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= psy11902
(336 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IMH|C Chain C, TonebpDNA COMPLEX
pdb|1IMH|D Chain D, TonebpDNA COMPLEX
Length = 281
Score = 237 bits (605), Expect = 6e-63, Method: Compositional matrix adjust.
Identities = 123/253 (48%), Positives = 154/253 (60%), Gaps = 24/253 (9%)
Query: 84 YSVRDPSVYLEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGYNGPATLEVFIG 143
Y V+ L+I QPE QHRARY TEGSRG+VKD++ GFP VKL G+N P L+VF+G
Sbjct: 10 YPVKSEGKELKIVVQPETQHRARYLTEGSRGSVKDRTQQGFPTVKLEGHNEPVVLQVFVG 69
Query: 144 TDQGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERN 203
D G++ PH FYQACRV G+N+TPC E +GT +I++ DPS +M++ DCVGILK RN
Sbjct: 70 NDSGRVKPHGFYQACRVTGRNTTPCKEVDIEGTTVIEVGLDPSNNMTLAVDCVGILKLRN 129
Query: 204 VDVEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPGVPEIC 263
DVE R A +KK+STR R+VFR I+ T LQ S PI+C QP GVPEI
Sbjct: 130 ADVEARI---GIAGSKKKSTRARLVFRVNIMRKDG-STLTLQTPSSPILCTQPAGVPEIL 185
Query: 264 KKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMVADICQW 323
KKSL SC V G E+F ++GKNFLK T+V FQ+ V+D W
Sbjct: 186 KKSLHSCSVKGEEEVF--------------------LIGKNFLKGTKVIFQENVSDENSW 225
Query: 324 EESVLPDKEFLQQ 336
+ D E Q
Sbjct: 226 KSEAEIDMELFHQ 238
>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 = 143 bits (360), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 95/250 (38%), Positives = 130/250 (52%), Gaps = 32/250 (12%)
Query: 90 SVYLEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGY--NGPATLEVFIGT-DQ 146
S L I QP+ HRA Y+TEGSRGAVK +G G PVV+L GY N P L++FIGT D+
Sbjct: 30 SYELRIEVQPKPHHRAHYETEGSRGAVKAPTG-GHPVVQLHGYMENKPLGLQIFIGTADE 88
Query: 147 GKIAPHMFYQACRVAGKN-STPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
+ PH FYQ R+ GK +T EK T +++I +P +M T DC GILK RN D
Sbjct: 89 RILKPHAFYQVHRITGKTVTTTSYEKIVGNTKVLEIPLEPKNNMRATIDCAGILKLRNAD 148
Query: 206 VEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPG--VPEIC 263
+E R E +++TR R+VFR I R LQ AS+PI C+Q +P +
Sbjct: 149 IELRKGETDIG---RKNTRVRLVFRVHIPESSGRIVS-LQTASNPIECSQRSAHELPMVE 204
Query: 264 KKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMVADICQ- 322
++ SC V GG ++ + G+NF +++V F + D Q
Sbjct: 205 RQDTDSCLVYGGQQMI--------------------LTGQNFTSESKVVFTEKTTDGQQI 244
Query: 323 WEESVLPDKE 332
WE DK+
Sbjct: 245 WEMEATVDKD 254
>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 = 143 bits (360), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 95/250 (38%), Positives = 130/250 (52%), Gaps = 32/250 (12%)
Query: 90 SVYLEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGY--NGPATLEVFIGT-DQ 146
S L I QP+ HRA Y+TEGSRGAVK +G G PVV+L GY N P L++FIGT D+
Sbjct: 30 SYELRIEVQPKPHHRAHYETEGSRGAVKAPTG-GHPVVQLHGYMENKPLGLQIFIGTADE 88
Query: 147 GKIAPHMFYQACRVAGKN-STPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
+ PH FYQ R+ GK +T EK T +++I +P +M T DC GILK RN D
Sbjct: 89 RILKPHAFYQVHRITGKTVTTTSYEKIVGNTKVLEIPLEPKNNMRATIDCAGILKLRNAD 148
Query: 206 VEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPG--VPEIC 263
+E R E +++TR R+VFR I R LQ AS+PI C+Q +P +
Sbjct: 149 IELRKGETDIG---RKNTRVRLVFRVHIPESSGRIVS-LQTASNPIECSQRSAHELPMVE 204
Query: 264 KKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMVADICQ- 322
++ SC V GG ++ + G+NF +++V F + D Q
Sbjct: 205 RQDTDSCLVYGGQQMI--------------------LTGQNFTSESKVVFTEKTTDGQQI 244
