BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy12708
(695 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GJI|A Chain A, Crystal Structure Of C-Rel Bound To Dna
pdb|1GJI|B Chain B, Crystal Structure Of C-Rel Bound To Dna
Length = 275
Score = 200 bits (508), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 122/290 (42%), Positives = 168/290 (57%), Gaps = 25/290 (8%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PYIEI EQP+ + +RFRY+CEGRSAGSI G +ST K++P I I NY G + + V+
Sbjct: 1 PYIEIFEQPRQRGMRFRYKCEGRSAGSIPGEHSTDNNKTFPSIQILNYFGKVKIRTTLVT 60
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDI-QAFRLYLQFC 156
K+ PY+ HPH LV KD C +G + A SF NLGIQC+KKKD+ ++ L +
Sbjct: 61 KNEPYKPHPHDLVGKD-CRDGYYEAEFGPERRVLSFQNLGIQCVKKKDLKESISLRISKK 119
Query: 157 QRPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDN-VIKLEPVVSDIIYD 215
PFN + +N D DLN VRLCFQA+LP + N + L P++S+ IYD
Sbjct: 120 INPFNVPEEQ---------LHNIDEYDLNVVRLCFQAFLPDEHGNYTLALPPLISNPIYD 170
Query: 216 --AKTYSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VK 271
A ++L I ++ V G ++ ILCDKV KDDIEVRF + W+ +
Sbjct: 171 NRAPNTAELRICRVNKNCGSVKGGDEIFILCDKVQKDDIEVRFVLDN-----WEAKGSFS 225
Query: 272 TLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLVTKKD--ISEPYNFMLTP 319
+VH+Q AIV +TP + +I +P+ VK+QL D +SEP +F P
Sbjct: 226 QADVHRQVAIVFRTPPFLR-DITEPITVKMQLRRPSDQEVSEPMDFRYLP 274
>pdb|2O61|A Chain A, Crystal Structure Of Nfkb, Irf7, Irf3 Bound To The
Interferon-B Enhancer
Length = 540
Score = 196 bits (497), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 117/288 (40%), Positives = 161/288 (55%), Gaps = 25/288 (8%)
Query: 40 YIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVSK 98
Y+EI+EQPK + +RFRY+CEGRSAGSI G ST K++P I I Y G + +S V+K
Sbjct: 3 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 62
Query: 99 DSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDI-QAFRLYLQFCQ 157
D P+R HPH+LV KD C +G + A L +SF NLGIQC+KK+D+ QA +Q
Sbjct: 63 DPPHRPHPHELVGKD-CRDGFYEAELCPDRCIHSFQNLGIQCVKKRDLEQAISQRIQTNN 121
Query: 158 RPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIKLEPVVSDIIYD-- 215
PF V R + DLNAVRLCFQ + ++L PV+S I+D
Sbjct: 122 NPFQ-----------VPIEEQRGDYDLNAVRLCFQVTVRDPSGRPLRLPPVLSHPIFDNR 170
Query: 216 AKTYSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTL 273
A ++L I ++ S +G ++ +LCDKV K+DIEV F W+ R
Sbjct: 171 APNTAELKICRVNRNSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQA 225
Query: 274 EVHKQYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
+VH+Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 226 DVHRQVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 273
>pdb|1IKN|A Chain A, IkappabalphaNF-Kappab Complex
Length = 286
Score = 195 bits (495), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 118/289 (40%), Positives = 162/289 (56%), Gaps = 25/289 (8%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY+EI+EQPK + +RFRY+CEGRSAGSI G ST K++P I I Y G + +S V+
Sbjct: 1 PYVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVT 60
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDI-QAFRLYLQFC 156
KD P+R HPH+LV KD C +G + A L +SF NLGIQC+KK+D+ QA +Q
Sbjct: 61 KDPPHRPHPHELVGKD-CRDGYYEADLCPDRSIHSFQNLGIQCVKKRDLEQAISQRIQTN 119
Query: 157 QRPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIKLEPVVSDIIYD- 215
PF+ V R + DLNAVRLCFQ + + L PV+S I+D
Sbjct: 120 NNPFH-----------VPIEEQRGDYDLNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDN 168
Query: 216 -AKTYSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKT 272
A ++L I ++ S +G ++ +LCDKV K+DIEV F W+ R
Sbjct: 169 RAPNTAELKICRVNRNSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQ 223
Query: 273 LEVHKQYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
+VH+Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 224 ADVHRQVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 272
>pdb|2I9T|A Chain A, Structure Of Nf-Kb P65-P50 Heterodimer Bound To Prdii
Element Of B-Interferon Promoter
Length = 279
Score = 195 bits (495), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 118/289 (40%), Positives = 162/289 (56%), Gaps = 25/289 (8%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY+EI+EQPK + +RFRY+CEGRSAGSI G ST K++P I I Y G + +S V+
Sbjct: 7 PYVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVT 66
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDI-QAFRLYLQFC 156
KD P+R HPH+LV KD C +G + A L +SF NLGIQC+KK+D+ QA +Q
Sbjct: 67 KDPPHRPHPHELVGKD-CRDGYYEADLCPDRSIHSFQNLGIQCVKKRDLEQAISQRIQTN 125
Query: 157 QRPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIKLEPVVSDIIYD- 215
PF+ V R + DLNAVRLCFQ + + L PV+S I+D
Sbjct: 126 NNPFH-----------VPIEEQRGDYDLNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDN 174
Query: 216 -AKTYSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKT 272
A ++L I ++ S +G ++ +LCDKV K+DIEV F W+ R
Sbjct: 175 RAPNTAELKICRVNRNSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQ 229
Query: 273 LEVHKQYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
+VH+Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 230 ADVHRQVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 278
>pdb|1RAM|A Chain A, A Novel Dna Recognition Mode By Nf-Kb P65 Homodimer
pdb|1RAM|B Chain B, A Novel Dna Recognition Mode By Nf-Kb P65 Homodimer
pdb|2RAM|A Chain A, A Novel Dna Recognition Mode By Nf-Kb P65 Homodimer
pdb|2RAM|B Chain B, A Novel Dna Recognition Mode By Nf-Kb P65 Homodimer
Length = 273
Score = 194 bits (494), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 118/289 (40%), Positives = 162/289 (56%), Gaps = 25/289 (8%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY+EI+EQPK + +RFRY+CEGRSAGSI G ST K++P I I Y G + +S V+
Sbjct: 1 PYVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVT 60
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDI-QAFRLYLQFC 156
KD P+R HPH+LV KD C +G + A L +SF NLGIQC+KK+D+ QA +Q
Sbjct: 61 KDPPHRPHPHELVGKD-CRDGYYEADLCPDRSIHSFQNLGIQCVKKRDLEQAISQRIQTN 119
Query: 157 QRPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIKLEPVVSDIIYD- 215
PF+ V R + DLNAVRLCFQ + + L PV+S I+D
