RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11902
(336 letters)
>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 = 210 bits (536), Expect = 7e-67
Identities = 122/258 (47%), Positives = 153/258 (59%), Gaps = 24/258 (9%)
Query: 79 SASISYSVRDPSVYLEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGYNGPATL 138
Y V+ L+I QPE QHRARY TEGSRG+VKD++ GFP VKL G+N P L
Sbjct: 5 MLCGQYPVKSEGKELKIVVQPETQHRARYLTEGSRGSVKDRTQQGFPTVKLEGHNEPVVL 64
Query: 139 EVFIGTDQGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGI 198
+VF+G D G++ PH FYQACRV G+N+TPC E +GT +I++ DPS +M++ DCVGI
Sbjct: 65 QVFVGNDSGRVKPHGFYQACRVTGRNTTPCKEVDIEGTTVIEVGLDPSNNMTLAVDCVGI 124
Query: 199 LKERNVDVEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPG 258
LK RN DVE R A +KK+STR R+VFR I+ LQ S PI+C QP G
Sbjct: 125 LKLRNADVEARIGI---AGSKKKSTRARLVFRVNIMRKDGSTL-TLQTPSSPILCTQPAG 180
Query: 259 VPEICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMVA 318
VPEI KKSL SC V G E+F ++GKNFLK T+V FQ+ V+
Sbjct: 181 VPEILKKSLHSCSVKGEEEVF--------------------LIGKNFLKGTKVIFQENVS 220
Query: 319 DICQWEESVLPDKEFLQQ 336
D W+ D E Q
Sbjct: 221 DENSWKSEAEIDMELFHQ 238
>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 = 186 bits (473), Expect = 2e-57
Identities = 94/257 (36%), Positives = 129/257 (50%), Gaps = 32/257 (12%)
Query: 87 RDPSVYLEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGYNG--PATLEVFIGT 144
+ S L I QP+ HRA Y+TEGSRGAVK +G G PVV+L GY P L++FIGT
Sbjct: 12 QSGSYELRIEVQPKPHHRAHYETEGSRGAVKAPTG-GHPVVQLHGYMENKPLGLQIFIGT 70
Query: 145 -DQGKIAPHMFYQACRVAGKNSTPC-LEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKER 202
D+ + PH FYQ R+ GK T EK T +++I +P +M T DC GILK R
Sbjct: 71 ADERILKPHAFYQVHRITGKTVTTTSYEKIVGNTKVLEIPLEPKNNMRATIDCAGILKLR 130
Query: 203 NVDVEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPG--VP 260
N D+E R E +++TR R+VFR I R LQ AS+PI C+Q +P
Sbjct: 131 NADIELRKGE---TDIGRKNTRVRLVFRVHIPESSGR-IVSLQTASNPIECSQRSAHELP 186
Query: 261 EICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMVAD- 319
+ ++ SC V GG ++ + G+NF +++V F + D
Sbjct: 187 MVERQDTDSCLVYGGQQMI--------------------LTGQNFTSESKVVFTEKTTDG 226
Query: 320 ICQWEESVLPDKEFLQQ 336
WE DK+ Q
Sbjct: 227 QQIWEMEATVDKDKSQP 243
>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 = 159 bits (402), Expect = 1e-46
Identities = 55/253 (21%), Positives = 88/253 (34%), Gaps = 42/253 (16%)
Query: 92 YLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEVFIGTD 145
Y+EI QP+Q+ R RY+ EG G + P +K+ GY GP T+ + + T
Sbjct: 2 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 61
Query: 146 QGKIAPH---MFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKER 202
PH + + CR + C ++ + I +D+ ++
Sbjct: 62 DPPHRPHPHELVGKDCRDGYYEADLCPDRSIHSFQNLGIQCVKKRDLEQAISQ--RIQTN 119
Query: 203 NVDVEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPGVPE- 261
N E + R+ F+ T+ P R + V SHPI N+ P E
Sbjct: 120 NNPFHVPIEEQRGDYD---LNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDNRAPNTAEL 176
