RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 017484
(371 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 = 507 bits (1307), Expect = 0.0
Identities = 126/298 (42%), Positives = 188/298 (63%)
Query: 24 HPMKPHRLYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKC 83
Y LG CP E +F++ G TI AA+ L + +C +AINW+GG HHAKK
Sbjct: 88 DDHPDSIEYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKD 147
Query: 84 EASGFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLF 143
EASGFCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF F
Sbjct: 148 EASGFCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGF 207
Query: 144 FPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGAD 203
FPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD
Sbjct: 208 FPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGAD 267
Query: 204 SLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTEL 263
++AGD + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L
Sbjct: 268 TIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTL 327
Query: 264 PNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSIQHAPSVQMQ 321
+EIP++E+ + P+ L I + N + I + NL+ +
Sbjct: 328 SSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHVVIEGRSHHH 385
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 485 bits (1251), Expect = e-173
Identities = 187/300 (62%), Positives = 231/300 (77%), Gaps = 1/300 (0%)
Query: 21 GPNHPMKPHRLYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHA 80
K +N+G+DCPVF LFEFC Y G ++ A +LNN++CDIAINWAGGLHHA
Sbjct: 77 NMQGFTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQGATQLNNKICDIAINWAGGLHHA 136
Query: 81 KKCEASGFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFG 140
KK EASGFCY+ND+V+GILELLKYH RVLYIDID+HHGDGV+EAFY TDRVMTVSFHK+G
Sbjct: 137 KKFEASGFCYVNDIVIGILELLKYHPRVLYIDIDIHHGDGVQEAFYLTDRVMTVSFHKYG 196
Query: 141 DLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQC 200
+ FFPGTGD+ E+G G++Y +NVPL+DGIDD S+ LF+ +I++VV+ Y P IVLQC
Sbjct: 197 NYFFPGTGDMYEVGAESGRYYCLNVPLRDGIDDQSYKHLFQPVINQVVDFYQPTCIVLQC 256
Query: 201 GADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLD 260
GADSL DRLGCFNLSI GH ECV +VK FN+PLLV GGGGYT NVARCWT ET +L++
Sbjct: 257 GADSLGCDRLGCFNLSIRGHGECVEYVKSFNIPLLVLGGGGYTVRNVARCWTYETSLLVE 316
Query: 261 TELPNEIPENEYIKYFAPECSLRIP-NGHIENLNSKSYLSTIKMQVLENLRSIQHAPSVQ 319
+ E+P +EY +YFAP+ +L + IEN NS+ YL I+ + ENL+ + HAPSVQ
Sbjct: 317 EAISEELPYSEYFEYFAPDFTLHPDVSTRIENQNSRQYLDQIRQTIFENLKMLNHAPSVQ 376
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 484 bits (1249), Expect = e-173
Identities = 197/368 (53%), Positives = 248/368 (67%), Gaps = 59/368 (16%)
Query: 3 SKDKISYFYDGDVGSVYFGPNHPMKPHRL---------YNLGEDC--------------- 38
+K K+ Y+YDGD+G+ Y+G HPMKPHR+ Y L
Sbjct: 1 AKKKVCYYYDGDIGNYYYGQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMTK 60
Query: 39 ----------------------------------PVFENLFEFCQIYAGGTIDAARRLNN 64
PVF+ LFEFCQ+ GG++ A +LN
Sbjct: 61 YHSDEYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNR 120
Query: 65 QLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEA 124
Q D+A+NWAGGLHHAKK EASGFCY+ND+VL ILELLKYH RVLYIDID+HHGDGVEEA