Sbjct: 120 NNPFH-----------VPIEEQRGDYDLNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDN 168
Query: 216 -AKTYSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKT 272
A ++L I ++ S +G ++ +LCDKV K+DIEV F W+ R
Sbjct: 169 RAPNTAELKICRVNRNSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQ 223
Query: 273 LEVHKQYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
+VH+Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 224 ADVHRQVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 272
>pdb|1NFI|A Chain A, I-Kappa-B-AlphaNF-Kappa-B Complex
pdb|1NFI|C Chain C, I-Kappa-B-AlphaNF-Kappa-B Complex
Length = 301
Score = 193 bits (491), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 116/288 (40%), Positives = 160/288 (55%), Gaps = 25/288 (8%)
Query: 40 YIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVSK 98
Y+EI+EQPK + +RFRY+CEGRSAGSI G ST K++P I I Y G + +S V+K
Sbjct: 1 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 60
Query: 99 DSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDI-QAFRLYLQFCQ 157
D P+R HPH+LV KD C +G + A L +SF NLGIQC+KK+D+ QA +Q
Sbjct: 61 DPPHRPHPHELVGKD-CRDGFYEAELCPDRCIHSFQNLGIQCVKKRDLEQAISQRIQTNN 119
Query: 158 RPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIKLEPVVSDIIYD-- 215
PF V R + DLNAVRLCFQ + ++L PV+ I+D
Sbjct: 120 NPFQ-----------VPIEEQRGDYDLNAVRLCFQVTVRDPSGRPLRLPPVLPHPIFDNR 168
Query: 216 AKTYSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTL 273
A ++L I ++ S +G ++ +LCDKV K+DIEV F W+ R
Sbjct: 169 APNTAELKICRVNRNSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQA 223
Query: 274 EVHKQYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
+VH+Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 224 DVHRQVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 271
>pdb|3DO7|A Chain A, X-Ray Structure Of A Nf-Kb P52RELBDNA COMPLEX
Length = 296
Score = 192 bits (488), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 117/296 (39%), Positives = 169/296 (57%), Gaps = 30/296 (10%)
Query: 38 RPYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVG--DAHLVVS 94
RPY+ I EQPK + +RFRYECEGRSAGSI+G +ST K+ P I +R+ G + +
Sbjct: 15 RPYLVITEQPKQRGMRFRYECEGRSAGSILGESSTEASKTQPAIELRDCGGLREVEVTAC 74
Query: 95 CVSKDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMT--YSFTNLGIQCMKKKDIQ-AFRL 151
V KD P+R HPH LV KD CT+G+ C L ++ +SF NLGIQC++KK+I+ A
Sbjct: 75 LVWKDWPHRVHPHSLVGKD-CTDGV-CRVRLRPHVSPRHSFNNLGIQCVRKKEIEAAIER 132
Query: 152 YLQFCQRPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIKLEPVVSD 211
+Q P+N+ N +D+N VR+CFQA + ++ +++P++S+
Sbjct: 133 KIQLGIDPYNAGS-----------LKNHQEVDMNVVRICFQASYRDQQGHLHRMDPILSE 181
Query: 212 IIYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER 269
+YD K+ S+L I ++ S P G ++ +LCDKV K+DI V F W+ R
Sbjct: 182 PVYDKKSTNTSELRICRINKESGPCTGGEELYLLCDKVQKEDISVVF-----STASWEGR 236
Query: 270 V--KTLEVHKQYAIVLKTPAYKSFEINDPVHVKI--QLVTKKDISEPYNFMLTPLD 321
+VH+Q AIV KTP Y+ EI++PV V + Q +T SEP F P D
Sbjct: 237 ADFSQADVHRQIAIVFKTPPYEDLEISEPVTVNVFLQRLTDGVCSEPLPFTYLPRD 292
>pdb|1VKX|A Chain A, Crystal Structure Of The Nfkb P50P65 HETERODIMER COMPLEXED
To The Immunoglobulin Kb Dna
pdb|3GUT|A Chain A, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
pdb|3GUT|C Chain C, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
pdb|3GUT|E Chain E, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
pdb|3GUT|G Chain G, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
Length = 273
Score = 192 bits (488), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 117/288 (40%), Positives = 161/288 (55%), Gaps = 25/288 (8%)
Query: 40 YIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVSK 98
Y+EI+EQPK + +RFRY+CEGRSAGSI G ST K++P I I Y G + +S V+K
Sbjct: 2 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 61
Query: 99 DSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDI-QAFRLYLQFCQ 157
D P+R HPH+LV KD C +G + A L +SF NLGIQC+KK+D+ QA +Q
Sbjct: 62 DPPHRPHPHELVGKD-CRDGYYEADLCPDRSIHSFQNLGIQCVKKRDLEQAISQRIQTNN 120
Query: 158 RPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIKLEPVVSDIIYD-- 215
PF+ V R + DLNAVRLCFQ + + L PV+S I+D
Sbjct: 121 NPFH-----------VPIEEQRGDYDLNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDNR 169
Query: 216 AKTYSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTL 273
A ++L I ++ S +G ++ +LCDKV K+DIEV F W+ R
Sbjct: 170 APNTAELKICRVNRNSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQA 224
Query: 274 EVHKQYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
+VH+Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 225 DVHRQVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 272
>pdb|1LE5|A Chain A, Crystal Structure Of A Nf-Kb Heterodimer Bound To An
Ifnb-Kb
pdb|1LE5|E Chain E, Crystal Structure Of A Nf-Kb Heterodimer Bound To An
Ifnb-Kb
pdb|1LE9|A Chain A, Crystal Structure Of A Nf-Kb Heterodimer Bound To The
IgHIV-Kb Siti
pdb|1LE9|E Chain E, Crystal Structure Of A Nf-Kb Heterodimer Bound To The
IgHIV-Kb Siti
pdb|1LEI|A Chain A, The Kb Dna Sequence From The Hlv-Ltr Functions As An
Allosteric Regulator Of Hiv Transcription
Length = 274
Score = 192 bits (487), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 117/288 (40%), Positives = 161/288 (55%), Gaps = 25/288 (8%)
Query: 40 YIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVSK 98
Y+EI+EQPK + +RFRY+CEGRSAGSI G ST K++P I I Y G + +S V+K
Sbjct: 3 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 62
Query: 99 DSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDI-QAFRLYLQFCQ 157
D P+R HPH+LV KD C +G + A L +SF NLGIQC+KK+D+ QA +Q
Sbjct: 63 DPPHRPHPHELVGKD-CRDGYYEADLCPDRSIHSFQNLGIQCVKKRDLEQAISQRIQTNN 121
Query: 158 RPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIKLEPVVSDIIYD-- 215
PF+ V R + DLNAVRLCFQ + + L PV+S I+D
Sbjct: 122 NPFH-----------VPIEEQRGDYDLNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDNR 170
Query: 216 AKTYSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTL 273
A ++L I ++ S +G ++ +LCDKV K+DIEV F W+ R
Sbjct: 171 APNTAELKICRVNRNSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQA 225
Query: 274 EVHKQYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
