RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14684
(357 letters)
>1skn_P DNA-binding domain of SKN-1; complex (transcription factor/DNA),
transcription/DNA complex; HET: DNA LDA; 2.50A
{Caenorhabditis elegans} SCOP: a.37.1.1
Length = 92
Score = 118 bits (297), Expect = 2e-33
Identities = 29/84 (34%), Positives = 48/84 (57%)
Query: 164 ARKSEEEQMTRDEKKARALNIPIPVNDIINLPMDEFNERLSKYDLSETQLSLIRDIRRRG 223
+ + + + ++DE+ A +P+ I + + E + L LSE Q LIR IRRRG
Sbjct: 9 SGQRKRGRQSKDEQLASDNELPVSAFQISEMSLSELQQVLKNESLSEYQRQLIRKIRRRG 68
Query: 224 KNKVAAQNCRKRKLDQILSLADEV 247
KNKVAA+ CR+R+ D+ ++ +
Sbjct: 69 KNKVAARTCRQRRTDRHDKMSHYI 92
>2kz5_A Transcription factor NF-E2 45 kDa subunit; structural genomics,
northeast structural genomics consortiu PSI-2, protein
structure initiative; NMR {Homo sapiens}
Length = 91
Score = 115 bits (288), Expect = 4e-32
Identities = 45/78 (57%), Positives = 62/78 (79%)
Query: 164 ARKSEEEQMTRDEKKARALNIPIPVNDIINLPMDEFNERLSKYDLSETQLSLIRDIRRRG 223
+ E +RDE++A A+ IP P + I+NLP+D+FNE L++Y L+E+QL+L+RDIRRRG
Sbjct: 13 KPTARGEAGSRDERRALAMKIPFPTDKIVNLPVDDFNELLARYPLTESQLALVRDIRRRG 72
Query: 224 KNKVAAQNCRKRKLDQIL 241
KNKVAAQN RKRKL+ I+
Sbjct: 73 KNKVAAQNYRKRKLETIV 90
>3a5t_A Transcription factor MAFG; protein-DNA complex, BZIP factor,
acetylation, DNA-binding, isopeptide bond, nucleus;
2.80A {Mus musculus}
Length = 107
Score = 78.9 bits (194), Expect = 2e-18
Identities = 20/106 (18%), Positives = 49/106 (46%), Gaps = 2/106 (1%)
Query: 182 LNIPIPVNDIINLPMDEFNERLSKYDLSETQLSLIRDIRRRGKNKVAAQNCRKRKLDQIL 241
+ + +++ + + E N+ L LS+ ++ ++ RR KN+ A +CR +++ Q
Sbjct: 4 MGTSLTDEELVTMSVRELNQHLR--GLSKEEIIQLKQRRRTLKNRGYAASCRVKRVTQKE 61
Query: 242 SLADEVKQMKDKKRHLMQEHEYLSQECSRVKSQFSQLYKHVFNALR 287
L + +++ + L E+ + E ++S++ L R
Sbjct: 62 ELEKQKAELQQEVEKLASENASMKLELDALRSKYEALQNFARTVAR 107
>2wt7_B Transcription factor MAFB; transcription, transcription regulation,
nucleus, activator, repressor, DNA-binding,
phosphoprotein, differentiation; 2.30A {Mus musculus}
PDB: 2wty_A* 1k1v_A
Length = 90
Score = 76.9 bits (189), Expect = 7e-18
Identities = 22/90 (24%), Positives = 45/90 (50%), Gaps = 2/90 (2%)
Query: 190 DIINLPMDEFNERLSKYDLSETQLSLIRDIRRRGKNKVAAQNCRKRKLDQILSLADEVKQ 249
++++ + E N L ++ ++ ++ RR KN+ AQ+CR +++ Q L +E Q
Sbjct: 2 QLVSMSVRELNRHLRG--FTKDEVIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQ 59
Query: 250 MKDKKRHLMQEHEYLSQECSRVKSQFSQLY 279
+ + L QE L++E K + +L
Sbjct: 60 LIQQVEQLKQEVSRLARERDAYKVKSEKLA 89
>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA
complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F
2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A
Length = 62
Score = 57.8 bits (140), Expect = 2e-11
Identities = 18/55 (32%), Positives = 34/55 (61%)
