RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6337
(797 letters)
>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 = 195 bits (499), Expect = 4e-53
Identities = 110/641 (17%), Positives = 208/641 (32%), Gaps = 170/641 (26%)
Query: 4 DLIEIWNIVFISHKR-------VSADTIVPLSKNYIDTGLGFERLVTILQ---------- 46
+E+ +VF++ + + + +DTG G ER V +
Sbjct: 206 GGLEVATLVFMNLEEHPEGDIEIKGARYRKMDNYIVDTGYGLERFVWASKGTPTVYDAIF 265
Query: 47 -----------NKTSTYDTDLFLPLLETIEKVSG-----------------AKPYGRTFT 78
N + + + ++ K++G A G +
Sbjct: 266 PEVVDTIIDNSNVSFNREDERVRRIVAESSKLAGIMGELRGERLNQLRKSVADTVGVSVE 325
Query: 79 TSNRTDL-DTSYRMLSDYSRMITVALADNMFPDATAK---LRNVVRDAL----LISEDVF 130
+ L+D++R I L D + P R ++R +L + +
Sbjct: 326 ELEGIVVPLEKVYSLADHTRCILFMLGDGLVPSNAGAGYLARLMIRRSLRLAEELELGLD 385
Query: 131 KVKQGKLVKELSYNIAEILGDVYPEIQDSINKIQLILGEESRIFDNLRKAAVKEWKPLVK 190
LV+ +ILG + ++ +I + E+ R + K
Sbjct: 386 LYD---LVEMH----KKILGFEFDVPLSTVQEI--LELEKERYRTTVSK----------- 425
Query: 191 TQPELEQFNIMEEPGLVLGVKYLTKQLARDPSITEISGDMAFTLYDTYGLSKNIIQELAA 250
G + + + + R ++ D LYD++G+ + +AA
Sbjct: 426 ------------------GTRLVERLVERK---KKLEKDDLIELYDSHGIPVELAVGIAA 464
Query: 251 AKKLTLCHEA-FEQKLNELKERSKAKAASNVPDIDLMDLKHFPVTDDKYKYDYHYDTNSK 309
K + +L + + A+ I L + +P T+ Y YD +
Sbjct: 465 EKGAEVEMPKDIYAELAKRHSK--AEKVQEK-KITLQN--EYPATEKLY-----YDDPTL 514
Query: 310 RYTFPCLDTNLVGIVIGDQVFCIDKHAIRHARSGASIDSIQLEHNAWVGLIFDKTNLYAT 369
V V GD V I +++ Y
Sbjct: 515 LE-----FEAEVIGVEGDFV------------------------------ILNRSAFYPE 539
Query: 370 AGGQIDDIGVAYLTNTTQENGKVEIGELASLEGKIVHFGNVVSSFKVTPGLTSRVEVDAR 429
+GGQ +D+G L GK E+ ++ +G ++H VV K G + +D+
Sbjct: 540 SGGQDNDVGY--LIA---NGGKFEVVDVLEADGVVLH---VVKGAKPEVGTKVKGVIDSD 591
Query: 430 MRLGCMRAHTTSHLLNAALRRVL-TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEK 488
+R MR H+ +H+L +L++VL +Q R + LD + + S + + +E
Sbjct: 592 VRWRHMRHHSATHVLLYSLQKVLGNHVWQAGARKEFSKARLDVTHF-RRPSEEEIKEIEM 650
Query: 489 YINDVIADQVQVDRRHMRASE--------LPSLTHLTVIPGEIYPDDVILIDISDKENVI 540
N I + M E L G + ++ + D
Sbjct: 651 LANREILANKPIKWEWMDRIEAERKFGFRL-------YQGGVPPGRKIRVVQVGD----- 698
Query: 541 SREPCCGTHVFNTGHIESCTVIGYKSYNHGVRSIKCLTGES 581
+ C GTH +TG I ++ +S GV + GE+
Sbjct: 699 DVQACGGTHCRSTGEIGMLKILKVESIQDGVIRFEFAAGEA 739
>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A
{Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A*
Length = 752
Score = 176 bits (446), Expect = 2e-46
Identities = 103/627 (16%), Positives = 208/627 (33%), Gaps = 135/627 (21%)
Query: 6 IEIWNIVFISH------------KRVSADTIVPLSKNYIDTGLGFERLVTILQNKTSTYD 53
+E+ +VF+ + + + +P+ +DTG G ERLV + Q + YD
Sbjct: 209 LEVATLVFMQYXXAPENAPQDQVVVIXGEKYIPMETXVVDTGYGLERLVWMSQGTPTAYD 268
Query: 54 TDLFL----------------PLLETIEKVSGAKPYGRTFTTSNRTDL------------ 85
L +L +++G +
Sbjct: 269 AVLGYVVEPLXXMAGIEKIDEKILMENSRLAGMFDIEDLGDLRYLREQVAKRVGITVEEL 328
Query: 86 ------DTSYRMLSDYSRMITVALADNMFPDATAK---LRNVVRDALLISEDVFKVKQGK 136
++D+++ +T LAD + P R ++R ++ ++
Sbjct: 329 EKAIRPYELIYAIADHTKALTFMLADGVVPSNVXAGYLARLLIRKSIRHLR---ELGLEV 385
Query: 137 LVKELSYNIAEILGDVYPEIQDSINKIQLILGEESRIFDNLRKAAVKEWKPLVKTQPELE 196
+ E+ L +PE + + I ++ E + + + + +
Sbjct: 386 PLSEIVALHIXELHKTFPEFXEMEDIILEMIELEEKXYAETLRRGSDLVRREIAK----- 440
Query: 197 QFNIMEEPGLVLGVKYLTKQLARDPSITEISGDMAFTLYDTYGLSKNIIQELAAAKKLTL 256
+ I EI + T Y+++GL+ I+ E+A + + +
Sbjct: 441 ---------------------LKKKGIKEIPVEXLVTFYESHGLTPEIVXEIAEKEGVKV 479
Query: 257 -CHEAFEQKLNELKERSKAKAASNVPDIDLMDLKHFPVTDDKYKYDYHYDTNSKRYTFPC 315
+ F + + ER+K + + D +L+ + Y+ D +
Sbjct: 480 NIPDNFYSMVAKEAERTKEEKGEELVDFELLK------DLPDTRRLYYEDPFMXEF---- 529
