RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1987
(226 letters)
>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 = 80.5 bits (199), Expect = 1e-20
Identities = 41/55 (74%), Positives = 50/55 (90%)
Query: 169 KREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKALIDELKSLKELYCQQ 223
KRE+RL+KNREAA+E RRKKKEY+K LENRVA+LENQNK LI+ELK+LK+LY +
Sbjct: 1 KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKALKDLYSHK 55
>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 = 64.7 bits (158), Expect = 2e-14
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 169 KREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKALIDELKSLKE 218
KR L +NR AA R+K+K +++ LE + L + N L E+ L+
Sbjct: 1 KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRN 50
>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 = 64.7 bits (158), Expect = 2e-14
Identities = 20/54 (37%), Positives = 29/54 (53%)
Query: 169 KREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKALIDELKSLKELYCQ 222
K E + ++NR AA + R++K E I LE +V L+ QN L L+E Q
Sbjct: 1 KAERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLREQVAQ 54
>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 = 57.9 bits (140), Expect = 8e-12
Identities = 16/54 (29%), Positives = 30/54 (55%)
Query: 169 KREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKALIDELKSLKELYCQ 222
KR +R +N+ AA +CR +++E L+ LE++ AL E+ +L + +
Sbjct: 2 KRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLKEKEK 55
>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 = 51.1 bits (122), Expect = 5e-09
Identities = 19/55 (34%), Positives = 26/55 (47%)
Query: 164 EDQSRKREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKALIDELKSLKE 218
E K++ R LKNR A+ CR K+ + LEN L Q + L E+ L
Sbjct: 22 EVIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQLKQEVSRLAR 76
>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP:
h.1.3.1
Length = 63
Score = 48.5 bits (116), Expect = 2e-08
Identities = 15/50 (30%), Positives = 27/50 (54%)
Query: 169 KREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKALIDELKSLKE 218
K+ ++ +N+ AA R+KK+ + L LE +N+AL + SL +
Sbjct: 2 KKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADSLAK 51
>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 = 48.3 bits (115), Expect = 3e-08
Identities = 18/60 (30%), Positives = 35/60 (58%)
Query: 164 EDQSRKREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKALIDELKSLKELYCQQ 223
+ S ++ +N EAA+ R +K + +K LE++V L ++N L +E+ LK+L ++
Sbjct: 4 PESSDPAALKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKKLVGER 63
>3a5t_A Transcription factor MAFG; protein-DNA complex, BZIP factor,
acetylation, DNA-binding, isopeptide bond, nucleus;
2.80A {Mus musculus}
Length = 107
Score = 49.3 bits (117), Expect = 4e-08
Identities = 19/55 (34%), Positives = 27/55 (49%)
Query: 164 EDQSRKREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKALIDELKSLKE 218
E K+ R LKNR A CR K+ + LE + A L+ + + L E S+K
Sbjct: 32 EIIQLKQRRRTLKNRGYAASCRVKRVTQKEELEKQKAELQQEVEKLASENASMKL 86
>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 = 41.2 bits (96), Expect = 1e-05
Identities = 16/62 (25%), Positives = 30/62 (48%)
Query: 165 DQSRKREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKALIDELKSLKELYCQQE 224
R +NR A + R++K++++K LE +V L+ + + E L++ Q E
Sbjct: 4 SDQEPSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLE 63
Query: 225 ME 226
E
Sbjct: 64 EE 65
>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 = 40.7 bits (95), Expect = 3e-05
Identities = 12/55 (21%), Positives = 27/55 (49%)
Query: 164 EDQSRKREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKALIDELKSLKE 218
+ S + ++R +N A ++ R K K +++V L +N+ L +++ L
Sbjct: 10 DKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSR 64
>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 = 39.1 bits (91), Expect = 8e-05
Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 7/66 (10%)
Query: 164 EDQSRKREMRLLKNREAAKECRRKKKEYIKCLENRVAILENQNKAL-------IDELKSL 216
+ S + ++R +N A ++ R K K +++V L +N+ L EL +L
Sbjct: 10 DKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTL 69
Query: 217 KELYCQ 222
+ L+ Q
Sbjct: 70 RNLFKQ 75
>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 = 39.1 bits (90), Expect = 8e-04
Identities = 37/264 (14%), Positives = 81/264 (30%), Gaps = 66/264 (25%)
Query: 6 PLLVYPFDATLYCSQPELDQSYTYLSSRQVVDGASDDSLSAEDNDVKRSKRRDITLTRRP 65
+ F C + D + LS ++ D + + V + R TL +
Sbjct: 23 SVFEDAFVDNFDCKDVQ-DMPKSILSKEEI------DHIIMSKDAVSGTLRLFWTLLSKQ 75
Query: 66 S--------------YRKILNDLRGAEIATGKVESSGSDCDDS--NLDSELSSHSLP--- 106
Y+ +++ ++ + + + D N + + +++
Sbjct: 76 EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 107 ------THYQTVIPAGHIHLSSQGG------------DHQTLPT-------ITMTNASSA 141
+ PA ++ + G ++ + + N +S
Sbjct: 136 PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP 195
Query: 142 GGTIVQYSQDGQFFVPSEIGTGEDQSRKREMRLLKNREAAKECRR--KKKEYIKCLENRV 199
T+++ Q + + + D S ++R+ E RR K K Y CL
Sbjct: 196 -ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI---HSIQAELRRLLKSKPYENCL---- 247
Query: 200 AILEN-QNKALIDELKSLKELYCQ 222
+L N QN + L C+
Sbjct: 248 LVLLNVQNAKAWNAF----NLSCK 267
>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 = 34.6 bits (79), Expect = 0.028
Identities = 29/185 (15%), Positives = 57/185 (30%), Gaps = 69/185 (37%)
Query: 100 LSSHSL-P---TH----YQTVIPAG-HIHLSSQGGD--HQTLPTITMTNA-----SSAGG 143
+ ++S P +H + ++P S Q + ++ LP T A ++
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTASFFIAS-QLQEQFNKILPEPTEGFAADDEPTTPAE 59
Query: 144 TIVQYSQDGQFFVPSEIGTGEDQSRKR---------EMRLLKNRE----AAK------EC 184
+ ++ +V S + + + E L+ + AAK
Sbjct: 60 LVGKFLG----YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 185 RRKKKEYIKC------LENRV-------AILE--NQNKALI--------------DELKS 215
K KE IK + R A+ + A + +EL+
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
Query: 216 LKELY 220
L + Y
Sbjct: 176 LYQTY 180
Score = 30.4 bits (68), Expect = 0.63
Identities = 34/181 (18%), Positives = 54/181 (29%), Gaps = 46/181 (25%)
Query: 6 PLLVYPFDATL--YCSQPELDQSYTYLSSRQVVDGASDDSLSAEDNDVKRSKRRDITLTR 63
P +Y + TL + LDQS S R++ +++
Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS----------------- 425
Query: 64 RP---SY-----RKILNDLRGAEIA-TGK-----VESS--GSD-CD-DSNLDSELSSH-- 103
P I DL ++ K V + GSD ++ +
Sbjct: 426 -PFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCII 484
Query: 104 SLPTHYQTVIPAGHIHLSSQG-GDHQTLPTITMTNASSAG-GTIVQYSQDGQFFVP-SEI 160
LP ++T H+ G G L +T N G IV + D P +