+VH+Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 226 DVHRQVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 273
>pdb|2V2T|A Chain A, X-Ray Structure Of A Nf-Kb P50-Relb-Dna Complex
Length = 288
Score = 191 bits (485), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 116/294 (39%), Positives = 168/294 (57%), Gaps = 30/294 (10%)
Query: 38 RPYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVG--DAHLVVS 94
RPY+ I EQPK + +RFRYECEGRSAGSI+G +ST K+ P I +R+ G + +
Sbjct: 12 RPYLVITEQPKQRGMRFRYECEGRSAGSILGESSTEASKTQPAIELRDCGGLREVEVTAC 71
Query: 95 CVSKDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMT--YSFTNLGIQCMKKKDIQ-AFRL 151
V KD P+R HPH LV KD CT+G+ C L ++ +SF NLGIQC++KK+I+ A
Sbjct: 72 LVWKDWPHRVHPHSLVGKD-CTDGV-CRVRLRPHVSPRHSFNNLGIQCVRKKEIEAAIER 129
Query: 152 YLQFCQRPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIKLEPVVSD 211
+Q P+N+ N +D+N VR+CFQA + ++ +++P++S+
Sbjct: 130 KIQLGIDPYNAGS-----------LKNHQEVDMNVVRICFQASYRDQQGHLHRMDPILSE 178
Query: 212 IIYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER 269
+YD K+ S+L I ++ S P G ++ +LCDKV K+DI V F W+ R
Sbjct: 179 PVYDKKSTNTSELRICRINKESGPCTGGEELYLLCDKVQKEDISVVF-----STASWEGR 233
Query: 270 V--KTLEVHKQYAIVLKTPAYKSFEINDPVHVKI--QLVTKKDISEPYNFMLTP 319
+VH+Q AIV KTP Y+ EI++PV V + Q +T SEP F P
Sbjct: 234 ADFSQADVHRQIAIVFKTPPYEDLEISEPVTVNVFLQRLTDGVCSEPLPFTYLP 287
>pdb|1OOA|A Chain A, Crystal Structure Of Nf-Kb(P50)2 Complexed To A High-
Affinity Rna Aptamer
pdb|1OOA|B Chain B, Crystal Structure Of Nf-Kb(P50)2 Complexed To A High-
Affinity Rna Aptamer
Length = 326
Score = 187 bits (474), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 121/311 (38%), Positives = 163/311 (52%), Gaps = 31/311 (9%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY++ILEQPK + RFRY CEG S G + GA+S KSYP++ I NYVG A ++V V+
Sbjct: 3 PYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVT 62
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGI-QCMKKKDIQAFRLYL-QF 155
H H LV K +C +G+ T DM F NLGI KKK + + +
Sbjct: 63 NGKNIHLHAHSLVGK-HCEDGVCTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEA 121
Query: 156 CQRPFNSE--KNSAWTLLGVMGFNNRD------------------NLDLNAVRLCFQAYL 195
C R +N +S L G +R +DL+ VRL F A+L
Sbjct: 122 CIRGYNPGLLVHSDLAYLQAEGGGDRQLTDREKEIIRQAAVQQTKEMDLSVVRLMFTAFL 181
Query: 196 PKDKDNVI-KLEPVVSDIIYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDI 252
P + +LEPVVSD IYD+K S+L I + + V G ++ +LCDKV KDDI
Sbjct: 182 PDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDI 241
Query: 253 EVRFYEEQDGVVVWD--ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI- 309
++RFYEE++ VW+ +VH+Q+AIV KTP YK I P V +QL K D+
Sbjct: 242 QIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDVNITKPASVFVQLRRKSDLE 301
Query: 310 -SEPYNFMLTP 319
SEP F+ P
Sbjct: 302 TSEPKPFLYYP 312
>pdb|2V2T|B Chain B, X-Ray Structure Of A Nf-Kb P50-Relb-Dna Complex
Length = 326
Score = 187 bits (474), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 121/311 (38%), Positives = 163/311 (52%), Gaps = 31/311 (9%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY++ILEQPK + RFRY CEG S G + GA+S KSYP++ I NYVG A ++V V+
Sbjct: 3 PYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVT 62
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGI-QCMKKKDIQAFRLYL-QF 155
H H LV K +C +G+ T DM F NLGI KKK + + +
Sbjct: 63 NGKNIHLHAHSLVGK-HCEDGVCTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEA 121
Query: 156 CQRPFNSE--KNSAWTLLGVMGFNNRD------------------NLDLNAVRLCFQAYL 195
C R +N +S L G +R +DL+ VRL F A+L
Sbjct: 122 CIRGYNPGLLVHSDLAYLQAEGGGDRQLTDREKEIIRQAAVQQTKEMDLSVVRLMFTAFL 181
Query: 196 PKDKDNVI-KLEPVVSDIIYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDI 252
P + +LEPVVSD IYD+K S+L I + + V G ++ +LCDKV KDDI
Sbjct: 182 PDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDI 241
Query: 253 EVRFYEEQDGVVVWD--ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI- 309
++RFYEE++ VW+ +VH+Q+AIV KTP YK I P V +QL K D+
Sbjct: 242 QIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDVNITKPASVFVQLRRKSDLE 301
Query: 310 -SEPYNFMLTP 319
SEP F+ P
Sbjct: 302 TSEPKPFLYYP 312
>pdb|1NFK|A Chain A, Structure Of The Nuclear Factor Kappa-B (Nf-Kb) P50
Homodimer
pdb|1NFK|B Chain B, Structure Of The Nuclear Factor Kappa-B (Nf-Kb) P50
Homodimer
Length = 325
Score = 187 bits (474), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 121/311 (38%), Positives = 163/311 (52%), Gaps = 31/311 (9%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY++ILEQPK + RFRY CEG S G + GA+S KSYP++ I NYVG A ++V V+
Sbjct: 2 PYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVT 61
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGI-QCMKKKDIQAFRLYL-QF 155
H H LV K +C +G+ T DM F NLGI KKK + + +
Sbjct: 62 NGKNIHLHAHSLVGK-HCEDGVCTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEA 120
Query: 156 CQRPFNSE--KNSAWTLLGVMGFNNRD------------------NLDLNAVRLCFQAYL 195
C R +N +S L G +R +DL+ VRL F A+L
Sbjct: 121 CIRGYNPGLLVHSDLAYLQAEGGGDRQLTDREKEIIRQAAVQQTKEMDLSVVRLMFTAFL 180
Query: 196 PKDKDNVI-KLEPVVSDIIYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDI 252
P + +LEPVVSD IYD+K S+L I + + V G ++ +LCDKV KDDI
Sbjct: 181 PDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDI 240
Query: 253 EVRFYEEQDGVVVWD--ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI- 309
++RFYEE++ VW+ +VH+Q+AIV KTP YK I P V +QL K D+
Sbjct: 241 QIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDVNITKPASVFVQLRRKSDLE 300
Query: 310 -SEPYNFMLTP 319
SEP F+ P
Sbjct: 301 TSEPKPFLYYP 311
>pdb|1VKX|B Chain B, Crystal Structure Of The Nfkb P50P65 HETERODIMER COMPLEXED
To The Immunoglobulin Kb Dna
pdb|3GUT|B Chain B, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
pdb|3GUT|D Chain D, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
pdb|3GUT|F Chain F, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
pdb|3GUT|H Chain H, Crystal Structure Of A Higher-Order Complex Of P50:rela
Bound To The Hiv-1 Ltr
Length = 312
Score = 186 bits (472), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 121/311 (38%), Positives = 163/311 (52%), Gaps = 31/311 (9%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY++ILEQPK + RFRY CEG S G + GA+S KSYP++ I NYVG A ++V V+
