RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2584
(397 letters)
>1xd3_A Ubiquitin carboxyl-terminal esterase L3; enzyme-ligand complex,
active site crossover loop, hydrolase; HET: GVE; 1.45A
{Homo sapiens} SCOP: d.3.1.6 PDB: 1uch_A*
Length = 230
Score = 191 bits (485), Expect = 5e-59
Identities = 110/253 (43%), Positives = 146/253 (57%), Gaps = 44/253 (17%)
Query: 78 STPGSL-AFLVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTEKYEEHCKEQE 136
+ P FL LG+ WQ VDVYG DP++L++VP+PV A+++LFP TEKYE E+E
Sbjct: 11 ANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVFRTEEE 70
Query: 137 KEIEEKGQTISSELFFMKQFVHNACGTIALIHSYEEHCKEQEKEIEEKGQTISSELFFMK 196
++I+ +GQ ++S ++FMKQ + NACGTI LIH+
Sbjct: 71 EKIKSQGQDVTSSVYFMKQTISNACGTIGLIHA--------------------------- 103
Query: 197 QFVHNACGTIALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQSISDVH 255
+ANN + + E G LK FL+E+ +SPE R + L+ +I H
Sbjct: 104 ---------------IANNKDKMHFESGSTLKKFLEESVSMSPEERARYLENYDAIRVTH 148
Query: 256 KVIAQEGQTAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADATQV 315
+ A EGQT P E V HF+ALVH +G LYELDGRK FPINHG TS ETLL DA +V
Sbjct: 149 ETSAHEGQTEAPSIDEKVDLHFIALVHVDGHLYELDGRKPFPINHGETSDETLLEDAIEV 208
Query: 316 AKKYMQRDPDNGR 328
KK+M+RDPD R
Sbjct: 209 CKKFMERDPDELR 221
Score = 57.0 bits (137), Expect = 1e-09
Identities = 25/53 (47%), Positives = 38/53 (71%)
Query: 343 LLADATQYEEHCKEQEKEIEEKGQTISSELFFMKQFVHNACGTIALIHSVANN 395
L +YE E+E++I+ +GQ ++S ++FMKQ + NACGTI LIH++ANN
Sbjct: 55 LFPITEKYEVFRTEEEEKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANN 107
>4dm9_A Ubiquitin carboxyl-terminal hydrolase isozyme L1; ubiquitin
hydrolase, ligase, hydrolase, ligase-inhibitor COM; HET:
PHQ GME; 2.35A {Homo sapiens} PDB: 3kw5_A 2etl_A* 3irt_A
3kvf_A 3ifw_A
Length = 228
Score = 185 bits (470), Expect = 8e-57
Identities = 92/253 (36%), Positives = 133/253 (52%), Gaps = 49/253 (19%)
Query: 78 STPGSL-AFLVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTEKYEEHCKEQE 136
P L L LGV +W+ VDV G + + L VP P AL++LFP T ++E K+Q
Sbjct: 13 INPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHENFRKKQI 72
Query: 137 KEIEEKGQTISSELFFMKQFVHNACGTIALIHSYEEHCKEQEKEIEEKGQTISSELFFMK 196
+E+ KGQ +S +++FMK
Sbjct: 73 EEL--------------------------------------------KGQEVSPKVYFMK 88
Query: 197 QFVHNACGTIALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQSISDVH 255
Q + N+CGTI LIH+VANN + + EDG LK FL E + +SPE R K ++N++I H
Sbjct: 89 QTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAH 148
Query: 256 KVIAQEGQTAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADATQV 315
+AQEGQ + V +HF+ + +G LYELDGR FP+NHGA+S +TLL DA +V
Sbjct: 149 DAVAQEGQCRVDDK---VNFHFILFNNVDGHLYELDGRMPFPVNHGASSEDTLLKDAAKV 205
Query: 316 AKKYMQRDPDNGR 328
+++ +R+ R
Sbjct: 206 CREFTEREQGEVR 218
