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= 009203
(540 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 41/177 (23%), Positives = 74/177 (41%), Gaps = 24/177 (13%)
Query: 343 ATGGSDHAVVLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVLSAGADKRIIGFD 402
A+ G+D + ++ E K L H V+ A + + ADK++ +D
Sbjct: 631 ASCGADKTLQVFKAETGE-----KLLDIKAHEDEVLCCAFSSDDSYIATCSADKKVKIWD 685
Query: 403 AGVGRADFKHQIESKCMSVLPNPCDF----NLFMVQTGTPGRQLRLYDIRLRQTEIHAFG 458
+ G+ H + V N C F N ++ TG+ L+L+D+ ++ FG
Sbjct: 686 SATGK--LVHTYDEHSEQV--NCCHFTNKSNHLLLATGSNDFFLKLWDLNQKECRNTMFG 741
Query: 459 WKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVF 515
+ + +SPD + S SAD + L+D+R + + S ++ KR F
Sbjct: 742 HTNSVNHCR-------FSPDDELLASCSADGTLRLWDVRSANERKSINV----KRFF 787
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 41/177 (23%), Positives = 74/177 (41%), Gaps = 24/177 (13%)
Query: 343 ATGGSDHAVVLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVLSAGADKRIIGFD 402
A+ G+D + ++ E K L H V+ A + + ADK++ +D
Sbjct: 638 ASCGADKTLQVFKAETGE-----KLLDIKAHEDEVLCCAFSSDDSYIATCSADKKVKIWD 692
Query: 403 AGVGRADFKHQIESKCMSVLPNPCDF----NLFMVQTGTPGRQLRLYDIRLRQTEIHAFG 458
+ G+ H + V N C F N ++ TG+ L+L+D+ ++ FG
Sbjct: 693 SATGK--LVHTYDEHSEQV--NCCHFTNKSNHLLLATGSNDFFLKLWDLNQKECRNTMFG 748
Query: 459 WKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVF 515
+ + +SPD + S SAD + L+D+R + + S ++ KR F
Sbjct: 749 HTNSVNHCR-------FSPDDELLASCSADGTLRLWDVRSANERKSINV----KRFF 794
>pdb|2XYI|A Chain A, Crystal Structure Of Nurf55 In Complex With A H4 Peptide
Length = 430
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 42/172 (24%), Positives = 67/172 (38%), Gaps = 12/172 (6%)
Query: 232 NPVNEQLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFS 291
NP ++++ D I LW + + ++ + + H ED+AWH SLF
Sbjct: 190 NPNLNGYLLSASDDHTICLWDINATPKEHRVIDAKNIFT-GHTAVVEDVAWHLLHESLFG 248
Query: 292 AHTADSGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAV 351
+ D N N +K V H + N + F P+ ATG +D V
Sbjct: 249 SVADDQKLMIWDTRNNNTSKPSHTV-----DAHTAEV-NCLSFNPYSEFILATGSADKTV 302
Query: 352 VLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVL-SAGADKRIIGFD 402
LW R+ K K H + V + +L S+G D+R+ +D
Sbjct: 303 ALWDLRNL----KLKLHSFESHKDEIFQVQWSPHNETILASSGTDRRLHVWD 350
Score = 35.8 bits (81), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 49/226 (21%), Positives = 91/226 (40%), Gaps = 46/226 (20%)
Query: 339 NPCFATGGSDHAVVLWSERDAEDSWKPKALHRNL--------HSSAVMGVAG-MQQKQIV 389
N + DH + LW PK HR + H++ V VA + + +
Sbjct: 194 NGYLLSASDDHTICLWDINAT-----PKE-HRVIDAKNIFTGHTAVVEDVAWHLLHESLF 247
Query: 390 LSAGADKRIIGFDAGVGRAD------FKHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLR 443
S D++++ +D H E C+S P ++ F++ TG+ + +
Sbjct: 248 GSVADDQKLMIWDTRNNNTSKPSHTVDAHTAEVNCLSFNP----YSEFILATGSADKTVA 303
