RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16320
(214 letters)
>4ag4_A Epithelial discoidin domain-containing receptor 1; immune
system-transferase complex; HET: NAG; 2.80A {Homo
sapiens}
Length = 351
Score = 190 bits (483), Expect = 9e-60
Identities = 66/187 (35%), Positives = 94/187 (50%), Gaps = 9/187 (4%)
Query: 29 NQGLVSYTMPQGEVKTFDSHSAHSSSLDLTDKTYDGVVEDGLLSGGLGQLTDGQIGADNF 88
GL+SYT P G+ D TYDG GL GGLGQL DG +G D+F
Sbjct: 163 RDGLLSYTAPVGQTMYLSEAVYL------NDSTYDGHTVGGLQYGGLGQLADGVVGLDDF 216
Query: 89 KMDAK-SRNKGYEWIGWRNESFPYGKPVEMVFEFDRVRNFTAMHLHINNYYSKDIQVFSH 147
+ + GY+++GW N SF G VEM FEFDR+R F AM +H NN ++ ++
Sbjct: 217 RKSQELRVWPGYDYVGWSNHSFSSG-YVEMEFEFDRLRAFQAMQVHCNNMHTLGARLPGG 275
Query: 148 ANVYLSLG-GRQFSLEPIQFTYMPDTIMEKARNVTIKLHHKQAKYLKLQMYFSNKWLLIS 206
G + EP++ + +AR V++ L + A++L+ + F+ WLL S
Sbjct: 276 VECRFRRGPAMAWEGEPMRHNLGGNLGDPRARAVSVPLGGRVARFLQCRFLFAGPWLLFS 335
Query: 207 EIMFQSV 213
EI F S
Sbjct: 336 EISFISD 342
>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 = 8e-04
Identities = 25/139 (17%), Positives = 48/139 (34%), Gaps = 52/139 (37%)
Query: 101 WIGWR-NESFPY----------------GKPVEMVFEFDRVRNFTAMHL--HI---NNYY 138
+IG R E++P G P M+ + N T + ++ N++
Sbjct: 305 FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML----SISNLTQEQVQDYVNKTNSHL 360
Query: 139 SKDIQVFSHANVYLSL--GGRQF-------SLEPIQFTYMPDTIMEKARNVTIKLHHKQA 189
Q V +SL G + SL + T R Q+
Sbjct: 361 PAGKQ------VEISLVNGAKNLVVSGPPQSLYGLNLTL---------RKAKAPSGLDQS 405
Query: 190 K--YLKLQMYFSNKWLLIS 206
+ + + ++ FSN++L ++
Sbjct: 406 RIPFSERKLKFSNRFLPVA 424
Score = 28.9 bits (64), Expect = 1.6
Identities = 27/172 (15%), Positives = 49/172 (28%), Gaps = 66/172 (38%)
Query: 48 HS--------AHSSSLDLTD---------KTYDGVV---EDGLLSGGLGQLTDGQIGADN 87
HS + + + + T V E G + G+ + G++ A
Sbjct: 1762 HSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAAS- 1820
Query: 88 FKMDAKSRNKGYEWIGWRNESFPYGKPVEMVFEFDRVRNFTAMHLHINNYYSKDIQVFSH 147
++ E +G R G VE+V NY ++ Q
Sbjct: 1821 --FSQEALQYVVERVGKRT-----GWLVEIV-----------------NYNVENQQY--- 1853
Query: 148 ANVYLSLGGRQFSLEPIQFTYMPDTIMEKARNVTIKLHHKQAKYLKLQMYFS 199
V G +L+ NV + ++ ++LQ S
Sbjct: 1854 --V---AAGDLRALD-------------TVTNVLNFIKLQKIDIIELQKSLS 1887
>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 = 34.0 bits (77), Expect = 0.024
Identities = 22/90 (24%), Positives = 35/90 (38%), Gaps = 12/90 (13%)
Query: 83 IGADNFKMDAKSRNKGYEWIGWRNESFPYGKPV-EMVFEFDR-VRNFTAMHLHINNYYSK 140
+ NF ++K E G+ + EM D+ + + I Y +K
Sbjct: 206 LTGQNFTSESKVV---------FTEKTTDGQQIWEMEATVDKDKSQPNMLFVEIPEYRNK 256
Query: 141 DIQVFSHANVYLSLGGRQFSLEPIQFTYMP 170
I+ N Y+ G R+ S +P FTY P
Sbjct: 257 HIRTPVKVNFYVINGKRKRS-QPQHFTYHP 285
>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 = 0.052
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 137 YYSKDIQVFSHANVYLSLGGRQFSLEPIQFTYMPD 171
Y+ + I + +Y+ + + FTY PD
Sbjct: 248 YHDQHITLPVSVGIYVVTNAGRSH-DVQPFTYTPD 281
>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 = 30.8 bits (69), Expect = 0.13
Identities = 17/69 (24%), Positives = 26/69 (37%), Gaps = 3/69 (4%)
Query: 107 ESFPYGKPV-EMVFEFDR-VRNFTAMHLHINNYYSKDIQVFSHANVYLSLGGRQFSLEPI 164
E P GK E +R N + L + Y +K + Y+S G R+ S
Sbjct: 44 ERGPDGKLQWEEEATVNRLQSNEVTLTLTVPEYSNKRVSRPVQVYFYVSNGRRKRS-PTQ 102
Query: 165 QFTYMPDTI 173
F ++P
