RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 008057
(579 letters)
>2pqp_A HD7A, histone deacetylase 7A; HDAC, structural genomics, structural
genomics consortium, SGC; HET: TSN; 1.80A {Homo sapiens}
PDB: 2pqo_A* 2nvr_A 3c0y_A 3c0z_A 3c10_A* 2vqm_A*
2vqj_A* 2vqw_G 2vqq_A* 2vqo_A* 2vqv_A*
Length = 421
Score = 467 bits (1204), Expect = e-162
Identities = 155/390 (39%), Positives = 228/390 (58%), Gaps = 32/390 (8%)
Query: 9 RTIKRRVGLLYDERMCKHNTPDGD--YHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAK 66
RT+ GL+YD M KH GD HPE+ RI++IW++LQ G+ +C L ++A
Sbjct: 32 RTLPFTTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKAS 91
Query: 67 DKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKL-----------------NSIYLNEG 109
+ L SVH+E HV L + ++A L ++I+
Sbjct: 92 LEELQSVHSERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELH 151
Query: 110 SSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLL 169
SS AA AAGSV ++A +VA EL + FA+VRPPGHHA+ AMGFC +N+VA+A L
Sbjct: 152 SSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQ 211
Query: 170 NERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIG 229
+ +KILIVDWDVHHGN TQ+ F++DP VL+ S+HRH+ G F+P G +G
Sbjct: 212 Q---QSKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFP--GSGAVDEVG 266
Query: 230 EGPGLGYNINVPWENG---RCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGD-- 284
G G G+N+NV W G GD +YLA + +++P+A++F PD++++SAGFDAA G
Sbjct: 267 AGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPA 326
Query: 285 PLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGS 344
PLGG V+ + M ++LM+ A G +VLALEGG++L +I ++ AC+ LL ++ S
Sbjct: 327 PLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLS 386
Query: 345 SEAY---PFESTWRVIQAVRKKLSAFWPTL 371
E + P + R ++AV + S +W +
Sbjct: 387 EEGWKQKPNLNAIRSLEAVIRVHSKYWGCM 416
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 435 bits (1120), Expect = e-150
Identities = 122/379 (32%), Positives = 188/379 (49%), Gaps = 32/379 (8%)
Query: 14 RVGLLYDERMCKHNTPDG--------------DYHPENPNRIKAIWNKLQAAGIPQRCVV 59
+G +++ +T G +H +P+ + + A+G +
Sbjct: 2 AIGYVWNTLYGWVDTGTGSLAAANLTARMQPISHHLAHPDTKRRFHELVCASGQIEHLTP 61
Query: 60 LNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNEGSSEAAYLAAG 119
+ A A D ++L H+ H+ +K +S+ + + G E A L+AG
Sbjct: 62 IAAVAATDADILRAHSAAHLENMKRVSNLP-----TGGDTGDGITMMGNGGLEIARLSAG 116
Query: 120 SVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINK 179
+E+ RVA GEL++ +A+V PPGHHA + AMGFC++NN +VAA + LG+ +
Sbjct: 117 GAVELTRRVATGELSAGYALVNPPGHHAPHNAAMGFCIFNNTSVAAGYARA---VLGMER 173
Query: 180 ILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNIN 239
+ I+DWDVHHGN TQ ++W DP VL S+H+H F P D G+ T G G G GYNIN
Sbjct: 174 VAILDWDVHHGNGTQDIWWNDPSVLTISLHQH--LCFPP--DSGYSTERGAGNGHGYNIN 229
Query: 240 VPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVM 299
VP G G+A YL D ++LP + + P +II+ +GFDA+ DPL VT G+ M
Sbjct: 230 VPLPPG-SGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQM 288
Query: 300 LKKLMDFA----QGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWR 355