Query: 444 LYDIRLRQTEIHAFGWKQESSESQSALINQ-SWSPDGLYITSGSA-DPVIHLFDI----- 496
L+D+R + ++H+F ES I Q WSP I + S D +H++D+
Sbjct: 304 LWDLRNLKLKLHSF-------ESHKDEIFQVQWSPHNETILASSGTDRRLHVWDLSKIGE 356
Query: 497 ----RYSANKPSQSIR---AHQKRVFKAVWHYSHPLLISISSDLNI 535
+ + P + + H ++ W+ + P +I S+ NI
Sbjct: 357 EQSTEDAEDGPPELLFIHGGHTAKISDFSWNPNEPWIICSVSEDNI 402
>pdb|3C99|A Chain A, Structural Basis Of Histone H4 Recognition By P55
pdb|3C9C|A Chain A, Structural Basis Of Histone H4 Recognition By P55
Length = 432
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 42/172 (24%), Positives = 67/172 (38%), Gaps = 12/172 (6%)
Query: 232 NPVNEQLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFS 291
NP ++++ D I LW + + ++ + + H ED+AWH SLF
Sbjct: 192 NPNLNGYLLSASDDHTICLWDINATPKEHRVIDAKNIFT-GHTAVVEDVAWHLLHESLFG 250
Query: 292 AHTADSGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAV 351
+ D N N +K V H + N + F P+ ATG +D V
Sbjct: 251 SVADDQKLMIWDTRNNNTSKPSHTV-----DAHTAEV-NCLSFNPYSEFILATGSADKTV 304
Query: 352 VLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVL-SAGADKRIIGFD 402
LW R+ K K H + V + +L S+G D+R+ +D
Sbjct: 305 ALWDLRNL----KLKLHSFESHKDEIFQVQWSPHNETILASSGTDRRLHVWD 352
Score = 35.8 bits (81), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 49/226 (21%), Positives = 91/226 (40%), Gaps = 46/226 (20%)
Query: 339 NPCFATGGSDHAVVLWSERDAEDSWKPKALHRNL--------HSSAVMGVAG-MQQKQIV 389
N + DH + LW PK HR + H++ V VA + + +
Sbjct: 196 NGYLLSASDDHTICLWDINAT-----PKE-HRVIDAKNIFTGHTAVVEDVAWHLLHESLF 249
Query: 390 LSAGADKRIIGFDAGVGRAD------FKHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLR 443
S D++++ +D H E C+S P ++ F++ TG+ + +
Sbjct: 250 GSVADDQKLMIWDTRNNNTSKPSHTVDAHTAEVNCLSFNP----YSEFILATGSADKTVA 305
Query: 444 LYDIRLRQTEIHAFGWKQESSESQSALINQ-SWSPDGLYITSGSA-DPVIHLFDI----- 496
L+D+R + ++H+F ES I Q WSP I + S D +H++D+
Sbjct: 306 LWDLRNLKLKLHSF-------ESHKDEIFQVQWSPHNETILASSGTDRRLHVWDLSKIGE 358
Query: 497 ----RYSANKPSQSIR---AHQKRVFKAVWHYSHPLLISISSDLNI 535
+ + P + + H ++ W+ + P +I S+ NI
Sbjct: 359 EQSTEDAEDGPPELLFIHGGHTAKISDFSWNPNEPWIICSVSEDNI 404
>pdb|2YBA|A Chain A, Crystal Structure Of Nurf55 In Complex With Histone H3
pdb|2YBA|B Chain B, Crystal Structure Of Nurf55 In Complex With Histone H3
pdb|2YB8|B Chain B, Crystal Structure Of Nurf55 In Complex With Su(Z)12
Length = 422
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 42/172 (24%), Positives = 67/172 (38%), Gaps = 12/172 (6%)
Query: 232 NPVNEQLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFS 291
NP ++++ D I LW + + ++ + + H ED+AWH SLF
Sbjct: 194 NPNLNGYLLSASDDHTICLWDINATPKEHRVIDAKNIFT-GHTAVVEDVAWHLLHESLFG 252
Query: 292 AHTADSGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAV 351
+ D N N +K V H + N + F P+ ATG +D V
Sbjct: 253 SVADDQKLMIWDTRNNNTSKPSHTV-----DAHTAEV-NCLSFNPYSEFILATGSADKTV 306