Query: 323 WEESVLPDKE 332
WE DK+
Sbjct: 245 WEMEATVDKD 254
>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 = 143 bits (360), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 95/250 (38%), Positives = 130/250 (52%), Gaps = 32/250 (12%)
Query: 90 SVYLEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGY--NGPATLEVFIGT-DQ 146
S L I QP+ HRA Y+TEGSRGAVK +G G PVV+L GY N P L++FIGT D+
Sbjct: 15 SYELRIEVQPKPHHRAHYETEGSRGAVKAPTG-GHPVVQLHGYMENKPLGLQIFIGTADE 73
Query: 147 GKIAPHMFYQACRVAGKN-STPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
+ PH FYQ R+ GK +T EK T +++I +P +M T DC GILK RN D
Sbjct: 74 RILKPHAFYQVHRITGKTVTTTSYEKIVGNTKVLEIPLEPKNNMRATIDCAGILKLRNAD 133
Query: 206 VEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPG--VPEIC 263
+E R E +++TR R+VFR I R LQ AS+PI C+Q +P +
Sbjct: 134 IELRKGETDIG---RKNTRVRLVFRVHIPESSGRIVS-LQTASNPIECSQRSAHELPMVE 189
Query: 264 KKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMVADICQ- 322
++ SC V GG ++ + G+NF +++V F + D Q
Sbjct: 190 RQDTDSCLVYGGQQMI--------------------LTGQNFTSESKVVFTEKTTDGQQI 229
Query: 323 WEESVLPDKE 332
WE DK+
Sbjct: 230 WEMEATVDKD 239
>pdb|1S9K|C Chain C, Crystal Structure Of Human Nfat1 And Fos-Jun On The Il-2
Arre1 Site
Length = 280
Score = 143 bits (360), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 95/250 (38%), Positives = 130/250 (52%), Gaps = 32/250 (12%)
Query: 90 SVYLEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGY--NGPATLEVFIGT-DQ 146
S L I QP+ HRA Y+TEGSRGAVK +G G PVV+L GY N P L++FIGT D+
Sbjct: 9 SYELRIEVQPKPHHRAHYETEGSRGAVKAPTG-GHPVVQLHGYMENKPLGLQIFIGTADE 67
Query: 147 GKIAPHMFYQACRVAGKN-STPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
+ PH FYQ R+ GK +T EK T +++I +P +M T DC GILK RN D
Sbjct: 68 RILKPHAFYQVHRITGKTVTTTSYEKIVGNTKVLEIPLEPKNNMRATIDCAGILKLRNAD 127
Query: 206 VEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPG--VPEIC 263
+E R E +++TR R+VFR I R LQ AS+PI C+Q +P +
Sbjct: 128 IELRKGETDIG---RKNTRVRLVFRVHIPESSGRIVS-LQTASNPIECSQRSAHELPMVE 183
Query: 264 KKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMVADICQ- 322
++ SC V GG ++ + G+NF +++V F + D Q
Sbjct: 184 RQDTDSCLVYGGQQMI--------------------LTGQNFTSESKVVFTEKTTDGQQI 223
Query: 323 WEESVLPDKE 332
WE DK+
Sbjct: 224 WEMEATVDKD 233
>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 = 143 bits (360), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 95/250 (38%), Positives = 130/250 (52%), Gaps = 32/250 (12%)
Query: 90 SVYLEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGY--NGPATLEVFIGT-DQ 146
S L I QP+ HRA Y+TEGSRGAVK +G G PVV+L GY N P L++FIGT D+
Sbjct: 13 SYELRIEVQPKPHHRAHYETEGSRGAVKAPTG-GHPVVQLHGYMENKPLGLQIFIGTADE 71
Query: 147 GKIAPHMFYQACRVAGKN-STPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
+ PH FYQ R+ GK +T EK T +++I +P +M T DC GILK RN D
Sbjct: 72 RILKPHAFYQVHRITGKTVTTTSYEKIVGNTKVLEIPLEPKNNMRATIDCAGILKLRNAD 131
Query: 206 VEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPG--VPEIC 263
+E R E +++TR R+VFR I R LQ AS+PI C+Q +P +
Sbjct: 132 IELRKGETDIG---RKNTRVRLVFRVHIPESSGRIVS-LQTASNPIECSQRSAHELPMVE 187
Query: 264 KKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMVADICQ- 322
++ SC V GG ++ + G+NF +++V F + D Q
Sbjct: 188 RQDTDSCLVYGGQQMI--------------------LTGQNFTSESKVVFTEKTTDGQQI 227