++ +D A G+IV EGGY+ + LA + L + + +
Sbjct: 289 ARRTIDCAADICDGRIVFVQEGGYSPHYLPFCGLAVIEELTGVRSLPDPYHEFLAGMGGN 348
Query: 356 -VIQAVRKKLSAFWPTLAD 373
++ A R + P LAD
Sbjct: 349 TLLDAERAAIEEIVPLLAD 367
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 367 bits (943), Expect = e-123
Identities = 89/358 (24%), Positives = 140/358 (39%), Gaps = 45/358 (12%)
Query: 9 RTIKRRVGLLYDERMCKHNTPDGDY------HPENPNRIKAIWNKLQAAGIPQRCVVLNA 62
+ + H+ E P R + A G P V
Sbjct: 16 TQGPGSMLTYFHPDQSLHHPRTYFSRGRMRMPQEVPERAARLVAAAFAMGFP----VREP 71
Query: 63 KEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKL--------------------- 101
+ + +VH +++ ++ + + D +
Sbjct: 72 DDFGIAPIAAVHDTHYLRFLETVHREWKAMPEDWGDEAMSNIFVREPNALRGVLAQAARH 131
Query: 102 ---NSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLY 158
S + E + AAY +A S + A V +G A+A+ RPPGHHA D A GFC
Sbjct: 132 LADGSCPVGEHTWRAAYWSAQSALAAAAAVRDGAPA-AYALCRPPGHHARVDAAGGFCYL 190
Query: 159 NNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYP 218
NN A+AA L ++ ++D D+HHG Q++F+ VL+ S+H FYP
Sbjct: 191 NNAAIAAQALRARHA-----RVAVLDTDMHHGQGIQEIFYARRDVLYVSIHGDP-TNFYP 244
Query: 219 ANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGF 278
A GF G G GLGYN+N+P +G +A + D L + F PD +++S GF
Sbjct: 245 A-VAGFDDERGAGEGLGYNVNLPMPHG-SSEAAFFERVDDA-LRELRRFAPDALVLSLGF 301
Query: 279 DAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLL 336
D DP VT G+ + + V+ EGGY++ S+ + +
Sbjct: 302 DVYRDDPQSQVAVTTDGFGRLGHLIGALR-LPTVIVQEGGYHIESLEANARSFFGGFG 358
>3q9b_A Acetylpolyamine amidohydrolase; HDAC, polyamines, arginase fold,
deacetylase, hydrolase-HYDR inhibitor complex; HET: B3N;
2.25A {Mycoplana ramosa} PDB: 3q9f_A* 3q9c_A* 3q9e_A*
Length = 341
Score = 356 bits (916), Expect = e-119
Identities = 88/349 (25%), Positives = 141/349 (40%), Gaps = 44/349 (12%)
Query: 19 YDERMCKHNTP----DGDY--HPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLS 72
+ E N G+ E P R + I ++ AG V+ + +L
Sbjct: 5 FSEDHKLRNAKTELYGGELVPPFEAPFRAEWILAAVKEAGFDD---VVAPARHGLETVLK 61
Query: 73 VHTENHVNLIKNISSKQFDSRRDRIASKLN-------------------------SIYLN 107
VH ++N ++ + + A + ++
Sbjct: 62 VHDAGYLNFLETAWDRWKAAGYKGEAIATSFPVRRTSPRIPTDIEGQIGYYCNAAETAIS 121
Query: 108 EGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASF 167
G+ EAA + S I+ A+ +A G AF++ RPPGHHA D G+C NN AVAA
Sbjct: 122 PGTWEAALSSMASAIDGADLIAAGHKA-AFSLCRPPGHHAGIDMFGGYCFINNAAVAAQR 180
Query: 168 LLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTM 227
LL++ G KI I+D D HHGN TQ +F++ V F S+H F G+
Sbjct: 181 LLDK----GAKKIAILDVDFHHGNGTQDIFYERGDVFFASLHGDPAEAFPH--FLGYAEE 234
Query: 228 IGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLG 287
G+G G G N P G + + L FG + I++S G D DP+
Sbjct: 235 TGKGAGAGTTANYPMGRG-TPYSVWGEALTDS-LKRIAAFGAEAIVVSLGVDTFEQDPIS 292
Query: 288 GCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLL 336
++T Y M + + + +++ +EGGY + I +V + +
Sbjct: 293 FFKLTSPDYITMGRTIAA-SGVPLLVVMEGGYGVPEIGLNVANVLKGVA 340
>1c3p_A Protein (HDLP (histone deacetylase-like protein) ); alpha/beta
