RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3460
(153 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 = 52.8 bits (127), Expect = 1e-10
Identities = 21/50 (42%), Positives = 36/50 (72%)
Query: 41 KKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLED 90
K+ R +KN+ +A+ESRRKKKEY+ +LE +V +L+++N + + L+D
Sbjct: 1 KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKALKD 50
>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 = 50.4 bits (121), Expect = 1e-09
Identities = 17/59 (28%), Positives = 32/59 (54%)
Query: 41 KKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLEDTNYSLVSQL 99
K+ + +N+ +A SR+K+K ++ +LE+K E L S N + ++ L + L L
Sbjct: 1 KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQLL 59
>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 = 48.1 bits (115), Expect = 9e-09
Identities = 18/59 (30%), Positives = 36/59 (61%)
Query: 41 KKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLEDTNYSLVSQL 99
K R++++N+I+A +SR++K E + LE KV+ LK++N + + L + L ++
Sbjct: 1 KAERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLREQVAQLKQKV 59
>3a5t_A Transcription factor MAFG; protein-DNA complex, BZIP factor,
acetylation, DNA-binding, isopeptide bond, nucleus;
2.80A {Mus musculus}
Length = 107
Score = 46.2 bits (109), Expect = 1e-07
Identities = 28/100 (28%), Positives = 45/100 (45%), Gaps = 1/100 (1%)
Query: 4 GSTGVLHLTEEEKRTLQAEGYPIPTRLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEY 63
GS LT+EE T+ R L+K E LK+ RR +KN+ A R K+
Sbjct: 1 GSHMGTSLTDEELVTMSVRELNQHLR-GLSKEEIIQLKQRRRTLKNRGYAASCRVKRVTQ 59
Query: 64 MDALERKVEILKSENCDYKKRISNLEDTNYSLVSQLNKLQ 103
+ LE++ L+ E ++++ +L S+ LQ
Sbjct: 60 KEELEKQKAELQQEVEKLASENASMKLELDALRSKYEALQ 99
>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 = 43.2 bits (102), Expect = 8e-07
Identities = 16/60 (26%), Positives = 31/60 (51%)
Query: 41 KKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLEDTNYSLVSQLN 100
K+ R+ +NK++A + R +++E D L+ + + L+ E + I+NL L L
Sbjct: 2 KRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLEFILA 61
>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP:
h.1.3.1
Length = 63
Score = 42.0 bits (99), Expect = 2e-06
Identities = 15/50 (30%), Positives = 30/50 (60%)
Query: 40 LKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLE 89
+KK+++ +NK +A R+KK+ +AL + + L+ +N K+R +L
Sbjct: 1 MKKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADSLA 50
>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 = 41.9 bits (98), Expect = 4e-06
Identities = 21/72 (29%), Positives = 32/72 (44%)
Query: 32 LTKTEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLEDT 91
TK E LK+ RR +KN+ AQ R K+ + LE + L + K+ +S L
Sbjct: 18 FTKDEVIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQLKQEVSRLARE 77
Query: 92 NYSLVSQLNKLQ 103
+ + KL
Sbjct: 78 RDAYKVKSEKLA 89
>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 = 39.2 bits (91), Expect = 5e-05