Sbjct: 485 RLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDIN---PDDDY 541
Query: 161 G 161
G
Sbjct: 542 G 542
>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 = 31.5 bits (71), Expect = 0.050
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 173 RLLKNREAAKECRRKKKEYIKCLENRV 199
R KN+ AA+ CR+++ + + + +
Sbjct: 66 RRGKNKVAARTCRQRRTDRHDKMSHYI 92
>1kdx_B CREB; complex (transcription activator/CO-activator), protein-
protein interaction, phosphoserine recognition; HET:
SEP; NMR {Rattus norvegicus}
Length = 28
Score = 28.7 bits (63), Expect = 0.12
Identities = 17/22 (77%), Positives = 19/22 (86%), Gaps = 1/22 (4%)
Query: 53 RSKRRDITLTRRPSYRKILNDL 74
KRR+I L+RRPSYRKILNDL
Sbjct: 3 SQKRREI-LSRRPSYRKILNDL 23
>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A);
basic-helix-loop- helix-leucine zipper, transcription
factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1
PDB: 1ukl_C
Length = 82
Score = 29.7 bits (67), Expect = 0.21
Identities = 11/33 (33%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 190 EYIKCLENRVAILENQNKAL---IDELKSLKEL 219
+YI+ L++ L+ +N +L + + KSLK+L
Sbjct: 50 DYIRFLQHSNQKLKQENLSLRTAVHKSKSLKDL 82
>1gk7_A Vimentin; intermediate filament, heptad repeat; 1.4A {Homo sapiens}
SCOP: h.1.20.1 PDB: 3g1e_A
Length = 39
Score = 26.6 bits (59), Expect = 0.79
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 7/35 (20%)
Query: 189 KEYIKCLENRVA-------ILENQNKALIDELKSL 216
K ++ L +R A LE QNK L+ EL+ L
Sbjct: 5 KVELQELNDRFANYIDKVRFLEQQNKILLAELEQL 39
>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament,
structural; 2.45A {Homo sapiens} PDB: 3ssu_A
Length = 93
Score = 27.9 bits (63), Expect = 0.92
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 7/41 (17%)
Query: 185 RRKKKEYIKCLENRVA-------ILENQNKALIDELKSLKE 218
R +K ++ L +R A LE QNK L+ EL+ LK
Sbjct: 4 RTNEKVELQELNDRFANLIDKVRFLEQQNKILLAELEQLKG 44
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 88
Score = 27.3 bits (61), Expect = 1.4
Identities = 7/33 (21%), Positives = 13/33 (39%)
Query: 186 RKKKEYIKCLENRVAILENQNKALIDELKSLKE 218
+K YI ++ L ++ L + LK
Sbjct: 48 KKATAYILSVQAEEQKLISEEDLLRKRREQLKH 80
>1zme_C Proline utilization transcription activator; complex (transcription
regulation/DNA), PUT3, Zn2Cys6, binuclear cluster; HET:
DNA 5IU; 2.50A {Saccharomyces cerevisiae} SCOP: g.38.1.1
h.1.3.1 PDB: 1ajy_A
Length = 70
Score = 26.6 bits (59), Expect = 1.6
Identities = 5/30 (16%), Positives = 11/30 (36%)
Query: 185 RRKKKEYIKCLENRVAILENQNKALIDELK 214
+Y++ L+ + +N L L
Sbjct: 39 IVVSTKYLQQLQKDLNDKTEENNRLKALLL 68
>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 = 26.9 bits (59), Expect = 1.9
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 173 RLLKNREAAKECRRKKKEYIK 193
R KN+ AA+ R++K E I
Sbjct: 70 RRGKNKVAAQNYRKRKLETIV 90
>1pyi_A Protein (pyrimidine pathway regulator 1); protein-DNA complex,
transcription/DNA complex, GAL4, zinc finger, Zn2Cys6,
binuclear cluster; HET: DNA; 3.20A {Saccharomyces
cerevisiae} SCOP: g.38.1.1 h.1.3.1
Length = 96
Score = 26.9 bits (59), Expect = 2.6
Identities = 6/23 (26%), Positives = 13/23 (56%)
Query: 185 RRKKKEYIKCLENRVAILENQNK 207
+ + Y+ LE+R+A++ K
Sbjct: 43 KDVPRSYVFFLEDRLAVMMRVLK 65