fold, lyase; 1.80A {Aquifex aeolicus} SCOP: c.42.1.2
PDB: 1c3r_A* 1c3s_A*
Length = 375
Score = 347 bits (892), Expect = e-115
Identities = 78/332 (23%), Positives = 136/332 (40%), Gaps = 19/332 (5%)
Query: 13 RRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLS 72
++V L+ K+ HP R+ + A + ++ ++ A + LL
Sbjct: 2 KKVKLIGTLDYGKYRY--PKNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLL 59
Query: 73 VHTENHVNLIKNISSKQFDSRRDRIASKLNSI--YLNEGSSEAAYLAAGSVIEVAERVAE 130
HTE+++N + Q + R + ++ + LA GS ++ E +
Sbjct: 60 FHTEDYINTLMEAERCQCVPKGAREKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLK 119
Query: 131 GELNSAFAIVRPPG--HHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVH 188
G P G HHA A GFC NN AV +L + G +IL +D D H
Sbjct: 120 GN-----VAFNPAGGMHHAFKSRANGFCYINNPAVGIEYLR----KKGFKRILYIDLDAH 170
Query: 189 HGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCG 248
H + Q+ F+ +V S+H+ +P + GF IGEG G GYN+N+P G
Sbjct: 171 HCDGVQEAFYDTDQVFVLSLHQSP-EYAFP-FEKGFLEEIGEGKGKGYNLNIPLPKG-LN 227
Query: 249 DADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQ 308
D ++L + L V + F P++ ++ G D D L ++ + + +
Sbjct: 228 DNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLSNVAFLKAFNIVREVF- 286
Query: 309 GKIVLALEGGYNLGSISNSVLACMNVLLEDKP 340
G+ V GGY+ +++ + L +
Sbjct: 287 GEGVYLGGGGYHPYALARAWTLIWCELSGREV 318
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 345 bits (888), Expect = e-115
Identities = 87/409 (21%), Positives = 172/409 (42%), Gaps = 48/409 (11%)
Query: 12 KRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLL 71
K++V YD + + G HP P+RI+ N L G+ ++ + +A + +
Sbjct: 2 KKKVCYYYDGDIGNYYY--GQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMT 59
Query: 72 SVHTENHVNLIKNISSKQFDSRRDRIASKL--NSIYLNEGSSEAAYLAAGSVIEVAERVA 129
H++ ++ +++I ++ + +G E L+ G + A ++
Sbjct: 60 KYHSDEYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLN 119
Query: 130 EGELNSAFAIVRPPG-HHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVH 188
+ + A+ G HHA+ EA GFC N++ +A LL ++L +D D+H
Sbjct: 120 RQQ--TDMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQ-----RVLYIDIDIH 172
Query: 189 HGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCG 248
HG+ ++ F+ RV+ S H++ G ++P G IG G G Y +N P +G
Sbjct: 173 HGDGVEEAFYTTDRVMTVSFHKY--GEYFPGT--GDLRDIGAGKGKYYAVNFPMRDG-ID 227
Query: 249 DADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQ 308
D Y ++ I+ V + + P +++ G D+ +GD LG +T G++ ++ + F
Sbjct: 228 DESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFN- 286
Query: 309 GKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFW 368
+++ GGY + +++ V L+ + P+ + F
Sbjct: 287 LPLLMLGGGGYTIRNVARCWTYETAVALDCEI----PNELPYNDYFE----------YFG 332
Query: 369 PTLADELPTKLTSLKAPPAHMISSSDSEDEDTKVETLEAVLQVALSKLK 417
P L P++M +++T E +E + Q L+
Sbjct: 333 PDF---------KLHISPSNM------TNQNTP-EYMEKIKQRLFENLR 365
>3ew8_A HD8, histone deacetylase 8; hydrolase, HDAC, metalloenzyme,
arginase fold, HDAC8, histon deacetylase, hydroxamate
inhibitor, unliganded; HET: B3N; 1.80A {Homo sapiens}
PDB: 3f06_A* 3ezp_A* 3ezt_A* 3f0r_A* 3f07_A* 2v5w_A*