Identities = 17/78 (21%), Positives = 35/78 (44%)
Query: 35 TEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLEDTNYS 94
++ S + R+ +N I+ ++SR K K + KV L +EN +K++ L +
Sbjct: 9 VDKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELST 68
Query: 95 LVSQLNKLQAIIARHTAQ 112
L + +L + +
Sbjct: 69 LRNLFKQLPEPLLASSGH 86
>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 = 36.7 bits (85), Expect = 2e-04
Identities = 17/55 (30%), Positives = 29/55 (52%)
Query: 35 TEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLE 89
E S ++ +N +A+ SR +K + M LE KVE L S+N + ++ L+
Sbjct: 3 VPESSDPAALKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLK 57
>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 = 39.3 bits (91), Expect = 3e-04
Identities = 37/187 (19%), Positives = 61/187 (32%), Gaps = 63/187 (33%)
Query: 1 MFKGSTGVLHLTE--------EEK---RTLQAEGYPIPTR-------------------- 29
F+ G+L T+ EK L+++G IP
Sbjct: 1718 TFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGL-IPADATFAGHSLGEYAALASLADV 1776
Query: 30 LPLTKTEEKSLK--KIR-RKIKNKISAQESRRKKKEY-MDAL--ERKVEILKSENCDY-K 82
+ + E ++ R ++ + E R Y M A+ R E Y
Sbjct: 1777 MSI----ESLVEVVFYRGMTMQVAVPRDELGRSN--YGMIAINPGRVAASFSQEALQYVV 1830
Query: 83 KRISN-----LEDTNYSLVSQLNKLQAIIARHTAQLSNVSIVYSLVSQLN--KLQAI-IA 134
+R+ +E NY++ +Q Q + A L ++ + LN KLQ I I
Sbjct: 1831 ERVGKRTGWLVEIVNYNVENQ----QYVAAGDLRALD------TVTNVLNFIKLQKIDII 1880
Query: 135 RHTAQLS 141
LS
Sbjct: 1881 ELQKSLS 1887
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 37.9 bits (88), Expect = 7e-04
Identities = 21/137 (15%), Positives = 57/137 (41%), Gaps = 7/137 (5%)
Query: 13 EEEKRTLQAEGYPIPTRLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVE 72
+K+ L+ + + R+ + + L+ ++K++ ++ E + ++ E +
Sbjct: 919 AAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQ------LEEEEAARQ 972
Query: 73 ILKSENCDYKKRISNLEDTNYSLVSQLNKLQAIIARHTAQLSNVSIVYSLV-SQLNKLQA 131
L+ E +I +ED + Q NKL ++S+++ + + L
Sbjct: 973 KLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTK 1032
Query: 132 IIARHTAQLSNNQNNLR 148
+ +H + +S + L+
Sbjct: 1033 LKNKHESMISELEVRLK 1049
Score = 35.2 bits (81), Expect = 0.006
Identities = 24/145 (16%), Positives = 55/145 (37%), Gaps = 9/145 (6%)
Query: 13 EEEKRTLQAEGYPIPTRLPLTKTEEKSLKKIRRKIKNKI--------SAQESRRKKKEYM 64
+ EK+ +Q + + +L + + L+ + KI ++ K +
Sbjct: 947 QAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKER 1006
Query: 65 DALERKVEILKSENCDYKKRISNLEDTNYSLVSQLNKLQAIIARHTAQLSNV-SIVYSLV 123
LE +V L + + +++ NL S +++L+ + + + I L
Sbjct: 1007 KLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLE 1066
Query: 124 SQLNKLQAIIARHTAQLSNNQNNLR 148
+ + L IA AQ++ + L
Sbjct: 1067 GESSDLHEQIAELQAQIAELKAQLA 1091
>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 = 35.7 bits (82), Expect = 8e-04
Identities = 11/43 (25%), Positives = 27/43 (62%)
Query: 29 RLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKV 71