Query: 262 -ICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKD-TQVKFQKMVAD 319
IC+ + S GG E+F +L K+ +V F
Sbjct: 177 KICRVNRNSGSCLGGDEIF--------------------LLCDKVQKEDIEVYFTGP--- 213
Query: 320 ICQWEESVLPDKE 332
WE +
Sbjct: 214 --GWEARGSFSQA 224
>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 = 157 bits (397), Expect = 4e-46
Identities = 53/259 (20%), Positives = 94/259 (36%), Gaps = 42/259 (16%)
Query: 92 YLEITSQPEQQ-HRARYQTEG-SRGAVKDKSGNG----FPVVKLVGYNGPATLEVFIGTD 145
Y+EI QP Q+ R RY+ EG S G++ + FP ++++ Y G + + T
Sbjct: 2 YIEIFEQPRQRGMRFRYKCEGRSAGSIPGEHSTDNNKTFPSIQILNYFGKVKIRTTLVTK 61
Query: 146 QGKIAPH---MFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKER 202
PH + + CR + E++ + I KD+ + + + +
Sbjct: 62 NEPYKPHPHDLVGKDCRDGYYEAEFGPERRVLSFQNLGIQCVKKKDLK---ESISLRISK 118
Query: 203 NVDVEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVL-QVASHPIMCNQPPGVPE 261
++ E ++ R+ F+ + T L + S+PI N+ P E
Sbjct: 119 KINPFNVPEEQLHNIDEYDLNVVRLCFQAFLPDEHGNYTLALPPLISNPIYDNRAPNTAE 178
Query: 262 --ICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLK-DTQVKFQKMVA 318
IC+ + V GG E+F IL K D +V+F
Sbjct: 179 LRICRVNKNCGSVKGGDEIF--------------------ILCDKVQKDDIEVRFVLD-- 216
Query: 319 DICQWE-ESVLPDKEFLQQ 336
WE + + +Q
Sbjct: 217 ---NWEAKGSFSQADVHRQ 232
>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 = 157 bits (399), Expect = 4e-44
Identities = 55/253 (21%), Positives = 89/253 (35%), Gaps = 42/253 (16%)
Query: 92 YLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEVFIGTD 145
Y+EI QP+Q+ R RY+ EG G + P +K+ GY GP T+ + + T
Sbjct: 3 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 62
Query: 146 QGKIAPH---MFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKER 202
PH + + CR + C ++ + I +D+ ++
Sbjct: 63 DPPHRPHPHELVGKDCRDGFYEAELCPDRCIHSFQNLGIQCVKKRDLEQAISQ--RIQTN 120
Query: 203 NVDVEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPGVPE- 261
N + E + R+ F+ T+ P R + V SHPI N+ P E
Sbjct: 121 NNPFQVPIEEQRGDYD---LNAVRLCFQVTVRDPSGRPLRLPPVLSHPIFDNRAPNTAEL 177
Query: 262 -ICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKD-TQVKFQKMVAD 319
IC+ + S GG E+F +L K+ +V F
Sbjct: 178 KICRVNRNSGSCLGGDEIF--------------------LLCDKVQKEDIEVYFTGP--- 214
Query: 320 ICQWEESVLPDKE 332
WE +
Sbjct: 215 --GWEARGSFSQA 225
>1a3q_A Protein (nuclear factor kappa-B P52); transcription factor, immune
response, DNA-protein complex, transcription/DNA
complex; HET: DNA; 2.10A {Homo sapiens} SCOP: b.1.18.1
b.2.5.3 PDB: 3do7_B 3jv6_B 3jv5_A
Length = 285
Score = 137 bits (346), Expect = 1e-38
Identities = 58/266 (21%), Positives = 95/266 (35%), Gaps = 48/266 (18%)
Query: 92 YLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEVFIGTD 145
YL I QP+Q+ R RY EG GA +K +P VK+ Y GPA +EV + T
Sbjct: 3 YLVIVEQPKQRGFRFRYGCEGPSHGGLPGASSEKGRKTYPTVKICNYEGPAKIEVDLVTH 62
Query: 146 QGKIAPH---MFYQACRVAGKNSTPCLEK----KTDGTVIIDIDFDPSKDMSVTCDCVGI 198
H + + C G + K + + ++ + +
Sbjct: 63 SDPPRAHAHSLVGKQCSELGICAVSVGPKDMTAQFNNLGVLHVTKKNMMGTMIQKLQRQR 122
Query: 199 LKERNVDV---EQRFPEDSSAKNKK--RSTRCRMVFRTTIIHPGTRETEVLQVASHPIMC 253