Sbjct: 2 PYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVT 61
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGI-QCMKKKDIQAFRLYL-QF 155
H H LV K +C +G+ T DM F NLGI KKK + + +
Sbjct: 62 NGKNIHLHAHSLVGK-HCEDGVCTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEA 120
Query: 156 CQRPFNSE--KNSAWTLLGVMGFNNRD------------------NLDLNAVRLCFQAYL 195
C R +N +S L G +R +DL+ VRL F A+L
Sbjct: 121 CIRGYNPGLLVHSDLAYLQAEGGGDRQLTDREKEIIRQAAVQQTKEMDLSVVRLMFTAFL 180
Query: 196 PKDKDNVI-KLEPVVSDIIYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDI 252
P + +LEPVVSD IYD+K S+L I + + V G ++ +LCDKV KDDI
Sbjct: 181 PDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDI 240
Query: 253 EVRFYEEQDGVVVWD--ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI- 309
++RFYEE++ VW+ +VH+Q+AIV KTP YK I P V +QL K D+
Sbjct: 241 QIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDVNITKPASVFVQLRRKSDLE 300
Query: 310 -SEPYNFMLTP 319
SEP F+ P
Sbjct: 301 TSEPKPFLYYP 311
>pdb|1LE5|B Chain B, Crystal Structure Of A Nf-Kb Heterodimer Bound To An
Ifnb-Kb
pdb|1LE5|F Chain F, Crystal Structure Of A Nf-Kb Heterodimer Bound To An
Ifnb-Kb
pdb|1LE9|B Chain B, Crystal Structure Of A Nf-Kb Heterodimer Bound To The
IgHIV-Kb Siti
pdb|1LE9|F Chain F, Crystal Structure Of A Nf-Kb Heterodimer Bound To The
IgHIV-Kb Siti
pdb|1LEI|B Chain B, The Kb Dna Sequence From The Hlv-Ltr Functions As An
Allosteric Regulator Of Hiv Transcription
pdb|2I9T|B Chain B, Structure Of Nf-Kb P65-P50 Heterodimer Bound To Prdii
Element Of B-Interferon Promoter
Length = 313
Score = 186 bits (472), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 121/311 (38%), Positives = 163/311 (52%), Gaps = 31/311 (9%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY++ILEQPK + RFRY CEG S G + GA+S KSYP++ I NYVG A ++V V+
Sbjct: 3 PYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVT 62
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGI-QCMKKKDIQAFRLYL-QF 155
H H LV K +C +G+ T DM F NLGI KKK + + +
Sbjct: 63 NGKNIHLHAHSLVGK-HCEDGVCTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEA 121
Query: 156 CQRPFNSE--KNSAWTLLGVMGFNNRD------------------NLDLNAVRLCFQAYL 195
C R +N +S L G +R +DL+ VRL F A+L
Sbjct: 122 CIRGYNPGLLVHSDLAYLQAEGGGDRQLTDREKEIIRQAAVQQTKEMDLSVVRLMFTAFL 181
Query: 196 PKDKDNVI-KLEPVVSDIIYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDI 252
P + +LEPVVSD IYD+K S+L I + + V G ++ +LCDKV KDDI
Sbjct: 182 PDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDI 241
Query: 253 EVRFYEEQDGVVVWD--ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI- 309
++RFYEE++ VW+ +VH+Q+AIV KTP YK I P V +QL K D+
Sbjct: 242 QIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDVNITKPASVFVQLRRKSDLE 301
Query: 310 -SEPYNFMLTP 319
SEP F+ P
Sbjct: 302 TSEPKPFLYYP 312
>pdb|2O61|B Chain B, Crystal Structure Of Nfkb, Irf7, Irf3 Bound To The
Interferon-B Enhancer
Length = 314
Score = 185 bits (469), Expect = 8e-47, Method: Compositional matrix adjust.
Identities = 119/311 (38%), Positives = 160/311 (51%), Gaps = 31/311 (9%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY++ILEQPK + RFRY CEG S G + GA+S KSYP++ I NYVG A ++V V+
Sbjct: 4 PYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVT 63
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGI-QCMKKKDIQAFRLYL-QF 155
H H LV K +C +GI T DM F NLGI KKK + + +
Sbjct: 64 NGKNIHLHAHSLVGK-HCEDGICTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEA 122
Query: 156 CQRPFNSE--------------------KNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYL 195
C R +N + L+ +DL+ VRL F A+L
Sbjct: 123 CIRGYNPGLLVHPDLAYLQAEGGGDRQLGDREKELIRQAALQQTKEMDLSVVRLMFTAFL 182
Query: 196 PKDKDNVIK-LEPVVSDIIYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDI 252
P + + LEPVVSD IYD+K S+L I + + V G ++ +LCDKV KDDI
Sbjct: 183 PDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDI 242
Query: 253 EVRFYEEQDGVVVWD--ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI- 309
++RFYEE++ VW+ +VH+Q+AIV KTP YK I P V +QL K D+
Sbjct: 243 QIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDINITKPASVFVQLRRKSDLE 302
Query: 310 -SEPYNFMLTP 319
SEP F+ P
Sbjct: 303 TSEPKPFLYYP 313
>pdb|1SVC|P Chain P, Nfkb P50 Homodimer Bound To Dna
Length = 365
Score = 182 bits (463), Expect = 4e-46, Method: Compositional matrix adjust.
Identities = 119/317 (37%), Positives = 161/317 (50%), Gaps = 31/317 (9%)
Query: 33 LDASRRPYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHL 91
L + PY++ILEQPK + RFRY EG S G + GA+S KSYP++ I NYVG A +
Sbjct: 36 LPTADGPYLQILEQPKQRGFRFRYVAEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKV 95
Query: 92 VVSCVSKDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGI-QCMKKKDIQAFR 150
+V V+ H H LV K +C +GI T DM F NLGI KKK +
Sbjct: 96 IVQLVTNGKNIHLHAHSLVGK-HCEDGICTVTAGPKDMVVGFANLGILHVTKKKVFETLE 154
Query: 151 LYL-QFCQRPFNSE--------------------KNSAWTLLGVMGFNNRDNLDLNAVRL 189
+ + C R +N + L+ +DL+ VRL
Sbjct: 155 ARMTEACIRGYNPGLLVHPDLAYLQAEGGGDRQLGDREKELIRQAALQQTKEMDLSVVRL 214
Query: 190 CFQAYLPKDKDNVIK-LEPVVSDIIYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDK 246
F A+LP + + LEPVVSD IYD+K S+L I + + V G ++ +LCDK
Sbjct: 215 MFTAFLPDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDK 274
Query: 247 VNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLV 304
V KDDI++RFYEE++ VW+ +VH+Q+AIV KTP YK I P V +QL
Sbjct: 275 VQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDINITKPASVFVQLR 334
Query: 305 TKKDI--SEPYNFMLTP 319
K D+ SEP F+ P
Sbjct: 335 RKSDLETSEPKPFLYYP 351
>pdb|3DO7|B Chain B, X-Ray Structure Of A Nf-Kb P52RELBDNA COMPLEX
Length = 293
Score = 167 bits (423), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 114/295 (38%), Positives = 161/295 (54%), Gaps = 17/295 (5%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY+ I+EQPK + RFRY CEG S G + GA+S K+YP + I NY G A + V V+
Sbjct: 2 PYLVIVEQPKQRGFRFRYGCEGPSHGGLPGASSEKGRKTYPTVKICNYEGPAKIEVDLVT 61
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDIQAFRLYLQFCQ 157
P R+H H LV K GI ++ DMT F NLG+ + KK++ +Q Q