L++ + + ++KIRR+ KNK++A+ R+++ + D + +
Sbjct: 50 NESLSEYQRQLIRKIRRRGKNKVAARTCRQRRTDRHDKMSHYI 92
>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 = 34.5 bits (79), Expect = 0.002
Identities = 17/68 (25%), Positives = 33/68 (48%)
Query: 36 EEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLEDTNYSL 95
++ S + R+ +N I+ ++SR K K + KV L +EN +K++ L +L
Sbjct: 10 DKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTL 69
Query: 96 VSQLNKLQ 103
+ +L
Sbjct: 70 RNLFKQLP 77
>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 = 35.6 bits (81), Expect = 0.004
Identities = 20/131 (15%), Positives = 47/131 (35%), Gaps = 33/131 (25%)
Query: 10 HLTEEEKRTLQAEGYPIPTRLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEYMDALER 69
HL E E + + L + + +KI++ +A + ++ L++
Sbjct: 480 HLKNIE----HPERMTLFRMVFL------DFRFLEQKIRHDSTAWNAS---GSILNTLQQ 526
Query: 70 KVEILKSENCDYKKRISNLEDTNYSLVSQLNKL------QAIIARHT--AQLS----NVS 117
LK YK I + + LV+ + I +++T +++ + +
Sbjct: 527 ----LKF----YKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEA 578
Query: 118 IVYSLVSQLNK 128
I Q+ +
Sbjct: 579 IFEEAHKQVQR 589
Score = 31.4 bits (70), Expect = 0.11
Identities = 29/186 (15%), Positives = 50/186 (26%), Gaps = 50/186 (26%)
Query: 10 HLTEEEKRTL-QA-----EGYPIPT---------------RLPLTKTEEKSLKKIRRKIK 48
L E R + IPT + + K + SL + + K +
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK-E 423
Query: 49 NKIS---AQESRRKKKEYMDALERK-VEILKSENCDYKKRISNLEDTNY----------- 93
+ IS + K E AL R V+ + Y
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483
Query: 94 -------SLVSQ----LNKLQAIIARHTAQLSN-VSIVYSLVSQLNKLQAIIARHTAQLS 141
+L L+ I RH + N + + + QL + I + +
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKI-RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE 542
Query: 142 NNQNNL 147
N +
Sbjct: 543 RLVNAI 548
Score = 29.4 bits (65), Expect = 0.55
Identities = 25/179 (13%), Positives = 56/179 (31%), Gaps = 54/179 (30%)
Query: 11 LTEEEKRTLQA---------------EGYP-----IPTRL---PLT--KTEEKSLKKIRR 45
LT +E ++L P I + T + + K+
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357
Query: 46 KIKNKISAQESRRKKKEYMD-ALERK-VEI-----------LKSENCDYKKRISNLEDTN 92
I++ ++ E +K + ++ I + + + N +
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM---VVVN-KLHK 413
Query: 93 YSLVSQLNKLQAIIARHTAQLSNVSIVYSLVSQLNKLQA----IIARHTAQLSNNQNNL 147
YSLV + K ++ I+ + L L +L A I+ + + + ++L
Sbjct: 414 YSLVEKQPK-ESTISIPSIYL-------ELKVKLENEYALHRSIVDHYNIPKTFDSDDL 464
Score = 27.9 bits (61), Expect = 1.6
Identities = 16/104 (15%), Positives = 31/104 (29%), Gaps = 36/104 (34%)
Query: 54 QESRRKKKEYMDALERKVEILKSENCD--------------------------YKKRISN 87
+++ + D + IL E D +K +
Sbjct: 26 EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEE 85
Query: 88 LEDTNYS-LVSQLNKLQAIIARHTAQLSNVSIVYSLVSQLNKLQ 130
+ NY L+S I Q S ++ +Y + Q ++L
Sbjct: 86 VLRINYKFLMSP-------IKTEQRQPSMMTRMY--IEQRDRLY 120
