RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8693
(282 letters)
>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 = 307 bits (788), Expect = e-104
Identities = 69/173 (39%), Positives = 112/173 (64%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
D D+G GKG+YY+VN+P++DG+ DE Y I ++ +V + F P AVVLQ GAD++ GD
Sbjct: 213 DVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGD 272
Query: 84 RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELP 143
+ FN+T G GKC++++ ++ L L++GGGGY + N +RCWTY T V LG +++E+P
Sbjct: 273 PMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIP 332
Query: 144 YNDYFEYFGPDFKLHISPSNMANQNTPEYLEKIKTRLFENLRMLPHAPGVQVQ 196
+++F +GPD+ L I+PS ++N P +++I + NL+ +
Sbjct: 333 DHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHVVIEGRSHHH 385
Score = 127 bits (322), Expect = 1e-34
Identities = 32/69 (46%), Positives = 47/69 (68%)
Query: 210 YQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDR 269
D+G GKG+YY+VN+P++DG+ DE Y I ++ +V + F P AVVLQ GAD++ GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 270 LGCFNLTVR 278
+ FN+T
Sbjct: 274 MCSFNMTPV 282
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 297 bits (763), Expect = e-100
Identities = 101/172 (58%), Positives = 141/172 (81%), Gaps = 1/172 (0%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
D ++GA G+YY +N+PLRDG+DD+SY+ +F P+I++V++ +QP+ +VLQCGADSL D
Sbjct: 205 DMYEVGAESGRYYCLNVPLRDGIDDQSYKHLFQPVINQVVDFYQPTCIVLQCGADSLGCD 264
Query: 84 RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELP 143
RLGCFNL++RGHG+CVE+VK +N+P L++GGGGYT+RNV+RCWTYETS+ + I+ ELP
Sbjct: 265 RLGCFNLSIRGHGECVEYVKSFNIPLLVLGGGGYTVRNVARCWTYETSLLVEEAISEELP 324
Query: 144 YNDYFEYFGPDFKLHISPS-NMANQNTPEYLEKIKTRLFENLRMLPHAPGVQ 194
Y++YFEYF PDF LH S + NQN+ +YL++I+ +FENL+ML HAP VQ
Sbjct: 325 YSEYFEYFAPDFTLHPDVSTRIENQNSRQYLDQIRQTIFENLKMLNHAPSVQ 376
Score = 126 bits (318), Expect = 3e-34
Identities = 39/69 (56%), Positives = 58/69 (84%)
Query: 210 YQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDR 269
++GA G+YY +N+PLRDG+DD+SY+ +F P+I++V++ +QP+ +VLQCGADSL DR
Sbjct: 206 MYEVGAESGRYYCLNVPLRDGIDDQSYKHLFQPVINQVVDFYQPTCIVLQCGADSLGCDR 265
Query: 270 LGCFNLTVR 278
LGCFNL++R
Sbjct: 266 LGCFNLSIR 274
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 291 bits (748), Expect = 3e-98
Identities = 138/164 (84%), Positives = 149/164 (90%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
D +DIGAGKGKYYAVN P+RDG+DDESY IF PIISKVME +QPSAVVLQCGADSL+GD
Sbjct: 204 DLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGD 263
Query: 84 RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELP 143
RLGCFNLTV+GH KCVE VK +NLP LM+GGGGYTIRNV+RCWTYET+VAL EI NELP
Sbjct: 264 RLGCFNLTVKGHAKCVEVVKTFNLPLLMLGGGGYTIRNVARCWTYETAVALDCEIPNELP 323
Query: 144 YNDYFEYFGPDFKLHISPSNMANQNTPEYLEKIKTRLFENLRML 187
YNDYFEYFGPDFKLHISPSNM NQNTPEY+EKIK RLFENLRML
