RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14769
(90 letters)
>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 = 84.7 bits (210), Expect = 2e-23
Identities = 28/80 (35%), Positives = 45/80 (56%)
Query: 11 ESAEKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQFMRRKN 70
KR HN LER+RR+ +K SF +LRD +P L+ + A + ILKKA YI ++ +
Sbjct: 2 HMNVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEE 61
Query: 71 ASHQQDIDDLKRQNAILEAQ 90
+ D L+++ L+ +
Sbjct: 62 QKLISEEDLLRKRREQLKHK 81
>1hlo_A Protein (transcription factor MAX); transcriptional regulation,
DNA binding, complex (transcription factor MAX/DNA),
transcription/DNA complex; HET: DNA; 2.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 80
Score = 82.0 bits (203), Expect = 1e-22
Identities = 63/72 (87%), Positives = 67/72 (93%), Gaps = 1/72 (1%)
Query: 13 AEKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQFMRRKNAS 72
A+KRAHHNALERKRRDHIKDSF SLRDSVPSLQGEK ASRAQIL KA +YIQ+MRRKN +
Sbjct: 10 ADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEK-ASRAQILDKATEYIQYMRRKNHT 68
Query: 73 HQQDIDDLKRQN 84
HQQDIDDLKRQN
Sbjct: 69 HQQDIDDLKRQN 80
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA,
BHLHZ, heterodimer, transcription/DNA complex; 1.80A
{Homo sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A
1nlw_B
Length = 83
Score = 81.7 bits (202), Expect = 2e-22
Identities = 65/77 (84%), Positives = 70/77 (90%), Gaps = 1/77 (1%)
Query: 14 EKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQFMRRKNASH 73
+KRAHHNALERKRRDHIKDSF SLRDSVPSLQGEK SRAQIL KA +YIQ+MRRKN +H
Sbjct: 1 DKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKA-SRAQILDKATEYIQYMRRKNHTH 59
Query: 74 QQDIDDLKRQNAILEAQ 90
QQDIDDLKRQNA+LE Q
Sbjct: 60 QQDIDDLKRQNALLEQQ 76
>1nlw_A MAD protein, MAX dimerizer; transcription factor, DNA, BHLHZ,
transcription/DNA complex; 2.00A {Homo sapiens} SCOP:
a.38.1.1
Length = 80
Score = 71.8 bits (176), Expect = 1e-18
Identities = 21/75 (28%), Positives = 36/75 (48%)
Query: 16 RAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQFMRRKNASHQQ 75
R+ HN +E+ RR H++ S L+ VP + +L KA +I+ + +
Sbjct: 2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVH 61
Query: 76 DIDDLKRQNAILEAQ 90
ID L+R+ L+ Q
Sbjct: 62 QIDQLQREQRHLKRQ 76
>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 = 65.9 bits (161), Expect = 3e-16
Identities = 23/77 (29%), Positives = 42/77 (54%), Gaps = 2/77 (2%)
Query: 13 AEKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQFMRRKNAS 72
EKR HNA+E++ R I D L+D V + + +++ +L+KA DYI+F++ N
Sbjct: 4 GEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAK--LNKSAVLRKAIDYIRFLQHSNQK 61
Query: 73 HQQDIDDLKRQNAILEA 89
+Q+ L+ ++
Sbjct: 62 LKQENLSLRTAVHKSKS 78
>1an4_A Protein (upstream stimulatory factor); protein-DNA complex,
double helix, overhanging base, transcription/DNA
complex; HET: DNA; 2.90A {Homo sapiens} SCOP: a.38.1.1
Length = 65
Score = 62.3 bits (152), Expect = 5e-15
Identities = 24/61 (39%), Positives = 34/61 (55%), Gaps = 3/61 (4%)
Query: 14 EKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVA---SRAQILKKAADYIQFMRRKN 70
++RA HN +ER+RRD I + L +P E S+ IL KA+DYIQ +R+ N
Sbjct: 4 KRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSN 63
Query: 71 A 71
Sbjct: 64 H 64
>3u5v_A Protein MAX, transcription factor E2-alpha chimer; basic
helix-loop-helix (BHLH); 1.70A {Mus musculus} PDB:
2ql2_A*
Length = 76
Score = 43.7 bits (103), Expect = 2e-07
Identities = 27/70 (38%), Positives = 39/70 (55%), Gaps = 5/70 (7%)
Query: 12 SAEKRAHHNALERKRRDHIKDSFSSL-RDSVPSLQGEKVASRAQILKKAADYI----QFM 66
A+KRAHHNALERKRR I ++F L R L+ +K ++ IL++A I Q +
Sbjct: 2 GADKRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQV 61
Query: 67 RRKNASHQQD 76
R +N +
Sbjct: 62 RERNLNPLNH 71
>2ql2_B Neurod1, neurogenic differentiation factor 1;
basic-helix-loop-helix; HET: DNA; 2.50A {Mus musculus}
Length = 60
Score = 40.3 bits (95), Expect = 2e-06
Identities = 15/54 (27%), Positives = 25/54 (46%)