Score = 26.0 bits (56), Expect = 7.4
Identities = 22/143 (15%), Positives = 43/143 (30%), Gaps = 31/143 (21%)
Query: 37 EKSLKK----IRRKIKNKISAQESRRKKK--EYMDALERKVEILKSENCDYKKRISNLED 90
E+ L+ + IK + Q S + E D L ++ N + L
Sbjct: 84 EEVLRINYKFLMSPIKTE-QRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ 142
Query: 91 TNYSLVSQLN----------K--LQAIIARHTAQ------------LSNVSIVYSLVSQL 126
L N K + + L N + +++ L
Sbjct: 143 ALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML 202
Query: 127 NKLQAIIARHTAQLSNNQNNLRV 149
KL I + S++ +N+++
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKL 225
>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 = 32.7 bits (74), Expect = 0.008
Identities = 15/67 (22%), Positives = 30/67 (44%)
Query: 37 EKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLEDTNYSLV 96
+RK +N+ + + R++K++++ ALE +V LK + L L
Sbjct: 4 SDQEPSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLE 63
Query: 97 SQLNKLQ 103
+L L+
Sbjct: 64 EELRILK 70
>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 = 31.8 bits (71), Expect = 0.039
Identities = 9/43 (20%), Positives = 18/43 (41%), Gaps = 19/43 (44%)
Query: 36 EEKSLKKIRRKIKNKISAQESRRKKKEYMD------ALERKVE 72
E+++LKK+ ++ K Y D A++ +E
Sbjct: 18 EKQALKKL-----------QASLKL--YADDSAPALAIKATME 47
>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 = 31.1 bits (70), Expect = 0.040
Identities = 15/37 (40%), Positives = 26/37 (70%)
Query: 28 TRLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEYM 64
R PLT+++ ++ IRR+ KNK++AQ R++K E +
Sbjct: 53 ARYPLTESQLALVRDIRRRGKNKVAAQNYRKRKLETI 89
>3bxj_A RAS GTPase-activating protein syngap; GTPase activation, membrane,
phosphoprotein, SH3-binding, signaling protein; 3.00A
{Rattus norvegicus}
Length = 483
Score = 31.9 bits (71), Expect = 0.067
Identities = 19/107 (17%), Positives = 41/107 (38%), Gaps = 13/107 (12%)
Query: 46 KIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLEDTNYS--------LVS 97
K+ ++ K++++ + +E+ + ISNL+ S L
Sbjct: 377 KVIQNLANFSKFTSKEDFLGFMNEFLELEWGSMQQFLYEISNLDTLTNSSSFEGYIDLGR 436
Query: 98 QLNKLQAIIARHTAQLSNVSIVYSLVSQLNKLQAIIARHTAQLSNNQ 144
+L+ L A++ QLS + +L L +++ + L N
Sbjct: 437 ELSTLHALLWEVLPQLSK-----EALLKLGPLPRLLSDISTALRNPN 478
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.5 bits (68), Expect = 0.17
Identities = 9/55 (16%), Positives = 25/55 (45%), Gaps = 6/55 (10%)
Query: 36 EEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCD-YKKRISNLE 89
E +S++K R + + ++ ++ K E + E K + + +++ +E
Sbjct: 83 EPESIRKWREEQRKRLQELDAASKVME-----QEWREKAKKDLEEWNQRQSEQVE 132
>3t2c_A Fructose-1,6-bisphosphate aldolase/phosphatase; (beta/alpha)8 TIM
barrel, FBP, F6P, DHAP, GAP, phosphorylati lyase,
hydrolase; HET: 13P; 1.30A {Thermoproteus neutrophilus}
PDB: 3t2b_A* 3t2d_A* 3t2e_A* 3t2f_A 3t2g_A*
Length = 407
Score = 30.7 bits (69), Expect = 0.18
Identities = 13/55 (23%), Positives = 24/55 (43%)