Score = 52.4 bits (125), Expect = 4e-08
Identities = 25/49 (51%), Positives = 37/49 (75%), Gaps = 2/49 (4%)
Query: 349 QYEEHCKEQEKEIEEKGQTISSELFFMKQFVHNACGTIALIHSVANNLN 397
Q+E K+Q +E+ KGQ +S +++FMKQ + N+CGTI LIH+VANN +
Sbjct: 63 QHENFRKKQIEEL--KGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQD 109
>2wdt_A Ubiquitin carboxyl-terminal hydrolase L3; hydrolase-protein binding
complex, enzyme-ligand complex, UB isopeptidase, UCH-L
superfamily, cystein proteinase, peptid hydrolase; 2.30A
{Plasmodium falciparum} PDB: 2we6_A
Length = 232
Score = 169 bits (428), Expect = 2e-50
Identities = 71/254 (27%), Positives = 114/254 (44%), Gaps = 51/254 (20%)
Query: 78 STPGSL-AFLVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTEKYEEHCKEQE 136
S P SL + LG SK + VD+YG + D+L ++PQPV A+I L+P + +
Sbjct: 12 SNPDSLYLYSCKLGQ-SKLKFVDIYGFNNDLLDMIPQPVQAVIFLYPVNDNIVSENNTND 70
Query: 137 KEIEEKGQTISSELFFMKQFVHNACGTIALIHSYEEHCKEQEKEIEEKGQTISSELFFMK 196
K + ++F+K
Sbjct: 71 KH---------------------------------------------NLKENFDNVWFIK 85
Query: 197 QFVHNACGTIALIHSVANNLNNVKLEDG-KLKSFLDEAKDLSPERRGKLLDENQSISDVH 255
Q++ N+CGTIAL+H N N +L+ L F ++ ++S E+RG+ L N+SI ++H
Sbjct: 86 QYIPNSCGTIALLHLYGNLRNKFELDKDSVLDDFFNKVNEMSAEKRGQELKNNKSIENLH 145
Query: 256 KVIAQEGQTAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADATQV 315
GQ +D V HF+ V EG + ELDGRK P H T+ + L D ++
Sbjct: 146 HEFC--GQVENRDDILDVDTHFIVFVQIEGKIIELDGRKDHPTVHCFTNGDNFLYDTGKI 203
Query: 316 AK-KYMQRDPDNGR 328
+ K++++ D+ R
Sbjct: 204 IQDKFIEKCKDDLR 217
Score = 51.6 bits (123), Expect = 9e-08
Identities = 14/47 (29%), Positives = 24/47 (51%)
Query: 351 EEHCKEQEKEIEEKGQTISSELFFMKQFVHNACGTIALIHSVANNLN 397
+ E + + ++F+KQ++ N+CGTIAL+H N N
Sbjct: 60 DNIVSENNTNDKHNLKENFDNVWFIKQYIPNSCGTIALLHLYGNLRN 106
>3rii_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; alpha-beta-alpha
fold, thiol hydroalse, cysteine protease,
deubiquitinating enzyme; 2.00A {Homo sapiens} PDB:
3ris_A 3sqa_A 3tb3_A 3a7s_A
Length = 233
Score = 158 bits (401), Expect = 1e-46
Identities = 49/253 (19%), Positives = 87/253 (34%), Gaps = 55/253 (21%)
Query: 78 STPGSL-AFLVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTEKYEEHCKEQE 136
S PG + G Q+ +++ +P+ + +PV LI LF E +
Sbjct: 18 SDPGVFTELIKGFGCRG-AQVEEIWSLEPENFEKL-KPVHGLIFLFKWQPGEEPAGSVVQ 75
Query: 137 KEIEEKGQTISSELFFMKQFVHNACGTIALIHSYEEHCKEQEKEIEEKGQTISSELFFMK 196
+ +FF K
Sbjct: 76 DSRLD-------------------------------------------------TIFFAK 86
Query: 197 QFVHNACGTIALIHSVANNLNNVKLEDGKLKSFLDEAKDLSPERRGKLLDENQSISDVHK 256
Q ++NA T A++ + N + L F + ++ +G L + I VH
Sbjct: 87 QVINNASATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDAAMKGLALSNSDVIRQVHN 146
Query: 257 VIAQEGQTA---PPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADAT 313
A++ +E +HFV+ V G LYELDG + PI+ GA + + ++