Query: 316 LDTNLVGIVIGDQVFCIDKHAIRHARSGASIDSIQLEHNAWVGLIFDKTNLYATAGGQID 375
D ++ ++ +I D T Y GGQ
Sbjct: 530 -DAXVLRVIXD-------------------------------WVILDATAFYPEGGGQPY 557
Query: 376 DIGVAYLTNTTQENGKVEIGELASLEGKIVHFGNVVSSFKVTPGLTSRVEVDARMRLGCM 435
D GV +V + + + I+H V G+ +D R+ M
Sbjct: 558 DTGV-----LIVNGREVXVTNVQXVGXVIIHX--VEDPGAFXEGMIVHGXIDWXRRIQHM 610
Query: 436 RAHTTSHLLNAALRRVL-TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKYINDVI 494
R HT +H+L AL RVL +Q ++ +D LD S Y +S + + +E N ++
Sbjct: 611 RHHTGTHVLMGALVRVLGRHVWQAGSQLTTDWARLDISHY-XRISEEELXEIEMLANRIV 669
Query: 495 ADQVQVDRRHMRASELPSLTHLTVI-PGEIYPDDVILIDISDKENVISREPCCGTHVFNT 553
+ V + + + G + ++ ++ I D + C GTH+ +T
Sbjct: 670 MEDRXVTWEWLPRTTAEQXYGFRLYQGGVVPGREIRVVXIED----WDVQACGGTHLPST 725
Query: 554 GHIESCTVIGYKSYNHGVRSIKCLTGE 580
G + ++ + GV I GE
Sbjct: 726 GLVGPIXILRTERIQDGVERIIFACGE 752
>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 = 161 bits (411), Expect = 2e-43
Identities = 75/277 (27%), Positives = 127/277 (45%), Gaps = 55/277 (19%)
Query: 6 IEIWNIVFISHKRVSADTIVPLSKNYIDTGLGFERLVTILQNKTSTYDTDLFLPLLETIE 65
IEIWNIVF+ R + T+ PL K +DT +G ER+ +LQ+ S YD DLF L++ +
Sbjct: 208 IEIWNIVFMQFNRQADGTMEPLPKPSVDTAMGLERIAAVLQHVNSNYDIDLFRTLIQAVA 267
Query: 66 KVSGAKPYGRTFTTSNRTDLDTSYRMLSDYSRMITVALADNMFPDATAK---LRNVVRDA 122
KV+GA + S R+++D+ R +AD + P + LR ++R A
Sbjct: 268 KVTGATDLS-----------NKSLRVIADHIRSCAFLIADGVMPSNENRGYVLRRIIRRA 316
Query: 123 -----LLISEDVFKVKQGKLVKELSYNIAEILGDVYPEIQDSINKIQLILGEESRIFDNL 177
+L +++ F K LV L +++G +++ +++ +L E
Sbjct: 317 VRHGNMLGAKETFFYK---LVGPL----IDVMGSAGEDLKRQQAQVEQVLKTE------- 362
Query: 178 RKAAVKEWKPLVKTQPELEQFNIMEEPGLVLGVKYLTKQLARDPSITEISGDMAFTLYDT 237
E EQF E GL L L ++LA+ + G+ AF LYDT
Sbjct: 363 ----------------E-EQFARTLERGLAL----LDEELAKLSG-DTLDGETAFRLYDT 400
Query: 238 YGLSKNIIQELAAAKKLTLCHEAFEQKLNELKERSKA 274
YG ++ ++ + + + FE + E + R++
Sbjct: 401 YGFPVDLTADVCRERNIKVDEAGFEAAMEEQRRRARE 437
>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 = 158 bits (402), Expect = 8e-42
Identities = 81/277 (29%), Positives = 134/277 (48%), Gaps = 48/277 (17%)
Query: 6 IEIWNIVFISHKRVSADTIVPLSKNYIDTGLGFERLVTILQNKTSTYDTDLFLPLLETIE 65
+EIWN+VF+ + R + PL IDTG+G ER+ ++LQ K S ++ D+ PL++ E
Sbjct: 191 LEIWNLVFMQYNRDENGVLTPLPHPNIDTGMGLERIASVLQGKNSNFEIDIIFPLIQFGE 250
Query: 66 KVSGAKPYGRTFTTSNRTDLDTSYRMLSDYSRMITVALADNMFPDATAK---LRNVVRDA 122
+VSG K YG F T D + R+++D+ R IT A++D + P + +R ++R A
Sbjct: 251 EVSG-KKYGEKFET------DVALRVIADHLRAITFAISDGVIPSNEGRGYVIRRILRRA 303
Query: 123 -----LLISEDVFKVKQGKLVKELSYNIAEILGDVYPEIQDSINKIQLILGEESRIFDNL 177
L E+ F K V + +I+ + YPE++ S ++ I+ E
Sbjct: 304 MRFGYKLGIENPFLY---KGVDLV----VDIMKEPYPELELSREFVKGIVKGE------- 349
Query: 178 RKAAVKEWKPLVKTQPELEQFNIMEEPGLVLGVKYLTKQLARDPSITEISGDMAFTLYDT 237
E ++F + G+ + + K L +SG FT YDT
Sbjct: 350 ------E-----------KRFIKTLKAGMEYIQEVIQKALEEGR--KTLSGKEVFTAYDT 390
Query: 238 YGLSKNIIQELAAAKKLTLCHEAFEQKLNELKERSKA 274
YG ++I E+A K L + E F+ +L E +ER++
Sbjct: 391 YGFPVDLIDEIAREKGLGIDLEGFQCELEEQRERARK 427
>3kew_A DHHA1 domain protein; structural genomics, PSI-2, tRNA synthase,
protein structure initiative; 2.00A {Clostridium
perfringens}
Length = 241
Score = 118 bits (297), Expect = 5e-30
Identities = 43/245 (17%), Positives = 90/245 (36%), Gaps = 35/245 (14%)
Query: 346 IDSIQLEHNAWVGLIFDKTNLYATAGGQIDDIGV---AYLTNTTQENGKVEIGELASLEG 402
I+ +++ V + D+T + GGQ+ D+G+ + + +E GK
Sbjct: 21 IEVKEIDGKFHV--LLDQTAFFPGGGGQMGDLGLIDGIKVLDVYEEEGK----------- 67
Query: 403 KIVHFGNVVSSFKVTPGLTSRVEVDARMRLGCMRAHTTSHLLNAALRRVLTCTYQKSCRV 462
+ H + + E+D R M+ H HLL+ + +