Query: 27 PTRLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDY 81
P RLP + E +L KI K+K + Q + +KK ++ + ++
Sbjct: 348 PHRLPPEEMEYTALPKILAKVKPYPADQYEKDRKKYIEAVVKGAKVEESQHDLEH 402
>3d72_A Vivid PAS protein VVD; circadian, photoreceptor, blue-light, LOV,
signaling protein; HET: FAD; 1.65A {Neurospora crassa}
PDB: 3is2_A* 2pd8_A* 3hjk_A* 2pdr_A* 2pd7_A* 2pdt_A*
3hji_A* 3rh8_B*
Length = 149
Score = 28.5 bits (64), Expect = 0.60
Identities = 7/46 (15%), Positives = 16/46 (34%), Gaps = 3/46 (6%)
Query: 17 RTLQAEGYPIPTRLPLTKTEEKSLKKIRRKIKNKISAQES---RRK 59
R LQ+ + + + ++ +R+ I Q +K
Sbjct: 74 RFLQSPDGMVKPKSTRKYVDSNTINTMRKAIDRNAEVQVEVVNFKK 119
>1lfw_A PEPV; hydrolase, dipeptidase; HET: AEP; 1.80A {Bacteria} SCOP:
c.56.5.4 d.58.19.1
Length = 470
Score = 28.8 bits (64), Expect = 0.71
Identities = 7/48 (14%), Positives = 18/48 (37%)
Query: 29 RLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKS 76
R P + +K++ K + + ++ Y+ + V+ L
Sbjct: 350 RYPQGTDPDTMIKQVLDKFSGILDVTYNGFEEPHYVPGSDPMVQTLLK 397
>3rrk_A V-type ATPase 116 kDa subunit; alpha beta fold, proton pump,
subunit I/A, V-ATPase, proton; HET: NHE; 2.64A
{Meiothermus ruber}
Length = 357
Score = 28.2 bits (62), Expect = 1.2
Identities = 13/107 (12%), Positives = 35/107 (32%), Gaps = 10/107 (9%)
Query: 4 GSTGVLHLTEEEKRTLQAEGYPIPTRLPLTKTEEKSLKKIRRKIKNKIS-----AQESRR 58
GV+H+ L+ + P + E K + + + + ++ S +
Sbjct: 34 QKAGVVHI-----DPLRPDELGEYRLSPTEEAELKRWEAVVSQAEQSLTVVGLATVPSSK 88
Query: 59 KKKEYMDALERKVEILKSENCDYKKRISNLEDTNYSLVSQLNKLQAI 105
++ E + + S K + LE+ ++ + +
Sbjct: 89 PFTGSLEEAEAVLRPVASRAEVLGKERAALEEEIQTIELFGKAAEKL 135
>3i2t_A Epidermal growth factor receptor, isoform A; EGFR, ectodomain,
unliganded, autoinhibited, ATP nucleotide-binding,
tyrosine-protein kinase; HET: NDG NAG BMA; 2.70A
{Drosophila melanogaster} PDB: 3ltf_A* 3ltg_A
Length = 551
Score = 27.7 bits (60), Expect = 1.8
Identities = 10/41 (24%), Positives = 14/41 (34%)
Query: 92 NYSLVSQLNKLQAIIARHTAQLSNVSIVYSLVSQLNKLQAI 132
KLQ I R LS Y+L +K+ +
Sbjct: 73 VDVKKVVFPKLQIIRGRTLFSLSVEEEKYALFVTYSKMYTL 113
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon,
coiled post-transcriptional, gene regulation, chaperone;
HET: EPE; 2.20A {Helicobacter pylori}
Length = 256
Score = 26.6 bits (58), Expect = 3.1
Identities = 12/82 (14%), Positives = 29/82 (35%), Gaps = 1/82 (1%)
Query: 34 KTEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISNLEDTNY 93
E++L+ KI + + ++E +L + +I K + + I NL++
Sbjct: 63 SKNEQTLQDTNAKIASIQKKMSEIKSEREL-RSLNIEEDIAKERSNQANREIENLQNEIK 121
Query: 94 SLVSQLNKLQAIIARHTAQLSN 115
+ L+ +
Sbjct: 122 RKSEKQEDLKKEMLELEKLALE 143
>3r1m_A Putative uncharacterized protein ST0318; sulfolobus
fructose-1,6-bisphosphatase-like fold, hydrolase/ Mg
binding, metal binding protein; 1.50A {Sulfolobus
tokodaii} PDB: 1umg_A*
Length = 385
Score = 26.8 bits (59), Expect = 3.5
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 27 PTRLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKE 62