L+ R + EQR E + + KK + R+ F + R + V S PI
Sbjct: 123 LRSRPQGLTEAEQRELEQEAKELKKVMDLSIVRLRFSAFL-----RSLPLKPVISQPIHD 177
Query: 254 NQPPGVPE--ICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKD-TQ 310
++ PG I + T+ V GG E++ +L KD +
Sbjct: 178 SKSPGASNLKISRMDKTAGSVRGGDEVY--------------------LLCDKVQKDDIE 217
Query: 311 VKFQKMVADICQWEESVLPDKEFLQQ 336
V+F + D W+ + +
Sbjct: 218 VRFYED--DENGWQAFGDFSPTDVHK 241
>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 = 137 bits (345), Expect = 2e-38
Identities = 49/265 (18%), Positives = 83/265 (31%), Gaps = 53/265 (20%)
Query: 87 RDPSVYLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEV 140
P YL IT QP+Q+ R RY+ EG G ++ P ++L G +EV
Sbjct: 9 PCPRPYLVITEQPKQRGMRFRYECEGRSAGSILGESSTEASKTQPAIELRDCGGLREVEV 68
Query: 141 FIGTDQGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILK 200
K PH + + GK+ T DG + + S S + ++
Sbjct: 69 -TACLVWKDWPHRVH-PHSLVGKDCT-------DGVCRVRLRPHVSPRHSFNNLGIQCVR 119
Query: 201 ERNVDVEQRFP----------EDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHP 250
++ ++ + R+ F+ + + + S P
Sbjct: 120 KKEIEAAIERKIQLGIDPYNAGSLKNHQEVDMNVVRICFQASYRDQQGHLHRMDPILSEP 179
Query: 251 IMCNQPPGVPE--ICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKD 308
+ + E IC+ + S P TGG EL+ +L K+
Sbjct: 180 VYDKKSTNTSELRICRINKESGPCTGGEELY--------------------LLCDKVQKE 219
Query: 309 -TQVKFQKMVADICQWEESVLPDKE 332
V F WE +
Sbjct: 220 DISVVFSTAS-----WEGRADFSQA 239
>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 = 124 bits (311), Expect = 4e-33
Identities = 51/281 (18%), Positives = 87/281 (30%), Gaps = 60/281 (21%)
Query: 92 YLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEVFIGTD 145
YL+I QP+Q+ R RY EG GA +K+ +P VK+ Y GPA + V + T+
Sbjct: 3 YLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTN 62
Query: 146 QGKIAPHMFYQACR----------VAGKNSTPCLE-------KKTDGTVIIDIDFDPSKD 188
I H + K+ K ++ +
Sbjct: 63 GKNIHLHAHSLVGKHCEDGVCTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEACI 122
Query: 189 MSVTCDCVGILKERNVDVEQRFPEDSSAKNKKRSTRC-------------RMVFRTTIIH 235
+ + E + + K+ + R++F +
Sbjct: 123 RGYNPGLLVHSDLAYLQAEGGGDRQLTDREKEIIRQAAVQQTKEMDLSVVRLMFTAFLPD 182
Query: 236 PGTRETEVLQ-VASHPIMCNQPPGVPE--ICKKSLTSCPVTGGAELFKVSPTDTIAGKGL 292
T L+ V S I ++ P I + T+ VTGG E++
Sbjct: 183 STGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIY------------- 229
Query: 293 LQDHPDAILGKNFLK-DTQVKFQKMVADICQWEESVLPDKE 332
+L K D Q++F + + WE
Sbjct: 230 -------LLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPT 263
>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 = 124 bits (311), Expect = 9e-33
Identities = 58/285 (20%), Positives = 92/285 (32%), Gaps = 68/285 (23%)
Query: 92 YLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEVFIGTD 145
YL+I QP+Q+ R RY EG GA +K+ +P VK+ Y GPA + V + T+
Sbjct: 43 YLQILEQPKQRGFRFRYVAEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTN 102
Query: 146 QGKIAPHMFYQACRVAGKNST----------------------PCLEKK----TDGTVII 179
I H A + GK+ + KK T +