Query: 323 WEESVLPDKE 332
WE DK+
Sbjct: 228 WEMEATVDKD 237
>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 = 142 bits (359), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 95/250 (38%), Positives = 130/250 (52%), Gaps = 32/250 (12%)
Query: 90 SVYLEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGY--NGPATLEVFIGT-DQ 146
S L I QP+ HRA Y+TEGSRGAVK +G G PVV+L GY N P L++FIGT D+
Sbjct: 16 SYELRIEVQPKPHHRAHYETEGSRGAVKAPTG-GHPVVQLHGYMENKPLGLQIFIGTADE 74
Query: 147 GKIAPHMFYQACRVAGKN-STPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
+ PH FYQ R+ GK +T EK T +++I +P +M T DC GILK RN D
Sbjct: 75 RILKPHAFYQVHRITGKTVTTTSYEKIVGNTKVLEIPLEPKNNMRATIDCAGILKLRNAD 134
Query: 206 VEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPG--VPEIC 263
+E R E +++TR R+VFR I R LQ AS+PI C+Q +P +
Sbjct: 135 IELRKGETDIG---RKNTRVRLVFRVHIPESSGRIVS-LQTASNPIECSQRSAHELPMVE 190
Query: 264 KKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMVADICQ- 322
++ SC V GG ++ + G+NF +++V F + D Q
Sbjct: 191 RQDTDSCLVYGGQQMI--------------------LTGQNFTSESKVVFTEKTTDGQQI 230
Query: 323 WEESVLPDKE 332
WE DK+
Sbjct: 231 WEMEATVDKD 240
>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 = 140 bits (354), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 93/242 (38%), Positives = 127/242 (52%), Gaps = 32/242 (13%)
Query: 90 SVYLEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGY--NGPATLEVFIGT-DQ 146
S L I QP+ HRA Y+TEGSRGAVK +G G PVV+L GY N P L++FIGT D+
Sbjct: 15 SYELRIEVQPKPHHRAHYETEGSRGAVKAPTG-GHPVVQLHGYMENKPLGLQIFIGTADE 73
Query: 147 GKIAPHMFYQACRVAGKN-STPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
+ PH FYQ R+ GK +T EK T +++I +P +M T DC GILK RN D
Sbjct: 74 RILKPHAFYQVHRITGKTVTTTSYEKIVGNTKVLEIPLEPKNNMRATIDCAGILKLRNAD 133
Query: 206 VEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQPPG--VPEIC 263
+E R E +++TR R+VFR I R LQ AS+PI C+Q +P +
Sbjct: 134 IELRKGETDIG---RKNTRVRLVFRVHIPESSGRIVS-LQTASNPIECSQRSAHELPMVE 189
Query: 264 KKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMVADICQ- 322
++ SC V GG ++ + G+NF +++V F + D Q
Sbjct: 190 RQDTDSCLVYGGQQMI--------------------LTGQNFTSESKVVFTEKTTDGQQI 229
Query: 323 WE 324
WE
Sbjct: 230 WE 231
>pdb|1A66|A Chain A, Solution Nmr Structure Of The Core Nfatc1DNA COMPLEX, 18
Structures
Length = 178
Score = 130 bits (328), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 78/167 (46%), Positives = 98/167 (58%), Gaps = 9/167 (5%)
Query: 93 LEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGY--NGPATLEVFIGT-DQGKI 149
L I QP+ HRARY+TEGSRGAVK +G G P+V+L GY N P L++FIGT D +
Sbjct: 15 LRIEVQPKSHHRARYETEGSRGAVKASAG-GHPIVQLHGYLENEPLMLQLFIGTADDRLL 73
Query: 150 APHMFYQACRVAGKN-STPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVDVEQ 208
PH FYQ R+ GK ST E T +++I P M DC GILK RN D+E
Sbjct: 74 RPHAFYQVHRITGKTVSTTSHEAILSNTKVLEIPLLPENSMRAVIDCAGILKLRNSDIEL 133
Query: 209 RFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQ 255
R E +++TR R+VFR + P R T LQVAS+PI C+Q
Sbjct: 134 RKGETDIG---RKNTRVRLVFRVHVPQPSGR-TLSLQVASNPIECSQ 176
>pdb|1NFA|A Chain A, Human Transcription Factor Nfatc Dna Binding Domain, Nmr,
10 Structures
Length = 178
Score = 129 bits (323), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 77/167 (46%), Positives = 97/167 (58%), Gaps = 9/167 (5%)