P RL T+ E +L I K+K++ + K KE
Sbjct: 338 PHRLEPTEMEYTTLPLILEKLKDRFKKESDVYKAKE 373
>3bpq_B Toxin RELE3; protein toxin-antitoxin complex; 2.20A
{Methanocaldococcus jannaschii}
Length = 88
Score = 25.4 bits (56), Expect = 4.0
Identities = 12/59 (20%), Positives = 27/59 (45%)
Query: 29 RLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERKVEILKSENCDYKKRISN 87
++ KT K LK + I+ +I + ++ L+ ++ +K + Y+ R+ N
Sbjct: 2 KVLFAKTFVKDLKHVPGHIRKRIKLIIEECQNSNSLNDLKLDIKKIKGYHNYYRIRVGN 60
>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex,
blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A
{Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB:
1n73_C*
Length = 323
Score = 25.9 bits (57), Expect = 5.4
Identities = 8/57 (14%), Positives = 20/57 (35%)
Query: 59 KKKEYMDALERKVEILKSENCDYKKRISNLEDTNYSLVSQLNKLQAIIARHTAQLSN 115
++ + + +V IL+ + +I L + + +LQ + S
Sbjct: 2 SGQKTVQKILEEVRILEQIGVSHDAQIQELSEMWRVNQQFVTRLQQQLVDIRQTCSR 58
>2crw_A ARF GAP 3, ADP-ribosylation factor GTPase-activating protein 3;
arfgap domain, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 149
Score = 25.7 bits (56), Expect = 5.8
Identities = 8/45 (17%), Positives = 17/45 (37%)
Query: 22 EGYPIPTRLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEYMDA 66
+ T K ++ + R KIK+ S + ++D+
Sbjct: 99 HQHGCSTNDTNAKYNSRAAQLYREKIKSLASQATRKHGTDLWLDS 143
>1f6k_A N-acetylneuraminate lyase; beta barrel; 1.60A {Haemophilus
influenzae} SCOP: c.1.10.1 PDB: 1f5z_A 1f6p_A 1f73_A*
1f74_A* 1f7b_A*
Length = 293
Score = 26.0 bits (58), Expect = 5.9
Identities = 9/36 (25%), Positives = 13/36 (36%), Gaps = 1/36 (2%)
Query: 16 KRTLQAEGYPI-PTRLPLTKTEEKSLKKIRRKIKNK 50
K L+ EG R P+T + +K K
Sbjct: 255 KELLKLEGVDAGYCREPMTSKATAEQVAKAKDLKAK 290
>1o5k_A DHDPS, dihydrodipicolinate synthase; TM1521, structural genomics, J
protein structure initiative, joint center for
structural G lyase; HET: MCL; 1.80A {Thermotoga
maritima} SCOP: c.1.10.1 PDB: 3pb2_A 3pb0_A
Length = 306
Score = 25.8 bits (57), Expect = 6.7
Identities = 13/47 (27%), Positives = 19/47 (40%), Gaps = 14/47 (29%)
Query: 17 RTLQAEGYPIP--------------TRLPLTKTEEKSLKKIRRKIKN 49
+ L E PIP RLPL EK+++ +R +K
Sbjct: 256 KALFVETNPIPVKAALNLMGFIENELRLPLVPASEKTVELLRNVLKE 302
>3m5v_A DHDPS, dihydrodipicolinate synthase; TIM barrel, csgid, amino-acid
biosynthesis, diaminopimelate biosynthesis, lyase,
lysine biosynthesis; HET: MSE; 1.80A {Campylobacter
jejuni} PDB: 3ler_A*
Length = 301
Score = 25.5 bits (57), Expect = 8.3
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 29 RLPLTKTEEKSLKKIRRKIKN 49
RLPL +++ KI +K
Sbjct: 275 RLPLCSPSKENFAKIEEVMKK 295
>2nrq_A Hypothetical protein ORF-C20_032; conserved hypothetical protein,
structural genomics, PSI, protein structure initiative;
HET: MSE; 2.60A {Sulfolobus solfataricus} SCOP: d.77.1.2
Length = 159
Score = 25.4 bits (55), Expect = 8.6
