RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14529
(59 letters)
>3mlp_A Transcription factor COE1; transcription factor, pseudo-IG-fold,
TIG-domain, IPT-domain loop-helix; HET: DNA CIT; 2.80A
{Mus musculus} PDB: 3n50_A
Length = 402
Score = 64.9 bits (157), Expect = 1e-14
Identities = 50/88 (56%), Positives = 55/88 (62%), Gaps = 29/88 (32%)
Query: 1 MRRFQVVISTQVGVDGPLLAVSDN-----------------------------IPSEGWT 31
MRRFQVV+ST V VDG +LAVSDN PSEGWT
Sbjct: 185 MRRFQVVVSTTVNVDGHVLAVSDNMFVHNNSKHGRRARRLDPSEAATPCIKAISPSEGWT 244
Query: 32 SGGATVIIVGDNFFDGLQVVFGTMLVWS 59
+GGATVII+GDNFFDGLQV+FGTMLVWS
Sbjct: 245 TGGATVIIIGDNFFDGLQVIFGTMLVWS 272
>3muj_A Transcription factor COE3; immunoglobulin like fold,
helix-loop-helix, structural genom consortium, SGC, DNA
binding protein; 1.92A {Homo sapiens} PDB: 3mqi_A
Length = 138
Score = 48.9 bits (116), Expect = 1e-09
Identities = 32/35 (91%), Positives = 34/35 (97%)
Query: 25 IPSEGWTSGGATVIIVGDNFFDGLQVVFGTMLVWS 59
PSEGWT+GGATVII+GDNFFDGLQVVFGTMLVWS
Sbjct: 12 SPSEGWTTGGATVIIIGDNFFDGLQVVFGTMLVWS 46
>3lyr_A Transcription factor COE1; immunoglobulin (IG)-like domain,
structural genomics, struct genomics consortium, SGC,
activator, developmental protein; 2.51A {Homo sapiens}
Length = 243
Score = 40.6 bits (94), Expect = 4e-06
Identities = 19/25 (76%), Positives = 22/25 (88%)
Query: 1 MRRFQVVISTQVGVDGPLLAVSDNI 25
MRRFQVV+ST V VDG +LAVSDN+
Sbjct: 201 MRRFQVVVSTTVNVDGHVLAVSDNM 225
>3mln_A Transcription factor COE1; transcription factor, pseudo-IG-fold,
Zn-finger, Zn-knuckle; HET: DNA; 2.40A {Mus musculus}
PDB: 3mlo_A*
Length = 224
Score = 40.6 bits (94), Expect = 4e-06
Identities = 19/25 (76%), Positives = 22/25 (88%)
Query: 1 MRRFQVVISTQVGVDGPLLAVSDNI 25
MRRFQVV+ST V VDG +LAVSDN+
Sbjct: 185 MRRFQVVVSTTVNVDGHVLAVSDNM 209
>1imh_C NF-AT5, tonebp, nuclear factor of activated T cells 5; beta barrel,
protein-DNA complex, double helix, DNA encirclement,
transcription/DNA complex; 2.86A {Homo sapiens} SCOP:
b.1.18.1 b.2.5.3
Length = 281
Score = 33.2 bits (75), Expect = 0.002
Identities = 15/64 (23%), Positives = 21/64 (32%), Gaps = 15/64 (23%)
Query: 4 FQVVISTQVGVDGPLLAVSDNI---------------PSEGWTSGGATVIIVGDNFFDGL 48
F+V I + G L S I G V ++G NF G
Sbjct: 152 FRVNIMRKDGSTLTLQTPSSPILCTQPAGVPEILKKSLHSCSVKGEEEVFLIGKNFLKGT 211
Query: 49 QVVF 52
+V+F
Sbjct: 212 KVIF 215
>2uzx_B Hepatocyte growth factor receptor; signaling protein/receptor,
leucine rich repeat, receptor ectodomain, signaling
protein, ATP-binding; 2.8A {Homo sapiens} PDB: 2uzy_B
1shy_B 1ssl_A
Length = 727
Score = 32.3 bits (72), Expect = 0.004
Identities = 7/35 (20%), Positives = 14/35 (40%), Gaps = 2/35 (5%)
Query: 21 VSDNIPSEGWTSGGATVIIVGDNFFDG--LQVVFG 53
++ P G +GG + + G+ G + G
Sbjct: 638 ITSISPKYGPMAGGTLLTLTGNYLNSGNSRHISIG 672
>2yrp_A Nuclear factor of activated T-cells, cytoplasmic 4;
beta-sandwich, immunoglobulin-like fold, TIG domain,
IPT domain, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 114
Score = 30.4 bits (68), Expect = 0.011
Identities = 12/36 (33%), Positives = 16/36 (44%)