Query: 93 LEITSQPEQQHRARYQTEGSRGAVKDKSGNGFPVVKLVGY--NGPATLEVFIGT-DQGKI 149
L I QP+ HRA Y+TEGSRGAVK +G G P+V+L GY N P L++FIGT D +
Sbjct: 15 LRIEVQPKSHHRAHYETEGSRGAVKASAG-GHPIVQLHGYLENEPLMLQLFIGTADDRLL 73
Query: 150 APHMFYQACRVAGKN-STPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVDVEQ 208
PH FYQ R+ GK ST E T +++I P M DC GILK RN D+E
Sbjct: 74 RPHAFYQVHRITGKTVSTTSHEAILSNTKVLEIPLLPENSMRAVIDCAGILKLRNSDIEL 133
Query: 209 RFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQ 255
R E +++TR R+VFR + P R T LQVAS+PI C+Q
Sbjct: 134 RKGETDIG---RKNTRVRLVFRVHVPQPSGR-TLSLQVASNPIECSQ 176
>pdb|2I9T|A Chain A, Structure Of Nf-Kb P65-P50 Heterodimer Bound To Prdii
Element Of B-Interferon Promoter
Length = 279
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 52/206 (25%), Positives = 91/206 (44%), Gaps = 30/206 (14%)
Query: 92 YLEITSQPEQQ-HRARYQTEG-SRGAVKDKSGNG----FPVVKLVGYNGPATLEVFIGTD 145
Y+EI QP+Q+ R RY+ EG S G++ + P +K+ GY GP T+ + + T
Sbjct: 8 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 67
Query: 146 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
PH + GK+ C + + + D +++ + C +K+R+++
Sbjct: 68 DPPHRPHPH----ELVGKD---CRDGYYEADLCPDRSIHSFQNLGIQC-----VKKRDLE 115
Query: 206 --VEQRFPEDSS--------AKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQ 255
+ QR +++ + R+ F+ T+ P R + V SHPI N+
Sbjct: 116 QAISQRIQTNNNPFHVPIEEQRGDYDLNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDNR 175
Query: 256 PPGVPE--ICKKSLTSCPVTGGAELF 279
P E IC+ + S GG E+F
Sbjct: 176 APNTAELKICRVNRNSGSCLGGDEIF 201
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 52/207 (25%), Positives = 91/207 (43%), Gaps = 30/207 (14%)
Query: 91 VYLEITSQPEQQ-HRARYQTEG-SRGAVKDKSGNG----FPVVKLVGYNGPATLEVFIGT 144
Y+EI QP+Q+ R RY+ EG S G++ + P +K+ GY GP T+ + + T
Sbjct: 1 AYVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVT 60
Query: 145 DQGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNV 204
PH + GK+ C + + + D +++ + C +K+R++
Sbjct: 61 KDPPHRPHPH----ELVGKD---CRDGYYEADLCPDRSIHSFQNLGIQC-----VKKRDL 108
Query: 205 D--VEQRFPEDSS--------AKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCN 254
+ + QR +++ + R+ F+ T+ P R + V SHPI N
Sbjct: 109 EQAISQRIQTNNNPFHVPIEEQRGDYDLNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDN 168
Query: 255 QPPGVPE--ICKKSLTSCPVTGGAELF 279
+ P E IC+ + S GG E+F
Sbjct: 169 RAPNTAELKICRVNRNSGSCLGGDEIF 195
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 52/206 (25%), Positives = 91/206 (44%), Gaps = 30/206 (14%)
Query: 92 YLEITSQPEQQ-HRARYQTEG-SRGAVKDKSGNG----FPVVKLVGYNGPATLEVFIGTD 145
Y+EI QP+Q+ R RY+ EG S G++ + P +K+ GY GP T+ + + T
Sbjct: 2 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 61
Query: 146 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
PH + GK+ C + + + D +++ + C +K+R+++
Sbjct: 62 DPPHRPHPH----ELVGKD---CRDGYYEADLCPDRSIHSFQNLGIQC-----VKKRDLE 109
Query: 206 --VEQRFPEDSS--------AKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQ 255
+ QR +++ + R+ F+ T+ P R + V SHPI N+
Sbjct: 110 QAISQRIQTNNNPFHVPIEEQRGDYDLNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDNR 169
Query: 256 PPGVPE--ICKKSLTSCPVTGGAELF 279
P E IC+ + S GG E+F
Sbjct: 170 APNTAELKICRVNRNSGSCLGGDEIF 195
>pdb|1IKN|A Chain A, IkappabalphaNF-Kappab Complex
Length = 286
Score = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 52/206 (25%), Positives = 91/206 (44%), Gaps = 30/206 (14%)