Sbjct: 68 -VYHVLEK----EPKKLKNLQCELDWERRFDGMQQHLGQHLLSGCFYDLFG-ANTCGFHL 121
Query: 463 FSDECALDFSVYGETLSVDSVAAVEKYINDVIADQVQVDRRHMRASELPSLTHLTVIPGE 522
+ +D + L ++ EK N +I + ++V EL + T
Sbjct: 122 GKEISTVDIVGF---LDEKTIREAEKEANRLIFENLEVKSYAPSKKELKKVK--TRRALP 176
Query: 523 IYPDDVILIDISDKENVISREPCCGTHVFNTGHIESCTVIGYKSYNHGVRSIKCLTGESS 582
+++ +++I + CCG H NT ++ + ++ + + R I+ + G
Sbjct: 177 KTDEEIRIVEIVG----LDLNACCGVHPRNTRDLQVIKIRRWEKHKNATR-IEYVAGN-- 229
Query: 583 KAAVE 587
AV
Sbjct: 230 -RAVS 233
>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 = 94.6 bits (236), Expect = 4e-22
Identities = 46/223 (20%), Positives = 70/223 (31%), Gaps = 44/223 (19%)
Query: 357 VGLIFDKTNLYATAGGQIDDIGV---AYLTNTTQENGKVEIGELASLEGKIVHFGNVVSS 413
++ D+T Y T GGQ D G + + ++ G + H
Sbjct: 28 NAILLDQTIFYPTGGGQPHDRGTINGVEVLDVYKDEE-----------GNVWHVVKEPEK 76
Query: 414 FKVTPGLTSRVEVDARMRLGCMRAHTTSHLLNAALRRVL--TCTYQKSCRVFSDECALDF 471
FKV G +++D R MR HT HLL L VL + ++ D
Sbjct: 77 FKV--GDEVELKIDWDYRYKLMRIHTGLHLLEHVLNEVLGEGNWQLVGSGMSVEKGRYDI 134
Query: 472 SVYGETLSVDSVAAVEKYINDVIADQVQVDRRHMRASELPSLTHLTVIPGEIYPDDVILI 531
+ E L+ + N + + +V I E D
Sbjct: 135 AYP-ENLN-KYKEQIISLFNKYVDEGGEVK-----------------IWWE---GDRRYT 172
Query: 532 DISDKENVISREPCCGTHVFNTGHIESCTVIGYKSYNHGVRSI 574
I D PC GTHV + I + S G + +
Sbjct: 173 QIRD----FEVIPCGGTHVKDIKEIGHIKKLKRSSIGRGKQRL 211
>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 = 80.5 bits (198), Expect = 1e-15
Identities = 109/644 (16%), Positives = 187/644 (29%), Gaps = 202/644 (31%)
Query: 14 ISHKRVSADTIVPLSKNYIDTGLGF------ERLVTILQNKTSTYDTDLFLPLLETIEKV 67
+SH + +VP T F E+ IL T + D E
Sbjct: 11 LSHGSLEHVLLVP-------TASFFIASQLQEQFNKILPEPTEGFAAD--------DEPT 55
Query: 68 SGAKPYGR--TFTTSNRTDLDTSYRMLSDYSRMITVALADNMFPDATAKLRNV--VRDAL 123
+ A+ G+ + +S + +++ + L + F + + ++ + L
Sbjct: 56 TPAELVGKFLGYVSSLVEPSKVG-----QFDQVLNLCLTE--FENCYLEGNDIHALAAKL 108
Query: 124 LISEDVFKVKQGKLVKELSYNIAEILGDVYPEIQDSINKIQLILGEESRIFDNLRKAAVK 183
L D VK +L+K +Y A I+ +K S +F AV
Sbjct: 109 LQENDTTLVKTKELIK--NYITARIMAK------RPFDK-----KSNSALFR-----AVG 150
Query: 184 EWKPLVKTQPELEQFNIMEEPGLVLG-----VKYLTKQLARDPSITEISGDMAFTLYDTY 238
E ++ + G Y ++L RD LY TY
Sbjct: 151 E-----------GNAQLV----AIFGGQGNTDDYF-EEL-RD-------------LYQTY 180
Query: 239 GLSKNIIQEL--AAAKKL-TL------CHEAFEQKLNE---LKERSK-------AKAASN 279
++ +L +A+ L L + F Q LN L+ S +
Sbjct: 181 ---HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS 237
Query: 280 VPDIDLMDLKHFPVTDDKYKYDYHYDTNSKRYTFPCLDTNLVGIVIGDQVFCIDKHAIRH 339
P I ++ L H+ VT + R + G+V AI
Sbjct: 238 CPLIGVIQLAHYVVTAKL----LGFTPGELRSYLKGATGHSQGLVTA--------VAIAE 285
Query: 340 ARSGASIDSIQ---LEHNAWVGL----IFDKTNL------YATAGGQ--------IDDIG 378
S S + ++G+ + T+L + + I ++
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLT 345
Query: 379 VAYL------TNTT-QENGKVEI------------GELASLEGKIVHFGNVVSSFKVTPG 419
+ TN+ +VEI G SL G + K G
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA----KAPSG 401
Query: 420 L-TSRVEVDARMRLGCMR-----A--HTTSHLLNAALRRVLTCTYQKSCRVFSDECALDF 471
L SR+ R R + H SHLL A + + + + +
Sbjct: 402 LDQSRIPFSERKLKFSNRFLPVASPFH--SHLLVPASDLINKDLVKNNVSF--NAKDIQI 457
Query: 472 SVY----GETLSVDSVAAVEKYINDVIADQVQVDRRHMRASELPSLTHLTVI---PGEIY 524
VY G L + I++ I D + + TH ++ PG
Sbjct: 458 PVYDTFDGSDL-----RVLSGSISERIVDCIIRLPVKWETTTQFKATH--ILDFGPGG-- 508
Query: 525 PDDVILIDISDKENVISREPC-CGTHVFNTGHIESCTV--IGYK 565
S + R G V G ++ G+K
Sbjct: 509 --------ASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGFK 544
Score = 56.6 bits (136), Expect = 3e-08
Identities = 53/336 (15%), Positives = 106/336 (31%), Gaps = 117/336 (34%)
