 399
+ F IGV L S SL N EG P S+SNL ++
Sbjct: 296 VRKAITVLFFIGV--RCYEAYPNTSLPPSILEDSLENNEGV--PSP---MLSISNL-TQE 347
Query: 400 KLVKLLHTLSHTLRVGDKLKLHIDTARRRPIMSNHTAT-HILNHALRFVLGP-EADQ--- 454
++ ++ + L G ++++ + + ++S + + LN LR P DQ
Sbjct: 348 QVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI 407
Query: 455 -----KGSLVYRYHL------HENIME 470
K R+ L H +++
Sbjct: 408 PFSERKLKFSNRF-LPVASPFHSHLLV 433
Score = 36.6 bits (84), Expect = 0.019
Identities = 38/246 (15%), Positives = 73/246 (29%), Gaps = 63/246 (25%)
Query: 214 GDLSQTKHTP-----FVKRLRFSYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDE-- 266
G L P +L+ +QF + TE D E E
Sbjct: 14 GSLEHVLLVPTASFFIASQLQ----EQFNKILPEPTEGFAADD------EPTTPA--ELV 61
Query: 267 ----GFMIGVNDEGT------VVGLRYNKQFVDSVSSGTE----AGILLDKSNFYAEQGG 312
G++ + + V+ L +F + G + A LL +++ +
Sbjct: 62 GKFLGYVSSLVEPSKVGQFDQVLNLCLT-EFENCYLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 313 QI----YDEGFMSNKQFVDSVSS----GTEAGILLDKSNFYAEQGGQIYDEGFMIGVNDE 364
++ M+ + F +S G + A GGQ G D+
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEG----NAQLVAIFGGQ--------GNTDD 168
Query: 365 SQIELWFSSLVNL-EGSKYALPIFLQFSLSNLKKKKKLVKLLHTLSHTLRVGDKLKLHID 423
+F L +L + + ++FS L +L++ G + ++
Sbjct: 169 -----YFEELRDLYQTYHVLVGDLIKFSAETL---SELIRTTLDAEKVFTQGLNILEWLE 220
Query: 424 TARRRP 429
P
Sbjct: 221 NPSNTP 226
Score = 35.8 bits (82), Expect = 0.033
Identities = 48/270 (17%), Positives = 83/270 (30%), Gaps = 80/270 (29%)
Query: 22 LYDTY-GFPVDLTQLMVEEKGLSVDMEVYEDAKK-------------KAQSEPESQ--AG 65
LY TY DL + E LS + DA+K + P+
Sbjct: 176 LYQTYHVLVGDLIKFSAET--LSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS 233
Query: 66 METSVEFCGGTHLA--------MAHHVGDFCISSEEAIAKGSNIVSYCGSKGTFQSHSGS 117
+ S G LA + G+ + A +V+ + + S
Sbjct: 234 IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT-----AVAIAETDS 288
Query: 118 INDEMVNKYPSLYRLF----RTVHKQKYVQDALNVSCLSFRGV---WEHG------M-SV 163
V+ ++ LF R +A + L + E+ M S+
Sbjct: 289 WESFFVSVRKAITVLFFIGVRC-------YEAYPNTSLPPSILEDSLENNEGVPSPMLSI 341
Query: 164 GWTGVAIGALPFGLTVPLTFGPSLGLVFLAVAEFL------FLVSSCGFIGSDTGL---- 213
+ + + + + P+ V ++ L +VS G S GL
Sbjct: 342 --SNLTQEQVQDYVNKTNSHLPAGKQVEIS----LVNGAKNLVVS--GPPQSLYGLNLTL 393
Query: 214 ------GDLSQTKHTPFVKR-LRFSYNKQF 236
L Q++ PF +R L+FS +F
Sbjct: 394 RKAKAPSGLDQSR-IPFSERKLKFSN--RF 420
Score = 31.6 bits (71), Expect = 0.77
Identities = 43/196 (21%), Positives = 66/196 (33%), Gaps = 58/196 (29%)
Query: 126 YP-SLYRLFRTVHKQKYVQDALNVSCLSFRGVWEHGMSVGWTGVAIGALPF---GLTVPL 181
P SLY L T+ K K L+ S + F E + + + + PF L
Sbjct: 382 PPQSLYGLNLTLRKAK-APSGLDQSRIPFS---ERKLKFSNRFLPVAS-PFHSHLLV--- 433
Query: 182 TFGPSLGLVF--LAVAEFLFLVSSCGFIGSDTGLG-DLSQTKHTPFVKRLRFSYNKQFVD 238
P+ L+ L F DT G DL + +R+ VD
Sbjct: 434 ---PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL-RVLSGSISERI--------VD 481
Query: 239 SV---------SSGTEAGILLDKSNFYAEQG-GQIYDEGFMIGVNDEGTVVGLRYNKQFV 288
+ ++ +A +LD F G G G + N +GT G+R