Query: 92 YLEITSQPEQQ-HRARYQTEG-SRGAVKDKSGNG----FPVVKLVGYNGPATLEVFIGTD 145
Y+EI QP+Q+ R RY+ EG S G++ + P +K+ GY GP T+ + + T
Sbjct: 2 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 61
Query: 146 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
PH + GK+ C + + + D +++ + C +K+R+++
Sbjct: 62 DPPHRPHPH----ELVGKD---CRDGYYEADLCPDRSIHSFQNLGIQC-----VKKRDLE 109
Query: 206 --VEQRFPEDSS--------AKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQ 255
+ QR +++ + R+ F+ T+ P R + V SHPI N+
Sbjct: 110 QAISQRIQTNNNPFHVPIEEQRGDYDLNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDNR 169
Query: 256 PPGVPE--ICKKSLTSCPVTGGAELF 279
P E IC+ + S GG E+F
Sbjct: 170 APNTAELKICRVNRNSGSCLGGDEIF 195
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 52/207 (25%), Positives = 91/207 (43%), Gaps = 30/207 (14%)
Query: 91 VYLEITSQPEQQ-HRARYQTEG-SRGAVKDKSGNG----FPVVKLVGYNGPATLEVFIGT 144
Y+EI QP+Q+ R RY+ EG S G++ + P +K+ GY GP T+ + + T
Sbjct: 2 AYVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVT 61
Query: 145 DQGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNV 204
PH + GK+ C + + + D +++ + C +K+R++
Sbjct: 62 KDPPHRPHPH----ELVGKD---CRDGYYEADLCPDRSIHSFQNLGIQC-----VKKRDL 109
Query: 205 D--VEQRFPEDSS--------AKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCN 254
+ + QR +++ + R+ F+ T+ P R + V SHPI N
Sbjct: 110 EQAISQRIQTNNNPFHVPIEEQRGDYDLNAVRLCFQVTVRDPAGRPLLLTPVLSHPIFDN 169
Query: 255 QPPGVPE--ICKKSLTSCPVTGGAELF 279
+ P E IC+ + S GG E+F
Sbjct: 170 RAPNTAELKICRVNRNSGSCLGGDEIF 196
>pdb|2O61|A Chain A, Crystal Structure Of Nfkb, Irf7, Irf3 Bound To The
Interferon-B Enhancer
Length = 540
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 52/206 (25%), Positives = 91/206 (44%), Gaps = 30/206 (14%)
Query: 92 YLEITSQPEQQ-HRARYQTEG-SRGAVKDKSGNG----FPVVKLVGYNGPATLEVFIGTD 145
Y+EI QP+Q+ R RY+ EG S G++ + P +K+ GY GP T+ + + T
Sbjct: 3 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 62
Query: 146 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
PH + GK+ C + + + D +++ + C +K+R+++
Sbjct: 63 DPPHRPH----PHELVGKD---CRDGFYEAELCPDRCIHSFQNLGIQC-----VKKRDLE 110
Query: 206 --VEQRFPEDSS--------AKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQ 255
+ QR +++ + R+ F+ T+ P R + V SHPI N+
Sbjct: 111 QAISQRIQTNNNPFQVPIEEQRGDYDLNAVRLCFQVTVRDPSGRPLRLPPVLSHPIFDNR 170
Query: 256 PPGVPE--ICKKSLTSCPVTGGAELF 279
P E IC+ + S GG E+F
Sbjct: 171 APNTAELKICRVNRNSGSCLGGDEIF 196
>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 = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 51/206 (24%), Positives = 90/206 (43%), Gaps = 30/206 (14%)
Query: 92 YLEITSQPEQQ-HRARYQTEG-SRGAVKDKSGNG----FPVVKLVGYNGPATLEVFIGTD 145
Y+EI QP+Q+ R RY+ EG S G++ + P +K+ GY GP T+ + + T
Sbjct: 1 YVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINGYTGPGTVRISLVTK 60
Query: 146 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERNVD 205
PH + GK+ C + + + D +++ + C +K+R+++
Sbjct: 61 DPPHRPHPH----ELVGKD---CRDGFYEAELCPDRCIHSFQNLGIQC-----VKKRDLE 108
Query: 206 --VEQRFPEDSS--------AKNKKRSTRCRMVFRTTIIHPGTRETEVLQVASHPIMCNQ 255
+ QR +++ + R+ F+ T+ P R + V HPI N+
Sbjct: 109 QAISQRIQTNNNPFQVPIEEQRGDYDLNAVRLCFQVTVRDPSGRPLRLPPVLPHPIFDNR 168
Query: 256 PPGVPE--ICKKSLTSCPVTGGAELF 279
P E IC+ + S GG E+F
Sbjct: 169 APNTAELKICRVNRNSGSCLGGDEIF 194