Query: 15 KRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQFMRR 68
+R NA ER R + + +LR VP + S+ + L+ A +YI +
Sbjct: 2 RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSE 55
>1mdy_A Protein (MYOD BHLH domain); protein-DNA complex,
transcription/DNA complex; HET: DNA; 2.80A {Mus
musculus} SCOP: a.38.1.1 PDB: 1mdy_B*
Length = 68
Score = 37.4 bits (87), Expect = 3e-05
Identities = 14/57 (24%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 12 SAEKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQFMRR 68
+A++R ER+R + ++F +L+ S S +++ + +IL+ A YI+ ++
Sbjct: 9 NADRRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRL-PKVEILRNAIRYIEGLQA 64
>1a93_B MAX protein, coiled coil, LZ; leucine zipper, 2D solution
structure, H-bonds, buried salt bridge, proto-oncogene,
nuclear protein; NMR {Mus musculus} SCOP: h.1.3.1 PDB:
2a93_B
Length = 34
Score = 36.6 bits (84), Expect = 4e-05
Identities = 21/25 (84%), Positives = 23/25 (92%)
Query: 66 MRRKNASHQQDIDDLKRQNAILEAQ 90
MRRKN +HQQDIDDLKRQNA+LE Q
Sbjct: 5 MRRKNDTHQQDIDDLKRQNALLEQQ 29
>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 = 36.5 bits (83), Expect = 3e-04
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 12/37 (32%)
Query: 23 ERKRRDHIKDSFSSLR----DSVPSLQGEKVASRAQI 55
E++ +K +SL+ DS P+L A +A +
Sbjct: 18 EKQA---LKKLQASLKLYADDSAPAL-----AIKATM 46
>1a0a_A BHLH, protein (phosphate system positive regulatory protein
PHO4); transcription factor, basic helix loop helix;
HET: DNA; 2.80A {Saccharomyces cerevisiae} SCOP:
a.38.1.1
Length = 63
Score = 34.4 bits (79), Expect = 5e-04
Identities = 13/62 (20%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 15 KRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEK----VASRAQILKKAADYIQFMRRKN 70
KR H E+ RR+ + + L +P+ ++ S+A ++ A YI+ +++
Sbjct: 2 KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG 61
Query: 71 AS 72
++
Sbjct: 62 ST 63
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 30.4 bits (68), Expect = 0.050
Identities = 15/79 (18%), Positives = 33/79 (41%), Gaps = 4/79 (5%)
Query: 1 MSDDERDYDIESAEKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKV-ASRAQILKKA 59
M E I++A + H+ +E++RRD + L VP+ + +L+ A
Sbjct: 1 MEYAEHQGRIKNAREA--HSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMA 58
Query: 60 ADYIQFMRRKNASHQQDID 78
+++ R + + +
Sbjct: 59 VQHMK-TLRGATNPYTEAN 76
>2lfh_A DNA-binding protein inhibitor ID-3; structural genomics,
northeast structural genomics consortiu PSI-biology,
protein structure initiative; NMR {Homo sapiens}
Length = 68
Score = 28.9 bits (64), Expect = 0.066
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 27 RDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQ 64
D + +S LR+ VP + S+ +IL++ DYI
Sbjct: 26 LDDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYIL 63
>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 = 29.1 bits (64), Expect = 0.16
Identities = 10/78 (12%), Positives = 23/78 (29%), Gaps = 17/78 (21%)
Query: 17 AHHNALERKRRDHIKDSFSSL------------RDSVPSLQGEKVASRAQILKKAADYIQ 64
HH L+ F + DS + + Q LK Y
Sbjct: 478 GHH--LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKF---YKP 532
Query: 65 FMRRKNASHQQDIDDLKR 82
++ + +++ ++ +
Sbjct: 533 YICDNDPKYERLVNAILD 550
>4e3x_A Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial; amino
acid metabolism, proline inhibition, oxidoreductase;
HET: 16P PGE; 1.24A {Mus musculus} PDB: 3v9k_A* 3v9l_A*
3v9j_A* 3v9g_A 3v9h_A 3v9i_A
Length = 563
Score = 28.4 bits (64), Expect = 0.24
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 13/42 (30%)
Query: 49 VASRAQILKKAADYIQFMRR------------KNASHQQDID 78
+A RAQ+ KAAD + RR K Q +ID
Sbjct: 121 MADRAQVFLKAADMLSGPRRAEVLAKTMVGQGKTV-IQAEID 161
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH,
PAS, circadian rhythm proteins, transcription-activato;
2.27A {Mus musculus}
Length = 361
Score = 28.4 bits (63), Expect = 0.29
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 5/56 (8%)
Query: 15 KRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQFMRRKN 70