Sbjct: 103 SFRFLPVIC 111
>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 = 29.9 bits (66), Expect = 0.38
Identities = 7/26 (26%), Positives = 11/26 (42%), Gaps = 4/26 (15%)
Query: 158 QFSLEPIQFTYMPDTIMEKARNVTIK 183
Q SL+ Y D+ A T++
Sbjct: 26 QASLKL----YADDSAPALAIKATME 47
>3f7f_A Nucleoporin NUP120; nuclear pore complex, macromolecular assembly,
membrane coat, nucleocytoplasmic transport,
beta-propeller; 2.60A {Saccharomyces cerevisiae} PDB:
3h7n_A 3hxr_A
Length = 729
Score = 29.0 bits (64), Expect = 1.3
Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 171 DTIMEKARNVTIKLHHKQAKYLKLQMYFSNKWLLISEIMFQSVQ 214
I + + + LH+KQ +L L +Y +K LL ++ S +
Sbjct: 644 TEIFGQHISTLLDLHYKQ--FLLLNLYRQDKCLLAEVLLKDSSE 685
>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 = 28.5 bits (63), Expect = 1.8
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 137 YYSKDIQVFSHANVYLSLGGRQFSLEPIQFTYMPDT 172
Y +Q ++ L + EP++F Y+PDT
Sbjct: 239 YADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLPDT 274
>1u36_A DNA-binding, nuclear factor NF-kappa-B P105 subunit; transcription
factor, NF-KB, dimerization domain, intertwined folding;
1.89A {Mus musculus} SCOP: b.1.18.1 PDB: 1u3z_A 1u3y_A
3jv4_B 1bfs_A 1u3j_A 1u42_A 1u41_A 1nfi_B
Length = 106
Score = 27.1 bits (60), Expect = 2.1
Identities = 15/67 (22%), Positives = 21/67 (31%), Gaps = 2/67 (2%)
Query: 107 ESFPYGKPVEMVFEFDR--VRNFTAMHLHINNYYSKDIQVFSHANVYLSLGGRQFSLEPI 164
E G E +F V A+ Y +I + V L + EP
Sbjct: 40 EEEENGGVWEGFGDFSPTDVHRQFAICFKTPKYKDVNITKPASVFVQLRRKSDLETSEPK 99
Query: 165 QFTYMPD 171
F Y P+
Sbjct: 100 PFLYYPE 106
>1hc1_A Arthropodan hemocyanin; oxygen transport; 3.20A {Panulirus
interruptus} SCOP: a.85.1.1 a.86.1.1 b.1.18.3 PDB:
1hc2_A 1hc3_A 1hc4_A 1hc5_A 1hc6_A 1hcy_A*
Length = 657
Score = 28.3 bits (63), Expect = 2.2
Identities = 6/43 (13%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 103 GWRNESFPYGKPVEMVFEFDRVRNFTAMHLHINNYYSKDIQVF 145
G E++P +P + + +R + ++N +++
Sbjct: 610 GVHGEAYPDNRP--LGYPLERRIPDERVIDGVSNIKHVVVKIV 650
>1nfk_A Protein (nuclear factor kappa-B (NF-KB)); NF-KB P50, complex
(transcription factor/DNA), transcription/DNA complex;
HET: DNA; 2.30A {Mus musculus} SCOP: b.1.18.1 b.2.5.3
PDB: 2v2t_B 1ooa_A 1lei_B* 1le9_B 1le5_B* 2i9t_B 1vkx_B*
3gut_B 2o61_B
Length = 325
Score = 27.8 bits (61), Expect = 2.3
Identities = 15/68 (22%), Positives = 21/68 (30%), Gaps = 2/68 (2%)
Query: 107 ESFPYGKPVEMVFEFDR--VRNFTAMHLHINNYYSKDIQVFSHANVYLSLGGRQFSLEPI 164
E G E +F V A+ Y +I + V L + EP
Sbjct: 246 EEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDVNITKPASVFVQLRRKSDLETSEPK 305
Query: 165 QFTYMPDT 172
F Y P+
Sbjct: 306 PFLYYPEI 313
>1ikn_C P50D, protein (NF-kappa-B P50D subunit); transcription factor,
IKB/NFKB complex; 2.30A {Mus musculus} SCOP: b.1.18.1
Length = 119
Score = 26.8 bits (59), Expect = 2.9
Identities = 15/68 (22%), Positives = 21/68 (30%), Gaps = 2/68 (2%)
Query: 107 ESFPYGKPVEMVFEFDR--VRNFTAMHLHINNYYSKDIQVFSHANVYLSLGGRQFSLEPI 164
E G E +F V A+ Y +I + V L + EP
Sbjct: 40 EEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDVNITKPASVFVQLRRKSDLETSEPK 99
Query: 165 QFTYMPDT 172
F Y P+
Sbjct: 100 PFLYYPEI 107
>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 = 27.9 bits (61), Expect = 3.2
Identities = 13/101 (12%), Positives = 30/101 (29%), Gaps = 19/101 (18%)