>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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 58/219 (26%), Positives = 87/219 (39%), Gaps = 47/219 (21%)
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 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILK--ERN 203
H A + GK C E I + P KDM+ + +G+L ++N
Sbjct: 63 SDPPRAH----AHSLVGKQ---CSE-----LGICAVSVGP-KDMTAQFNNLGVLHVTKKN 109
Query: 204 V---------------------DVEQRFPEDSSAKNKKRSTRCRMVFRTTIIHPGTRETE 242
+ + EQR E + + KK + R + R
Sbjct: 110 MMGTMIQKLQRQRLRSRPQGLTEAEQRELEQEAKELKKVMDLSIVRLRFSAF---LRSLP 166
Query: 243 VLQVASHPIMCNQPPGVP--EICKKSLTSCPVTGGAELF 279
+ V S PI ++ PG +I + T+ V GG E++
Sbjct: 167 LKPVISQPIHDSKSPGASNLKISRMDKTAGSVRGGDEVY 205
>pdb|1SVC|P Chain P, Nfkb P50 Homodimer Bound To Dna
Length = 365
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 51/114 (44%), Gaps = 20/114 (17%)
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 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGIL 199
I H A + GK+ + T G KDM V +GIL
Sbjct: 103 GKNIHLH----AHSLVGKHCEDGICTVTAG----------PKDMVVGFANLGIL 142
>pdb|3DO7|B Chain B, X-Ray Structure Of A Nf-Kb P52RELBDNA COMPLEX
Length = 293
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 92 YLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEV 140
YL I QP+Q+ R RY EG GA +K +P VK+ Y GPA +EV
Sbjct: 3 YLVIVEQPKQRGFRFRYGCEGPSHGGLPGASSEKGRKTYPTVKICNYEGPAKIEV 57
>pdb|2O61|B Chain B, Crystal Structure Of Nfkb, Irf7, Irf3 Bound To The
Interferon-B Enhancer
Length = 314
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 51/114 (44%), Gaps = 20/114 (17%)
Query: 92 YLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEVFIGTD 145
YL+I QP+Q+ R RY EG GA +K+ +P VK+ Y GPA + V + T+
Sbjct: 5 YLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTN 64
Query: 146 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGIL 199
I H A + GK+ + T G KDM V +GIL
Sbjct: 65 GKNIHLH----AHSLVGKHCEDGICTVTAG----------PKDMVVGFANLGIL 104
>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 = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 51/114 (44%), Gaps = 20/114 (17%)
Query: 92 YLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEVFIGTD 145
YL+I QP+Q+ R RY EG GA +K+ +P VK+ Y GPA + V + T+
Sbjct: 4 YLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTN 63
Query: 146 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGIL 199
I H A + GK+ + T G KDM V +GIL
Sbjct: 64 GKNIHLH----AHSLVGKHCEDGVCTVTAG----------PKDMVVGFANLGIL 103
>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 = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 51/114 (44%), Gaps = 20/114 (17%)
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 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGIL 199
I H A + GK+ + T G KDM V +GIL
Sbjct: 63 GKNIHLH----AHSLVGKHCEDGVCTVTAG----------PKDMVVGFANLGIL 102
>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 = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 51/114 (44%), Gaps = 20/114 (17%)
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 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGIL 199
I H A + GK+ + T G KDM V +GIL
Sbjct: 63 GKNIHLH----AHSLVGKHCEDGVCTVTAG----------PKDMVVGFANLGIL 102
>pdb|2V2T|B Chain B, X-Ray Structure Of A Nf-Kb P50-Relb-Dna Complex
Length = 326