Sbjct: 62 HSDPPRAHAHSLVGKQCSELGICAVSVGPKDMTAQFNNLGVLHVTKKNMMG--TMIQKLQ 119
Query: 158 RPFNSEKNSAWT-----LLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDN--VIKLEPVVS 210
R + T L + +DL+ VRL F A+L +D D + L+PV+S
Sbjct: 120 RQRLRSRPQGLTEAEQRELEQEAKELKKVMDLSIVRLRFSAFL-RDSDGSFSLPLKPVIS 178
Query: 211 DIIYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYE-EQDGVVVWD 267
I+D+K+ S+L I + + V G ++ +LCDKV KDDIEVRFYE +++G +
Sbjct: 179 QPIHDSKSPGASNLKISRMDKTAGSVRGGDEVYLLCDKVQKDDIEVRFYEDDENGWQAFG 238
Query: 268 ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLVTKK--DISEPYNFMLTPL 320
+ T +VHKQYAIV +TP Y +I PV V +QL K+ D+S+ F PL
Sbjct: 239 DFSPT-DVHKQYAIVFRTPPYHKMKIERPVTVFLQLKRKRGGDVSDSKQFTYYPL 292
>pdb|1A3Q|A Chain A, Human Nf-Kappa-B P52 Bound To Dna
pdb|1A3Q|B Chain B, Human Nf-Kappa-B P52 Bound To Dna
Length = 285
Score = 164 bits (414), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 111/292 (38%), Positives = 157/292 (53%), Gaps = 19/292 (6%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY+ I+EQPK + RFRY CEG S G + GA+S K+YP + I NY G A + V V+
Sbjct: 2 PYLVIVEQPKQRGFRFRYGCEGPSHGGLPGASSEKGRKTYPTVKICNYEGPAKIEVDLVT 61
Query: 98 KDSPYRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDIQAFRLYLQFCQ 157
P R+H H LV K GI ++ DMT F NLG+ + KK++ +Q Q
Sbjct: 62 HSDPPRAHAHSLVGKQCSELGICAVSVGPKDMTAQFNNLGVLHVTKKNMMG--TMIQKLQ 119
Query: 158 RPFNSEKNSAWT-----LLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIKLEPVVSDI 212
R + T L + +DL+ VRL F A+L + L+PV+S
Sbjct: 120 RQRLRSRPQGLTEAEQRELEQEAKELKKVMDLSIVRLRFSAFL-----RSLPLKPVISQP 174
Query: 213 IYDAKT--YSDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYE-EQDGVVVWDER 269
I+D+K+ S+L I + + V G ++ +LCDKV KDDIEVRFYE +++G + +
Sbjct: 175 IHDSKSPGASNLKISRMDKTAGSVRGGDEVYLLCDKVQKDDIEVRFYEDDENGWQAFGDF 234
Query: 270 VKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLVTKK--DISEPYNFMLTP 319
T +VHKQYAIV +TP Y +I PV V +QL K+ D+S+ F P
Sbjct: 235 SPT-DVHKQYAIVFRTPPYHKMKIERPVTVFLQLKRKRGGDVSDSKQFTYYP 285
>pdb|1BVO|A Chain A, Dorsal Homologue Gambif1 Bound To Dna
Length = 175
Score = 162 bits (411), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 88/184 (47%), Positives = 113/184 (61%), Gaps = 14/184 (7%)
Query: 39 PYIEILEQPKSK-VRFRYECEGRSAGSIMGANSTLECKSYPKIMIRNYVGDAHLVVSCVS 97
PY+EI EQP K +RFRYECEGRSAGSI G N+T E K++P I + Y G A +VVSCV+
Sbjct: 1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVT 60
Query: 98 KDSP-YRSHPHKLVSKDNCTNGIFCATLLEGDMTYSFTNLGIQCMKKKDI-QAFRLYLQF 155
K+ P ++ HPH LV K+ C G+ + M+Y+F NLGIQC+KKKD+ +A RL +
Sbjct: 61 KEGPEHKPHPHNLVGKEGCKKGVCTVEINSTTMSYTFNNLGIQCVKKKDVEEALRLRQEI 120
Query: 156 CQRPFNSEKNSAWTLLGVMGFNNRDNLDLNAVRLCFQAYLPKDKDNVIK--LEPVVSDII 213
PF + A ++DLNAVRLCFQ +L + L PVVSDII
Sbjct: 121 RVDPFRTGFGHA---------KEPGSIDLNAVRLCFQVFLEGQQRGRFTEPLTPVVSDII 171
Query: 214 YDAK 217
YD K
Sbjct: 172 YDKK 175
>pdb|1U3J|A Chain A, Crystal Stucture Of Mlav Mutant Of Dimerisation Domain Of
Nf-Kb P50 Transcription Factor
Length = 106
Score = 83.6 bits (205), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 62/104 (59%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHK 277
S+L I + + V G ++++LCDKV KDDI++RFYEE++ VW+ +VH+
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIMLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHR 61
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI--SEPYNFMLTP 319
Q+AIV KTP YK I P V +QL K D+ SEP F+ P
Sbjct: 62 QFAIVFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYP 105
>pdb|1U3Y|A Chain A, Crystal Stucture Of Ilac Mutant Of Dimerisation Domain Of
Nf-Kb P50 Transcription Factor
Length = 106
Score = 83.2 bits (204), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 61/104 (58%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHK 277
S+L I + + V G ++I+LCDKV KDDI++RFYEE++ VW+ +VH+
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIILLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHR 61
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI--SEPYNFMLTP 319
Q+AI KTP YK I P V +QL K D+ SEP F+ P
Sbjct: 62 QFAICFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYP 105
>pdb|1IKN|C Chain C, IkappabalphaNF-Kappab Complex
Length = 119
Score = 82.8 bits (203), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 61/104 (58%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHK 277
S+L I + + V G ++ +LCDKV KDDI++RFYEE++ VW+ +VH+
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHR 61
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI--SEPYNFMLTP 319
Q+AIV KTP YK I P V +QL K D+ SEP F+ P
Sbjct: 62 QFAIVFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYP 105
>pdb|1BFS|A Chain A, Structure Of Nf-Kb P50 Homodimer Bound To A Kb Site
Length = 106
Score = 82.8 bits (203), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 61/104 (58%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHK 277
S+L I + + V G ++ +LCDKV KDDI++RFYEE++ VW+ +VH+
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHR 61
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI--SEPYNFMLTP 319
Q+AIV KTP YK I P V +QL K D+ SEP F+ P
Sbjct: 62 QFAIVFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYP 105
>pdb|1NFI|B Chain B, I-Kappa-B-AlphaNF-Kappa-B Complex
pdb|1NFI|D Chain D, I-Kappa-B-AlphaNF-Kappa-B Complex
Length = 107
Score = 82.4 bits (202), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 61/104 (58%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHK 277
S+L I + + V G ++ +LCDKV KDDI++RFYEE++ VW+ +VH+
Sbjct: 1 SNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHR 60
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI--SEPYNFMLTP 319
Q+AIV KTP YK I P V +QL K D+ SEP F+ P
Sbjct: 61 QFAIVFKTPKYKDINITKPASVFVQLRRKSDLETSEPKPFLYYP 104
>pdb|1U42|A Chain A, Crystal Stucture Of Mlam Mutant Of Dimerisation Domain Of
Nf-Kb P50 Transcription Factor
Length = 106
Score = 82.4 bits (202), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 43/104 (41%), Positives = 62/104 (59%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHK 277
S+L I + + V G ++++LCDKV KDDI++RFYEE++ VW+ +VH+
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIMLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHR 61