Query: 18 LLAVSDNIPSEGWTSGGATVIIVGDNFFDGLQVVFG 53
L V PS GG +++ G NF +VVF
Sbjct: 8 LPQVEAYSPSACSVRGGEELVLTGSNFLPDSKVVFI 43
>2cxk_A Camta1, calmodulin binding transcription activator 1; structural
genomics, TIG/IPT domain, NPPSFA; 1.85A {Homo sapiens}
SCOP: b.1.18.1
Length = 95
Score = 29.9 bits (67), Expect = 0.014
Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 2/47 (4%)
Query: 13 GVDGPLLAVSDNIPSEGWTSGGATVIIVGDNFFDG--LQVVFGTMLV 57
G G V+D P + GG V+I G +F + V
Sbjct: 1 GSSGSSGMVTDYSPEWSYPEGGVKVLITGPWQEASNNYSCLFDQISV 47
>1p7h_L Nuclear factor of activated T-cells, cytoplasmic 2; DNA binding
protein, transcription regulation, activator,
transcription/DNA complex; 2.60A {Homo sapiens} SCOP:
b.1.18.1 b.2.5.3 PDB: 2o93_L 1a02_N* 1pzu_B 1owr_M
2as5_N 1s9k_C 3qrf_N 1nfa_A 1a66_A*
Length = 286
Score = 30.1 bits (67), Expect = 0.022
Identities = 16/68 (23%), Positives = 21/68 (30%), Gaps = 17/68 (25%)
Query: 3 RFQVVISTQVGVDGPLLAVSDNI-----------------PSEGWTSGGATVIIVGDNFF 45
F+V I G L S+ I GG +I+ G NF
Sbjct: 153 VFRVHIPESSGRIVSLQTASNPIECSQRSAHELPMVERQDTDSCLVYGGQQMILTGQNFT 212
Query: 46 DGLQVVFG 53
+VVF
Sbjct: 213 SESKVVFT 220
>2v2t_A RELB, transcription factor RELB;
4-diphosphocytidyl-2C-methyl-D-erythritol, aquifex
aeolicus, nucleotide-binding, isoprene biosynthesis;
3.05A {Mus musculus} PDB: 3do7_A
Length = 288
Score = 26.9 bits (59), Expect = 0.27
Identities = 14/75 (18%), Positives = 24/75 (32%), Gaps = 20/75 (26%)
Query: 3 RFQVVISTQVGVDGPLLAV-SDNI-----------------PSEGWTSGGATVIIVGDNF 44
FQ Q G + + S+ + G +GG + ++ D
Sbjct: 157 CFQASYRDQQGHLHRMDPILSEPVYDKKSTNTSELRICRINKESGPCTGGEELYLLCDKV 216
Query: 45 F-DGLQVVFGTMLVW 58
+ + VVF T W
Sbjct: 217 QKEDISVVFSTA-SW 230
>1ikn_A P65, protein (NF-kappa-B P65 subunit); transcription factor,
IKB/NFKB complex; 2.30A {Mus musculus} SCOP: b.1.18.1
b.2.5.3 PDB: 1nfi_A 2ram_A* 1ram_A* 2i9t_A 1lei_A*
1le9_A 1le5_A* 1vkx_A* 3gut_A
Length = 286
Score = 26.9 bits (59), Expect = 0.32
Identities = 16/74 (21%), Positives = 24/74 (32%), Gaps = 20/74 (27%)
Query: 4 FQVVISTQVGVDGPLLAV-SDNI-----------------PSEGWTSGGATVIIVGDNFF 45
FQV + G L V S I + G GG + ++ D
Sbjct: 143 FQVTVRDPAGRPLLLTPVLSHPIFDNRAPNTAELKICRVNRNSGSCLGGDEIFLLCDKVQ 202
Query: 46 -DGLQVVFGTMLVW 58
+ ++V F T W
Sbjct: 203 KEDIEVYF-TGPGW 215
>2o61_A Transcription factor P65/interferon regulatory FA 7/interferon
regulatory factor...; protein-DNA complex,
transcription-DNA complex; 2.80A {Homo sapiens}
Length = 540
Score = 26.3 bits (57), Expect = 0.57
Identities = 15/73 (20%), Positives = 21/73 (28%), Gaps = 18/73 (24%)
Query: 4 FQVVISTQVGVDGPLLAV-SDNI-----------------PSEGWTSGGATVIIVGDNFF 45
FQV + G L V S I + G GG + ++ D
Sbjct: 144 FQVTVRDPSGRPLRLPPVLSHPIFDNRAPNTAELKICRVNRNSGSCLGGDEIFLLCDKVQ 203
Query: 46 DGLQVVFGTMLVW 58
V+ T W
Sbjct: 204 KEDIEVYFTGPGW 216
>3brd_A LIN-12 and GLP-1 phenotype protein 1, isoform A; protein-DNA
complex, signaling, transcription, notch; HET: DNA;
2.21A {Caenorhabditis elegans} SCOP: b.1.18.1 b.2.5.8
b.42.7.1 PDB: 2fo1_A 1ttu_A* 3brf_A*
Length = 477