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 51/114 (44%), Gaps = 20/114 (17%)
Query: 92 YLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEVFIGTD 145
YL+I QP+Q+ R RY EG GA +K+ +P VK+ Y GPA + V + T+
Sbjct: 4 YLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTN 63
Query: 146 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGIL 199
I H A + GK+ + T G KDM V +GIL
Sbjct: 64 GKNIHLH----AHSLVGKHCEDGVCTVTAG----------PKDMVVGFANLGIL 103
>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 = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 51/114 (44%), Gaps = 20/114 (17%)
Query: 92 YLEITSQPEQQ-HRARYQTEGSR-----GAVKDKSGNGFPVVKLVGYNGPATLEVFIGTD 145
YL+I QP+Q+ R RY EG GA +K+ +P VK+ Y GPA + V + T+
Sbjct: 4 YLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTN 63
Query: 146 QGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGIL 199
I H A + GK+ + T G KDM V +GIL
Sbjct: 64 GKNIHLH----AHSLVGKHCEDGVCTVTAG----------PKDMVVGFANLGIL 103
>pdb|1BVO|A Chain A, Dorsal Homologue Gambif1 Bound To Dna
Length = 175
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 58/126 (46%), Gaps = 24/126 (19%)
Query: 92 YLEITSQPE-QQHRARYQTEG-SRGAVKDKSGNG----FPVVKLVGYNGPATLEVFIGTD 145
Y+EIT QP + R RY+ EG S G++ + FP +++ GY G A + V T
Sbjct: 2 YVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTK 61
Query: 146 QG---KIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKER 202
+G K PH + GK E G ++I+ S MS T + +GI +
Sbjct: 62 EGPEHKPHPH------NLVGK------EGCKKGVCTVEIN---STTMSYTFNNLGIQCVK 106
Query: 203 NVDVEQ 208
DVE+
Sbjct: 107 KKDVEE 112
>pdb|2YRP|A Chain A, Solution Structure Of The Tig Domain From Human Nuclear
Factor Of Activated T-Cells, Cytoplasmic 4
Length = 114
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 21/69 (30%)
Query: 258 GVPEICKKSLTSCPVTGGAELFKVSPTDTIAGKGLLQDHPDAILGKNFLKDTQVKFQKMV 317
G+P++ S ++C V GG EL + G NFL D++V F +
Sbjct: 7 GLPQVEAYSPSACSVRGGEEL--------------------VLTGSNFLPDSKVVFIERG 46
Query: 318 AD-ICQWEE 325
D QWEE
Sbjct: 47 PDGKLQWEE 55
>pdb|3NQK|A Chain A, Crystal Structure Of A Structural Genomics, Unknown
Function (Bacova_03322) From Bacteroides Ovatus At 2.61
A Resolution
pdb|3SOT|A Chain A, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
pdb|3SOT|B Chain B, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
pdb|3SOT|C Chain C, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
pdb|3SOT|D Chain D, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
pdb|3SOT|E Chain E, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
pdb|3SOT|F Chain F, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
Length = 319
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 33/79 (41%), Gaps = 4/79 (5%)
Query: 46 LPLCSMASSSSVAPTRPGRRLYGKRLSNITAQNSASISYSVRDPSVYLEITSQPEQQHRA 105
LPL + S + P R+ Y K L + N+ S SY+ VY I +P+ R
Sbjct: 127 LPLTIVDDGSYAYQSHP-RKNYAKALLKVVPFNNYSGSYTASSXKVYTYINGKPDTNART 185
Query: 106 RYQTEGSRGAVKDKSGNGF 124
T+ G V D + F
Sbjct: 186 ---TDKRTGYVVDNNSIFF 201
>pdb|2PAN|A Chain A, Crystal Structure Of E. Coli Glyoxylate Carboligase
pdb|2PAN|B Chain B, Crystal Structure Of E. Coli Glyoxylate Carboligase
pdb|2PAN|C Chain C, Crystal Structure Of E. Coli Glyoxylate Carboligase
pdb|2PAN|D Chain D, Crystal Structure Of E. Coli Glyoxylate Carboligase
pdb|2PAN|E Chain E, Crystal Structure Of E. Coli Glyoxylate Carboligase