Sbjct: 121 QQTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEEA 180
Query: 125 FYFTDRVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTII 184
FY TDRVMTVSFHK+G+ +FPGTGD+++IG +GK+YA+N P++DGIDD S+ ++FK II
Sbjct: 181 FYTTDRVMTVSFHKYGE-YFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPII 239
Query: 185 SKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTK 244
SKV+E Y P A+VLQCGADSL+GDRLGCFNL++ GHA+CV VK FNLPLL+ GGGGYT
Sbjct: 240 SKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFNLPLLMLGGGGYTI 299
Query: 245 ENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQ 304
NVARCWT ET + LD E+PNE+P N+Y +YF P+ L I ++ N N+ Y+ IK +
Sbjct: 300 RNVARCWTYETAVALDCEIPNELPYNDYFEYFGPDFKLHISPSNMTNQNTPEYMEKIKQR 359
Query: 305 VLENLRSI 312
+ ENLR +
Sbjct: 360 LFENLRML 367
>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 = 436 bits (1124), Expect = e-153
Identities = 97/298 (32%), Positives = 145/298 (48%), Gaps = 9/298 (3%)
Query: 25 PMKPHRLYNLG-EDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKC 83
P YN+G + PV +F + G T+ A ++A N AGG+HHA K
Sbjct: 79 PKGAREKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLK--GNVAFNPAGGMHHAFKS 136
Query: 84 EASGFCYINDLVLGILELLK-YHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDL 142
A+GFCYIN+ +GI L K R+LYID+D HH DGV+EAFY TD+V +S H+ +
Sbjct: 137 RANGFCYINNPAVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFVLSLHQSPEY 196
Query: 143 FFP-GTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCG 201
FP G ++EIGE +GK Y +N+PL G++D F + + V E + P +LQ G
Sbjct: 197 AFPFEKGFLEEIGEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLG 256
Query: 202 ADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDT 261
D L D L FNLS + V++ + GGGGY +AR WT+ L
Sbjct: 257 TDPLLEDYLSKFNLSNVAFLKAFNIVREVFGEGVYLGGGGYHPYALARAWTLIWCELSGR 316
Query: 262 ELPNEIPENEYIKYFAPECSLRI----PNGHIENLNSKSYLSTIKMQVLENLRSIQHA 315
E+P ++ + + + +E L ++ +V + L + +
Sbjct: 317 EVPEKLNNKAKELLKSIDFEEFDDEVDRSYMLETLKDPWRGGEVRKEVKDTLEKAKAS 374
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 151 bits (382), Expect = 1e-42
Identities = 63/225 (28%), Positives = 95/225 (42%), Gaps = 10/225 (4%)
Query: 31 LYNLGEDCPVFENLFEFCQIYAGGTIDAARRL----NNQLCDIAINWAGGLHHAKKCEAS 86
+ CPV E+ + A + AA + G HHA+ A
Sbjct: 130 RHLADGSCPVGEHTWRAAYWSAQSALAAAAAVRDGAPAAYA--LCRPPG--HHARVDAAG 185
Query: 87 GFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPG 146
GFCY+N+ + L HARV +D D+HHG G++E FY V+ VS H F+P
Sbjct: 186 GFCYLNNAAIAAQALRARHARVAVLDTDMHHGQGIQEIFYARRDVLYVSIHGDPTNFYPA 245
Query: 147 -TGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSL 205
G E G EG Y +N+P+ G + +F + + + +AP A+VL G D
Sbjct: 246 VAGFDDERGAGEGLGYNVNLPMPHGSSEAAFFERVDDAL-RELRRFAPDALVLSLGFDVY 304
Query: 206 AGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARC 250
D ++ DG + LP ++ GGY E++
Sbjct: 305 RDDPQSQVAVTTDGFGRLGHLIGALRLPTVIVQEGGYHIESLEAN 349
>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 = 144 bits (364), Expect = 3e-40
Identities = 54/235 (22%), Positives = 85/235 (36%), Gaps = 11/235 (4%)
Query: 22 PNHPMKPHRLYNLGEDCPVFENLFEFCQIYAGGTIDAARRL----NNQLCDIAINWAGGL 77
P Y + + +E ID A + G
Sbjct: 102 PTDIEGQIGYYCNAAETAISPGTWEAALSSMASAIDGADLIAAGHKAAFS--LCRPPG-- 157