Sbjct: 482 CIIRLPVKWETTTQFKATHILD---F----GPGGASGLGVLTHRNKDGT--GVRV----- 527
Query: 289 DSVSSGTEAGILLDKS 304
+ +GT LD +
Sbjct: 528 --IVAGT-----LDIN 536
>1v4p_A Alanyl-tRNA synthetase; alanine-tRNA ligase, riken structural
genomics/proteomics initiative RSGI, structural
genomics; 1.45A {Pyrococcus horikoshii} SCOP: d.67.1.2
PDB: 1wxo_A 1v7o_A 1wnu_A 3rhu_A 3rfn_A
Length = 157
Score = 53.4 bits (129), Expect = 1e-08
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 427 RRPIMSNHTATHILNHALRFVLGPEADQ-KGSLV 459
+ H+A H++ A+ VLG EA + V
Sbjct: 2 YSIEVRTHSALHVVKGAVVKVLGSEAKWTYSTYV 35
Score = 36.9 bits (86), Expect = 0.005
Identities = 7/31 (22%), Positives = 10/31 (32%), Gaps = 1/31 (3%)
Query: 69 SVEFCGGTHLAMAHHVGDFCI-SSEEAIAKG 98
+V C H +G I +KG
Sbjct: 112 NVNACNKEHTKTTGEIGPIKIRKVRFRKSKG 142
>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 = 38.3 bits (88), Expect = 0.007
Identities = 68/520 (13%), Positives = 149/520 (28%), Gaps = 193/520 (37%)
Query: 97 KGSNIVSYCGSKGTFQSHSGSINDEMVNKYPSLYRLFRTVHKQK------YVQ--DAL-- 146
K +V F + + + Y L +T +Q Y++ D L
Sbjct: 74 KQEEMVQK------F------VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN 121
Query: 147 --------NVS----------CL----SFRGVWEHGMS-VGWTGVAIGAL---------P 174
NVS L + V G+ G T VA+
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD 181
Query: 175 FG---LTVPLTFGPSLGLVFLAVAEFLFLVSSCGFIGSDTGLGDLSQTKHTPFVKRLRFS 231
F L + P L L + L + ++ H+ + R
Sbjct: 182 FKIFWLNLKNCNSPETVLEML---QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 232 YNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYD----EGFMIGVNDEGTVVGLRYNKQF 287
+K + + + ++L + + F + ++ R KQ
Sbjct: 239 KSKPYENCL-------LVLL----------NVQNAKAWNAFNLSCK---ILLTTR-FKQV 277
Query: 288 VDSVSSGTEAGILLDKSN--FYAEQG------------------------------GQIY 315
D +S+ T I LD + ++ +
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESI 337
Query: 316 DEGFMSNKQF----VDSVSSGTEAGI-LLDKSNFYAEQGGQIYDEGFMIGVNDESQIE-- 368
+G + + D +++ E+ + +L+ + + +++D + + I
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYR-----KMFDR-LSV-FPPSAHIPTI 390
Query: 369 ----LWFSSLVNLEGSKYALPIFLQ----FSLSNLKKKKKLVKLLHTLSHTLR--VGDKL 418
+WF + K + + + +SL K+ K+ + ++ L+ + ++
Sbjct: 391 LLSLIWF------DVIKSDVMVVVNKLHKYSLVE-KQPKESTISIPSIYLELKVKLENEY 443
Query: 419 KLH---IDTARRR----------PIMSNHTATHILNHA------------------LRFV 447
LH +D P + + +HI +H RF+
Sbjct: 444 ALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFL 503
Query: 448 ------LGPEADQKGSLV--------YRYHLHENIMECEE 473
+ GS++ Y+ ++ +N + E
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
Score = 37.9 bits (87), Expect = 0.008
Identities = 34/270 (12%), Positives = 80/270 (29%), Gaps = 73/270 (27%)
Query: 214 GDLSQTKHTPFVKRLRFSYNKQFVDSVSSGTEAGILLDKSN--------FYA--EQGGQI 263
D+ FV + S+ S E ++ + F+ + ++
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 264 YDEGFMIGVNDEGTVVGLRYNKQFV-DSVSSGTEAGILLDKSNFYAEQ------GGQIYD 316