Sbjct: 324 YNDYFEYFGPDFKLHISPSNMTNQNTPEYMEKIKQRLFENLRML 367
Score = 127 bits (320), Expect = 2e-34
Identities = 57/69 (82%), Positives = 63/69 (91%)
Query: 210 YQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDR 269
+DIGAGKGKYYAVN P+RDG+DDESY IF PIISKVME +QPSAVVLQCGADSL+GDR
Sbjct: 205 LRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGDR 264
Query: 270 LGCFNLTVR 278
LGCFNLTV+
Sbjct: 265 LGCFNLTVK 273
>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 = 253 bits (648), Expect = 4e-83
Identities = 44/171 (25%), Positives = 69/171 (40%), Gaps = 4/171 (2%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
++IG GKGK Y +NIPL G++D + + V E F+P +LQ G D L D
Sbjct: 204 FLEEIGEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLED 263
Query: 84 RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELP 143
L FNL+ K V+ + +GGGGY ++R WT G E+ +L
Sbjct: 264 YLSKFNLSNVAFLKAFNIVREVFGEGVYLGGGGYHPYALARAWTLIWCELSGREVPEKLN 323
Query: 144 YNDYFEYFGPDFKLHIS----PSNMANQNTPEYLEKIKTRLFENLRMLPHA 190
DF+ + P +++ + + L +
Sbjct: 324 NKAKELLKSIDFEEFDDEVDRSYMLETLKDPWRGGEVRKEVKDTLEKAKAS 374
Score = 123 bits (311), Expect = 4e-33
Identities = 27/69 (39%), Positives = 37/69 (53%)
Query: 210 YQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDR 269
++IG GKGK Y +NIPL G++D + + V E F+P +LQ G D L D
Sbjct: 205 LEEIGEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDY 264
Query: 270 LGCFNLTVR 278
L FNL+
Sbjct: 265 LSKFNLSNV 273
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 68.2 bits (167), Expect = 2e-13
Identities = 27/100 (27%), Positives = 45/100 (45%), Gaps = 1/100 (1%)
Query: 26 QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRL 85
+ GAG+G Y VN+P+ G + ++ + + + F P A+VL G D D
Sbjct: 251 DERGAGEGLGYNVNLPMPHGSSEAAFFERVDDAL-RELRRFAPDALVLSLGFDVYRDDPQ 309
Query: 86 GCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRC 125
+T G G+ + LP ++V GGY I ++
Sbjct: 310 SQVAVTTDGFGRLGHLIGALRLPTVIVQEGGYHIESLEAN 349
Score = 57.8 bits (140), Expect = 7e-10
Identities = 20/81 (24%), Positives = 33/81 (40%), Gaps = 5/81 (6%)
Query: 203 PILWYDPY----QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVL 258
P +Y + GAG+G Y VN+P+ G + ++ + + + F P A+VL
Sbjct: 239 PTNFYPAVAGFDDERGAGEGLGYNVNLPMPHGSSEAAFFERVDDAL-RELRRFAPDALVL 297
Query: 259 QCGADSLTGDRLGCFNLTVRD 279
G D D +T
Sbjct: 298 SLGFDVYRDDPQSQVAVTTDG 318
>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 = 65.5 bits (160), Expect = 2e-12
Identities = 21/99 (21%), Positives = 37/99 (37%), Gaps = 1/99 (1%)
Query: 27 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 86
+ G G G N P+ G + + ++ F A+V+ G D+ D +
Sbjct: 234 ETGKGAGAGTTANYPMGRGTPYSVWGEALTDSLKRI-AAFGAEAIVVSLGVDTFEQDPIS 292
Query: 87 CFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRC 125
F LT + + +P L+V GGY + +
Sbjct: 293 FFKLTSPDYITMGRTIAASGVPLLVVMEGGYGVPEIGLN 331