Query: 4 DLIEIWNI------VFISHKRVSADTIVPLSKNYIDTGLGFER---LVTILQNKTSTYDT 54
+L +++ I + SA+T+ L + +D F + ++ L+N ++T D
Sbjct: 172 ELRDLYQTYHVLVGDLI---KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228
Query: 55 DLF------LPLL--------ETIEKVSGAKPYGRTFTTSNRTDLDTSYRMLSDYSRMIT 100
D PL+ K+ G P +L + + + +S+ +
Sbjct: 229 DYLLSIPISCPLIGVIQLAHYVVTAKLLGFTP----------GELRSYLKGATGHSQGLV 278
Query: 101 VALA-------DNMFPDATAKLRNVVRDALLI---SEDVFKVKQG--KLVKELSYNIAE- 147
A+A ++ F + K + I + + ++++ S E
Sbjct: 279 TAVAIAETDSWES-FFVSVRK---AITVLFFIGVRCYEAYPNTSLPPSILED-SLENNEG 333
Query: 148 -------ILGDVYPEIQDSINKIQLILGEESRIF-------DN----------------L 177
I ++QD +NK L ++ N L
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 178 RKAAVKEWKPLVKTQPELEQFNI-MEEPGLVLGVKYL--------------TKQLARDPS 222
RK K L+Q I E L ++L + + +D
Sbjct: 394 RK---------AKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLV 444
Query: 223 ITEIS---GDMAFTLYDTY------GLSKNIIQELA 249
+S D+ +YDT+ LS +I + +
Sbjct: 445 KNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIV 480
Score = 45.8 bits (108), Expect = 6e-05
Identities = 61/341 (17%), Positives = 103/341 (30%), Gaps = 112/341 (32%)
Query: 201 MEEPGLVLGVKYLTKQLARDPSITEISGDMAFTLYDTYGLS-KNIIQELAAAKKLTLCHE 259
M G+ L Y T + A+D + DTYG S +I+ LT+ H
Sbjct: 1631 M---GMDL---YKTSKAAQD--VWN---RADNHFKDTYGFSILDIVIN--NPVNLTI-H- 1675
Query: 260 AFE-QKLNELKERSKAKAASNVPDIDLMDLKHFP-VTDDKYKYDYHYDT---NSKRYTFP 314
F +K ++E A + D L K F + + Y + + ++ ++T P
Sbjct: 1676 -FGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP 1734
Query: 315 CLDTNLV------------GIVIGDQVFCIDKHAIRHARSGASIDSIQL-EHNAWVGLIF 361
L + G++ D F G S L E+ A
Sbjct: 1735 AL---TLMEKAAFEDLKSKGLIPADATFA-----------GHS-----LGEYAA------ 1769
Query: 362 DKTNLYATAGG-QIDDIGVAYLT----NTTQENGKVEIGELASLEGKIVHFGNVVSSFKV 416
L + A I+ + + T Q V EL ++ +
Sbjct: 1770 ----LASLADVMSIES--LVEVVFYRGMTMQV--AVPRDELGRSNYGMI---------AI 1812
Query: 417 TPGLTSRVEVDARMRLGCMR-AHTTSHLL-----NAALRRVLTCTYQKSCRVFSDECALD 470
PG + ++ R T L+ N Y V A
Sbjct: 1813 NPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVE-----NQQY-----V----AA-- 1856
Query: 471 FSVYGETLSVDSVAAVEKYIN----DVIADQVQVDRRHMRA 507
G+ ++D+V V +I D+I Q + +
Sbjct: 1857 ----GDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEG 1893
Score = 45.0 bits (106), Expect = 1e-04
Identities = 43/237 (18%), Positives = 78/237 (32%), Gaps = 64/237 (27%)
Query: 568 NHGVRSIKC--LTGESSKAAVENGKQLSAAVKQLAATINQNSEQTDEETLNQQNHEIKTL 625
+HG S++ L +S QL +Q + E T+ + E T
Sbjct: 12 SHG--SLEHVLLVPTASFFIAS---QLQ---EQFNKIL---PEPTEGFA---ADDEPTTP 57
Query: 626 RELLEDDLPYAVHKQNDHLLAELSKNVKLKLRQFAKVRITEELIEKCKEDTPYL----VH 681
EL+ L Y + + + + L L +F E+ YL +H
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF--------------ENC-YLEGNDIH 102
Query: 682 YIRDDAVEIQALPPLSQISKPVLVLLYSLGELKARAYVPPQCTTPG----FNA----QAW 733
+ A ++ + + L+ Y + AR F A A
Sbjct: 103 AL---AAKLLQENDTTLVKTKELIKNY----ITARIMAKRPFDKKSNSALFRAVGEGNAQ 155
Query: 734 LTPIMDRAEGKGVSSKG-SDVQHLYSM-NPVKISNNVEDLV----KQLVDIARRSAD 784
L I G+G + +++ LY + + V DL+ + L ++ R + D
Sbjct: 156 LVAIFG---GQGNTDDYFEELRDLYQTYHVL-----VGDLIKFSAETLSELIRTTLD 204
Score = 42.0 bits (98), Expect = 0.001
Identities = 44/259 (16%), Positives = 82/259 (31%), Gaps = 90/259 (34%)
Query: 4 DLIEIWNIVFISHKRVSADTIVPL---SKNYIDTG----LGFERLVTILQNKTSTYDTDL 56
D + N + K+V + L +KN + +G L L L+ + D
Sbjct: 351 DYVNKTNSHLPAGKQVE----ISLVNGAKNLVVSGPPQSL--YGLNLTLRKAKAPSGLD- 403
Query: 57 FLPLLETIEKVSGAKPYGRTFTTSNRTDLDTSYRML-------SDYSRMITVALADNMFP 109
++ P+ S R L S R L S L