Query: 78 HHAKKCEASGFCYINDLVLGILELLKYHA-RVLYIDIDVHHGDGVEEAFYFTDRVMTVSF 136
HHA G+C+IN+ + LL A ++ +D+D HHG+G ++ FY V S
Sbjct: 158 HHAGIDMFGGYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGTQDIFYERGDVFFASL 217
Query: 137 HKFGDLFFPG-TGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGA 195
H FP G +E G+ G N P+ G + + + K + + A
Sbjct: 218 HGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSL-KRIAAFGAEA 276
Query: 196 IVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARC 250
IV+ G D+ D + F L+ + R + +PLLV GGY +
Sbjct: 277 IVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASGVPLLVVMEGGYGVPEIGLN 331
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 141 bits (357), Expect = 7e-39
Identities = 62/263 (23%), Positives = 102/263 (38%), Gaps = 20/263 (7%)
Query: 52 AGGTIDAA-----RRLNNQLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYHA 106
AGG ++ L+ +N G HHA A GFC N+ +
Sbjct: 115 AGGAVELTRRVATGELSAGYA--LVNPPG--HHAPHNAAMGFCIFNNTSVAAGYARAVLG 170
Query: 107 --RVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAIN 164
RV +D DVHHG+G ++ ++ V+T+S H+ F P +G E G G Y IN
Sbjct: 171 MERVAILDWDVHHGNGTQDIWWNDPSVLTISLHQHL-CFPPDSGYSTERGAGNGHGYNIN 229
Query: 165 VPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECV 224
VPL G + ++ ++ + Y P I++ G D+ D L ++ DG +
Sbjct: 230 VPLPPGSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQMA 289
Query: 225 RFVKKF-----NLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPE 279
R + ++ GGY+ + C L + P +E++
Sbjct: 290 RRTIDCAADICDGRIVFVQEGGYSPHYLPFCGLAVIEELTGVRSLPD-PYHEFLAGMGGN 348
Query: 280 CSLRIPNGHIENLNSKSYLSTIK 302
L IE + L+ I+
Sbjct: 349 TLLDAERAAIEEI--VPLLADIR 369
>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 = 130 bits (329), Expect = 1e-34
Identities = 55/214 (25%), Positives = 97/214 (45%), Gaps = 19/214 (8%)
Query: 52 AGGTIDAA-----RRLNNQLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYHA 106
AG D A R L N + G HHA A GFC+ N + + +L +
Sbjct: 160 AGSVTDLAFKVASRELKNGFA--VVRPPG--HHADHSTAMGFCFFNSVAIACRQLQQQSK 215
Query: 107 --RVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGD-LFFPGTGDVKEIGEREGKFYAI 163
++L +D DVHHG+G ++ FY V+ +S H+ D FFPG+G V E+G G+ + +
Sbjct: 216 ASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGEGFNV 275
Query: 164 NVPLKDGID----DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDR--LGCFNLSI 217
NV G+D D + F+ ++ + ++P +++ G D+ G LG +++S
Sbjct: 276 NVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSA 335
Query: 218 DGHAECVRFVKKF-NLPLLVTGGGGYTKENVARC 250
+ + +++ GG+ +
Sbjct: 336 KCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDA 369
>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 = 32.9 bits (74), Expect = 0.19
Identities = 51/380 (13%), Positives = 102/380 (26%), Gaps = 124/380 (32%)
Query: 41 FENLFEFCQIY---AGGTIDAARRLNNQ--LC-DIAINWAGGLHHAKKCEASGFCYINDL 94
+ +F +I+ L L I NW H+ + I+ +
Sbjct: 176 VQCKMDF-KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR----IHSI 230
Query: 95 VLGILELLKY--HARVLYI-DIDVHHGDGVEEAFYFTDRV-MTVSFHKFGDLFFPGTGDV 150
+ LLK + L + +V + AF + ++ +T T
Sbjct: 231 QAELRRLLKSKPYENCLLVLL-NVQNAKAWN-AFNLSCKILLT-------------TRF- 274