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.7 bits (58), Expect = 5.0
Identities = 11/61 (18%), Positives = 24/61 (39%), Gaps = 2/61 (3%)
Query: 168 RKREMRLLKNREAAKECRRK-KKEYIKCLENRVAILENQNKALIDELKSL-KELYCQQEM 225
++ RL + A+K ++ +++ K LE Q + + K Y Q +
Sbjct: 92 EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDA 151
Query: 226 E 226
+
Sbjct: 152 D 152
Score = 26.7 bits (58), Expect = 5.5
Identities = 6/31 (19%), Positives = 15/31 (48%), Gaps = 4/31 (12%)
Query: 164 EDQSRKREMRLLK----NREAAKECRRKKKE 190
E+ ++++ ++ K NR A K ++
Sbjct: 121 EEWNQRQSEQVEKNKINNRIADKAFYQQPDA 151
>2er8_A Regulatory protein Leu3; Zn(2)Cys(6) binuclear cluster motif,
transcription activator/DNA complex; 2.85A
{Saccharomyces cerevisiae} PDB: 2ere_A 2erg_A
Length = 72
Score = 25.2 bits (55), Expect = 5.9
Identities = 6/25 (24%), Positives = 9/25 (36%)
Query: 185 RRKKKEYIKCLENRVAILENQNKAL 209
R K+ + +E R L L
Sbjct: 44 RTYKRARNEAIEKRFKELTRTLTNL 68
>3coq_A Regulatory protein GAL4; helix bundle, protein-DNA complex; HET:
DNA; 2.40A {Saccharomyces cerevisiae} SCOP: g.38.1.1
h.1.3.1
Length = 89
Score = 25.6 bits (56), Expect = 5.9
Identities = 4/26 (15%), Positives = 11/26 (42%)
Query: 185 RRKKKEYIKCLENRVAILENQNKALI 210
+ ++ +E+R+ LE +
Sbjct: 40 SPLTRAHLTEVESRLERLEQLFLLIF 65
>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 = 26.5 bits (57), Expect = 6.0
Identities = 8/33 (24%), Positives = 12/33 (36%), Gaps = 18/33 (54%)
Query: 188 KKEYIKCLENRVAILENQNKALIDELKSLKELY 220
+K+ +K L+ SLK LY
Sbjct: 18 EKQALKKLQA-----------------SLK-LY 32
>1d66_A Protein (GAL4); protein-DNA complex, double helix,
transcription/DNA complex; HET: DNA; 2.70A
{Saccharomyces cerevisiae} SCOP: g.38.1.1 h.1.3.1 PDB:
1aw6_A
Length = 66
Score = 25.0 bits (55), Expect = 6.2
Identities = 4/19 (21%), Positives = 10/19 (52%)
Query: 185 RRKKKEYIKCLENRVAILE 203
+ ++ +E+R+ LE
Sbjct: 47 SPLTRAHLTEVESRLERLE 65
>2qyt_A 2-dehydropantoate 2-reductase; APC81190, porphyromonas gingi W83,
structural genomics, PSI-2; HET: MSE; 2.15A
{Porphyromonas gingivalis}
Length = 317
Score = 26.5 bits (59), Expect = 7.5
Identities = 8/35 (22%), Positives = 14/35 (40%)
Query: 108 HYQTVIPAGHIHLSSQGGDHQTLPTITMTNASSAG 142
H + + AG + + + D PT N + G
Sbjct: 48 HLEAIRAAGGLRVVTPSRDFLARPTCVTDNPAEVG 82
>4abm_A Charged multivesicular BODY protein 4B; cell cycle, protein
transport, HIV-1; 1.80A {Homo sapiens}
Length = 79
Score = 24.9 bits (54), Expect = 7.8
Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 164 EDQSRKREMRLLKNREAAKECRRKKKEY---IKCLENRVAILENQNKAL 209
E + + KN+ AA + ++KK Y + ++ ++ +E Q +AL
Sbjct: 30 EQELTAAKKHGTKNKRAALQALKRKKRYEKQLAQIDGTLSTIEFQREAL 78
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 0.129 0.358
Gapped
Lambda K H
0.267 0.0579 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,229,639
Number of extensions: 178633
Number of successful extensions: 389
Number of sequences better than 10.0: 1
Number of HSP's gapped: 378
Number of HSP's successfully gapped: 43
Length of query: 226
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 136
Effective length of database: 4,188,903
Effective search space: 569690808
Effective search space used: 569690808
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: 55 (25.3 bits)