Sbjct: 147 SFARQQMFEFDTKTSAKEEDAFHFVSYVPVNGRLYELDGLREGPIDLGACNQDDWISAVR 206
Query: 314 QVAKKYMQRDPDN 326
V +K +Q+ +
Sbjct: 207 PVIEKRIQKYSEG 219
Score = 42.0 bits (98), Expect = 1e-04
Identities = 10/43 (23%), Positives = 18/43 (41%)
Query: 353 HCKEQEKEIEEKGQTISSELFFMKQFVHNACGTIALIHSVANN 395
+E + +FF KQ ++NA T A++ + N
Sbjct: 63 WQPGEEPAGSVVQDSRLDTIFFAKQVINNASATQAIVSVLLNC 105
>1cmx_A Protein (ubiquitin YUH1-UBAL); ubiquitin hydrolase,
deubiquitinating enzyme, cysteine protease, enzyme
specificity; 2.25A {Synthetic} SCOP: d.3.1.6
Length = 235
Score = 150 bits (379), Expect = 3e-43
Identities = 61/265 (23%), Positives = 102/265 (38%), Gaps = 62/265 (23%)
Query: 78 STPGSL-AFLVALGVPSKWQIVDVYGTD-PDMLAIVPQPVLALIMLFPCTEKYEEHCKEQ 135
S P F LG+ ++W D+Y P++LA +P+PV A+++LFP E + +Q
Sbjct: 13 SNPEVFTNFAHKLGLKNEWAYFDIYSLTEPELLAFLPRPVKAIVLLFPINEDRKSSTSQQ 72
Query: 136 EKEIEEKGQTISSELFFMKQFVHNACGTIALIHSYEEHCKEQEKEIEEKGQTISSELFFM 195
S ++ +
Sbjct: 73 ITS--------------------------------------------------SYDVIWF 82
Query: 196 KQFVHNACGTIALIHSVANNLNNVKLEDGKLKSFLDEAKDLS-PERRGKLLDENQSISDV 254
KQ V NACG A++HS++NN + ++ L +FL D S + R + +Q + +V
Sbjct: 83 KQSVKNACGLYAILHSLSNNQSLLEP-GSDLDNFLKSQSDTSSSKNRFDDVTTDQFVLNV 141
Query: 255 HKVIAQ---EGQTAPPEDREPVPYHFVALVHKEGALYELDGRK-GFPINHGATSPETLLA 310
K Q GQ+ PE H++ V + G ++ELDGR P+ G + P
Sbjct: 142 IKENVQTFSTGQSEAPEATADTNLHYITYVEENGGIFELDGRNLSGPLYLGKSDPTATDL 201
Query: 311 DATQVA----KKYMQRDPDNGRKGF 331
++ YM+ + F
Sbjct: 202 IEQELVRVRVASYMENANEEDVLNF 226
Score = 48.2 bits (114), Expect = 1e-06
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 353 HCKEQEKEIEEKGQTISSELFFMKQFVHNACGTIALIHSVANN 395
E K + T S ++ + KQ V NACG A++HS++NN
Sbjct: 60 PINEDRKSSTSQQITSSYDVIWFKQSVKNACGLYAILHSLSNN 102
>3ihr_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; center for
eukaryotic structural genomics, UCH37, UCH-L5, ubiquitin
hydrolase, proteasome, INO80; 2.95A {Homo sapiens}
Length = 328
Score = 150 bits (379), Expect = 2e-42
Identities = 50/253 (19%), Positives = 88/253 (34%), Gaps = 55/253 (21%)
Query: 78 STPGSL-AFLVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTEKYEEHCKEQE 136
S PG + G Q+ +++ +P+ + +PV LI LF E +
Sbjct: 13 SDPGVFTELIKGFGCRG-AQVEEIWSLEPENFEKL-KPVHGLIFLFKWQPGEEPAGSVVQ 70
Query: 137 KEIEEKGQTISSELFFMKQFVHNACGTIALIHSYEEHCKEQEKEIEEKGQTISSELFFMK 196
+ +FF K
Sbjct: 71 DSRLD-------------------------------------------------TIFFAK 81
Query: 197 QFVHNACGTIALIHSVANNLNNVKLEDGKLKSFLDEAKDLSPERRGKLLDENQSISDVHK 256
Q ++NAC T A++ + N + L F + ++ +G L + I VH
Sbjct: 82 QVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDAAMKGLALSNSDVIRQVHN 141
Query: 257 VIAQEGQTA---PPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADAT 313
A++ +E +HFV+ V G LYELDG + PI+ GA + + ++