2v5x_A* 3ewf_A* 3mz4_A* 3mz6_A* 3mz7_A* 3rqd_A* 3mz3_A*
1t64_A* 1t67_A* 1t69_A* 1vkg_A* 1w22_A* 3sff_A* 3sfh_A*
Length = 388
Score = 344 bits (884), Expect = e-114
Identities = 92/417 (22%), Positives = 162/417 (38%), Gaps = 46/417 (11%)
Query: 2 EVKSGEGRTIKRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLN 61
E + +Y D + P R + + ++A + ++ ++
Sbjct: 3 EPEEPADSGQSLVPVYIYSPEYVSM----CDSLAKIPKRASMVHSLIEAYALHKQMRIVK 58
Query: 62 AKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKLN-SIYLNEGSSEAAYLAAGS 120
K A + + + HT+ ++ ++ +S + D D I L EG + A G+
Sbjct: 59 PKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYLCPATEGIFDYAAAIGGA 118
Query: 121 VIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKI 180
I A+ + +G A HHA+ DEA GFC N+ + L +I
Sbjct: 119 TITAAQCLIDGMCKVAINW-SGGWHHAKKDEASGFCYLNDAVLGILRLRR-----KFERI 172
Query: 181 LIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINV 240
L VD D+HHG+ + F +V+ S+H+ G F+P G + +G G G Y++NV
Sbjct: 173 LYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG-FFPGT--GDVSDVGLGKGRYYSVNV 229
Query: 241 PWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVML 300
P ++G D Y + + +L V + F P +++ G D AGDP+ +TP G L
Sbjct: 230 PIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 301 KKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAV 360
K ++ + ++ GGYNL + + V+L S P +
Sbjct: 289 KYILQWQ-LATLILGGGGYNLANTARCWTYLTGVILGKTL----SSEIPDHEFFT----- 338
Query: 361 RKKLSAFWPTLADELPTKLTSLKAPPAHMISSSDSEDEDTKVETLEAVLQVALSKLK 417
A+ P L+ P+ D + ++ +L LK
Sbjct: 339 -----AYGPDY---------VLEITPSCR------PDRNEP-HRIQQILNYIKGNLK 374
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 338 bits (868), Expect = e-112
Identities = 74/347 (21%), Positives = 150/347 (43%), Gaps = 21/347 (6%)
Query: 12 KRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLL 71
+ V YD + + G HP P+R+ + + G+ ++ +V +A ++
Sbjct: 2 AKTVAYFYDPDVGNFHY--GAGHPMKPHRLALTHSLVLHYGLYKKMIVFKPYQASQHDMC 59
Query: 72 SVHTENHVNLIKNISSKQFDSRRDRIASKL--NSIYLNEGSSEAAYLAAGSVIEVAERVA 129
H+E++++ ++ +S + + + + G E G+ ++ A ++
Sbjct: 60 RFHSEDYIDFLQRVSPTNMQGFTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQGATQLN 119
Query: 130 EGELNSAFAIVRPPG-HHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVH 188
AI G HHA+ EA GFC N++ + LL ++L +D D+H
Sbjct: 120 NKI--CDIAINWAGGLHHAKKFEASGFCYVNDIVIGILELLK-----YHPRVLYIDIDIH 172
Query: 189 HGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCG 248
HG+ Q+ F+ RV+ S H++ F+P G +G G Y +NVP +G
Sbjct: 173 HGDGVQEAFYLTDRVMTVSFHKYGNY-FFPGT--GDMYEVGAESGRYYCLNVPLRDG-ID 228
Query: 249 DADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQ 308
D Y ++ ++ V + P I++ G D+ D LG ++ G+ ++ + F
Sbjct: 229 DQSYKHLFQPVINQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHGECVEYVKSFN- 287
Query: 309 GKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWR 355
+++ GGY + +++ ++L+E+ SE P+ +
Sbjct: 288 IPLLVLGGGGYTVRNVARCWTYETSLLVEEAI----SEELPYSEYFE 330
>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 = 57.4 bits (138), Expect = 1e-08