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI--SEPYNFMLTP 319
Q+AI+ KTP YK I P V +QL K D+ SEP F+ P
Sbjct: 62 QFAIMFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYP 105
>pdb|3JV4|B Chain B, Crystal Structure Of The Dimerization Domains P50 And Relb
pdb|3JV4|D Chain D, Crystal Structure Of The Dimerization Domains P50 And Relb
pdb|3JV4|F Chain F, Crystal Structure Of The Dimerization Domains P50 And Relb
Length = 115
Score = 82.4 bits (202), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 61/104 (58%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHK 277
S+L I + + V G ++ +LCDKV KDDI++RFYEE++ VW+ +VH+
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHR 61
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI--SEPYNFMLTP 319
Q+AIV KTP YK I P V +QL K D+ SEP F+ P
Sbjct: 62 QFAIVFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYP 105
>pdb|1U3Z|A Chain A, Crystal Stucture Of Mlac Mutant Of Dimerisation Domain Of
Nf-Kb P50 Transcription Factor
Length = 106
Score = 82.0 bits (201), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 43/104 (41%), Positives = 61/104 (58%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHK 277
S+L I + + V G ++++LCDKV KDDI++RFYEE++ VW+ +VH+
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIMLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHR 61
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI--SEPYNFMLTP 319
Q+AI KTP YK I P V +QL K D+ SEP F+ P
Sbjct: 62 QFAICFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYP 105
>pdb|1U41|A Chain A, Crystal Stucture Of Ylgv Mutant Of Dimerisation Domain Of
Nf-Kb P50 Transcription Factor
pdb|1U41|B Chain B, Crystal Stucture Of Ylgv Mutant Of Dimerisation Domain Of
Nf-Kb P50 Transcription Factor
pdb|1U41|C Chain C, Crystal Stucture Of Ylgv Mutant Of Dimerisation Domain Of
Nf-Kb P50 Transcription Factor
pdb|1U41|D Chain D, Crystal Stucture Of Ylgv Mutant Of Dimerisation Domain Of
Nf-Kb P50 Transcription Factor
Length = 106
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 43/104 (41%), Positives = 60/104 (57%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHK 277
S+L I + + V G ++ +LCDKV KDDI++RFYEE++ VW+ +VH+
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHR 61
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI--SEPYNFMLTP 319
Q+ IV KTP YK I P V +QL K D+ SEP F+ P
Sbjct: 62 QFGIVFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYP 105
>pdb|1U36|A Chain A, Crystal Stucture Of Wlac Mutant Of Dimerisation Domain Of
Nf-Kb P50 Transcription Factor
Length = 106
Score = 80.9 bits (198), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 43/104 (41%), Positives = 60/104 (57%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWD--ERVKTLEVHK 277
S+L I + + V G ++ +LCDKV KDDI++RFYEE++ VW+ +VH+
Sbjct: 2 SNLKIVRMDRTAGCVTGGEEIWLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHR 61
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLVTKKDI--SEPYNFMLTP 319
Q+AI KTP YK I P V +QL K D+ SEP F+ P
Sbjct: 62 QFAICFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYP 105
>pdb|3JV5|A Chain A, Crystal Structure Of The Dimerization Domains P52
Homodimer
pdb|3JV5|B Chain B, Crystal Structure Of The Dimerization Domains P52
Homodimer
pdb|3JV5|C Chain C, Crystal Structure Of The Dimerization Domains P52
Homodimer
pdb|3JV5|D Chain D, Crystal Structure Of The Dimerization Domains P52
Homodimer
Length = 104
Score = 76.6 bits (187), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 45/104 (43%), Positives = 63/104 (60%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYE-EQDGVVVWDERVKTLEVHKQ 278
S+L I + + V G ++ +LCDKV KDDIEVRFYE +++G + + T +VHKQ
Sbjct: 2 SNLKISRMDKTAGSVRGGDEVYLLCDKVQKDDIEVRFYEDDENGWQAFGDFSPT-DVHKQ 60
Query: 279 YAIVLKTPAYKSFEINDPVHVKIQLVTKK--DISEPYNFMLTPL 320
YAIV +TP Y +I PV V +QL K+ D+S+ F PL
Sbjct: 61 YAIVFRTPPYHKMKIERPVTVFLQLKRKRGGDVSDSKQFTYYPL 104
>pdb|3JV0|A Chain A, Crystal Structure Of A Mutant Of Relb Dimerization
Domain(M6)
Length = 101
Score = 76.3 bits (186), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 42/104 (40%), Positives = 58/104 (55%), Gaps = 9/104 (8%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTLEVHK 277
S+L I + S P G ++ +LCDKV K+DI VRF W+ R +VH+
Sbjct: 2 SELRICRIDKESGPCTGGEELYLLCDKVQKEDISVRF-----STASWEGRGDFSQADVHR 56
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
Q+AIV KTP Y+ EI++PV V +QL +T + SEP F P
Sbjct: 57 QFAIVFKTPPYEDLEISEPVTVNVQLQRLTDGECSEPLPFTYLP 100
>pdb|3JSS|A Chain A, Crystal Structure Of A Mutant Relb Dimerization Domain
Length = 101
Score = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 42/104 (40%), Positives = 58/104 (55%), Gaps = 9/104 (8%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTLEVHK 277
S+L I ++ S P G ++ +LCDKV K+DI VRF W+ R +VH+
Sbjct: 2 SELRICRINKESGPCTGGEELYLLCDKVQKEDISVRF-----STASWEGRGDFSQADVHR 56
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
Q AIV KTP Y+ EI++PV V +QL +T + SEP F P
Sbjct: 57 QIAIVFKTPPYEDLEISEPVTVNVQLQRLTDGECSEPLPFTYLP 100
>pdb|3JV6|B Chain B, Crystal Structure Of The Dimerization Domains P52 And Relb
pdb|3JV6|D Chain D, Crystal Structure Of The Dimerization Domains P52 And Relb
pdb|3JV6|F Chain F, Crystal Structure Of The Dimerization Domains P52 And Relb
Length = 107
Score = 74.7 bits (182), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 63/104 (60%), Gaps = 4/104 (3%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYE-EQDGVVVWDERVKTLEVHKQ 278
S+L I + + V G ++ +LCDKV KDDIEVRFYE +++G + + T +VHKQ
Sbjct: 2 SNLKISRMDKTAGSVRGGDEVYLLCDKVQKDDIEVRFYEDDENGWQAFGDFSPT-DVHKQ 60
Query: 279 YAIVLKTPAYKSFEINDPVHVKIQLVTKK--DISEPYNFMLTPL 320
YAIV +TP Y +I PV V +QL K+ D+S+ F P+
Sbjct: 61 YAIVFRTPPYHKMKIERPVTVFLQLKRKRGGDVSDSKQFTYYPV 104
>pdb|3JUZ|A Chain A, Crystal Structure Of A Mutant Of Relb Dimerization
Domain(M5)
Length = 101
Score = 74.3 bits (181), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/104 (40%), Positives = 57/104 (54%), Gaps = 9/104 (8%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTLEVHK 277
S+L I + S P G ++ +LCDKV K+DI VRF W+ R +VH+