Sbjct: 142 SFARQQMFEFDTKTSAKEEDAFHFVSYVPVNGRLYELDGLREGPIDLGACNQDDWISAVR 201
Query: 314 QVAKKYMQRDPDN 326
V +K +Q+ +
Sbjct: 202 PVIEKRIQKYSEG 214
Score = 42.1 bits (98), Expect = 2e-04
Identities = 11/41 (26%), Positives = 19/41 (46%)
Query: 355 KEQEKEIEEKGQTISSELFFMKQFVHNACGTIALIHSVANN 395
+E + +FF KQ ++NAC T A++ + N
Sbjct: 60 PGEEPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNC 100
>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 = 48.5 bits (115), Expect = 3e-06
Identities = 65/377 (17%), Positives = 111/377 (29%), Gaps = 111/377 (29%)
Query: 24 GNNRLYTVHG---------DHLIKLWTLPLYDPTQECRLYRVFVAEGTVRNIHVVKRHPV 74
GN +L + G + L L+ Y V V + I
Sbjct: 152 GNAQLVAIFGGQGNTDDYFEELRDLYQT-----------YHVLVGD----LIKFSAETLS 196
Query: 75 NRLSTPGSLAFLVALGVP-SKWQIVDVYGTDPDM--LAIVP--QPVLALIMLFPCTEKYE 129
+ T + G+ +W ++ PD L +P P++ +I L Y
Sbjct: 197 ELIRTTLDAEKVFTQGLNILEW--LENPSNTPDKDYLLSIPISCPLIGVIQL----AHYV 250
Query: 130 EHCKEQEKEIEEKGQTISSELFFMKQFVHNACGTIALIHSYEEHCKEQEKEIEEKGQTIS 189
K E + + V IA S+E +
Sbjct: 251 VTAKLLGFTPGELRSYLKGATGHSQGLVTAVA--IAETDSWES--------FFVSVRKAI 300
Query: 190 SELFFMKQFVHNACGTIALIHSVANNLNNVKLEDGKLKSFLDEAKDL-SPERRGKLLDEN 248
+ LFF+ + A +L S+ L+ L+ + + SP +L
Sbjct: 301 TVLFFIGVRCYEAYPNTSLPPSI-------------LEDSLENNEGVPSP-----ML--- 339
Query: 249 QSISD-----VHKVIAQEGQTAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGAT 303
SIS+ V + + P + V ++LV +G K + +
Sbjct: 340 -SISNLTQEQVQDYVNKTNSHLPAGKQ--V---EISLV---------NGAKNLVV---SG 381
Query: 304 SPETLLADATQVAK-----KYMQ-RDPDNGRK-----GF-PIN---HGATSPETLLADAT 348
P++L + K Q R P + RK F P+ H S LL A+
Sbjct: 382 PPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFH---SH--LLVPAS 436
Query: 349 QY-EEHCKEQEKEIEEK 364
+ + K
Sbjct: 437 DLINKDLVKNNVSFNAK 453
Score = 41.6 bits (97), Expect = 5e-04
Identities = 21/110 (19%), Positives = 40/110 (36%), Gaps = 19/110 (17%)
Query: 296 FPINHGATS-----PETLLADATQVAKKYMQRDPDNGRKGFPINHGATSPETLLADATQY 350
++HG+ P A+Q+ +++ + P+ GF + T+P L+ Y
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTE-GFAADDEPTTPAELVGKFLGY 67
Query: 351 EEHCKEQEKEIEEKGQTISSELFFMKQFVHNACGTIAL----IHSVANNL 396
E + GQ + +F + L IH++A L
Sbjct: 68 VSSLVEPS----KVGQFDQVLNLCLTEFENCY-----LEGNDIHALAAKL 108
Score = 38.5 bits (89), Expect = 0.004
Identities = 58/348 (16%), Positives = 108/348 (31%), Gaps = 141/348 (40%)
Query: 74 VNRLST-P-----GSLAFLVALGVP-SKW----QIVDVYGTDPDMLAIVPQPVLALIMLF 122
++ ST P GSL L VP + + Q+ + I+P+P
Sbjct: 1 MDAYSTRPLTLSHGSLEH--VLLVPTASFFIASQLQE------QFNKILPEP-------- 44
Query: 123 PCTEKYEEHCKEQEKEIEEKGQTISSELF--FMKQFVHNACGTIALIHSYEEHCKEQEKE 180
TE + +E T +EL F+ +V E
Sbjct: 45 --TEGFAAD--------DE--PTTPAELVGKFL-GYV------------------SSLVE 73
Query: 181 IEEKGQTISSELFFMKQFVHNACGTIAL----IHSVANNL---NNVKLEDGK--LKSFLD 231
+ GQ + +F + L IH++A L N+ L K +K+++