Score = 55.5 bits (134), Expect = 4e-09
Identities = 17/81 (20%), Positives = 30/81 (37%), Gaps = 5/81 (6%)
Query: 203 PILWYDPY----QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVL 258
P + + ++ G G G N P+ G + + ++ F A+V+
Sbjct: 221 PAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSLKRI-AAFGAEAIVV 279
Query: 259 QCGADSLTGDRLGCFNLTVRD 279
G D+ D + F LT D
Sbjct: 280 SLGVDTFEQDPISFFKLTSPD 300
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 60.8 bits (148), Expect = 7e-11
Identities = 26/136 (19%), Positives = 53/136 (38%), Gaps = 6/136 (4%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
+ GAG G Y +N+PL G + +Y ++ + ++P +++ G D+ D
Sbjct: 214 YSTERGAGNGHGYNINVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLD 273
Query: 84 RLGCFNLTVRGHG----KCVEFVKRY-NLPFLMVGGGGYTIRNVSRCWTYETSVALGSEI 138
L +T G + ++ + + V GGY+ + C G
Sbjct: 274 PLARMMVTADGFRQMARRTIDCAADICDGRIVFVQEGGYSPHYLPFCGLAVIEELTGVR- 332
Query: 139 ANELPYNDYFEYFGPD 154
+ PY+++ G +
Sbjct: 333 SLPDPYHEFLAGMGGN 348
Score = 58.9 bits (143), Expect = 3e-10
Identities = 16/70 (22%), Positives = 31/70 (44%)
Query: 210 YQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDR 269
+ GAG G Y +N+PL G + +Y ++ + ++P +++ G D+ D
Sbjct: 215 STERGAGNGHGYNINVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDP 274
Query: 270 LGCFNLTVRD 279
L +T
Sbjct: 275 LARMMVTADG 284
>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 = 53.2 bits (128), Expect = 3e-08
Identities = 21/109 (19%), Positives = 45/109 (41%), Gaps = 7/109 (6%)
Query: 24 DKQDIGAGKGKYYAVNIPL----RDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADS 79
++GAG G+ + VN+ M D Y + F ++ + F P V++ G D+
Sbjct: 261 AVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDA 320
Query: 80 LTGDR--LGCFNLTVRGHGKCVEFVKRY-NLPFLMVGGGGYTIRNVSRC 125
G LG ++++ + G + + ++ GG+ + +
Sbjct: 321 AEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDA 369
Score = 50.2 bits (120), Expect = 3e-07
Identities = 18/76 (23%), Positives = 35/76 (46%), Gaps = 6/76 (7%)
Query: 210 YQDIGAGKGKYYAVNIPL----RDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSL 265
++GAG G+ + VN+ M D Y + F ++ + F P V++ G D+
Sbjct: 262 VDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAA 321
Query: 266 TGDR--LGCFNLTVRD 279
G LG ++++ +
Sbjct: 322 EGHPAPLGGYHVSAKC 337
>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 = 40.6 bits (94), Expect = 5e-04
Identities = 30/195 (15%), Positives = 65/195 (33%), Gaps = 47/195 (24%)
Query: 42 LRDGMDDESYESIFVPII------SKVMETFQPSAVVL-----QCGADSLTGDRLGCFNL 90
LR + + YE+ ++ +K F S +L + D L+ +L
Sbjct: 234 LRRLLKSKPYENCL--LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291
Query: 91 TVRGHG-----------KCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIA 139
K ++ + +LP ++ + S+ + I
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLD-CRPQDLPREVLTTNPRRL-----------SI-IAESIR 338