Score = 25.9 bits (56), Expect = 0.71
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 35 ATVIIVGDNFFDGLQVVFGT 54
+ V + G +F L+V FG
Sbjct: 391 SRVELHGRDFKPNLKVWFGA 410
>3orj_A Sugar-binding protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-biology; 2.16A {Bacteroides ovatus}
Length = 439
Score = 25.8 bits (55), Expect = 0.81
Identities = 6/46 (13%), Positives = 15/46 (32%), Gaps = 2/46 (4%)
Query: 8 ISTQVGVDGPLLAVSDNIPSEGWTSGGATVIIVGDNFFDGLQVVFG 53
+ +++ + G +I+ G + +VVF
Sbjct: 103 YVYDFQIRAAAPSITKISNCMP--NVGEPIIVYGSGLTEIAKVVFP 146
Score = 25.4 bits (54), Expect = 1.3
Identities = 9/48 (18%), Positives = 17/48 (35%), Gaps = 2/48 (4%)
Query: 6 VVISTQVGVDGPLLAVSDNIPSEGWTSGGATVIIVGDNFFDGLQVVFG 53
V+ T + ++ V D + G + I G+ F +V
Sbjct: 12 VMNITGIYLEDAKSNVPDRLVDFA--RLGQLIRIEGEGFNGLKKVYIN 57
>3iag_C Recombining binding protein suppressor of hairless; protein-DNA
complex, signaling, transcription, notch, activator,
alternative splicing; HET: XYL; 2.00A {Mus musculus}
PDB: 3brg_C* 3nbn_A 2f8x_C 3v79_C*
Length = 422
Score = 25.4 bits (55), Expect = 0.93
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 35 ATVIIVGDNFFDGLQVVFG 53
A + + G NF L+V FG
Sbjct: 343 AMLELTGQNFTPNLRVWFG 361
>1zk9_A Transcription factor RELB; NF-KB, transcription factors,
intertwined dimer; 2.18A {Mus musculus} PDB: 1zka_A
3jv6_A 3jv4_A 3jss_A 3juz_A 3jv0_A
Length = 110
Score = 24.0 bits (52), Expect = 2.4
Identities = 6/23 (26%), Positives = 12/23 (52%), Gaps = 1/23 (4%)
Query: 32 SGGATVIIVGDNFF-DGLQVVFG 53
+GG + ++ D + + VVF
Sbjct: 26 TGGEELYLLCDKVQKEDISVVFS 48
>1gq8_A Pectinesterase; hydrolase, carboxylic ester hydrolase; 1.75A
{Daucus carota} SCOP: b.80.1.5
Length = 319
Score = 23.5 bits (51), Expect = 5.0
Identities = 9/23 (39%), Positives = 10/23 (43%)
Query: 22 SDNIPSEGWTSGGATVIIVGDNF 44
S N+ T ATV VG F
Sbjct: 74 SKNVQDGSTTFNSATVAAVGAGF 96
>2rkb_A Serine dehydratase-like; PLP bound enzyme, enzyme found in human
cells, lyase, pyridoxal phosphate; HET: PLP; 2.80A {Homo
sapiens}
Length = 318
Score = 22.9 bits (50), Expect = 9.0
Identities = 4/13 (30%), Positives = 7/13 (53%)
Query: 34 GATVIIVGDNFFD 46
GA V + G + +
Sbjct: 100 GAEVQLTGKVWDE 112
>1p5j_A L-serine dehydratase; lyase; HET: PLP; 2.50A {Homo sapiens} SCOP:
c.79.1.1 PDB: 1pwh_A* 1pwe_A*
Length = 372
Score = 22.6 bits (49), Expect = 9.4
Identities = 5/13 (38%), Positives = 8/13 (61%)
Query: 34 GATVIIVGDNFFD 46
GAT +VG+ +
Sbjct: 139 GATCKVVGELLDE 151
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
0.323 0.141 0.435
Gapped
Lambda K H
0.267 0.0644 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 948,851
Number of extensions: 43585
Number of successful extensions: 113
Number of sequences better than 10.0: 1
Number of HSP's gapped: 113
Number of HSP's successfully gapped: 24
Length of query: 59
Length of database: 6,701,793
Length adjustment: 30
Effective length of query: 29
Effective length of database: 5,864,163
Effective search space: 170060727
Effective search space used: 170060727
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.6 bits)