Sbjct: 2 SELRICRIDKESGPCTGGEELYLLCDKVQKEDISVRF-----STASWEGRGDFSQADVHR 56
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
Q AIV KTP Y+ EI++PV V +QL +T + SEP F P
Sbjct: 57 QIAIVFKTPPYEDLEISEPVTVNVQLQRLTDGECSEPLPFTYLP 100
>pdb|3JV4|A Chain A, Crystal Structure Of The Dimerization Domains P50 And Relb
pdb|3JV4|C Chain C, Crystal Structure Of The Dimerization Domains P50 And Relb
pdb|3JV4|E Chain E, Crystal Structure Of The Dimerization Domains P50 And Relb
pdb|3JV6|A Chain A, Crystal Structure Of The Dimerization Domains P52 And Relb
pdb|3JV6|C Chain C, Crystal Structure Of The Dimerization Domains P52 And Relb
pdb|3JV6|E Chain E, Crystal Structure Of The Dimerization Domains P52 And Relb
Length = 101
Score = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 40/104 (38%), Positives = 55/104 (52%), Gaps = 9/104 (8%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDERV--KTLEVHK 277
S+L I ++ S P G ++ +LCDKV K+DI V F W+ R +VH+
Sbjct: 2 SELRICRINKESGPCTGGEELYLLCDKVQKEDISVVF-----STASWEGRADFSQADVHR 56
Query: 278 QYAIVLKTPAYKSFEINDPVHVKI--QLVTKKDISEPYNFMLTP 319
Q AIV KTP Y+ EI++PV V + Q +T SEP F P
Sbjct: 57 QIAIVFKTPPYEDLEISEPVTVNVFLQRLTDGVCSEPLPFTYLP 100
>pdb|1ZK9|A Chain A, Nf-Kb Relb Forms An Intertwined Homodimer
Length = 110
Score = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 40/104 (38%), Positives = 55/104 (52%), Gaps = 9/104 (8%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDERV--KTLEVHK 277
S+L I ++ S P G ++ +LCDKV K+DI V F W+ R +VH+
Sbjct: 11 SELRICRINKESGPCTGGEELYLLCDKVQKEDISVVF-----STASWEGRADFSQADVHR 65
Query: 278 QYAIVLKTPAYKSFEINDPVHVKI--QLVTKKDISEPYNFMLTP 319
Q AIV KTP Y+ EI++PV V + Q +T SEP F P
Sbjct: 66 QIAIVFKTPPYEDLEISEPVTVNVFLQRLTDGVCSEPLPFTYLP 109
>pdb|1ZKA|A Chain A, Nf-Kb Relb Forms An Intertwined Homodimer, Y300s Mutant
Length = 110
Score = 66.2 bits (160), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 40/104 (38%), Positives = 55/104 (52%), Gaps = 9/104 (8%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDERV--KTLEVHK 277
S+L I ++ S P G ++ +LCDKV K+DI V F W+ R +VH+
Sbjct: 11 SELRICRINKESGPCTGGEELSLLCDKVQKEDISVVF-----STASWEGRADFSQADVHR 65
Query: 278 QYAIVLKTPAYKSFEINDPVHVKI--QLVTKKDISEPYNFMLTP 319
Q AIV KTP Y+ EI++PV V + Q +T SEP F P
Sbjct: 66 QIAIVFKTPPYEDLEISEPVTVNVFLQRLTDGVCSEPLPFTYLP 109
>pdb|1BFT|A Chain A, Structure Of Nf-Kb P50 Homodimer Bound To A Kb Site
pdb|1BFT|B Chain B, Structure Of Nf-Kb P50 Homodimer Bound To A Kb Site
Length = 101
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 36/104 (34%), Positives = 55/104 (52%), Gaps = 9/104 (8%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTLEVHK 277
++L I ++ S +G ++ +LCDKV K+DIEV F W+ R +VH+
Sbjct: 2 AELKICRVNRNSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQADVHR 56
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 57 QVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 100
>pdb|1K3Z|A Chain A, X-Ray Crystal Structure Of The IkbbNF-Kb P65 Homodimer
Complex
pdb|1K3Z|B Chain B, X-Ray Crystal Structure Of The IkbbNF-Kb P65 Homodimer
Complex
pdb|1OY3|C Chain C, Crystal Structure Of An IkbbetaNF-Kb P65 Homodimer Complex
pdb|1OY3|B Chain B, Crystal Structure Of An IkbbetaNF-Kb P65 Homodimer Complex
Length = 136
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/104 (34%), Positives = 55/104 (52%), Gaps = 9/104 (8%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTLEVHK 277
++L I ++ S +G ++ +LCDKV K+DIEV F W+ R +VH+
Sbjct: 2 AELKICRVNRNSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQADVHR 56
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 57 QVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 100
>pdb|1MY5|A Chain A, Nf-Kappab P65 Subunit Dimerization Domain Homodimer
pdb|1MY5|B Chain B, Nf-Kappab P65 Subunit Dimerization Domain Homodimer
Length = 114
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/104 (34%), Positives = 55/104 (52%), Gaps = 9/104 (8%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTLEVHK 277
++L I ++ S +G ++ +LCDKV K+DIEV F W+ R +VH+
Sbjct: 2 AELKICRVNRNSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQADVHR 56
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQLV--TKKDISEPYNFMLTP 319
Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 57 QVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 100
>pdb|1MY7|A Chain A, Nf-Kappab P65 Subunit Dimerization Domain Homodimer N202r
Mutation
pdb|1MY7|B Chain B, Nf-Kappab P65 Subunit Dimerization Domain Homodimer N202r
Mutation
Length = 114
Score = 57.8 bits (138), Expect = 2e-08, Method: Composition-based stats.
Identities = 36/104 (34%), Positives = 55/104 (52%), Gaps = 9/104 (8%)
Query: 220 SDLTIHTLSHVSAPVVGDMKMIILCDKVNKDDIEVRFYEEQDGVVVWDER--VKTLEVHK 277
++L I ++ S +G ++ +LCDKV K+DIEV F W+ R +VH+
Sbjct: 2 AELKICRVNRRSGSCLGGDEIFLLCDKVQKEDIEVYFTGPG-----WEARGSFSQADVHR 56
Query: 278 QYAIVLKTPAYKSFEINDPVHVKIQL--VTKKDISEPYNFMLTP 319
Q AIV +TP Y + PV V +QL + +++SEP F P
Sbjct: 57 QVAIVFRTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLP 100
>pdb|3QRF|N Chain N, Structure Of A Domain-Swapped Foxp3 Dimer
pdb|3QRF|M Chain M, Structure Of A Domain-Swapped Foxp3 Dimer
Length = 286
Score = 36.6 bits (83), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 29/137 (21%), Positives = 62/137 (45%), Gaps = 3/137 (2%)
Query: 187 VRLCFQAYLPKDKDNVIKLEPVVSDIIYDAKTYSDLTIHTLSHVSAPVVGDMKMIILCDK 246
VRL F+ ++P+ ++ L+ + I ++ +L + + +V + +IL +
Sbjct: 150 VRLVFRVHIPESSGRIVSLQTASNPIECSQRSAHELPMVERQDTDSCLVYGGQQMILTGQ 209
Query: 247 VNKDDIEVRFYEE-QDGVVVWD-ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLV 304
+ +V F E+ DG +W+ E + ++ P Y++ I PV V ++
Sbjct: 210 NFTSESKVVFTEKTTDGQQIWEMEATVAAAAAAPNMLFVEIPEYRNKHIRTPVKVNFYVI 269
Query: 305 T-KKDISEPYNFMLTPL 320
K+ S+P +F P+
Sbjct: 270 NGKRKRSQPQHFTYHPV 286
>pdb|2O93|L Chain L, Crystal Structure Of Nfat Bound To The Hiv-1 Ltr Tandem
Kappab Enhancer Element
pdb|2O93|M Chain M, Crystal Structure Of Nfat Bound To The Hiv-1 Ltr Tandem
Kappab Enhancer Element
pdb|2O93|O Chain O, Crystal Structure Of Nfat Bound To The Hiv-1 Ltr Tandem
Kappab Enhancer Element