Query: 352 VLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVL-SAGADKRIIGFD 402
LW R+ K K H + V + +L S+G D+R+ +D
Sbjct: 307 ALWDLRNL----KLKLHSFESHKDEIFQVQWSPHNETILASSGTDRRLHVWD 354
Score = 35.4 bits (80), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 63/137 (45%), Gaps = 23/137 (16%)
Query: 412 HQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRLYDIRLRQTEIHAFGWKQESSESQSALI 471
H E C+S P ++ F++ TG+ + + L+D+R + ++H+F ES + + +
Sbjct: 280 HTAEVNCLSFNP----YSEFILATGSADKTVALWDLRNLKLKLHSF----ESHKDE--IF 329
Query: 472 NQSWSPDGLYITSGSA-DPVIHLFDI---------RYSANKPSQSIR---AHQKRVFKAV 518
WSP I + S D +H++D+ + + P + + H ++
Sbjct: 330 QVQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFS 389
Query: 519 WHYSHPLLISISSDLNI 535
W+ + P +I S+ NI
Sbjct: 390 WNPNEPWIICSVSEDNI 406
>pdb|4A11|B Chain B, Structure Of The Hsddb1-Hscsa Complex
Length = 408
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 45/181 (24%), Positives = 77/181 (42%), Gaps = 17/181 (9%)
Query: 327 GIINSIIFLPWENPCFATGGSDHAVVLWSERDA--EDSWKPKAL------HRNLHSSAVM 378
G IN++ P E +GGSD +VL+ ++ + + KA+ H ++H +V
Sbjct: 44 GGINTLDIEPVEGRYMLSGGSDGVIVLYDLENSSRQSYYTCKAVCSIGRDHPDVHRYSVE 103
Query: 379 GVAGM-QQKQIVLSAGADKRIIGFDAGVGRADFKHQIESKCMSVLPNPCDFNLFMVQTGT 437
V + S+ DK + +D + E S +P +V GT
Sbjct: 104 TVQWYPHDTGMFTSSSFDKTLKVWDTNTLQTADVFNFEETVYSHHMSPVSTKHCLVAVGT 163
Query: 438 PGRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYI-TSGSADPVIHLFDI 496
G +++L D++ G +QE ++ SWSP YI + SAD + L+D+
Sbjct: 164 RGPKVQLCDLKSGSCSHILQGHRQE-------ILAVSWSPRYDYILATASADSRVKLWDV 216
Query: 497 R 497
R
Sbjct: 217 R 217
Score = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 34/81 (41%), Gaps = 8/81 (9%)
Query: 233 PVNEQLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPK-----HRRWPEDIAWHPQGN 287
PV + ++ DGVI L+ L++ + C + HR E + W+P
Sbjct: 53 PVEGRYMLSGGSDGVIVLYDLENSSRQSYYTCKAVCSIGRDHPDVHRYSVETVQWYPHDT 112
Query: 288 SLFSAHTADSGDSQISVLNLN 308
+F T+ S D + V + N
Sbjct: 113 GMF---TSSSFDKTLKVWDTN 130
>pdb|3JRO|A Chain A, Nup84-Nup145c-Sec13 Edge Element Of The Npc Lattice
Length = 753
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 54/138 (39%), Gaps = 30/138 (21%)
Query: 239 FVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHTADSG 298
FVT D ++++W+ S L ST + H W D+AW P L ++ A
Sbjct: 173 FVTGGADNLVKIWKYNSDAQTYVLESTLE----GHSDWVRDVAWSP--TVLLRSYLA--- 223
Query: 299 DSQISVLNLNKTKGRACVTFLDDK---PHVKGIINSIIF--LPWE------NPCFATGGS 347
+ ++ R C+ + D P K ++ F + W A G
Sbjct: 224 ---------SVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGG 274
Query: 348 DHAVVLWSERDAEDSWKP 365
D+ V LW E + E W+P
Sbjct: 275 DNKVTLWKE-NLEGKWEP 291
>pdb|4A0B|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
pdb|4A0B|C Chain C, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