Sbjct: 74 PSKVGQFDQVLNLCLTEFENCY-----LEGNDIHALAAKLLQENDTTLVKTKELIKNYI- 127
Query: 232 EAKDLSPERRGK-----LLDENQSISDVH-KVIAQ-EGQTAPPEDREPVPYHFVALVHKE 284
A+ ++ K L +++ + + +++A GQ +D Y F L
Sbjct: 128 TARIMAKRPFDKKSNSALF---RAVGEGNAQLVAIFGGQ-GNTDD-----Y-FEELRD-- 175
Query: 285 GALYELDGRKGFPINHGATSPETLLADATQVAKKYMQ---RDPDNGRKGFP--------I 333
LY+ + L+ D + + + + R + K F +
Sbjct: 176 --LYQ--------------TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 334 NHGATSPETL-LADATQYEEHCKEQEKEIEEKGQTISSELFFMKQFVH 380
+ + +P+ L IS L + Q H
Sbjct: 220 ENPSNTPDKDYLLSI-------------------PISCPLIGVIQLAH 248
Score = 37.0 bits (85), Expect = 0.011
Identities = 31/183 (16%), Positives = 54/183 (29%), Gaps = 79/183 (43%)
Query: 81 GSLAF-----LVAL-G------VPSKWQIVDVYG-TDPDMLAIVPQPVLALIMLFPCTEK 127
++ +V G VP D G ++ M+AI P V A
Sbjct: 1775 DVMSIESLVEVVFYRGMTMQVAVPR-----DELGRSNYGMIAINPGRVAASF-------- 1821
Query: 128 YEEHCKEQEKEIEEKGQTISSELFFMKQFV----HNACGTIALIHSYEEHCKEQEKEIEE 183
+E + + E+ + V +N
Sbjct: 1822 ----SQEALQYVVER---VGKR---TGWLVEIVNYNVEN--------------------- 1850
Query: 184 KGQTISSELFFMKQFVHNACGTIALIHSVANNLNNVKLEDGKLKSFLDEAKDLSPER-RG 242
Q +++ G + + +V N LN +KL+ K+ ++ K LS E G
Sbjct: 1851 -QQYVAA-------------GDLRALDTVTNVLNFIKLQ--KID-IIELQKSLSLEEVEG 1893
Query: 243 KLL 245
L
Sbjct: 1894 HLF 1896
Score = 34.6 bits (79), Expect = 0.059
Identities = 27/178 (15%), Positives = 44/178 (24%), Gaps = 68/178 (38%)
Query: 227 KSFLDEAKDLSPERRGKLLDENQSISDVHKVIAQEGQTAPPEDREPVPYHFVALVHKEGA 286
+ + A + + G SI D+ P + HF
Sbjct: 1643 QDVWNRADNHFKDTYG------FSILDIVI-------NNPVN----LTIHF--------- 1676
Query: 287 LYELDGRKGFPINH------------GATSPETLLADATQVAKKYMQRDPDNGRKGFPIN 334
G KG I G E + + + + Y R G
Sbjct: 1677 ----GGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEK-GLLSATQF 1731
Query: 335 HGATSPETLLADATQYEEHCKEQEKEIEEKGQTISSELFFMKQFVHNACGTIALIHSV 392
T P L + +E +++ KG + F G HS+
Sbjct: 1732 ---TQPALTLMEKAAFE--------DLKSKGLIPADATF---------AG-----HSL 1764
>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 = 46.0 bits (108), Expect = 2e-05
Identities = 50/395 (12%), Positives = 101/395 (25%), Gaps = 110/395 (27%)
Query: 34 DHLIKLWTLPLYDPTQECRL------YRVFVAEGTVRNIHVVKRHPVNRLSTPGSLAFLV 87
++ ++ C++ +V H+ H L+ + L
Sbjct: 251 LNVQNAKAWNAFNL--SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL- 307
Query: 88 ALGVPSKWQIVDVYGTDPDMLAIVPQPVLALI--ML--FPCTEKYEEH--CKEQEKEIEE 141
K+ ++L P+ L++I + T +H C + IE
Sbjct: 308 -----LKYLDCRPQDLPREVLTTNPR-RLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361
Query: 142 KGQTISSELFFMKQ-------FVHNACGTIALIHSYEEHCKEQEKEIEEKGQTISSELFF 194
+ ++ F +A L+ + + +
Sbjct: 362 SLNVLEPAE--YRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV------------- 406
Query: 195 MKQFVHNACGTIALIHSVANNLNNVKLEDGKLKSFLDEAKDLSPERRGKLLDENQSISDV 254