Sbjct: 103 GKNIHLH----AHSLVGKHCEDGICTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMT 158
Query: 180 DIDFDPSK-DMSVTCDCVGILKERNVDVEQRFPEDSSAKNKKRSTR-------CRMVFRT 231
+ + V D + E D + E + R++F
Sbjct: 159 EACIRGYNPGLLVHPDLAYLQAEGGGDRQLGDREKELIRQAALQQTKEMDLSVVRLMFTA 218
Query: 232 TIIHPGTRETEVLQ-VASHPIMCNQPPGVPE--ICKKSLTSCPVTGGAELFKVSPTDTIA 288
+ T L+ V S I ++ P I + T+ VTGG E++
Sbjct: 219 FLPDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIY--------- 269
Query: 289 GKGLLQDHPDAILGKNFLK-DTQVKFQKMVADICQWEESVLPDKE 332
+L K D Q++F + + WE
Sbjct: 270 -----------LLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPT 303
>1bvo_A Transcription factor gambif1; REL protein, morphogen, immunity,
development, insects, complex (transcription
factor/DNA); HET: DNA; 2.70A {Anopheles gambiae} SCOP:
b.2.5.3
Length = 175
Score = 62.8 bits (152), Expect = 5e-12
Identities = 43/183 (23%), Positives = 62/183 (33%), Gaps = 36/183 (19%)
Query: 92 YLEITSQPEQQH-RARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEV-FIGT 144
Y+EIT QP + R RY+ EG G FP +++ GY G A + V +
Sbjct: 2 YVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTK 61
Query: 145 DQGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNV 204
+ + PH + GK G ++I S MS T + +GI +
Sbjct: 62 EGPEHKPH----PHNLVGKEGC------KKGVCTVEI---NSTTMSYTFNNLGIQCVKKK 108
Query: 205 DV----EQRFPEDSSAKNKKRSTRC----------RMVFRTTIIHPGT-RETEVLQ-VAS 248
DV R R+ F+ + R TE L V S
Sbjct: 109 DVEEALRLRQEIRVDPFRTGFGHAKEPGSIDLNAVRLCFQVFLEGQQRGRFTEPLTPVVS 168
Query: 249 HPI 251
I
Sbjct: 169 DII 171
>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 = 58.5 bits (141), Expect = 4e-11
Identities = 21/84 (25%), Positives = 34/84 (40%), Gaps = 21/84 (25%)
Query: 254 NQPPGVPEICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKF 313
+ G+P++ S ++C V GG EL + G NFL D++V F
Sbjct: 3 SGSSGLPQVEAYSPSACSVRGGEELV--------------------LTGSNFLPDSKVVF 42
Query: 314 QKMVAD-ICQWEESVLPDKEFLQQ 336
+ D QWEE ++ +
Sbjct: 43 IERGPDGKLQWEEEATVNRLQSNE 66
>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 = 50.6 bits (121), Expect = 2e-08
Identities = 14/76 (18%), Positives = 24/76 (31%), Gaps = 21/76 (27%)
Query: 258 GVPEICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLK-DTQVKFQKM 316
+I + T+ VTGG E++ +L K D Q++F +
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIW--------------------LLCDKVQKDDIQIRFYEE 41
Query: 317 VADICQWEESVLPDKE 332
+ WE
Sbjct: 42 EENGGVWEGFGDFSPT 57
>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 = 49.9 bits (119), Expect = 5e-08
Identities = 14/76 (18%), Positives = 24/76 (31%), Gaps = 21/76 (27%)
Query: 258 GVPEICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLK-DTQVKFQKM 316
+I + T+ VTGG E++ +L K D Q++F +
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIY--------------------LLCDKVQKDDIQIRFYEE 41
Query: 317 VADICQWEESVLPDKE 332
+ WE
Sbjct: 42 EENGGVWEGFGDFSPT 57
>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 = 44.8 bits (106), Expect = 2e-06
Identities = 17/89 (19%), Positives = 26/89 (29%), Gaps = 27/89 (30%)
Query: 250 PIMCNQPPGVPEICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKD- 308
P + IC+ + S P TGG EL+ +L K+
Sbjct: 3 PRGSHMNTSELRICRINKESGPCTGGEELY--------------------LLCDKVQKED 42
Query: 309 TQVKFQKMVADICQWE-ESVLPDKEFLQQ 336
V F WE + + +Q
Sbjct: 43 ISVVFSTAS-----WEGRADFSQADVHRQ 66
>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 = 44.5 bits (104), Expect = 4e-05
Identities = 49/352 (13%), Positives = 97/352 (27%), Gaps = 87/352 (24%)
Query: 21 RRRPTPTVKV---ESDNANANFTFPQNPLPLCSMASSSSVAPTRPGRRLYGKRLSNITAQ 77
+ V+ E N F L S + P+ R+Y ++ +
Sbjct: 72 LSKQEEMVQKFVEEVLRINYKF--------LMSPIKTEQRQPSMM-TRMYIEQRDRLYND 122
Query: 78 NSASISYSVRDPSVYLEITSQPEQQHRARYQT-EGSRGAVKDKSGNGFPVVKLVGYNGPA 136
N Y+V YL++ + A+ +G G+ K+ V L
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS--GKT-----WVALDVCLSYK 175
Query: 137 TLEVFIGTDQGKIAPHMFYQACRVAGKNSTP--CLEKKTDGTVIIDIDFDPSKDMSVTCD 194
+F+ ++P LE ID ++ D S
Sbjct: 176 VQCKMDF--------KIFWLN---LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN-- 222
Query: 195 CVGILKERNVDVEQRFPEDSSAKNKKRS-----------------TRCRMVFRTTIIHPG 237
+K R ++ +K + C+++ T
Sbjct: 223 ----IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILL-T------ 271
Query: 238 TRETEVL-----QVASHPIMCNQPPGVPE-----ICKKSLTSCPVTG-GAELFKVSPTDT 286
TR +V +H + + + + K L C E+ +P
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCRPQDLPREVLTTNPR-R 329
Query: 287 IAGKG-LLQDHPDAILGKNFLKDTQVKFQKMVADICQWEESV--LPDKEFLQ 335
++ ++D N+ K ++ E S+ L E+ +
Sbjct: 330 LSIIAESIRDGLATW--DNWKHVNCDKLTTII------ESSLNVLEPAEYRK 373
Score = 40.6 bits (94), Expect = 7e-04
Identities = 36/255 (14%), Positives = 77/255 (30%), Gaps = 72/255 (28%)
Query: 15 DPPDFKRRRPTPTVKVESDNANANFT----FPQN-PLP---LCSM-ASSSSVAPTRPGRR 65
+P ++++ F FP + +P L + +
Sbjct: 367 EPAEYRKM----------------FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK 410
Query: 66 LYGKRLSNITAQNSASISYSVRDPSVYLEITSQPEQQ---HR---ARYQTEGSRGAVKDK 119
L+ L + + S+ PS+YLE+ + E + HR Y K
Sbjct: 411 LHKYSLVE---KQPKESTISI--PSIYLELKVKLENEYALHRSIVDHYN------IPKTF 459
Query: 120 SGNGFPVVKLVGYNGPATLEVFIGTDQGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVII 179
+ L Y IG H+ + + V +
Sbjct: 460 DSDDLIPPYLDQY-----FYSHIGH-------HLK--NIEHPERMTL--FRM-----VFL 498
Query: 180 DIDFDPSK--DMSVTCDCVGILKERNVDVE--QRFPEDSSAKNKKR-STRCRMVFR--TT 232
D F K S + G + ++ + + D+ K ++ + + +
Sbjct: 499 DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEEN 558
Query: 233 IIHPGTRETEVLQVA 247
+I ++ T++L++A
Sbjct: 559 LIC--SKYTDLLRIA 571
Score = 32.5 bits (73), Expect = 0.22
Identities = 27/164 (16%), Positives = 48/164 (29%), Gaps = 50/164 (30%)
Query: 196 VGILKERNVDVEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETE---VLQVASHPIM 252
L + ++ Q+F E+ N K F + I R+ + + +
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRINYK--------FLMSPIKTEQRQPSMMTRMYIEQRDRL 119
Query: 253 CNQPP-----GVPEI-CKKSLTSCPVTGGAELFKVSPTDTI-------AGKGLLQDHPDA 299
N V + L L ++ P + +GK
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQA-------LLELRPAKNVLIDGVLGSGK--------T 164