Query: 220 RRRGKNKVAAQNCRKRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQECSRVKSQ 274
R+R +N++AA RKRKL++I L ++VK +K + L L ++ +++K +
Sbjct: 4 RKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLREQVAQLKQK 58
>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription
regulation, nucleus, activator, repressor, DNA-binding,
phosphoprotein, differentiation; 2.30A {Mus musculus}
PDB: 1fos_E* 1a02_F* 1s9k_D
Length = 63
Score = 49.8 bits (119), Expect = 2e-08
Identities = 18/55 (32%), Positives = 30/55 (54%)
Query: 220 RRRGKNKVAAQNCRKRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQECSRVKSQ 274
RR +NK+AA CR R+ + +L E Q++D+K L E L +E +++
Sbjct: 5 IRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLEFI 59
>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA
complex, transcription/DNA complex; 3.00A {Homo sapiens}
SCOP: h.1.3.1
Length = 61
Score = 48.9 bits (117), Expect = 3e-08
Identities = 11/55 (20%), Positives = 24/55 (43%)
Query: 220 RRRGKNKVAAQNCRKRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQECSRVKSQ 274
+ +N+ AA R+++ + SL + + + L E L E +++K
Sbjct: 4 KFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQL 58
>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP:
h.1.3.1
Length = 63
Score = 47.4 bits (113), Expect = 1e-07
Identities = 14/58 (24%), Positives = 32/58 (55%)
Query: 216 IRDIRRRGKNKVAAQNCRKRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQECSRVKS 273
++ +++ +NK AA R++K + +L E K+++ K L + + L++E +K
Sbjct: 1 MKKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADSLAKEIQYLKD 58
>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA
complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1
Length = 87
Score = 41.9 bits (98), Expect = 1e-05
Identities = 16/59 (27%), Positives = 31/59 (52%)
Query: 220 RRRGKNKVAAQNCRKRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQECSRVKSQFSQL 278
RR +N +A + R + + L +V ++ + L ++ E LS+E S +++ F QL
Sbjct: 18 IRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLFKQL 76
>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA
complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1
Length = 55
Score = 40.5 bits (95), Expect = 2e-05
Identities = 14/50 (28%), Positives = 29/50 (58%)
Query: 220 RRRGKNKVAAQNCRKRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQECS 269
R KN+ AA+ R++K + + SL + V ++++ + L++E + L S
Sbjct: 4 VRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKALKDLYS 53
>1gu4_A CAAT/enhancer binding protein beta; transcription/DNA, protein-DNA
complex, transcription factor, BZIP, C/EBP; 1.80A {Homo
sapiens} SCOP: h.1.3.1 PDB: 1gtw_A 1gu5_A 1h88_A 1h8a_A
1io4_A 2e43_A* 2e42_A* 1h89_A 1ci6_B 1nwq_A
Length = 78
Score = 40.6 bits (95), Expect = 3e-05
Identities = 16/59 (27%), Positives = 31/59 (52%)
Query: 220 RRRGKNKVAAQNCRKRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQECSRVKSQFSQL 278