V N L+ L + + K + E + KL +E +
Sbjct: 407 -----------------VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA----L 445
Query: 255 HKVI----------AQEGQTAPPEDR---EPVPYHFVALVHKEGALYELDGRKGFPINHG 301
H+ I + P D+ + +H + H E L F
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPE--RMTL-----FR---- 494
Query: 302 ATSPETLLADATQVAKKYMQRDPDNGRKGFPINHGATSPETLLADATQYEEHCKEQEKEI 361
+ D + +K G +N L Y+ + + + +
Sbjct: 495 -----MVFLDFRFLEQKIRHDSTAWNASGSILN--------TLQQLKFYKPYICDNDPKY 541
Query: 362 EEKGQTISSELFFMKQFVHNACGTIALIHSVANNL 396
E I F+ LI S +L
Sbjct: 542 ERLVNAI-------LDFLPK-IEEN-LICSKYTDL 567
Score = 41.4 bits (96), Expect = 5e-04
Identities = 59/360 (16%), Positives = 106/360 (29%), Gaps = 106/360 (29%)
Query: 1 MLTPFQDPTLAS-ECRDVEFLLYGGNNRLYTVHGDHLIK-----------LWTLP----- 43
+L+ F+D + + +C+DV+ + + L DH+I WTL
Sbjct: 21 ILSVFEDAFVDNFDCKDVQDMP---KSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE 77
Query: 44 ----------------LYDPTQ-ECR----LYRVFVA--EGTVRNIHVVKRHPVNRLSTP 80
L P + E R + R+++ + + V ++ V+RL
Sbjct: 78 MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY 137
Query: 81 GSL-AFLVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTEKYEEHCKEQEKEI 139
L L+ L P+K V + G +L +AL + ++
Sbjct: 138 LKLRQALLELR-PAKN--VLIDG----VLGSGKT-WVALDVC-------------LSYKV 176
Query: 140 EEK----------GQTISSELFFMKQFVHNACGTIAL-IHSYEEHCKEQEKEIEEKGQTI 188
+ K S E I S +H + I Q
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEML--QKLLYQIDPNWTSRSDHSSNIKLRIHS-IQAE 233
Query: 189 SSELFFMKQFVHNACGTIALIHSVANNLNNVKL--------------EDGKLKSFLDEA- 233
L K + + L+ V N+ N K ++ FL A
Sbjct: 234 LRRLLKSKPYEN------CLL--VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAAT 285
Query: 234 -KDLSPERRGKLLDENQSISDVHKVIAQEGQTAPPEDREPVPYH---FVALVHKEGALYE 289
+S + L ++ S + K + Q P E P + A ++
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD 345
Score = 41.0 bits (95), Expect = 7e-04
Identities = 45/320 (14%), Positives = 97/320 (30%), Gaps = 99/320 (30%)
Query: 4 PFQDPTLASECRDV----EFLLYGGNNRLYTVHGDHLIKLWTLPLYDPTQECRLYR---V 56
P + +A RD + + ++L +I+ +L + +P + +++ V
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHVNCDKL-----TTIIES-SLNVLEPAEYRKMFDRLSV 380
Query: 57 FVAEGTVRNIHVVKRHPVNRLSTPGSLAFLVALGVPSKWQIVDVYGTDPDMLAIVPQPVL 116
F P + L+ + W D++ V+
Sbjct: 381 F---------------PPSAHIPTILLSLI--------WF---------DVIKSDVMVVV 408
Query: 117 ------ALIMLFPCTEKYEEH-----CKEQEKEIEEKGQTISSELFFMKQFVHNACGTIA 165
+L+ P K + + ++I K F +
Sbjct: 409 NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468
Query: 166 L---IHSY-EEHCK--EQEKEIEEKGQTISSELF----FMKQFVHNACGTIALIHSVANN 215
L +S+ H K E + + +F F++Q + + S+ N
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTL-----FRMVFLDFRFLEQKIRHDSTAWNASGSILNT 523
Query: 216 LNNVKLEDGKLKSFLDEAKDLSPERR-GKLLD-----ENQSISDVHKVIAQEGQTAPPED 269