+ F+ V LR N +F+ + + ++ + Y EQ Q++
Sbjct: 79 VQK-FVEEV--------LRINYKFLMSPIKTEQRQPSMMTRM--YIEQRDRLYNDNQVFA 127
Query: 317 EGFMSNKQFVDSVSSG-----TEAGILLDKSNFYAEQGGQIYDEGFMIGVNDESQIELWF 371
+ +S Q + +L+ G ++G
Sbjct: 128 KYNVSRLQPYLKLRQALLELRPAKNVLI--------DG--------VLGSGK-------- 163
Query: 372 SSLVNLEGSKYALPIFLQF-----SLSNLKKKKKLVKLLHTLSHTLR--------VGDKL 418
+ + Y + + F +L N + ++++L L + + +
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 419 KLHIDTARRRPIMSNHTATHILNHALRFVL 448
KL I + + + + + L VL
Sbjct: 224 KLRIHSIQAE--LRRLLKSKPYENCL-LVL 250
Score = 28.3 bits (62), Expect = 7.6
Identities = 9/29 (31%), Positives = 16/29 (55%), Gaps = 8/29 (27%)
Query: 31 DLTQ--LMVEEKGLSVDMEVYEDAKKKAQ 57
DL + LM E++ ++E+A K+ Q
Sbjct: 566 DLLRIALMAEDEA------IFEEAHKQVQ 588
>4dxb_A RG13, maltose-binding periplasmic protein, beta-lactama chimera;
TEM, beta-lactamase, MBP, allosteric regulation, zinc
bindin maltose binding; 2.29A {Escherichia coli} PDB:
4dxc_A
Length = 637
Score = 33.0 bits (75), Expect = 0.24
Identities = 13/101 (12%), Positives = 32/101 (31%), Gaps = 26/101 (25%)
Query: 232 YNKQFVDSV--------------SSGTEAGILLDKSNFY------AEQGGQIYDE----- 266
YNK + + + ++ ++ + Y A GG +
Sbjct: 117 YNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKY 176
Query: 267 -GFMIGVNDEGTVVGLRYNKQFVDSVSSGTEAGILLDKSNF 306
+GV++ G GL + + + + + ++ F
Sbjct: 177 DIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAF 217
>2nvu_B Maltose binding protein/NEDD8-activating enzyme E1 catalytic
subunit chimera; multifunction macromolecular complex,
ubiquitin, ATP, conformational change, thioester,
switch, adenylation, protein turnover, ligase; HET: ATP;
2.80A {Homo sapiens} SCOP: c.111.1.2 c.94.1.1
Length = 805
Score = 31.4 bits (71), Expect = 0.76
Identities = 12/85 (14%), Positives = 28/85 (32%), Gaps = 26/85 (30%)
Query: 232 YNKQFVDSV--------------SSGTEAGILLDKSNFY------AEQGGQIYDE---GF 268
YNK + + + ++ ++ + Y A GG + +
Sbjct: 121 YNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKY 180
Query: 269 ---MIGVNDEGTVVGLRYNKQFVDS 290
+GV++ G GL + + +
Sbjct: 181 DIKDVGVDNAGAKAGLTFLVDLIKN 205
>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA,
ribosomal; 10.80A {Bos taurus}
Length = 537
Score = 30.6 bits (70), Expect = 1.1
Identities = 10/40 (25%), Positives = 22/40 (55%)
Query: 275 EGTVVGLRYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQI 314
+G+++ L+++K V +G + G+ LD+ + G I
Sbjct: 494 KGSLISLKHHKDDTSVVKTGMDCGLSLDEEKIEFKVGDAI 533
>2h12_A Citrate synthase; acidophIle, acetic acid resistance, allostery,
transferase; HET: CMX; 1.85A {Acetobacter aceti}
Length = 436
Score = 30.7 bits (70), Expect = 1.2
Identities = 14/69 (20%), Positives = 27/69 (39%), Gaps = 19/69 (27%)
Query: 291 VSSGTEAGILLDKSNFYAEQGGQIYDEGFMSNKQFVDSVSSG-T----EAGILL------ 339
V SGT ++D A+ G +D G+ + +S T + G+LL
Sbjct: 26 VLSGTLGPDVIDIRKLPAQLGVFTFDPGYGE----TAACNSKITFIDGDKGVLLHRGYPI 81
Query: 340 ----DKSNF 344
+ +++
Sbjct: 82 AQLAENASY 90