Identities = 87/546 (15%), Positives = 157/546 (28%), Gaps = 158/546 (28%)
Query: 94 RDRIASKL-----NSIYLNEGSSE----AAYLAAGSVIEVAERVAEGELNSAFAIVRPPG 144
+++ L +E ++ +L V+ V ++ ++
Sbjct: 34 QEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY-----VSSLVEPSKVGQFDQVLNLCL 88
Query: 145 HHAEPDEAMGFCLYNNV-AVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRV 203
E + N++ A+AA L L K LI K + +
Sbjct: 89 TEFENC----YLEGNDIHALAAKLLQENDTTLVKTKELI------------KNYITARIM 132
Query: 204 LFFSVHRHEFGTFYPANDDG---FYTMIGEGPGLGYNINVPWE-------NGRCGDADYL 253
+ + A +G + G G G N + +E D +
Sbjct: 133 AKRPFDKKSNSALFRAVGEGNAQLVAIFG-GQG---NTDDYFEELRDLYQTYHVLVGDLI 188
Query: 254 AVWDHILLPVAKDFGPDIIIISAGFDAAA--GDPLGGCRVTP---Y----GYSVMLKKLM 304
L + + + + G + +P TP Y S L ++
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLNILEWLENP----SNTPDKDYLLSIPISCPLIGVI 244
Query: 305 DFAQGKIVLALEGGYN---LGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWR-VIQAV 360
A +V A G+ L S L+ +A + +W +V
Sbjct: 245 QLAH-YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAET-------DSWESFFVSV 296
Query: 361 RKKLS-AFW---------PTLADELPTKLT--SLK---APPAHMISSSDSEDE--DTKVE 403
RK ++ F+ P + LP + SL+ P+ M+S S+ E V
Sbjct: 297 RKAITVLFFIGVRCYEAYPNTS--LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVN 354
Query: 404 TLEAVL----QVALSKLK------VDDGHAE-L-GMATPWRSELSKVDVFYASFGSNMWK 451
+ L QV +S L V G + L G+ L K A G + +
Sbjct: 355 KTNSHLPAGKQVEIS-LVNGAKNLVVSGPPQSLYGLNL----TLRKAK---APSGLDQSR 406
Query: 452 SRFLCYIEGGQVEGMQKPCSGSKDRNPPKEILWKTFPHHLFFGHDSSHTWGPGGVAFLNP 511
F S+ R + F P F
Sbjct: 407 IPF------------------SE-RKLK--------FSNRF---------LPVASPF--- 427
Query: 512 ECDCRHKAYLCLYRITLEQFNDVLLQENV--YSDDVSSPLFDTNDLNSVANKKAVSLEAL 569
H L + N L++ NV + D+ P++DT D + + E +
Sbjct: 428 -----HSHLL---VPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERI 479
Query: 570 KVMLLQ 575
+++
Sbjct: 480 VDCIIR 485
Score = 45.8 bits (108), Expect = 4e-05
Identities = 49/296 (16%), Positives = 73/296 (24%), Gaps = 118/296 (39%)
Query: 153 MGFCLYNNVAVAASFLLNERPELGINKILIVDW---DVH----HGNSTQKMFWKDPRVLF 205
MG LY A W D H +G S + +P L
Sbjct: 1631 MGMDLYKTSKAAQDV-----------------WNRADNHFKDTYGFSILDIVINNPVNL- 1672
Query: 206 FSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLA-VWDHIL---- 260
++H FG G G I EN Y A +++ I+
Sbjct: 1673 -TIH---FG----------------GEK-GKRIR---EN-------YSAMIFETIVDGKL 1701
Query: 261 --LPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGG 318
+ K+ + F G T F Q + L
Sbjct: 1702 KTEKIFKEINEHSTSYT--FR----SEKGLLSAT------------QFTQPALTLM---- 1739
Query: 319 YNLGSISNSVLACMNVLLE------DKPVAG-S----------SEAYPFESTWRVIQAVR 361
A L D AG S ++ ES V+ R
Sbjct: 1740 --------EK-AAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVV-FYR 1789
Query: 362 KKLSAFWPTLADELPTKLTSLKA-PPAHMISSSDSEDEDTKVETLEA----VLQVA 412
DEL + A P + +S E VE + ++++
Sbjct: 1790 GMTMQVAVP-RDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIV 1844
Score = 37.3 bits (86), Expect = 0.014
Identities = 52/251 (20%), Positives = 75/251 (29%), Gaps = 94/251 (37%)