Query: 140 NELPYNDYFEYFGPDFKLHISPSNMANQNTPEYLEKIKTRLFENLRMLPHAPGVQVQVSP 199
+ L D +++ D I S++ EY + +F+ L + P +
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK-----MFDRLSVFP----PSAHIPT 389
Query: 200 IIGPILWYD-PYQDI 213
I+ ++W+D D+
Sbjct: 390 ILLSLIWFDVIKSDV 404
Score = 39.1 bits (90), Expect = 0.001
Identities = 24/186 (12%), Positives = 53/186 (28%), Gaps = 52/186 (27%)
Query: 141 ELPYNDYFEYFGPDFKLHISPSNMANQNTPEYLEKI-KTRLFENLRMLPHA--------- 190
+ Y D F F N ++ + + I +++ M A
Sbjct: 15 QYQYKDILSVFEDAFV-----DNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW 69
Query: 191 -----PGVQVQVSPIIGPIL-----W-YDPYQDIGAGKGKYYAVNIPLRDGM--DDESYE 237
VQ + +L + P + + I RD + D++ +
Sbjct: 70 TLLSKQEEMVQK--FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA 127
Query: 238 SIFVPIISKVME------TFQPSA-VVLQ----CGADSLTGDRL-----------GCFNL 275
V + ++ +P+ V++ G + D F L
Sbjct: 128 KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL 187
Query: 276 TVRDCS 281
+++C+
Sbjct: 188 NLKNCN 193
Score = 35.2 bits (80), Expect = 0.023
Identities = 41/281 (14%), Positives = 86/281 (30%), Gaps = 95/281 (33%)
Query: 3 LLNTNANFIVNDRDQTWDLLHDKQDIGAGKGKYYAVNIPLRDGM--DDESYESIFVPIIS 60
+L N F+ + +Q + + Y I RD + D++ + V +
Sbjct: 86 VLRINYKFL-------MSPIKTEQRQPSMMTRMY---IEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 61 KVMETFQPSAVVLQCGADSLTGDRLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIR 120
++ L+ L + N+ + G ++G G
Sbjct: 136 PYLK--------LRQALLELRPAK----NVLI--DG--------------VLGSG----- 162
Query: 121 NVSRCWTYETSVALGSEIANELPYNDYFEYFGPDFKLH-ISPSNMANQNTPEYLEKIKTR 179
+T VAL ++ DFK+ + N+ N N+PE + ++ +
Sbjct: 163 --------KTWVAL--DVCLSYKVQCKM-----DFKIFWL---NLKNCNSPETVLEMLQK 204
Query: 180 LFENLRMLPHAPGVQVQVSPIIGPILWYDPYQDIGAGKGKYYAVNIPLRDGMDDESYESI 239
L + P + + I + + + LR + + YE+
Sbjct: 205 LLYQID-----PNWTSRSDHS------SNIKLRIHSIQAE-------LRRLLKSKPYENC 246
Query: 240 FVPII------SKVMETFQPSAVVL-----QCGADSLTGDR 269
++ +K F S +L + D L+
Sbjct: 247 L--LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAAT 285
Score = 31.0 bits (69), Expect = 0.48
Identities = 23/126 (18%), Positives = 40/126 (31%), Gaps = 32/126 (25%)
Query: 95 HGKCVEFVKRY-NLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELPYNDYFEYFGP 153
+ F + + FL IR+ S W S I N L Y
Sbjct: 487 PERMTLFRMVFLDFRFL-----EQKIRHDSTAWNASGS------ILNTL--QQLKFY--- 530
Query: 154 DFKLHISPSNMANQNTPEYLEKIKTRL-F-----ENLRMLPHAPGVQVQVSPIIGPILWY 207
K +I N P+Y + L F ENL + +++ + I +
Sbjct: 531 --KPYICD------NDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAI-FE 581
Query: 208 DPYQDI 213
+ ++ +
Sbjct: 582 EAHKQV 587
>3q1c_A LEE-encoded effector ESPG; VIRA fold, virulence factor, PAK
recruitment and activation, activated kinase, signaling
protein; 1.60A {Escherichia coli O127} PDB: 3pcr_A*
3pcs_A
Length = 360