pdb|2PAN|F Chain F, Crystal Structure Of E. Coli Glyoxylate Carboligase
Length = 616
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 166 TPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKE 201
T +EK T+G I+ ID +P++ V C +GI+ +
Sbjct: 309 TGSVEKYTEGRKIVHIDIEPTQIGRVLCPDLGIVSD 344
>pdb|2QB6|A Chain A, Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase,
Sulfate Complex
pdb|2QB6|B Chain B, Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase,
Sulfate Complex
pdb|2QB7|A Chain A, Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase,
Phosphate Complex
pdb|2QB7|B Chain B, Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase,
Phosphate Complex
pdb|2QB8|A Chain A, Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp
Complex
pdb|2QB8|B Chain B, Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp
Complex
Length = 397
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 144 TDQGKIAPHMFYQACRVAGKNSTPCLEKKTDGTVIIDIDFDPSKDMSVTCDCVGILKERN 203
D IA + Y C+ T EKK G+ I+ I P +D+S+ D + +L++
Sbjct: 38 ADMDSIASAITYSYCQYIYNEGTYSEEKKK-GSFIVPIIDIPREDLSLRRDVMYVLEKLK 96
Query: 204 VDVEQRF 210
+ E+ F
Sbjct: 97 IKEEELF 103
>pdb|1RNI|A Chain A, Bifunctional Dna PrimasePOLYMERASE DOMAIN OF ORF904 FROM
THE ARCHAEAL Plasmid Prn1
Length = 216
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 15/79 (18%)
Query: 258 GVPEICKKSLTSCPVTGGAELF---------KVSPTDTIAGKGL--LQDHPDAILGKNFL 306
+ E+C+K+L + V GG ++ K++P GKG+ LQ + +LG
Sbjct: 87 ALEELCRKTLCTNTVHGGIHIYVLSNDIPPHKINPLFEENGKGIIDLQSYNSYVLGLG-- 144
Query: 307 KDTQVKFQKMVADICQWEE 325
+ V D C W+E
Sbjct: 145 --SCVNHLHCTTDKCPWKE 161
>pdb|1RO0|A Chain A, Bifunctional Dna PrimasePOLYMERASE DOMAIN OF ORF904 FROM
The Archaeal Plasmid Prn1- Triple Mutant F50mL107ML110M
Semet Remote
pdb|1RO2|A Chain A, Bifunctional Dna PrimasePOLYMERASE DOMAIN OF ORF904 FROM
The Archaeal Plasmid Prn1- Triple Mutant F50mL107ML110M
Manganese Soak
Length = 216
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 15/79 (18%)
Query: 258 GVPEICKKSLTSCPVTGGAELF---------KVSPTDTIAGKGL--LQDHPDAILGKNFL 306
+ E+C+K+L + V GG ++ K++P GKG+ LQ + +LG
Sbjct: 87 ALEELCRKTLCTNTVHGGIHIYVLSNDIPPHKINPLFEENGKGIIDLQSYNSYVLGLG-- 144
Query: 307 KDTQVKFQKMVADICQWEE 325
+ V D C W+E
Sbjct: 145 --SCVNHLHCTTDKCPWKE 161
>pdb|3M1M|A Chain A, Crystal Structure Of The Primase-Polymerase From
Sulfolobus Islandicus
Length = 335
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 15/79 (18%)
Query: 258 GVPEICKKSLTSCPVTGGAELF---------KVSPTDTIAGKGL--LQDHPDAILGKNFL 306
+ E+C+K+L + V GG ++ K++P GKG+ LQ + +LG
Sbjct: 91 ALEELCRKTLCTNTVHGGIHIYVLSNDIPPHKINPLFEENGKGIIDLQSYNSYVLGLG-- 148
Query: 307 KDTQVKFQKMVADICQWEE 325
+ V D C W+E
Sbjct: 149 --SCVNHLHCTTDKCPWKE 165
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 0.132 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,642,055
Number of Sequences: 62578
Number of extensions: 445149
Number of successful extensions: 928
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 864
Number of HSP's gapped (non-prelim): 34
length of query: 336
length of database: 14,973,337
effective HSP length: 99
effective length of query: 237
effective length of database: 8,778,115
effective search space: 2080413255
effective search space used: 2080413255
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: 52 (24.6 bits)