Query: 300 ILGKNFLKDTQVKFQKMVADI-------CQWEESVLPDKEFLQQ 336
+ + +V+ KM I C E+VL E LQ+
Sbjct: 165 WVALDVCLSYKVQ-CKMDFKIFWLNLKNCNSPETVL---EMLQK 204
>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 = 37.5 bits (87), Expect = 8e-04
Identities = 13/74 (17%), Positives = 21/74 (28%), Gaps = 26/74 (35%)
Query: 260 PEICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKD-TQVKFQKMVA 318
+IC+ + S GG E+F +L K+ +V F
Sbjct: 4 LKICRVNRRSGSCLGGDEIF--------------------LLCDKVQKEDIEVYFTGP-- 41
Query: 319 DICQWEESVLPDKE 332
WE +
Sbjct: 42 ---GWEARGSFSQA 52
>1oy3_C Transcription factor P65; protein-protein complex, transcription
factors, nuclear localization, DNA binding protein;
2.05A {Mus musculus} SCOP: b.1.18.1 PDB: 1k3z_A
Length = 136
Score = 37.3 bits (86), Expect = 0.001
Identities = 14/74 (18%), Positives = 21/74 (28%), Gaps = 26/74 (35%)
Query: 260 PEICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLK-DTQVKFQKMVA 318
+IC+ + S GG E+F +L K D +V F
Sbjct: 4 LKICRVNRNSGSCLGGDEIF--------------------LLCDKVQKEDIEVYFTGP-- 41
Query: 319 DICQWEESVLPDKE 332
WE +
Sbjct: 42 ---GWEARGSFSQA 52
>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 = 0.049
Identities = 40/276 (14%), Positives = 77/276 (27%), Gaps = 102/276 (36%)
Query: 123 GFPVVKLVGYNGPATLEVFIGTDQGK-IA---PHMFYQACRVAGKNSTPCLEKKTDGTVI 178
GF ++ +V N P L + G ++GK I M ++ + ++ + +
Sbjct: 1658 GFSILDIV-INNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHS-- 1714
Query: 179 IDIDFDPSKD--------------MSVTCDCVGILKERNVDVEQRFPEDS---------- 214
F K M LK + + P D+
Sbjct: 1715 TSYTFRSEKGLLSATQFTQPALTLMEKA--AFEDLKSKGL-----IPADATFAGHSLGEY 1767
Query: 215 SAKNKKR----------STRCRMVF-RTTIIHPGTRETEVLQVA--------SHPIMCNQ 255
+A + +VF R G +QVA S+ M
Sbjct: 1768 AA-----LASLADVMSIESLVEVVFYR------G----MTMQVAVPRDELGRSNYGMIAI 1812
Query: 256 PPG--VPEICKKSLTSCPVTGGAELFKV-------SPTDT--IAGKGLLQDHPDAI--LG 302
PG +++L G + AG A+ +
Sbjct: 1813 NPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAG------DLRALDTVT 1866
Query: 303 K--NFLKDTQVKFQKMVADICQWEESVLPD--KEFL 334
NF+K ++ ++ ++S+ + + L
Sbjct: 1867 NVLNFIKLQKIDIIEL-------QKSLSLEEVEGHL 1895
Score = 33.9 bits (77), Expect = 0.096
Identities = 55/332 (16%), Positives = 98/332 (29%), Gaps = 114/332 (34%)
Query: 4 SLELPTRH-----RTEDPPDFKRRRPTPTVKVESDNANANFTFPQNPLPLCS--MA-SSS 55
L +PT + ++ F + P PT +D+ P P L + SS
Sbjct: 19 VLLVPTASFFIASQLQE--QFNKILPEPTEGFAADDE------PTTPAELVGKFLGYVSS 70
Query: 56 SVAPTRPGRR---------------LYGKRLSNITAQNSASISYSVRDPSVYLEITSQPE 100
V P++ G+ L G +I ++ + + T+ +
Sbjct: 71 LVEPSKVGQFDQVLNLCLTEFENCYLEGN---DI---HALAAKLLQEND------TTLVK 118
Query: 101 QQH--RARYQTEGSRGAVKDKSGNG--FPVVKLVGYNGPATL-EVFIGTDQGKIAPHMFY 155
+ + DK N F V G A L +F G QG
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSALFRAVG----EGNAQLVAIFGG--QG-------- 164
Query: 156 QACRVAGKNSTPCLEK-----KTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVDVEQRF 210
N+ E+ +T ++ D+ + + + + L +D E+ F
Sbjct: 165 --------NTDDYFEELRDLYQTYHVLVGDL-------IKFSAETLSELIRTTLDAEKVF 209