RR +N +A + R + + L +V ++ + L ++ E LS+E S +++ F QL
Sbjct: 18 IRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLFKQL 76
>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 = 43.1 bits (101), Expect = 1e-04
Identities = 31/236 (13%), Positives = 63/236 (26%), Gaps = 66/236 (27%)
Query: 103 RSDFARTSHRPSLSELVSHNHTYSSSHSTSLAPETLGATSRNYSKDKTAKYIEKLKMV-- 160
+ F + P+ + + + + L + LG S K ++ + L +
Sbjct: 34 QEQFNKILPEPT-EGFAADDEPTTPAE---LVGKFLGYVSSLVEPSKVGQFDQVLNLCLT 89
Query: 161 ----------D---FAARKSEEEQMTRDEKK--------ARAL-NIPIPVNDIINLPMDE 198
D AA+ +E T + K AR + P
Sbjct: 90 EFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD----------- 138
Query: 199 FNERLSKYDLSETQLSLIRDIRRRGKNKVAA----QNCRKRKLDQILSLADEVKQMKDKK 254
++ +L R + G ++ A Q +++ L +
Sbjct: 139 ----------KKSNSALFRAVGE-GNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGD- 186
Query: 255 RHLMQEHEYLSQECSRVKSQFSQLYKHVFNA---LRDSDGNP------YSPFEFSL 301
L++ E R +++ N L + P P L
Sbjct: 187 --LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPL 240
Score = 40.8 bits (95), Expect = 7e-04
Identities = 48/305 (15%), Positives = 93/305 (30%), Gaps = 91/305 (29%)
Query: 6 YFEHQYFYS---MGSESPASSGSHRIPPPAVAQKKYHLYGRRLFHDHNSTAASTSSDISS 62
+F+ Y +S + +P + H ++ Y +F T
Sbjct: 1652 HFKDTYGFSILDIVINNPVNLTIH--FGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKE 1709
Query: 63 VD--SAAIKFE-----MNDTDSARLPMLDAASCS------SKYNSSDDVKYSCRSDFART 109
++ S + F ++ T + P L + SK D + FA
Sbjct: 1710 INEHSTSYTFRSEKGLLSATQFTQ-PALTLMEKAAFEDLKSKGLIPAD------ATFA-- 1760
Query: 110 SHRPSLSELVSHNHTYS--SSHSTSLAPETLGATSRNYSKDKTAKYIEKLKMVDFAAR-K 166
H SL E Y+ +S + ++ E+L +++V R
Sbjct: 1761 GH--SLGE-------YAALASLADVMSIESL------------------VEVV--FYRGM 1791
Query: 167 SEEEQMTRDEKKARALNIPIPVN-DIINLPMDEFNERLSKYDLSETQLSLIRDIRRRGKN 225
+ + + RDE + I +N + + E ++ + +R
Sbjct: 1792 TMQVAVPRDELGRSNYGM-IAINPGRVAASFSQ-----------EALQYVVERVGKRTGW 1839
Query: 226 KV--AAQNCR---------KRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQECSRVKSQ 274
V N R LD + ++ + +K K L + LS E V+
Sbjct: 1840 LVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKS---LSLE--EVE-- 1892
Query: 275 FSQLY 279
L+
Sbjct: 1893 -GHLF 1896
Score = 38.9 bits (90), Expect = 0.003
Identities = 81/479 (16%), Positives = 124/479 (25%), Gaps = 192/479 (40%)
Query: 4 RVYFEHQYF----YSMGSESP----ASSGSHRIPPPAVA---------------QKKYHL 40
+ Y + + S S G+ ++ VA + Y
Sbjct: 124 KNYITARIMAKRPFDKKSNSALFRAVGEGNAQL----VAIFGGQGNTDDYFEELRDLYQT 179
Query: 41 YG---RRLFHDHNST---AASTSSDISSVDSAAIKFE--MNDTDSARLPMLDAASCSSKY 92
Y L T T+ D V + + + + + P Y
Sbjct: 180 YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNT--P-------DKDY 230
Query: 93 NSSDDVKYSCRSDFARTSHRPSLSELVSHNHTYSSSHSTSLAPETL-----GATSRNYSK 147