Sbjct: 404 -------QSRI----PF------SERK-LKFSNRFLPVASPFHSHL-------LVP---- 434
Query: 110 DATAKLRN-VVRDALLIS-ED----VFKVKQGKLVKELSYNIAEILGDVYPEIQDSINKI 163
A+ + +V++ + + +D V+ G ++ LS +I+E + +
Sbjct: 435 -ASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERI-------------V 480
Query: 164 QLILGEESRIFDNLRKAAVKEWKPLVKTQPE--LEQFNIMEEPGLVLGVKYLTKQLARDP 221
I+ + W+ + + L+ F PG G+ LT +
Sbjct: 481 DCII--RLPVK----------WETTTQFKATHILD-FG----PGGASGLGVLTHRNKDGT 523
Query: 222 SITEI-SGDMAFTLYDTYG 239
+ I +G + D YG
Sbjct: 524 GVRVIVAGTLDINPDDDYG 542
Score = 41.2 bits (96), Expect = 0.002
Identities = 61/340 (17%), Positives = 102/340 (30%), Gaps = 112/340 (32%)
Query: 440 TSHLLNAALRRVLTCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKYINDVIADQVQ 499
T+ A+ L + K ++ A D E + + K++ ++ V+
Sbjct: 24 TASFFIAS---QLQEQFNKILPEPTEGFAAD----DEPTTPAELVG--KFL-GYVSSLVE 73
Query: 500 VDRRHMRASELP-SLTHLTVIPGEIYPDDVIL--IDISDKENVISREPCCGTHVF----- 551
+ L LT ++ L DI H
Sbjct: 74 PSKVGQFDQVLNLCLTEF---------ENCYLEGNDI---------------HALAAKLL 109
Query: 552 ---NTGHIESCTVIGYKSYNHGVRSIKCLTGESSKAAVENGKQLSAAVKQLAATI----- 603
+T +++ +I K+Y K + S +A L AV + A +
Sbjct: 110 QENDTTLVKTKELI--KNYITARIMAKRPFDKKSNSA------LFRAVGEGNAQLVAIFG 161
Query: 604 NQ-NSEQTDEETLNQQNHEIKTLREL------LEDDLPYAVHKQNDHLLAELSKNVKLKL 656
Q N++ EE LR+L L DL + L+EL +
Sbjct: 162 GQGNTDDYFEE-----------LRDLYQTYHVLVGDLIKFSAE----TLSELIRTTLDAE 206
Query: 657 RQFAKVRITEELIEKCKEDTP---YLVHYIRDDAVEIQALPPLSQISKPVLVLLYSLGEL 713
+ F + E +E +TP YL+ P IS P L+ + L
Sbjct: 207 KVFTQGLNILEWLEN-PSNTPDKDYLLSI------------P---ISCP-LIGVIQL--- 246
Query: 714 KARAYVPPQCTTPGFNAQAWLTPIMDRAEGKGVSSKGSDV 753
A V G TP R+ KG + +
Sbjct: 247 -AHYVV--TAKLLG------FTPGELRSYLKGATGHSQGL 277
Score = 39.3 bits (91), Expect = 0.005
Identities = 47/323 (14%), Positives = 90/323 (27%), Gaps = 121/323 (37%)
Query: 7 EIWN---IVFISHKRVSADTIV---PLSKNYIDTGLGFERLVTILQNKTS-TYDTD---- 55
++WN F S IV P++ G +R I +N ++ ++T
Sbjct: 1644 DVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR---IRENYSAMIFETIVDGK 1700
Query: 56 -----LFLPLLETIEKVSGAKPYGRTFTTSNRTD---LDTSYRMLSD------------- 94
+F + E + G T T D
Sbjct: 1701 LKTEKIFKEINEHSTSYTFRSEKGLLSATQF-TQPALTLMEKAAFEDLKSKGLIPADATF 1759
Query: 95 -------YSRMITVALADNMFPDATAKLRNVVRDALLISEDVFKVKQGKLVKELSYNIAE 147
Y+ + +LAD M ++ ++ VF +G ++ E
Sbjct: 1760 AGHSLGEYAAL--ASLADVMSIESLVEV-------------VF--YRGMTMQVAV-PRDE 1801
Query: 148 ILGDVYPEIQDSINKIQLILGEESRIFDNLRKAAVKEWKPLVKTQPELEQFNIMEEPGLV 207
+ Y I + ++ +E+ + + K LV E+ +N+
Sbjct: 1802 LGRSNYGMIAINPGRVAASFSQEA--LQYVVERVGKRTGWLV----EIVNYNV---EN-- 1850
Query: 208 LGVKYLTKQLARDPSITEISGDMAFTLYDTYGLSKNIIQELAAAKKLTLCHEAFEQKLNE 267
+Q +GD L A +T LN
Sbjct: 1851 -------QQYV-------AAGD------------------LRALDTVTNV-------LNF 1871
Query: 268 LKERSKAKAASNVPDIDLMDLKH 290
+K + ID+++L+
Sbjct: 1872 IKLQK----------IDIIELQK 1884
Score = 35.4 bits (81), Expect = 0.084
Identities = 51/338 (15%), Positives = 100/338 (29%), Gaps = 112/338 (33%)
Query: 360 IFDK--TNLYATAGGQIDDIGVAYLTNTTQENGKVEIGELASLEGKIVHFGNVVSSFKVT 417
++++ + T G I DI N +HFG
Sbjct: 1645 VWNRADNHFKDTYGFSILDI--------VINNPV----------NLTIHFGG-------E 1679
Query: 418 PGLTSRVEVDARMRLGCMRAHTTSHLLNAALRRVLT-CTYQKSCRVFSDECALDFSVYGE 476
G R A + + + + + T T++ S++ L + +
Sbjct: 1680 KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR------SEKGLLSATQF-- 1731
Query: 477 T---LSVDSVAAVEKYINDVIADQ--VQVDRR---HMRASELPSLTHLTVIPGEIYPDDV 528
T L++ AA E + + + D H SL GE Y
Sbjct: 1732 TQPALTLMEKAAFE-----DLKSKGLIPADATFAGH-------SL-------GE-Y---A 1768
Query: 529 ILIDISDKENVISREPCCGTHVFNTGHIES-CTVIGYKSYNHGVRSIKCLTGESSKAAVE 587