Query: 82 IKNISSKQFDSRRDRIASKLN-----SIYL-N-------EGSSEAAYLAAGSVIEVAERV 128
I N++ +Q ++ S L I L N G ++ Y G + + +
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLY---GLNLTLRKAK 397
Query: 129 AEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASF---LLNERPELGINKILI--- 182
A L+ + R P + + F + VA+ F LL +L INK L+
Sbjct: 398 APSGLDQS----RIPFSERKLKFSNRF-----LPVASPFHSHLLVPASDL-INKDLVKNN 447
Query: 183 VDWD-------VHHGNSTQKMFWKDPRVLFFSV-HRHEFGTFYPANDDGFYTMIGEGPGL 234
V ++ V+ D RVL S+ R I P
Sbjct: 448 VSFNAKDIQIPVYDTFD-----GSDLRVLSGSISERI-------------VDCIIRLP-- 487
Query: 235 GYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDII-----------------IISAG 277
V WE HIL DFGP +I AG
Sbjct: 488 -----VKWE--TTTQFKAT----HIL-----DFGPGGASGLGVLTHRNKDGTGVRVIVAG 531
Query: 278 -FDAAAGDPLG 287
D D G
Sbjct: 532 TLDINPDDDYG 542
Score = 32.7 bits (74), Expect = 0.38
Identities = 35/217 (16%), Positives = 68/217 (31%), Gaps = 74/217 (34%)
Query: 7 EGRTIKRRVGLLYDERMCKH--NTPDGD-YHPEN--PNRI----KAIWNKLQAAG-IPQR 56
+G+ ++ +E + + G + P + KA + L++ G IP
Sbjct: 1698 DGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP-ALTLMEKAAFEDLKSKGLIPAD 1756
Query: 57 CVV----------LNAKEAKDKNLLSVHTENHVNLIKNI--SSKQFDSRRDRIASKLNSI 104
L + A +++S+ E+ V ++ + Q RD + +
Sbjct: 1757 ATFAGHSLGEYAALASL-A---DVMSI--ESLVEVVF-YRGMTMQVAVPRDELGRSNYGM 1809
Query: 105 YLNEGSSEAAYLAAGSVIEVAERVAE--GEL----NSAFAIVRPPGHHAEPDEAMGFCLY 158
AA + ++ V ERV + G L N Y
Sbjct: 1810 IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN-----------------------Y 1846
Query: 159 N-----------NVAV-AASFLLNERPELGINKILIV 183
N A+ + +LN + + KI I+
Sbjct: 1847 NVENQQYVAAGDLRALDTVTNVLN---FIKLQKIDII 1880
>3cry_A Gamma-glutamyl cyclotransferase; enzyme, oxoproline; 1.70A {Homo
sapiens} PDB: 2pn7_A 2rbh_A 2i5t_A* 2q53_A
Length = 188
Score = 34.7 bits (79), Expect = 0.041
Identities = 14/117 (11%), Positives = 33/117 (28%), Gaps = 20/117 (17%)
Query: 427 MATPWRSELS---KVDVFYASFGSNMWKSRFLCYIEGGQVEGMQKPCSGSKDRNPPKEIL 483
MA +++ + Y ++GSN+ R + +
Sbjct: 1 MANSGCKDVTGPDEESFLYFAYGSNLLTER------------IHLRNPSAAFFCVA---- 44
Query: 484 WKTFPHHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDVLLQENV 540
+ L FG+ T + + ++++ N + Q+ V
Sbjct: 45 -RLQDFKLDFGNSQGKTSQTWHGGIATIFQSPGDEVWGVVWKMNKSNLNSLDEQQGV 100
>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 = 34.8 bits (79), Expect = 0.090
Identities = 36/282 (12%), Positives = 75/282 (26%), Gaps = 97/282 (34%)
Query: 309 GKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFW 368
GK +AL+ C++ ++ K F+ FW
Sbjct: 162 GKTWVALD-------------VCLSYKVQCKM--------DFK--------------IFW 186
Query: 369 PTLA-----DELPTKLTSL--KAPPAHMISSSDSEDEDTKVETLEAVLQVALSK------ 415
L + + L L + P S S + ++ +++A L+ L
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246
Query: 416 -LKVDDGHAELGMATPWRSELSKVDVF-----------YAS----FGSNMWKSRFLCYIE 459
L + + ++ + F + + L +
Sbjct: 247 LLVLLN---------VQNAKA--WNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295
Query: 460 GG----QVEGMQKPCSGSKDRNPPKEILWKTFPHHL-FFG---HDSSHTWGPGGVAFLNP 511