S + SC P L ++ H ++ P L GAT S+
Sbjct: 231 LLS--IPISC----------P-LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGH--SQ 275
Query: 148 D-KTAKYIEKLKMVDFAARKSEEEQMTRDEKKARAL------------NIPIP---VNDI 191
TA I A S E K L N +P + D
Sbjct: 276 GLVTAVAI--------AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDS 327
Query: 192 INL------PMDEFNERLSKYDLSETQL-SLIRDIRRRG--------------KNKVAA- 229
+ PM LS +L++ Q+ + KN V +
Sbjct: 328 LENNEGVPSPM------LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG 381
Query: 230 ---------QNCRKRK----LDQILSLADEVKQMKDKKRHLMQEHEYLSQECSRVKSQF- 275
RK K LDQ ++ +R L + +L V S F
Sbjct: 382 PPQSLYGLNLTLRKAKAPSGLDQ--------SRIPFSERKLKFSNRFL-----PVASPFH 428
Query: 276 SQLYKHVFNALRDSDGNPYSPFEFSLEQ-------TNDGN-------------VELVRRQ 315
S L + L + D + F+ + T DG+ V+ + R
Sbjct: 429 SHLLVPA-SDLINKDLVKNN-VSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL 486
Query: 316 PPH--LASQG---H-----PSTSS------KDN-----------STLDNNHSHQYRSKH 347
P +Q H P +S N TLD N Y K
Sbjct: 487 PVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGFKQ 545
>2dgc_A Protein (GCN4); basic domain, leucine zipper, DNA binding,
eukaryotic regulatory protein, transcription/DNA
complex; HET: DNA; 2.20A {Saccharomyces cerevisiae}
SCOP: h.1.3.1 PDB: 1dgc_A* 1ld4_E 1ysa_C* 3p8m_D
Length = 63
Score = 37.9 bits (88), Expect = 3e-04
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 220 RRRGKNKVAAQNCRKRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQ 266
+R +N AA+ R RKL ++ L D+V+++ K HL E L +
Sbjct: 12 LKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKK 58
>1gd2_E Transcription factor PAP1; basic leucine zipper, protein-DNA
complex, transcription/DNA complex; HET: DNA; 2.00A
{Schizosaccharomyces pombe} SCOP: h.1.3.1
Length = 70
Score = 37.3 bits (86), Expect = 5e-04
Identities = 15/62 (24%), Positives = 32/62 (51%)
Query: 217 RDIRRRGKNKVAAQNCRKRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQECSRVKSQFS 276
+R+ +N+ A + RKRK D + +L +V +K+ E++ L Q+ +++ +
Sbjct: 8 PSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELR 67
Query: 277 QL 278
L
Sbjct: 68 IL 69
>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 = 39.8 bits (92), Expect = 0.001
Identities = 52/377 (13%), Positives = 97/377 (25%), Gaps = 120/377 (31%)
Query: 47 HDHNSTAAS----TSSDISSVDSAAIK--FEMNDTDSARLPMLDAASCSSKYNSSDDVKY 100
H H DI SV A F+ D +L S D V
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 101 SCR-------------SDFARTSHRPSLSELVSHNHTYSSSHSTSLAPETLGATSRNYSK 147
+ R F R + L S + P + +
Sbjct: 64 TLRLFWTLLSKQEEMVQKFVEEVLRINYKFL------MSPIKTEQRQPS-MMTRMYIEQR 116
Query: 148 DKT-------AKY----IEKLKMVDFAARKSEEEQ------MT------------RDEKK 178
D+ AKY ++ + A + + + K
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176
Query: 179 ARALNIPIPVNDI--INLPMDEFNERLSKYDLSETQLSLIRDIRRRGKNKVAAQNCRKRK 236