L V + IES V+ Y R G + + AV
Sbjct: 1769 AL--------------ASLADVMS---IESLVEVVFY-------R------GMTMQVAVP 1798
Query: 588 NGKQLSAAVKQLAATINQNSEQTDEETLNQQNHEI-KTLRELLE---DDLP---YAV--H 638
+ + +A + + +E L + K L+E ++ Y
Sbjct: 1799 RDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGD 1858
Query: 639 KQNDHLLAELSKNVK-LKLRQFAKVRITEEL-IEKCKE 674
+ L ++ + +KL++ + + + L +E+ +
Sbjct: 1859 LRA---LDTVTNVLNFIKLQKIDIIELQKSLSLEEVEG 1893
Score = 33.5 bits (76), Expect = 0.33
Identities = 30/204 (14%), Positives = 57/204 (27%), Gaps = 67/204 (32%)
Query: 603 INQN-SEQTDEETLNQQNHEIKTLRELLEDDLPYAVHKQNDHLLAELSKNVKLKLRQFAK 661
I +N S E ++ + K +E+ E Y + L QF +
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKG----------LLSATQFTQ 1733
Query: 662 VRIT-------EELIEKCKEDTPYLV--HYIRDDAVEIQALPPLSQISKPVLVLLYSLGE 712
+T E+L K H SLGE
Sbjct: 1734 PALTLMEKAAFEDLKSKGLIPADATFAGH---------------------------SLGE 1766
Query: 713 ---LKARAYVPPQCTTPGFNAQAWLTPIMDRAEGKGVSS---KGSDVQHLYSM---NPVK 763
L + A V + + G + + + Y M NP +
Sbjct: 1767 YAALASLADVMS------IESLVEVV----FYRGMTMQVAVPRDELGRSNYGMIAINPGR 1816
Query: 764 ISNNV-EDLVKQLVDIARRSADEL 786
++ + ++ ++ +V+ + L
Sbjct: 1817 VAASFSQEALQYVVERVGKRTGWL 1840
>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 = 71.1 bits (175), Expect = 1e-14
Identities = 23/134 (17%), Positives = 46/134 (34%), Gaps = 14/134 (10%)
Query: 430 MRLGCMRAHTTSHLLNAALRRVLT--CTYQKSCRVFSDECALDFSVYGETLSVDSVAAVE 487
M +R H+ H++ A+ +VL + S V ++ L S + + +E
Sbjct: 1 MYSIEVRTHSALHVVKGAVVKVLGSEAKWTYSTYVKGNKGVLIVKFD-RKPSDEEIREIE 59
Query: 488 KYINDVIADQVQVDRRHMRASELPSLTHLTVIPGEIYPDDVILIDISDKENVI-----SR 542
+ N+ + + + + E + GE D + + V+ +
Sbjct: 60 RLANEKVKENAPIKIYELPREEAEKM------FGEDMYDLFPVPEDVRILKVVVIEDWNV 113
Query: 543 EPCCGTHVFNTGHI 556
C H TG I
Sbjct: 114 NACNKEHTKTTGEI 127
>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 = 66.8 bits (162), Expect = 2e-11
Identities = 76/550 (13%), Positives = 157/550 (28%), Gaps = 151/550 (27%)
Query: 298 YKYDYHYDTNSKRYTFPCLDTNLVGIVIGDQVF---------CID-KHAIRHARSGASID 347
+ + +H D + + + D I+ VF C D + + S ID
Sbjct: 1 HHHHHHMDFETGEHQYQYKD-----IL---SVFEDAFVDNFDCKDVQDMPKSILSKEEID 52
Query: 348 SIQLEHNAWVG--LIFD-----KTNLYATAGGQIDDIGVAYLTNTTQENGKVEIGELASL 400
I + +A G +F + + ++ I +L + + +
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 401 EGKIVHFGNVVSSFKVTPGLTSRVEVDARMRLGCMRAHTTSHLLNAALRR----VL---- 452
+ N F SR++ ++R LL LR ++
Sbjct: 113 IEQRDRLYNDNQVF--AKYNVSRLQPYLKLR---------QALLE--LRPAKNVLIDGVL 159
Query: 453 ----TCTYQKSCRVFSDECALDFSVY----GETLSVDSVAAVEKYINDVIADQVQVDRRH 504
T C + +C +DF ++ S ++V + + + I H
Sbjct: 160 GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH 219
Query: 505 MRASELPS------LTHLTVIPGEIYPDD-VILIDISDKENVISREPCCGTHVFNTGHIE 557
+L L L + + Y + ++L+++ + + + FN
Sbjct: 220 SSNIKLRIHSIQAELRRL--LKSKPYENCLLVLLNVQNAKAW---------NAFNLS--- 265
Query: 558 SCTVIGYKSYNHGVRSIKCLTGESSKAAVENGKQLSAAVKQLAATINQNSEQTDEETLNQ 617
C ++ LT + V + LSAA + + + T +E +
Sbjct: 266 -CKIL--------------LT--TRFKQVTD--FLSAATTTHISLDHHSMTLTPDEVKSL 306
Query: 618 Q----NHEIKTLRELLEDDLPYAVHKQNDHLLAELSKNVKLKLRQFAKVRI--TEELIEK 671
+ + L + P + ++AE ++ + V +IE
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRL-----SIIAESIRDGLATWDNWKHVNCDKLTTIIES 361
Query: 672 CKE--DTPYLVHYIRDDAVEIQALPPLSQISKPVLVLLYSLGELKARAYVPPQCTTPGFN 729
+ +V PP + I +L L+
Sbjct: 362 SLNVLEPAEYRKMFDRLSV----FPPSAHIPTILLSLI---------------------- 395
Query: 730 AQAWLTPIMDRAEGKGVSSKGSDVQHL--YSMNPVKISNNVEDLVKQLVDIARRSADELR 787
W I V L YS+ + ++ + I +L
Sbjct: 396 ---WFDVIKSDVM--------VVVNKLHKYSL----VEKQPKESTISIPSIYLELKVKLE 440