>3bww_A Protein of unknown function DUF692/COG3220; structural genomics,
joint center for structural genomics, J protein
structure initiative, PSI-2; HET: MSE; 2.20A
{Haemophilus somnus}
Length = 307
Score = 29.6 bits (66), Expect = 2.0
Identities = 13/72 (18%), Positives = 29/72 (40%), Gaps = 5/72 (6%)
Query: 277 TVVGLRYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMSNKQFVDSVSSGTEAG 336
T +++ + V E I ++ +++Y +E +F++++ G
Sbjct: 114 TDEAVKHTAARIREVQDFLEIQISVENTSYYLHSETSTMNEV-----EFLNAIVQEANCG 168
Query: 337 ILLDKSNFYAEQ 348
I LD +N Y
Sbjct: 169 IHLDVNNIYVNA 180
>3f5f_A Maltose-binding periplasmic protein, heparan sulfate
2-O-sulfotransferase 1; maltose binding protein, fusion,
heparan sulfate biosynthesis; HET: GLC A3P; 2.65A
{Escherichia coli k-12}
Length = 658
Score = 29.2 bits (65), Expect = 4.1
Identities = 13/101 (12%), Positives = 32/101 (31%), Gaps = 26/101 (25%)
Query: 232 YNKQFVD--------------SVSSGTEAGILLDKSNFY------AEQGGQIYDE----- 266
YNK + + + ++ ++ + Y A GG +
Sbjct: 117 YNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKY 176
Query: 267 -GFMIGVNDEGTVVGLRYNKQFVDSVSSGTEAGILLDKSNF 306
+GV++ G GL + + + + + ++ F
Sbjct: 177 DIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAF 217
>3osr_A Maltose-binding periplasmic protein, green fluore protein;
engineered protein, sensor protein, fluorescent protein,
MBP maltose sensor; HET: C12 MAL; 2.00A {Escherichia
coli}
Length = 653
Score = 28.8 bits (64), Expect = 4.9
Identities = 13/101 (12%), Positives = 32/101 (31%), Gaps = 26/101 (25%)
Query: 232 YNKQFVDSV--------------SSGTEAGILLDKSNFY------AEQGGQIYDE----- 266
YNK + + + ++ ++ + Y A GG +
Sbjct: 153 YNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKY 212
Query: 267 -GFMIGVNDEGTVVGLRYNKQFVDSVSSGTEAGILLDKSNF 306
+GV++ G GL + + + + + ++ F
Sbjct: 213 DIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAF 253
>3mml_A Allophanate hydrolase subunit 2; structural genomics, PSI-2,
protein structure initiative, tuberculosis structural
genomics consortium; 2.50A {Mycobacterium smegmatis}
Length = 318
Score = 27.9 bits (63), Expect = 7.3
Identities = 13/53 (24%), Positives = 18/53 (33%), Gaps = 5/53 (9%)
Query: 406 HTLS----HTLRVGDKLKLHIDTARRRPIMSNHTATHILNHA-LRFVLGPEAD 453
+S LR GD L + T + A + L+ V GP D
Sbjct: 135 DVMSAIGPSPLRPGDVLPVGEHTDEFPELDQAPVAAIAEDVVELQVVPGPRDD 187
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 0.135 0.396
Gapped
Lambda K H
0.267 0.0575 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,112,691
Number of extensions: 426701
Number of successful extensions: 765
Number of sequences better than 10.0: 1
Number of HSP's gapped: 756
Number of HSP's successfully gapped: 50
Length of query: 474
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 377
Effective length of database: 3,993,456
Effective search space: 1505532912
Effective search space used: 1505532912
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.8 bits)