++ I +N S + E L+ I N R
Sbjct: 177 QCKMD-----FKIFWLN-----LKNCNSPETVLEMLQKLLYQID---------PNWTSR- 216
Query: 237 LDQILSLADEVKQMKDKKRHLMQEHEYLSQEC---------SRVKSQF---SQL-----Y 279
D ++ + ++ + R L++ Y + C ++ + F ++ +
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPY--ENCLLVLLNVQNAKAWNAFNLSCKILLTTRF 274
Query: 280 KHVFNALRDSDGNPYSPFEFSLEQTNDG-----NVELVRR-------QPPHLASQGHP-- 325
K V + L + + SL+ + L+ + P +P
Sbjct: 275 KQVTDFL-----SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 326 ----STSSKDN-STLDN 337
+ S +D +T DN
Sbjct: 330 LSIIAESIRDGLATWDN 346
Score = 34.4 bits (78), Expect = 0.056
Identities = 38/212 (17%), Positives = 57/212 (26%), Gaps = 60/212 (28%)
Query: 96 DDVKYSCRSDFARTSHRPSLSELVSHNHTYSSSHSTSLA----PETLGA----------T 141
DV S H+ SL E T S S L E A
Sbjct: 397 FDVIKSDVMVVVNKLHKYSLVEKQPKESTI-SIPSIYLELKVKLENEYALHRSIVDHYNI 455
Query: 142 SRNYSKDKTAK-----YIEK-----LKMVDFAARKSEEEQMTRD----EKKAR----ALN 183
+ + D Y LK ++ R + + D E+K R A N
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWN 515
Query: 184 IPIPVNDIINLPMDEFNERLSKY-----DLSETQLSLIRDIRRRGKNKVAAQNCRKRKLD 238
+ + + +L Y D L+ I +N K
Sbjct: 516 ASGSILNTLQ--------QLKFYKPYICDNDPKYERLVNAILDFLPK--IEENLICSKYT 565
Query: 239 QILSLADEVKQMKDKKRHLMQEHEYLSQECSR 270
+L +A LM E E + +E +
Sbjct: 566 DLLRIA------------LMAEDEAIFEEAHK 585
Score = 34.4 bits (78), Expect = 0.064
Identities = 45/289 (15%), Positives = 90/289 (31%), Gaps = 54/289 (18%)
Query: 101 SCRSDFARTSHRPSLSELVSHNHTYSSSHSTS--LAPETLGATSRNYSKDKTAKYIEKL- 157
+C S L + N T S HS++ L ++ A R K K Y L
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK--PYENCLL 248
Query: 158 -----------KMVDFAARKSEEEQM---TRDEKKARALNIPIPVNDIINLPMDEFNERL 203
+ + + + TR ++ L+ ++ +D + L
Sbjct: 249 VLLNVQNAKAWNAFNLSCK------ILLTTRFKQVTDFLS----AATTTHISLDHHSMTL 298
Query: 204 SKYDLSETQLSLIRDIRRRGKNKVAAQNCRKRKLDQILSL-ADEVKQMKDK-KRHLMQEH 261
+ D ++ L D R + + LS+ A+ ++
Sbjct: 299 TP-DEVKSLLLKYLDCR---PQDLPREVLTTNPR--RLSIIAESIRDGLATWDNWKHVNC 352
Query: 262 EYLSQ--ECSRVKSQFSQLYKHVFNAL---RDSDGNPYSPFE---FSLEQTNDGNV--EL 311
+ L+ E S + Y+ +F+ L S P F + +++ V +L
Sbjct: 353 DKLTTIIESS-LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL 411
Query: 312 VRRQPPHLASQGHPSTSSKDNSTLDNNHSHQYRSKHHK----DYHDHRK 356
+ + Q ST S + L+ + H+ Y+ +
Sbjct: 412 HKYS--LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458
>3fk9_A Mutator MUTT protein; structural genomics, hydrolase, PSI-2,
protein structure initiative; 2.50A {Bacillus
halodurans}
Length = 188
Score = 29.3 bits (66), Expect = 1.3
Identities = 13/68 (19%), Positives = 29/68 (42%), Gaps = 5/68 (7%)
Query: 280 KHVFNALRDSDGNPYSPFEFS-----LEQTNDGNVELVRRQPPHLASQGHPSTSSKDNST 334
K +F + SD Y F ++ L D ++ ++ + + + S+ K +
Sbjct: 121 KWIFKHVLHSDRLLYGTFHYTPDFELLSYRLDPEPQMKKKGIITITTDPNSSSVDKLAAA 180