+V+ + + ++ P+E+L T P L D TW + +
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPREVL-TTNPRRLSIIAESIRDGLATWDN----WKHV 350
Query: 512 ECDCRHKAYLCLYRITLEQFNDVLLQEN-----VYSDDVSSP 548
CD +L ++ V+ P
Sbjct: 351 NCDKLTTI----IESSLNVLEPAEYRKMFDRLSVFPPSAHIP 388
>3onh_A Ubiquitin-activating enzyme E1-like; ligase, SUMO conjugation,
UBC9; 1.60A {Saccharomyces cerevisiae} PDB: 3ong_A
Length = 127
Score = 30.4 bits (68), Expect = 0.59
Identities = 9/44 (20%), Positives = 15/44 (34%)
Query: 369 PTLADELPTKLTSLKAPPAHMISSSDSEDEDTKVETLEAVLQVA 412
D L+ + +I SD E + + +E L V
Sbjct: 53 YDFEDLNDRTLSEINLGNGSIILFSDEEGDTMIRKAIELFLDVD 96
>4a35_A Mitochondrial enolase superfamily member 1; isomerase; 1.74A {Homo
sapiens}
Length = 441
Score = 29.8 bits (67), Expect = 2.5
Identities = 9/53 (16%), Positives = 16/53 (30%), Gaps = 1/53 (1%)
Query: 187 VHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNIN 239
+ + + RV + H HE + Y M + PG +
Sbjct: 369 LIIFDYISVSASLENRVCEYVDHLHEHFKYPVMIQRASY-MPPKDPGYSTEMK 420
>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 = 28.8 bits (63), Expect = 2.9
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 6/33 (18%)
Query: 398 EDTKVETLEAVLQVALSKLKVDDGHAELGM-AT 429
E ++ L+A L KL DD L + AT
Sbjct: 18 EKQALKKLQASL-----KLYADDSAPALAIKAT 45
Score = 28.8 bits (63), Expect = 3.4
Identities = 10/41 (24%), Positives = 15/41 (36%), Gaps = 20/41 (48%)
Query: 358 QAVRKKLSAFWPTLADELPTKLTSLK--AP---PAHMISSS 393
QA++K + SLK A PA I ++
Sbjct: 20 QALKKLQA---------------SLKLYADDSAPALAIKAT 45
>2re2_A Uncharacterized protein TA1041; dinitrogenase iron-molybdenum
cofactor, structural genomics, center for structural
genomics; HET: MSE; 1.30A {Thermoplasma acidophilum dsm
1728}
Length = 136
Score = 28.4 bits (63), Expect = 3.3
Identities = 8/45 (17%), Positives = 17/45 (37%)
Query: 102 NSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHH 146
+ + + V + + + EG+++ A A GHH
Sbjct: 91 PGFNFIKNKMDVYIVPEMPVADALKLILEGKVSPATAPTHDHGHH 135
>1rvk_A Isomerase/lactonizing enzyme; enolase superfamily, MR.GI-17937161,
NYSGXRC, target T1522, structural genomics, PSI; 1.70A
{Agrobacterium tumefaciens} SCOP: c.1.11.2 d.54.1.1
Length = 382
Score = 28.8 bits (65), Expect = 5.9
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 196 MFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNIN 239
P + + H + P + DGF + + PGLG +I+
Sbjct: 330 RGLLHPFLEYDDGHDYLKSLSDPMDRDGFVH-VPDRPGLGEDID 372
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 0.136 0.418
Gapped
Lambda K H
0.267 0.0705 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,175,915
Number of extensions: 570710
Number of successful extensions: 1308
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1241
Number of HSP's successfully gapped: 26
Length of query: 579
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 480
Effective length of database: 3,937,614
Effective search space: 1890054720
Effective search space used: 1890054720
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.9 bits)