Query: 788 SNEKQEHKRV 797
NE H+ +
Sbjct: 441 -NEYALHRSI 449
Score = 61.4 bits (148), Expect = 1e-09
Identities = 108/745 (14%), Positives = 204/745 (27%), Gaps = 242/745 (32%)
Query: 84 DLDTSYRMLSDYSR-MITVALADNMF--PDATAKLRNVVRDALLISEDVFKVKQGKLVKE 140
+ D + D + +++ D++ DA + L KQ ++V++
Sbjct: 32 NFDCKD--VQDMPKSILSKEEIDHIIMSKDAVSGTL------RLF--WTLLSKQEEMVQK 81
Query: 141 LSYNIAEILGDVYPEIQDSINK--------IQLILGEESRIF-DN--LRKAAVKEWKPLV 189
+ E+L Y + I ++ + + R++ DN K V +P +
Sbjct: 82 F---VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYL 138
Query: 190 KTQPELEQFNIMEEPGLVL-GVK-----YLTKQLARDPSITEISGDMAFTLYDTYGLSK- 242
K + L + +++ GV ++ + + F L
Sbjct: 139 KLRQALLELR--PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL--NLKNCNS 194
Query: 243 --NIIQELAAAKKLTLCHEAFEQKLNELKERSKAKAASNVPDIDLMDLKHFPVTDDKYKY 300
+++ L L ++ + + S SN+ + + +
Sbjct: 195 PETVLEML-----QKLLYQ-IDPNWTSRSDHS-----SNIK---------LRIHSIQAEL 234
Query: 301 DYHYDTNSKRYTFPCLDTNLVGIVIGDQVFCIDKHAIRHARSGASIDSIQLEHNAWVGLI 360
SK Y CL LV + ++Q NA
Sbjct: 235 RRLL--KSKPYE-NCL---LV------------------------LLNVQ---NAKAWNA 261
Query: 361 FD---KTNLYATAGGQIDDIGVA-YLTNTTQENGKVEIGELASLEGKIVHFGNVVSSFKV 416
F+ K L T V +L+ T + +S
Sbjct: 262 FNLSCKI-LLTTR-----FKQVTDFLSAATTTH---------------------ISLDHH 294
Query: 417 TPGLTSRVEVDARMRLGCMRAHTTSHLLNAALRRVLTCTYQKSCRVFSDECALDFSVYGE 476
+ LT D L L + L C Q R S+ E
Sbjct: 295 SMTLTP----DEVKSL---------------LLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 477 TLSVDSVAAVEKYINDVIADQVQVDRRHMRASELPSLTHLTVIPGE---------IYPDD 527
++ D +A + + V D+ E SL L P E ++P
Sbjct: 336 SIR-DGLATWDNW------KHVNCDK-LTTIIES-SLNVLE--PAEYRKMFDRLSVFPPS 384
Query: 528 VILIDISDK------ENVISREPCCGTHVFNTGHIESCTVIGYKSYNHGVRSIKCLTGES 581
I +VI + V N H S K + SI
Sbjct: 385 A---HIPTILLSLIWFDVIKSDV---MVVVNKLHKYSLVEKQPKESTISIPSIYLEL--- 435
Query: 582 SKAAVENGKQLSAAVKQLAATINQNSEQTDEETLNQQNHEIKTLRELLEDD-----LPYA 636
K +EN L ++ ++ + + + L D + +
Sbjct: 436 -KVKLENEYALHRSI------VDHYNIP--------KTFDSDDLIPPYLDQYFYSHIGH- 479
Query: 637 VH---KQNDHLLAELSKNVKLKLRQFAKVRITEELIEKCKEDTPYLVHYIRDDAVEIQAL 693
H ++ + V L R F + +I + T + L
Sbjct: 480 -HLKNIEHPERMTLFRM-VFLDFR-FLEQKI-------RHDSTAW--------NASGSIL 521
Query: 694 PPLSQISKPVLVLLYSLGELKARAYVPPQCTTPGFNAQAWLTPIMD---RAEGKGVSSKG 750
L Q+ Y + Y+ + + I+D + E + SK
Sbjct: 522 NTLQQLKF------Y-------KPYICDNDPKY----ERLVNAILDFLPKIEENLICSKY 564
Query: 751 SDVQHLYSMNPVKISNNVEDLVKQL 775
+D+ + M E+ KQ+
Sbjct: 565 TDLLRIALMAED--EAIFEEAHKQV 587
Score = 49.9 bits (118), Expect = 4e-06
Identities = 66/430 (15%), Positives = 115/430 (26%), Gaps = 134/430 (31%)
Query: 65 EKVSGAKPYGRTF--TTSNRTDLDTSYRMLSDYSRMITVALADNMFPDATAKLR-NVVRD 121
KV + F N +T ML I + KLR + ++
Sbjct: 174 YKVQCKMDFK-IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232
Query: 122 ALLISEDVFKVKQGKLVKELSYNIA-EILGDVY-PEIQDSIN---KIQLILGEESRIFDN 176
L +L+K Y +L +V + ++ N KI L+ ++ D
Sbjct: 233 ELR-----------RLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI-LLTTRFKQVTDF 280
Query: 177 LRKAAVKEWKPLVKTQPELEQFNIMEEPGLVLGVKY--LTKQ-LARDP----SITEISGD 229
L A L L + L + L ++ L +P I E D
Sbjct: 281 LSAATTTH-ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD 339
Query: 230 MAFTL--YDTYGLSK--NIIQ------ELAAAKKL----------------TLC------ 257
T + K II+ E A +K+ L
Sbjct: 340 GLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDV 399
Query: 258 -HEAFEQKLNELKERSKAKAASN-----VPDIDLMDLK---------H------------ 290
+N+L + S + +P I L +LK H
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL-ELKVKLENEYALHRSIVDHYNIPKT 458
Query: 291 ------FPVTDDKYKYD---YHYDT--NSKRYT-FPCLDTNL---------VGI------ 323