Identities = 20/108 (18%), Positives = 38/108 (35%), Gaps = 4/108 (3%)
Query: 8 VLHLTEEEKRTLQAEGYPIPTRLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEYMDAL 67
+H TE+ + + PL +K++ + NKI E R +K
Sbjct: 13 FIHETEDYNKIVNTIESFFS---PLISNSKKNVTTAQGHYGNKIIILEYRFDRKSGEQFF 69
Query: 68 ERKVEILKSENCDYKKRISNLEDTNYSLVSQLNKLQAIIARHTAQLSN 115
+ +E +++ + L + +K Q +IA H L
Sbjct: 70 KIILEKIETSELMLILTTIDSHIDGSKLYLRFDK-QYLIAEHRLVLKE 116
>2ehh_A DHDPS, dihydrodipicolinate synthase; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; 1.90A {Aquifex aeolicus}
Length = 294
Score = 25.5 bits (57), Expect = 8.6
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 27 PTRLPLTKTEEKSLKKIRRKIKN 49
RLPLT+ ++ K+R +K
Sbjct: 265 EFRLPLTEMSPENENKLREVLKK 287
>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 = 24.0 bits (52), Expect = 8.9
Identities = 5/34 (14%), Positives = 15/34 (44%)
Query: 43 IRRKIKNKISAQESRRKKKEYMDALERKVEILKS 76
++ + + R K+ +A+E++ + L
Sbjct: 30 AKKNVPCILKRDFRRTYKRARNEAIEKRFKELTR 63
>3nlc_A Uncharacterized protein VP0956; FAD-binding protein, NESG,
structural genomics, PSI-2, prote structure initiative;
HET: FAD; 2.15A {Vibrio parahaemolyticus}
Length = 549
Score = 25.4 bits (55), Expect = 9.1
Identities = 14/87 (16%), Positives = 28/87 (32%), Gaps = 14/87 (16%)
Query: 29 RLPLTKTEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERK-------VEILKSEN--- 78
+LPL E L I +K+ S + DA ++ ++I+ +
Sbjct: 18 KLPLDHEEGALLDAITKKLGIPAEKVISFNVFRRGYDARKKTNIHLIYTLDIIVEGDETA 77
Query: 79 ----CDYKKRISNLEDTNYSLVSQLNK 101
+ D Y V++ +
Sbjct: 78 LLAKFANDPHVRQTPDMEYKFVAKAPE 104
>2yxg_A DHDPS, dihydrodipicolinate synthase; MJ0244, TIM beta/alpha-barrel
fold, structural genomics, NPPSFA; 2.20A
{Methanocaldococcus jannaschii DSM2661}
Length = 289
Score = 25.1 bits (56), Expect = 9.7
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 27 PTRLPLTKTEEKSLKKIRRKIKN 49
RLPL + E+ K + +K+
Sbjct: 263 ELRLPLCEMSEEHKKILENVLKD 285
>3rgc_A Possible periplasmic protein; ppiase, chaperone; 2.30A
{Campylobacter jejuni}
Length = 252
Score = 25.2 bits (55), Expect = 10.0
Identities = 8/44 (18%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 35 TEEKSLKKIRRKIKNKISAQESRRKKKEYMDALERK--VEILKS 76
T+ ++++ ++ N +++ + ++Y D L K +E L++
Sbjct: 209 TQTPEYEQVKNEVLNAYVSEQRQNFIQDYFDKLRSKINIEYLRA 252
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 0.126 0.327
Gapped
Lambda K H
0.267 0.0658 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,045,686
Number of extensions: 109930
Number of successful extensions: 452
Number of sequences better than 10.0: 1
Number of HSP's gapped: 443
Number of HSP's successfully gapped: 114
Length of query: 153
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 68
Effective length of database: 4,328,508
Effective search space: 294338544
Effective search space used: 294338544
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: 53 (24.3 bits)