Query: 211 PE--DSSAKNKKRSTRCRMVFRTTIIHPGTR-ETEVLQVASHPIMCNQPPGVPEICKKSL 267
+ + + +P + + L S PI C P I L
Sbjct: 210 TQGLN---------------ILEWLENPSNTPDKDYL--LSIPISC------PLIGVIQL 246
Query: 268 ----TSCPVTGG--AELFKVSPTDTIAGKGLL 293
+ + G EL T +GL+
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGLV 278
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 29.2 bits (65), Expect = 1.3
Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 10/51 (19%)
Query: 164 NSTPCLEKKTDGTVIIDIDFDPSK-DMSVTC-DCVGILKERNVDVEQRFPE 212
C E K I+ S+ D+ C C +L ++ VD E
Sbjct: 20 IVLTCPECKVYPPKIV---ERFSEGDV--VCALCGLVLSDKLVDTR---SE 62
>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 = 27.7 bits (61), Expect = 3.0
Identities = 15/73 (20%), Positives = 20/73 (27%), Gaps = 20/73 (27%)
Query: 256 PPGVPEICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQK 315
P I S + TGGA + I+G NF QV F
Sbjct: 2 MEATPCIKAISPSEGWTTGGATV--------------------IIIGDNFFDGLQVVFGT 41
Query: 316 MVADICQWEESVL 328
M+ +
Sbjct: 42 MLVWSELITPHAI 54
>2qkg_A Insecticidal delta-endotoxin CRY8EA1; 2.30A {Bacillus
thuringiensis} PDB: 3eb7_A
Length = 589
Score = 28.3 bits (62), Expect = 4.4
Identities = 15/83 (18%), Positives = 23/83 (27%), Gaps = 23/83 (27%)
Query: 60 TRPGRRLYGKRLSNITAQNSASI-SYSVRDPSVYLE-------ITSQPEQQHRARYQTEG 111
+P Y RL+ +T + + +S S IT P
Sbjct: 405 DQPNYEAYSHRLNYVTFIRNPDVPVFSWTHRSADRTNTVYSDKITQIP------------ 452
Query: 112 SRGAVKDKSGNGFPVVKLVGYNG 134
VK G ++ Y G
Sbjct: 453 ---VVKASDGPKPSANEVGHYLG 472
>2iqy_A Phosphatidylethanolamine-binding protein 1; alpha-beta, hydrolase
inhibitor; 1.40A {Rattus norvegicus} PDB: 2iqx_A 1b7a_A*
1a44_A 1beh_A 1bd9_A 2l7w_A 2qyq_A* 1kn3_A
Length = 190
Score = 26.9 bits (59), Expect = 6.9
Identities = 3/24 (12%), Positives = 9/24 (37%)
Query: 169 LEKKTDGTVIIDIDFDPSKDMSVT 192
+ + + ++D P + V
Sbjct: 8 ISQWAGPLSLQEVDEPPQHALRVD 31
>2i1a_A DNA damage-inducible protein DDI1; acid protease fold, dimer,
retroviral protease domain, protein turnover; HET: DNA;
2.30A {Saccharomyces cerevisiae}
Length = 148
Score = 26.6 bits (58), Expect = 7.4
Identities = 14/67 (20%), Positives = 23/67 (34%), Gaps = 9/67 (13%)
Query: 268 TSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVK--FQKMVADICQWEE 325
V + S T +L D ++G + LK ++ V I + E
Sbjct: 86 HQAQVKIETQYIPCSFT-------VLDTDIDVLIGLDMLKRHLACVDLKENVLRIAEVET 138
Query: 326 SVLPDKE 332
S L + E
Sbjct: 139 SFLSEAE 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
0.316 0.132 0.399
Gapped
Lambda K H
0.267 0.0551 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,023,910
Number of extensions: 291112
Number of successful extensions: 513
Number of sequences better than 10.0: 1
Number of HSP's gapped: 463
Number of HSP's successfully gapped: 27
Length of query: 336
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 242
Effective length of database: 4,077,219
Effective search space: 986686998
Effective search space used: 986686998
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 (21.6 bits)
S2: 57 (26.1 bits)