P D+Y Y +H + +R T F + +
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASG 518
Query: 324 ----VIGD----QVFCIDKHAIRHARSGASID-SIQLEHNAW---------VGLIFDKTN 365
+ + + D A +D ++E N + L+ +
Sbjct: 519 SILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEA 578
Query: 366 LYATAGGQID 375
++ A Q+
Sbjct: 579 IFEEAHKQVQ 588
>2d4y_A HAP1, flagellar HOOK-associated protein 1; multi-domain protein,
alpha-helical bundle, complex all- beta folds,
structural protein; 2.10A {Salmonella typhimurium}
Length = 463
Score = 30.7 bits (68), Expect = 2.0
Identities = 15/85 (17%), Positives = 30/85 (35%), Gaps = 13/85 (15%)
Query: 584 AAVENGKQLSAAVKQLAATINQNSEQTDEE---------TLNQQ----NHEIKTLRELLE 630
A + + L K + +Q + +Q N +I + +
Sbjct: 68 ALIGKAEGLVNQFKTTDQYLRDQDKQVNIAIGSSVAQINNYAKQIANLNDQISRMTGVGA 127
Query: 631 DDLPYAVHKQNDHLLAELSKNVKLK 655
P + Q D L++EL+K V ++
Sbjct: 128 GASPNDLLDQRDQLVSELNKIVGVE 152
>2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase;
4.00A {Methanosarcina mazei}
Length = 621
Score = 30.5 bits (68), Expect = 2.5
Identities = 11/49 (22%), Positives = 20/49 (40%)
Query: 136 KLVKELSYNIAEILGDVYPEIQDSINKIQLILGEESRIFDNLRKAAVKE 184
K++ +L+ +A +L P+I + KI L I +N
Sbjct: 481 KVLPKLAAKVAHVLEKDVPDINPVVAKIMGNLLVHRVIKNNGDGTVDVA 529
>1zc3_B Exocyst complex protein EXO84; exocytosis, small GTPase,
GTP-binding protein,, signaling protein; HET: GNP; 2.00A
{Rattus norvegicus} SCOP: b.55.1.1 PDB: 1zc4_B*
Length = 113
Score = 28.3 bits (63), Expect = 3.8
Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 121 DALLISEDVFKVKQGKLVKELSYNIAEILGDVYPEIQDSINKIQLILGEESRIF 174
D LL++ ++G Y + + + + +L++ ESRIF
Sbjct: 35 DCLLVA-TWLPQRRGMYRYNALYPLDRLAVVNVKDNPPMKDMFKLLMFPESRIF 87
>3pfr_A Mandelate racemase/muconate lactonizing protein; emolase
superfamily fold, D-glucarate dehydratase, D-glucara
isomerase; HET: GKR; 1.90A {Actinobacillus succinogenes}
PDB: 3n6j_A 3n6h_A*
Length = 455
Score = 29.0 bits (65), Expect = 6.6
Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 662 VRITEELIEKCKEDTPYLVHYIRDDAVEIQALPPLSQ--ISKPVLV 705
+ + + + K E L + R+DA+ +Q P + +P +V
Sbjct: 401 IELNMDNVLKAHELHKKLPNGARNDAIPMQFYYPGWKFDRKRPAMV 446
>1ibq_A Aspergillopepsin; aspartic proteinase, hydrolase; HET: MAN; 2.14A
{Aspergillus phoenicis} SCOP: b.50.1.2
Length = 325
Score = 28.8 bits (65), Expect = 7.5
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 3/44 (6%)
Query: 304 YDTNSKRYTFPCLDTNL--VGIVIGDQVFCIDKHAIRHARSGAS 345
+ Y F C T+L +VIGD + I +A
Sbjct: 239 ESYEAGGYVFSC-STDLPDFTVVIGDYKAVVPGKYINYAPVSTG 281
>1y9l_A Lipoprotein MXIM; cracked beta barrel, mixed alpha/beta, lipid
binding protein; HET: UND; 1.50A {Shigella flexneri}
PDB: 1y9t_A* 2jw1_A
Length = 115
Score = 27.3 bits (60), Expect = 9.7
Identities = 18/53 (33%), Positives = 27/53 (50%)
Query: 604 NQNSEQTDEETLNQQNHEIKTLRELLEDDLPYAVHKQNDHLLAELSKNVKLKL 656
N N ++ D ++ Q I L +L+D + +K ND +L E VKLKL
Sbjct: 59 NFNVKEVDGCFMDAQKIAIDKLFSMLKDGVVLKGNKINDTILIEKDGEVKLKL 111
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
0.317 0.133 0.379
Gapped
Lambda K H
0.267 0.0603 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,078,050
Number of extensions: 754844
Number of successful extensions: 1690
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1654
Number of HSP's successfully gapped: 39
Length of query: 797
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 696
Effective length of database: 3,881,772
Effective search space: 2701713312
Effective search space used: 2701713312
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: 61 (27.5 bits)