Score = 31.4 bits (70), Expect = 0.29
Identities = 22/104 (21%), Positives = 40/104 (38%), Gaps = 8/104 (7%)
Query: 129 ETSVALGSEIANELPYNDYFEYFGPDFKLHISPSNMANQNTPEYLEKIKTRLFENLRMLP 188
+ +V L S N L + + P ++H + S M +T + + ++P
Sbjct: 88 KITVLLESNEQNRLLQSLPIDRHMPYIQVHRALSEMDLTDTTSMRNLLGFTSKLSTTLIP 147
Query: 189 HAPGVQVQVSPIIGPI----LWYDPYQDIGAGKGKYYAVNIPLR 228
H Q P+ GP ++ D + +G K V+IP
Sbjct: 148 HNA----QTDPLSGPTPFSSIFMDTCRGLGNAKLSLNGVDIPAN 187
>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 = 30.0 bits (67), Expect = 1.0
Identities = 26/174 (14%), Positives = 53/174 (30%), Gaps = 49/174 (28%)
Query: 99 VEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELPYNDYFEYFGPDF--- 155
E V + FL GY V + V ++ N F +
Sbjct: 58 AELVGK----FL-----GYVSSLVE-----PSKVGQFDQVLNLC-----LTEFENCYLEG 98
Query: 156 -KLHISPSNMANQNTPEYLEK---IKTRLFENLRMLPHAPGVQVQVSPIIGPILWYDPYQ 211
+H + + +N ++ IK + R++ P + S + ++
Sbjct: 99 NDIHALAAKLLQENDTTLVKTKELIKN--YITARIMAKRPFDKKSNSAL---------FR 147
Query: 212 DIGAGKGKYYAV-----NIPLRDGMDD-----ESYESIFVPIISKVMETFQPSA 255
+G G + A+ N D ++ ++Y + +I ET
Sbjct: 148 AVGEGNAQLVAIFGGQGNT--DDYFEELRDLYQTYHVLVGDLIKFSAETLSELI 199
>1mhm_A Adometdc, samdc, S-adenosylmethionine decarboxylase; covalent
pyruvoyl group, lyase; 2.30A {Solanum tuberosum} SCOP:
d.156.1.1
Length = 288
Score = 28.8 bits (64), Expect = 1.7
Identities = 20/117 (17%), Positives = 40/117 (34%), Gaps = 17/117 (14%)
Query: 29 GAGKGKYYAVNIPLRDGMDDESYESI--------FVPIISKVMETFQPSAVVLQCGADSL 80
++I DG S+ES+ P++ +V+ F+P+ + AD
Sbjct: 167 SIEGAAVSTIHITPEDGFTYASFESVGYNPKTMELGPLVERVLACFEPAEFSVALHADVA 226
Query: 81 TGDRLGCFNLTVRGHGKCV-----EFVKRYNLPFLM---VGGGGYTIRNVSRCWTYE 129
T ++ V+G+ EF + ++ + + CW E
Sbjct: 227 TKLLERICSVDVKGY-SLAEWSPEEFGEGGSIVYQKFTRTPYCESPKSVLKGCWKEE 282
>3ffz_A Botulinum neurotoxin type E; botulinum neurotoxin serotype E,
botulism, domain organization, endopeptidase,
translocation, hydrolase; 2.65A {Clostridium botulinum}
Length = 1252
Score = 27.1 bits (59), Expect = 10.0
Identities = 11/57 (19%), Positives = 17/57 (29%), Gaps = 1/57 (1%)
Query: 137 EIANELPYNDYFEYFGPDFKLHISPSNMANQNTPEYLEKIKTRLFENLRMLPHAPGV 193
I ND + D+K S + + P L K + A G+
Sbjct: 261 NIITSAQSNDIYTNLLADYKKIASKLSKVQVSNPL-LNPYKDVFEAKYGLDKDASGI 316
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
0.321 0.140 0.435
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: 4,429,536
Number of extensions: 265886
Number of successful extensions: 494
Number of sequences better than 10.0: 1
Number of HSP's gapped: 485
Number of HSP's successfully gapped: 25
Length of query: 282
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 190
Effective length of database: 4,133,061
Effective search space: 785281590
Effective search space used: 785281590
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 (21.8 bits)
S2: 57 (25.8 bits)