Query: 151 KEIGEREGKFYAINVPLKDGIDDTSFT-RLFKTIISKVVETYAPGAIVLQCGADSLAGDR 209
K++ + ++ L + T K+++ K ++ C L
Sbjct: 275 KQVTDFLSAATTTHISLDHHSM--TLTPDEVKSLLLKYLD----------CRPQDLP--- 319
Query: 210 LGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVAR--------CWTVETGIL--L 259
R V N P ++ ++ +A C + T I L
Sbjct: 320 ---------------REVLTTN-PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSL 363
Query: 260 DTELPNE----------------IPE-------------------NEYIKYF-----APE 279
+ P E IP N+ KY E
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 280 CSLRIPNGHIENLNSKSYLSTIKMQVLENLRSIQHAPSVQMQEVPPDFYIPEFDEDEQNP 339
++ IP+ ++E + ++++ + S + D Y
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH------- 476
Query: 340 DERMDQH-TQDKQIQRDDEF 358
+ H + +R F
Sbjct: 477 ---IGHHLKNIEHPERMTLF 493
>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 = 32.3 bits (73), Expect = 0.27
Identities = 42/285 (14%), Positives = 79/285 (27%), Gaps = 104/285 (36%)
Query: 99 LELLKYHARVL-YIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGTGDV-----KE 152
EL+ + L Y+ V + D+V+ + +F + + G D+ K
Sbjct: 58 AELV---GKFLGYVSSLVEPSKVGQ-----FDQVLNLCLTEFENCYLEGN-DIHALAAKL 108
Query: 153 IGEREGK----------FYAINVPLKDGIDDTSFTRLFKTIISKVV-------------- 188
+ E + + + K D S + LF+ +
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD 168
Query: 189 ---------ETYAP--GAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVT 237
+TY G ++ + + L L F + N+
Sbjct: 169 YFEELRDLYQTYHVLVGDLI------KFSAETL--SELIRTTLDAEKVFTQGLNI----- 215
Query: 238 GGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIP-NGHIENLNSKS 296
W L+ P+ P+ +Y+ P S P G I+ +
Sbjct: 216 -----------LEW-------LEN--PSNTPDKDYLLS-IP-ISC--PLIGVIQLAH--- 248
Query: 297 YLSTIKMQVL--ENLRSIQHAPSVQMQEVP-----------PDFY 328
Y+ T K+ LRS + Q + F+
Sbjct: 249 YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF 293
Score = 29.6 bits (66), Expect = 2.3
Identities = 20/131 (15%), Positives = 40/131 (30%), Gaps = 51/131 (38%)
Query: 35 GED--CPVF-----ENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 87
+D PV+ +L ++ +G + R+ + + + + W + +A+
Sbjct: 452 AKDIQIPVYDTFDGSDL----RVLSG---SISERIVDCIIRLPVKWET----TTQFKAT- 499
Query: 88 FCYINDL----VLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLF 143
+I D G+ L + G GV RV+ G L
Sbjct: 500 --HILDFGPGGASGLGVLTHRNKD----------GTGV--------RVIVA-----GTL- 533
Query: 144 FPGTGDVKEIG 154
+ G
Sbjct: 534 --DINPDDDYG 542
>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 = 31.1 bits (69), Expect = 0.28
Identities = 7/41 (17%), Positives = 16/41 (39%), Gaps = 15/41 (36%)
Query: 181 KTIISKV---VETYAPGAIVLQCGADSLAGDRLGCFNLSID 218
K + K+ ++ YA + A +LA +++
Sbjct: 19 KQALKKLQASLKLYADDS------APALA------IKATME 47
Score = 29.5 bits (65), Expect = 1.1
Identities = 5/30 (16%), Positives = 12/30 (40%), Gaps = 6/30 (20%)
Query: 265 NEIP--ENEYIKYFAPEC--SLRIPNGHIE 290
+ + +K +A + +L I +E
Sbjct: 20 QALKKLQAS-LKLYADDSAPALAI-KATME 47
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 1.8
Identities = 6/41 (14%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 329 IPEFDEDEQNPDERMDQHTQDKQIQRDDEFYEGDNDNDHMD 369
+ E D + M+Q ++K + +E+ + ++ ++