KR N E+KRRD L +P + ++ +L+K+ I F+R+
Sbjct: 12 KRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKM--DKSTVLQKS---IDFLRKHK 62
>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 = 26.7 bits (59), Expect = 0.98
Identities = 15/84 (17%), Positives = 36/84 (42%), Gaps = 2/84 (2%)
Query: 7 DYDIESAEKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQFM 66
+ ++ ++ LE+ +R +S S L + + LQ + +AQ+ KK + +Q
Sbjct: 1043 ELEVRLKKEEKSRQELEKIKRKLEGES-SDLHEQIAELQAQIAELKAQLAKKEEE-LQAA 1100
Query: 67 RRKNASHQQDIDDLKRQNAILEAQ 90
+ ++ ++ LE+
Sbjct: 1101 LARLEDETSQKNNALKKIRELESH 1124
>4f9i_A Proline dehydrogenase/delta-1-pyrroline-5-carboxy dehydrogenase;
proline utilization A, PUTA, flavoenzyme, structural
genomic biology; HET: FAD MES; 2.20A {Geobacter
sulfurreducens}
Length = 1026
Score = 25.8 bits (57), Expect = 2.0
Identities = 8/37 (21%), Positives = 19/37 (51%)
Query: 28 DHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQ 64
+ D+ ++ + + P+ + +RA+ L KAA +
Sbjct: 568 TEVGDAIAAAKAAFPAWRDTDPRTRAEYLLKAAQAAR 604
>2y53_A Aldehyde dehydrogenase (BOX pathway); oxidoreductase, NADP,
nucleotide-binding; HET: NAP; 1.40A {Burkholderia
xenovorans LB400} PDB: 2y52_A 2y51_A 2vro_A* 2y5d_A*
Length = 534
Score = 25.3 bits (56), Expect = 2.9
Identities = 5/28 (17%), Positives = 10/28 (35%), Gaps = 2/28 (7%)
Query: 42 PSLQGEKVASRAQILKKAADYIQFMRRK 69
+L+ A RA L + ++
Sbjct: 58 AALRALTYAQRAARLADIVKLL--QAKR 83
>3haz_A Proline dehydrogenase; proline utilization A, PUTA, flavoenzyme,
1-pyrroline-5-carboxylate dehydrogenase, oxidoreductase;
HET: FAD NAD; 2.10A {Bradyrhizobium japonicum usda 110}
Length = 1001
Score = 24.7 bits (54), Expect = 5.5
Identities = 7/38 (18%), Positives = 14/38 (36%)
Query: 27 RDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQ 64
D + ++ R RA L++AA ++
Sbjct: 549 PDQAHAAVAAARAGFAGWSRTPAGIRAAALEQAAHLLE 586
>4dng_A Uncharacterized aldehyde dehydrogenase ALDY; structural genomics,
protein structure initiative, nysgrc, P biology; 2.50A
{Bacillus subtilis}
Length = 485
Score = 24.1 bits (53), Expect = 7.7
Identities = 7/29 (24%), Positives = 13/29 (44%), Gaps = 7/29 (24%)
Query: 52 RAQILKKAADYIQFMRRKNASHQQDIDDL 80
R +L+KA Y+ ++ DI +
Sbjct: 68 RKAVLQKARGYLH-------ENRDDIIMM 89
>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus
dsRNA, molecular motor, packaging ATPase, hexameric
helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12}
PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A*
1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*
Length = 331
Score = 24.1 bits (51), Expect = 8.7
Identities = 14/66 (21%), Positives = 23/66 (34%)
Query: 10 IESAEKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVASRAQILKKAADYIQFMRRK 69
+ +A+ A H DH S+ D P L + A + K A I + K
Sbjct: 13 LRAAQYAAFHTDAPGSWFDHTSGVLESVEDGTPVLAIGVESGDAIVFDKNAQRIVAYKEK 72
Query: 70 NASHQQ 75
+ +
Sbjct: 73 SVKAED 78
>1uzb_A 1-pyrroline-5-carboxylate dehydrogenase; oxidoreductase, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; 1.4A {Thermus thermophilus} SCOP:
c.82.1.1 PDB: 2eiw_A 2bhq_A* 2bhp_A* 2bja_A* 2bjk_A*
2ehq_A* 2ehu_A* 2eii_A* 2eit_A* 2ej6_A 2ejd_A* 2ejl_A
2iy6_A* 2j40_A* 2j5n_A*
Length = 516
Score = 24.1 bits (53), Expect = 9.3
Identities = 8/21 (38%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 49 VASRAQILKKAADYIQFMRRK 69
R+++L KAA ++ RRK
Sbjct: 95 QEDRSRLLLKAAALMR--RRK 113
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
0.314 0.127 0.336
Gapped
Lambda K H
0.267 0.0717 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,353,241
Number of extensions: 65036
Number of successful extensions: 249
Number of sequences better than 10.0: 1
Number of HSP's gapped: 242
Number of HSP's successfully gapped: 34
Length of query: 90
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 33
Effective length of database: 5,110,296
Effective search space: 168639768
Effective search space used: 168639768
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: 41 (21.5 bits)
S2: 51 (23.4 bits)