L +K K ++ + D ER +LD E I + + +
Sbjct: 524 LQQLK----FYKPYICD-NDPKYERLVNAILDFLPKIEENLICSKYTDLLR--------- 569
Query: 270 REPVPYHFVALVHKEGALYE 289
+AL+ ++ A++E
Sbjct: 570 --------IALMAEDEAIFE 581
Score = 29.8 bits (66), Expect = 2.0
Identities = 33/292 (11%), Positives = 75/292 (25%), Gaps = 65/292 (22%)
Query: 106 DMLAIVPQPVLALIMLFPCTEKYEEHCKEQ--------------EK-EIEEKGQTISSEL 150
D + + V + LF +E ++ + E++ ++ + +
Sbjct: 52 DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM 111
Query: 151 FFMKQFVHNACGTIALIHSYEEHCKEQEKEIEEKGQTISSELFFMKQFVH--NACGTIAL 208
+ + + Y + ++ + + + G +
Sbjct: 112 Y--IEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV---LIDGVLGSGKTWV 166
Query: 209 IHSVANNLNNVKLEDGKLKSF-LDEAKDLSPERRGKLLDENQSISDVHKVIAQEGQTAPP 267
V + D K+ F L+ SPE +L+ Q + +++ +
Sbjct: 167 ALDVCLSYKVQCKMDFKI--FWLNLKNCNSPE---TVLEMLQKLL--YQIDPNWTSRSDH 219
Query: 268 EDREPVPYH---------FVALVHKEGALYELDG------RKGFPINHGA----TSPETL 308
+ H + ++ L L F N T+
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYEN-CLLVLLNVQNAKAWNAF--NLSCKILLTTRFKQ 276
Query: 309 LADATQVAKKYMQRDPDNGRKGFPINHGATSPET--LLADATQYEEHCKEQE 358
+ D A D+ T E LL C+ Q+
Sbjct: 277 VTDFL-SAATTTHISLDHHSMTL------TPDEVKSLLLKYL----DCRPQD 317
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.9 bits (69), Expect = 0.53
Identities = 17/110 (15%), Positives = 32/110 (29%), Gaps = 43/110 (39%)
Query: 126 EKYEEHCKEQEKEIEEKGQTISSELFFMKQFVHNACGTIALIHSYEEHCKEQEKEIEEKG 185
E + +EQ K ++E + K E+E EK
Sbjct: 85 ESIRKWREEQRKRLQEL----------------------------DAASKVMEQEWREKA 116
Query: 186 QTISSELFFMKQFVHNACGTIALIHSVANNLNNVKLEDGKLKSFLDEAKD 235
+ E + ++ + V N N ++ D K+F +
Sbjct: 117 KKDLEE--WNQR--QSE--------QVEKNKINNRIAD---KAFYQQPDA 151
Score = 27.0 bits (59), Expect = 8.0
Identities = 8/25 (32%), Positives = 11/25 (44%), Gaps = 5/25 (20%)
Query: 345 ADATQYE-EHCK----EQEKEIEEK 364
AD E E + EQ K ++E
Sbjct: 77 ADRLTQEPESIRKWREEQRKRLQEL 101
>2eiy_A ILVE, branched-chain amino acid aminotransferase; PLP-dependent
enzyme; HET: PLP; 1.35A {Thermus thermophilus} PDB:
1wrv_A* 2ej0_A* 2ej2_A* 2ej3_A*
Length = 308
Score = 29.1 bits (66), Expect = 2.8
Identities = 7/30 (23%), Positives = 12/30 (40%), Gaps = 3/30 (10%)
Query: 57 FVAEGTVRNIHVVKRHPVNRLSTPGSLAFL 86
+VAEG+ N+ V+ + L
Sbjct: 190 YVAEGSGENLFFVRD---GVIYALEHSVNL 216
>3u0g_A Putative branched-chain amino acid aminotransfera; structural
genomics, seattle structural genomics center for
infectious disease; 1.90A {Burkholderia pseudomallei}
Length = 328
Score = 28.4 bits (64), Expect = 4.3
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 57 FVAEGTVRNIHVVKRHPVNRLSTPGSLAFL 86
+V+EG+ N +V R +L TP + L
Sbjct: 213 YVSEGSGENFFLVNR---GKLYTPDLASCL 239
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.6 bits (60), Expect = 4.5