Query: 335 LDNNHSHQ 342
L+++H H
Sbjct: 181 LEHHHHHH 188
>3bbn_M Ribosomal protein S13; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 145
Score = 27.3 bits (61), Expect = 4.2
Identities = 6/15 (40%), Positives = 11/15 (73%)
Query: 207 DLSETQLSLIRDIRR 221
DLSE ++ ++R +R
Sbjct: 91 DLSEEEVIILRKEKR 105
>3u2r_A Regulatory protein MARR; structural genomics, PSI-biology, midwest
center for structu genomics, MCSG, helix-turn-helix;
2.20A {Planctomyces limnophilus}
Length = 168
Score = 27.4 bits (61), Expect = 5.5
Identities = 8/57 (14%), Positives = 20/57 (35%)
Query: 167 SEEEQMTRDEKKARALNIPIPVNDIINLPMDEFNERLSKYDLSETQLSLIRDIRRRG 223
+ E+ + + + + E S+++LS Q + +R +R
Sbjct: 3 AMNERSRPLRFDSLTQEAYLQLWRTYDRMKAIEEEIFSQFELSAQQYNTLRLLRSVH 59
>1odz_A Mannanase A; hydrolase, family 26, glycoside-hydrolase,
glycosynthase, manno-oligosaccharide; HET: MAN BMA; 1.4A
{Cellvibrio japonicus} SCOP: c.1.8.3 PDB: 1r7o_A*
2whm_A* 1j9y_A 1gvy_A* 1gw1_A*
Length = 386
Score = 28.0 bits (61), Expect = 5.9
Identities = 15/82 (18%), Positives = 28/82 (34%), Gaps = 7/82 (8%)
Query: 234 KRKLDQILSLADEVKQMKDKKR-------HLMQEHEYLSQECSRVKSQFSQLYKHVFNAL 286
LDQ+ A+ +K + + H + + Q+ QL+++ L
Sbjct: 145 NGYLDQVAEWANNLKDEQGRLIPVIFRLYHENTGSWFWWGDKQSTPEQYKQLFRYSVEYL 204
Query: 287 RDSDGNPYSPFEFSLEQTNDGN 308
RD G + +S D
Sbjct: 205 RDVKGVRNFLYAYSPNNFWDVT 226
>1w2q_A Conglutin, ARA H 6; allergen, allergene; NMR {Arachis hypogaea}
Length = 127
Score = 26.4 bits (57), Expect = 8.0
Identities = 10/39 (25%), Positives = 16/39 (41%)
Query: 230 QNCRKRKLDQILSLADEVKQMKDKKRHLMQEHEYLSQEC 268
Q C L QI+ + Q + + +E L Q+C
Sbjct: 71 QGCMCEALQQIMENQCDRLQDRQMVQQFKRELMSLPQQC 109
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 27.4 bits (61), Expect = 8.0
Identities = 22/110 (20%), Positives = 45/110 (40%), Gaps = 13/110 (11%)
Query: 162 FAARKSEEEQMTRDEKKARALNIPIPVNDIINLPMDEFNERLSKYDLSETQLSLIRDIRR 221
++ + EE++ +K L II+L + + N+ K + + +LS I +
Sbjct: 680 LVSKDTVEEEVLERARKKMILE-----YAIISLGVTDGNKYTKKNEPNAGELS---AILK 731
Query: 222 RGKNKVAAQNCRKRK-----LDQILSLADEVKQMKDKKRHLMQEHEYLSQ 266
G + ++K LD +L+ A++ D + E+L Q
Sbjct: 732 FGAGNMFTATDNQKKLEDLNLDDVLNHAEDHVTTPDLGESHLGGEEFLKQ 781
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
0.312 0.125 0.352
Gapped
Lambda K H
0.267 0.0668 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,223,147
Number of extensions: 293810
Number of successful extensions: 828
Number of sequences better than 10.0: 1
Number of HSP's gapped: 816
Number of HSP's successfully gapped: 40
Length of query: 357
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 262
Effective length of database: 4,049,298
Effective search space: 1060916076
Effective search space used: 1060916076
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.2 bits)