Sbjct: 98 LQELDAAS----KVMEQEWREKAKKDLEEWNQ--RQSEQVE 132
>3h74_A Pyridoxal kinase; PSI-II, structural genomics, prote structure
initiative, NEW YORK SGX research center for STRU
genomics, nysgxrc; 1.30A {Lactobacillus plantarum} PDB:
3hyo_A* 3ibq_A*
Length = 282
Score = 29.1 bits (66), Expect = 2.3
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 2/53 (3%)
Query: 98 ILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGTGDV 150
+ LK A + I DV D + A+ + + + GTGD
Sbjct: 166 LQAQLKTGAHAV-I-TDVQRADQIGCAWLDEAGHVQYCGARRLPGHYNGTGDT 216
>2bvf_A 6-hydroxy-D-nicotine oxidase; autoflavinylation, enantiomeric
substrates, flavoenzymes, NI degradation; HET: FAD;
1.92A {Arthrobacter nicotinovorans} PDB: 2bvg_A* 2bvh_A*
Length = 459
Score = 28.9 bits (65), Expect = 3.3
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 12/51 (23%)
Query: 221 AECVRFVKKFNLPLLVTGGG----GYTKENVARCWTVETGILLDTELPNEI 267
A+ VR+ L + V GG GY T + GI+LD L N I
Sbjct: 52 AKSVRYACDNGLEISVRSGGHNPNGYA--------TNDGGIVLDLRLMNSI 94
>1nr0_A Actin interacting protein 1; beta propeller, WD40 repeat, ADF,
cofilin, structural genomics, PSI, protein structure
initiative; 1.70A {Caenorhabditis elegans} SCOP:
b.69.4.1 b.69.4.1 PDB: 1pev_A
Length = 611
Score = 28.3 bits (64), Expect = 4.1
Identities = 5/28 (17%), Positives = 9/28 (32%), Gaps = 2/28 (7%)
Query: 234 LLVTGGGGYTKENVARCWTVETGILLDT 261
+ G G +E + +TG
Sbjct: 117 RIAAVGEG--RERFGHVFLFDTGTSNGN 142
>2c5a_A GDP-mannose-3', 5'-epimerase; short chain dehydratase/reductase,
GDP-gulose, GDP-galactose, keto intermediate, vitamin C,
SDR; HET: GDC NAD BTB; 1.4A {Arabidopsis thaliana} SCOP:
c.2.1.2 PDB: 2c59_A* 2c54_A* 2c5e_A*
Length = 379
Score = 28.1 bits (63), Expect = 5.7
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 88 FCYINDLVLGILELLKY 104
F +I++ V G+L L K
Sbjct: 247 FTFIDECVEGVLRLTKS 263
>2b69_A UDP-glucuronate decarboxylase 1; UDP-glucoronic acid decarboxylase,
structural genomics, STRU genomics consortium, SGC,
lyase; HET: MSE NAD UDP; 1.21A {Homo sapiens} SCOP:
c.2.1.2 PDB: 4ef7_A*
Length = 343
Score = 27.4 bits (61), Expect = 7.8
Identities = 7/15 (46%), Positives = 12/15 (80%)
Query: 88 FCYINDLVLGILELL 102
F Y++DLV G++ L+
Sbjct: 238 FQYVSDLVNGLVALM 252
>2bll_A Protein YFBG; decarboxylase, short chain dehydrogenase, L-ARA4N
biosynthes methyltransferase, transferase; 2.3A
{Escherichia coli} SCOP: c.2.1.2 PDB: 1u9j_A 1z73_A
1z75_A 1z7b_A 1z74_A
Length = 345
Score = 27.4 bits (61), Expect = 8.4
Identities = 3/15 (20%), Positives = 7/15 (46%)
Query: 88 FCYINDLVLGILELL 102
F I D + + ++
Sbjct: 222 FTDIRDGIEALYRII 236
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 0.141 0.437
Gapped
Lambda K H
0.267 0.0848 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,105,419
Number of extensions: 384707
Number of successful extensions: 884
Number of sequences better than 10.0: 1
Number of HSP's gapped: 865
Number of HSP's successfully gapped: 33
Length of query: 371
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 276
Effective length of database: 4,049,298
Effective search space: 1117606248
Effective search space used: 1117606248
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: 58 (25.9 bits)