Length = 301
Score = 36.6 bits (83), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 29/137 (21%), Positives = 64/137 (46%), Gaps = 3/137 (2%)
Query: 187 VRLCFQAYLPKDKDNVIKLEPVVSDIIYDAKTYSDLTIHTLSHVSAPVVGDMKMIILCDK 246
VRL F+ ++P+ ++ L+ + I ++ +L + + +V + +IL +
Sbjct: 165 VRLVFRVHIPESSGRIVSLQTASNPIECSQRSAHELPMVERQDTDSCLVYGGQQMILTGQ 224
Query: 247 VNKDDIEVRFYEE-QDGVVVWD-ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLV 304
+ +V F E+ DG +W+ E + + + ++ P Y++ I PV V ++
Sbjct: 225 NFTSESKVVFTEKTTDGQQIWEMEATVDKDKSQPNMLFVEIPEYRNKHIRTPVKVNFYVI 284
Query: 305 T-KKDISEPYNFMLTPL 320
K+ S+P +F P+
Sbjct: 285 NGKRKRSQPQHFTYHPV 301
>pdb|1A02|N Chain N, Structure Of The Dna Binding Domains Of Nfat, Fos And Jun
Bound To Dna
pdb|1PZU|B Chain B, An Asymmetric Nfat1-Rhr Homodimer On A Pseudo-Palindromic,
Kappa-B Site
pdb|1PZU|D Chain D, An Asymmetric Nfat1-Rhr Homodimer On A Pseudo-Palindromic,
Kappa-B Site
pdb|1PZU|H Chain H, An Asymmetric Nfat1-Rhr Homodimer On A Pseudo-Palindromic,
Kappa-B Site
pdb|1PZU|I Chain I, An Asymmetric Nfat1-Rhr Homodimer On A Pseudo-Palindromic,
Kappa-B Site
pdb|1PZU|L Chain L, An Asymmetric Nfat1-Rhr Homodimer On A Pseudo-Palindromic,
Kappa-B Site
pdb|1PZU|M Chain M, An Asymmetric Nfat1-Rhr Homodimer On A Pseudo-Palindromic,
Kappa-B Site
Length = 301
Score = 36.6 bits (83), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 29/137 (21%), Positives = 64/137 (46%), Gaps = 3/137 (2%)
Query: 187 VRLCFQAYLPKDKDNVIKLEPVVSDIIYDAKTYSDLTIHTLSHVSAPVVGDMKMIILCDK 246
VRL F+ ++P+ ++ L+ + I ++ +L + + +V + +IL +
Sbjct: 165 VRLVFRVHIPESSGRIVSLQTASNPIECSQRSAHELPMVERQDTDSCLVYGGQQMILTGQ 224
Query: 247 VNKDDIEVRFYEE-QDGVVVWD-ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLV 304
+ +V F E+ DG +W+ E + + + ++ P Y++ I PV V ++
Sbjct: 225 NFTSESKVVFTEKTTDGQQIWEMEATVDKDKSQPNMLFVEIPEYRNKHIRTPVKVNFYVI 284
Query: 305 T-KKDISEPYNFMLTPL 320
K+ S+P +F P+
Sbjct: 285 NGKRKRSQPQHFTYHPV 301
>pdb|1S9K|C Chain C, Crystal Structure Of Human Nfat1 And Fos-Jun On The Il-2
Arre1 Site
Length = 280
Score = 36.2 bits (82), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 29/137 (21%), Positives = 64/137 (46%), Gaps = 3/137 (2%)
Query: 187 VRLCFQAYLPKDKDNVIKLEPVVSDIIYDAKTYSDLTIHTLSHVSAPVVGDMKMIILCDK 246
VRL F+ ++P+ ++ L+ + I ++ +L + + +V + +IL +
Sbjct: 144 VRLVFRVHIPESSGRIVSLQTASNPIECSQRSAHELPMVERQDTDSCLVYGGQQMILTGQ 203
Query: 247 VNKDDIEVRFYEE-QDGVVVWD-ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLV 304
+ +V F E+ DG +W+ E + + + ++ P Y++ I PV V ++
Sbjct: 204 NFTSESKVVFTEKTTDGQQIWEMEATVDKDKSQPNMLFVEIPEYRNKHIRTPVKVNFYVI 263
Query: 305 T-KKDISEPYNFMLTPL 320
K+ S+P +F P+
Sbjct: 264 NGKRKRSQPQHFTYHPV 280
>pdb|1P7H|L Chain L, Structure Of Nfat1 Bound As A Dimer To The Hiv-1 Ltr Kb
Element
pdb|1P7H|M Chain M, Structure Of Nfat1 Bound As A Dimer To The Hiv-1 Ltr Kb
Element
pdb|1P7H|N Chain N, Structure Of Nfat1 Bound As A Dimer To The Hiv-1 Ltr Kb
Element
pdb|1P7H|O Chain O, Structure Of Nfat1 Bound As A Dimer To The Hiv-1 Ltr Kb
Element
Length = 286
Score = 36.2 bits (82), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 29/137 (21%), Positives = 64/137 (46%), Gaps = 3/137 (2%)
Query: 187 VRLCFQAYLPKDKDNVIKLEPVVSDIIYDAKTYSDLTIHTLSHVSAPVVGDMKMIILCDK 246
VRL F+ ++P+ ++ L+ + I ++ +L + + +V + +IL +
Sbjct: 150 VRLVFRVHIPESSGRIVSLQTASNPIECSQRSAHELPMVERQDTDSCLVYGGQQMILTGQ 209
Query: 247 VNKDDIEVRFYEE-QDGVVVWD-ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLV 304
+ +V F E+ DG +W+ E + + + ++ P Y++ I PV V ++
Sbjct: 210 NFTSESKVVFTEKTTDGQQIWEMEATVDKDKSQPNMLFVEIPEYRNKHIRTPVKVNFYVI 269
Query: 305 T-KKDISEPYNFMLTPL 320
K+ S+P +F P+
Sbjct: 270 NGKRKRSQPQHFTYHPV 286
>pdb|2AS5|N Chain N, Structure Of The Dna Binding Domains Of Nfat And Foxp2
Bound Specifically To Dna.
pdb|2AS5|M Chain M, Structure Of The Dna Binding Domains Of Nfat And Foxp2
Bound Specifically To Dna
Length = 287
Score = 36.2 bits (82), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 29/137 (21%), Positives = 64/137 (46%), Gaps = 3/137 (2%)
Query: 187 VRLCFQAYLPKDKDNVIKLEPVVSDIIYDAKTYSDLTIHTLSHVSAPVVGDMKMIILCDK 246
VRL F+ ++P+ ++ L+ + I ++ +L + + +V + +IL +
Sbjct: 151 VRLVFRVHIPESSGRIVSLQTASNPIECSQRSAHELPMVERQDTDSCLVYGGQQMILTGQ 210
Query: 247 VNKDDIEVRFYEE-QDGVVVWD-ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLV 304
+ +V F E+ DG +W+ E + + + ++ P Y++ I PV V ++
Sbjct: 211 NFTSESKVVFTEKTTDGQQIWEMEATVDKDKSQPNMLFVEIPEYRNKHIRTPVKVNFYVI 270
Query: 305 T-KKDISEPYNFMLTPL 320
K+ S+P +F P+
Sbjct: 271 NGKRKRSQPQHFTYHPV 287
>pdb|1OWR|M Chain M, Crystal Structure Of Human Nfat1 Bound Monomerically To
Dna
pdb|1OWR|N Chain N, Crystal Structure Of Human Nfat1 Bound Monomerically To
Dna
pdb|1OWR|P Chain P, Crystal Structure Of Human Nfat1 Bound Monomerically To
Dna
pdb|1OWR|Q Chain Q, Crystal Structure Of Human Nfat1 Bound Monomerically To
Dna
Length = 284
Score = 36.2 bits (82), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 29/137 (21%), Positives = 64/137 (46%), Gaps = 3/137 (2%)
Query: 187 VRLCFQAYLPKDKDNVIKLEPVVSDIIYDAKTYSDLTIHTLSHVSAPVVGDMKMIILCDK 246
VRL F+ ++P+ ++ L+ + I ++ +L + + +V + +IL +
Sbjct: 148 VRLVFRVHIPESSGRIVSLQTASNPIECSQRSAHELPMVERQDTDSCLVYGGQQMILTGQ 207
Query: 247 VNKDDIEVRFYEE-QDGVVVWD-ERVKTLEVHKQYAIVLKTPAYKSFEINDPVHVKIQLV 304
+ +V F E+ DG +W+ E + + + ++ P Y++ I PV V ++
Sbjct: 208 NFTSESKVVFTEKTTDGQQIWEMEATVDKDKSQPNMLFVEIPEYRNKHIRTPVKVNFYVI 267
Query: 305 T-KKDISEPYNFMLTPL 320
K+ S+P +F P+
Sbjct: 268 NGKRKRSQPQHFTYHPV 284
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.316 0.133 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,217,523
Number of Sequences: 62578
Number of extensions: 711456
Number of successful extensions: 1633
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 42
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1465
Number of HSP's gapped (non-prelim): 56
length of query: 695
length of database: 14,973,337
effective HSP length: 106
effective length of query: 589
effective length of database: 8,340,069
effective search space: 4912300641
effective search space used: 4912300641
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)