Identities = 7/19 (36%), Positives = 10/19 (52%), Gaps = 4/19 (21%)
Query: 220 KLEDGKLKSFLDEAKDLSP 238
KL+ LK + A D +P
Sbjct: 24 KLQ-ASLKLY---ADDSAP 38
>3k1t_A Glutamate--cysteine ligase GSHA; putative gamma-glutamylcysteine
synthetase; HET: MSE; 1.90A {Methylobacillus flagellatus
KT}
Length = 432
Score = 28.0 bits (62), Expect = 6.1
Identities = 30/127 (23%), Positives = 46/127 (36%), Gaps = 9/127 (7%)
Query: 231 DEAKDLSPERRGKLLDENQSISDVHKVIAQEG----QTAPPEDREPVPYHFVALVHKEGA 286
D+ +DL+ ++R K+ + V +VI QEG + EPV Y G
Sbjct: 300 DDVRDLNRKQRNKM-SVVKEGLKVSEVILQEGVYTFEHLKDAVAEPVIYMMDH--FVVGG 356
Query: 287 LYELDGRKGFPINHGATSPE-TLLADATQVAKKYMQRDPDNGRKGFPINHGATSPETLLA 345
Y + +G N A L T + PD F +G + LLA
Sbjct: 357 FYRVHTSRGADENLNAPGMHFEPLTFETPCSTPDCAGAPDAAPNRFYA-YGVVARLALLA 415
Query: 346 DATQYEE 352
+ +E
Sbjct: 416 ATIELQE 422
>2zgi_A Putative 4-amino-4-deoxychorismate lyase; TTHA0621, PLP cofactor,
pyridoxal enzyme, structural NPPSFA; HET: PLP PGE; 1.93A
{Thermus thermophilus}
Length = 246
Score = 27.1 bits (61), Expect = 8.5
Identities = 3/24 (12%), Positives = 8/24 (33%), Gaps = 3/24 (12%)
Query: 57 FVAEGTVRNIHVVKRHPVNRLSTP 80
V +G+ + + + L
Sbjct: 156 HVVDGSRTSPLLFRE---GTLYLL 176
>2ga0_A Surface protein VSPA; helical bundle, NI(II) binding sites, immune
system; 2.70A {Borrelia turicatae}
Length = 181
Score = 26.9 bits (59), Expect = 9.4
Identities = 19/117 (16%), Positives = 35/117 (29%), Gaps = 19/117 (16%)
Query: 165 ALIHSYEEHCKEQEKEIEEKGQTISSELFFMKQFVHN------ACGTIALIHSVANNLNN 218
L+ S +E K K+I G ++ N A I+ + + +L
Sbjct: 30 TLVKSIDELAKAIGKKIGANGLETDAD--------KNAKLISGAYSVISAVDTKLASLEK 81
Query: 219 VKLEDGKLKSFLDEAKDLSPERRGKLLDEN-----QSISDVHKVIAQEGQTAPPEDR 270
LK + K+ S K + + D A + +D+
Sbjct: 82 KVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDK 138
>3csw_A BCAT, putative branched-chain-amino-acid aminotransfera; TM0831,
putative branched-chain amino acid aminotransferase;
HET: PLP CIT; 2.15A {Thermotoga maritima MSB8}
Length = 285
Score = 27.1 bits (61), Expect = 9.4
Identities = 9/24 (37%), Positives = 13/24 (54%), Gaps = 3/24 (12%)
Query: 57 FVAEGTVRNIHVVKRHPVNRLSTP 80
V EG+ N+ +VK +L TP
Sbjct: 173 QVCEGSFSNVFLVKE---GKLITP 193
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 0.135 0.399
Gapped
Lambda K H
0.267 0.0516 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,162,845
Number of extensions: 373881
Number of successful extensions: 806
Number of sequences better than 10.0: 1
Number of HSP's gapped: 777
Number of HSP's successfully gapped: 47
Length of query: 397
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 301
Effective length of database: 4,021,377
Effective search space: 1210434477
Effective search space used: 1210434477
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.6 bits)