Query: 87 NFK-MDAKSRNKGYEWIGWRNESFPYGKPVEMVFEFDRVRNFTAMHLHINNYYSKDIQVF 145
+F+ ++ K R+ W G + + + + + + I F
Sbjct: 499 DFRFLEQKIRHDSTAWNA-------SGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF 551
Query: 146 SH---ANVYLSLGGRQFSLEPIQFTYMPDT---IMEKARNV 180
N+ S + L ++ M + E + V
Sbjct: 552 LPKIEENLICS---KYTDL--LRIALMAEDEAIFEEAHKQV 587
>1svc_P Protein (nuclear factor kappa-B (NF-KB)); DNA-binding,
transcription regulation, activator, nuclear protein,
phosphorylation, repeat, DNA; HET: DNA; 2.60A {Homo
sapiens} SCOP: b.1.18.1 b.2.5.3
Length = 365
Score = 27.1 bits (59), Expect = 4.3
Identities = 15/68 (22%), Positives = 21/68 (30%), Gaps = 2/68 (2%)
Query: 107 ESFPYGKPVEMVFEFDR--VRNFTAMHLHINNYYSKDIQVFSHANVYLSLGGRQFSLEPI 164
E G E +F V A+ Y +I + V L + EP
Sbjct: 286 EEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDINITKPASVFVQLRRKSDLETSEPK 345
Query: 165 QFTYMPDT 172
F Y P+
Sbjct: 346 PFLYYPEI 353
>1gji_A C-REL protein, C-REL proto-oncogene protein; NF-KB/DNA complex,
transcription factor, C-REL homodimer, transcription/DNA
complex; 2.85A {Gallus gallus} SCOP: b.1.18.1 b.2.5.3
Length = 275
Score = 26.9 bits (59), Expect = 5.1
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 138 YSKDIQVFSHANVYLSLGGRQFSLEPIQFTYMPD 171
+ +DI + L Q EP+ F Y+PD
Sbjct: 242 FLRDITEPITVKMQLRRPSDQEVSEPMDFRYLPD 275
>1my7_A NF-kappab P65 (RELA) subunit; immunoglobulin, IG, beta-sandwich,
beta-sheet, homodimerdna- binding, transcription
regulation, activator; 1.49A {Mus musculus} SCOP:
b.1.18.1 PDB: 1my5_A 1bft_A
Length = 114
Score = 25.6 bits (56), Expect = 6.5
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 6/39 (15%)
Query: 137 YYSKDIQVFSHANVYLSL---GGRQFSLEPIQFTYMPDT 172
Y +Q + V + L R+ S EP++F Y+PDT
Sbjct: 67 YADPSLQ--APVRVSMQLRRPSDRELS-EPMEFQYLPDT 102
>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus
abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A*
1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*
Length = 410
Score = 26.4 bits (59), Expect = 7.4
Identities = 6/19 (31%), Positives = 10/19 (52%)
Query: 175 EKARNVTIKLHHKQAKYLK 193
E R +TIK+ A+ +
Sbjct: 41 ELRRGITIKIGFADAEIRR 59
>2lfu_A GNA2132; beta-barrel, antigen, membrane protein; NMR {Neisseria
meningitidis}
Length = 193
Score = 26.2 bits (57), Expect = 8.3
Identities = 21/101 (20%), Positives = 31/101 (30%), Gaps = 13/101 (12%)
Query: 8 GADEEQNPGKVHFLLG--ADEEQNQGLVSYTMPQGEVKTFDSHSAHSSSL--------DL 57
GA++ + G A E G Y GEV F + + D
Sbjct: 48 GAEKLPGGSYALRVQGEPAKGEMLAGTAVYN---GEVLHFHTENGRPYPTRGRFAAKVDF 104
Query: 58 TDKTYDGVVEDGLLSGGLGQLTDGQIGADNFKMDAKSRNKG 98
K+ DG+++ G Q I + FK G
Sbjct: 105 GSKSVDGIIDSGDDLHMGTQKFKAAIDGNGFKGTWTENGGG 145
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
0.318 0.135 0.404
Gapped
Lambda K H
0.267 0.0501 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,280,990
Number of extensions: 183929
Number of successful extensions: 363
Number of sequences better than 10.0: 1
Number of HSP's gapped: 360
Number of HSP's successfully gapped: 21
Length of query: 214
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 124
Effective length of database: 4,188,903
Effective search space: 519423972
Effective search space used: 519423972
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.5 bits)