Length = 1159
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y++ LR+ E + WKQE+ E++++++ SP G I G H D +Y
Sbjct: 206 GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPSPFGGAIIIGQESITYHNGD-KY 264
Query: 499 SANKP 503
A P
Sbjct: 265 LAIAP 269
>pdb|3JRP|A Chain A, Sec13 With Nup145c (Aa109-179) Insertion Blade
Length = 379
Score = 36.6 bits (83), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 54/138 (39%), Gaps = 30/138 (21%)
Query: 239 FVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHTADSG 298
FVT D ++++W+ S L ST + H W D+AW P L ++ A
Sbjct: 175 FVTGGADNLVKIWKYNSDAQTYVLESTLE----GHSDWVRDVAWSP--TVLLRSYLA--- 225
Query: 299 DSQISVLNLNKTKGRACVTFLDDK---PHVKGIINSIIF--LPWE------NPCFATGGS 347
+ ++ R C+ + D P K ++ F + W A G
Sbjct: 226 ---------SVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGG 276
Query: 348 DHAVVLWSERDAEDSWKP 365
D+ V LW E + E W+P
Sbjct: 277 DNKVTLWKE-NLEGKWEP 293
>pdb|3CFV|B Chain B, Structural Basis Of The Interaction Of Rbap46RBAP48 WITH
Histone H4
pdb|3CFV|A Chain A, Structural Basis Of The Interaction Of Rbap46RBAP48 WITH
Histone H4
Length = 414
Score = 36.6 bits (83), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 66/165 (40%), Gaps = 12/165 (7%)
Query: 239 FVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHTADSG 298
++++ D + LW + + G + + H ED+AWH SLF + AD
Sbjct: 195 LLSASDDHTVCLWDINA-GPKEGKIVDAKAIFTGHSAVVEDVAWHLLHESLFGS-VAD-- 250
Query: 299 DSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAVVLWSERD 358
D ++ + + +D +N + F P+ ATG +D V LW R+
Sbjct: 251 DQKLXIWDTRSNTTSKPSHLVDAH---TAEVNCLSFNPYSEFILATGSADKTVALWDLRN 307
Query: 359 AEDSWKPKALHRNLHSSAVMGVAGMQQKQIVL-SAGADKRIIGFD 402
K K H + V + +L S+G D+R+ +D
Sbjct: 308 L----KLKLHTFESHKDEIFQVHWSPHNETILASSGTDRRLNVWD 348
Score = 32.7 bits (73), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 38/164 (23%), Positives = 70/164 (42%), Gaps = 22/164 (13%)
Query: 344 TGGSDHAVVLWSERDAEDSWK---PKALHRNLHSSAVMGVAG-MQQKQIVLSAGADKRII 399
+ DH V LW K KA+ HS+ V VA + + + S D+++
Sbjct: 197 SASDDHTVCLWDINAGPKEGKIVDAKAIFTG-HSAVVEDVAWHLLHESLFGSVADDQKLX 255
Query: 400 GFDAGVGRAD------FKHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRLYDIRLRQTE 453
+D H E C+S P ++ F++ TG+ + + L+D+R + +
Sbjct: 256 IWDTRSNTTSKPSHLVDAHTAEVNCLSFNP----YSEFILATGSADKTVALWDLRNLKLK 311
Query: 454 IHAFGWKQESSESQSALINQSWSPDGLYITSGSA-DPVIHLFDI 496
+H F ES + + + WSP I + S D ++++D+
Sbjct: 312 LHTF----ESHKDE--IFQVHWSPHNETILASSGTDRRLNVWDL 349
>pdb|2PM9|B Chain B, Crystal Structure Of Yeast Sec1331 VERTEX ELEMENT OF THE
Copii Vesicular Coat
Length = 297
Score = 36.2 bits (82), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 54/138 (39%), Gaps = 30/138 (21%)
Query: 239 FVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHTADSG 298
FVT D ++++W+ S L ST + H W D+AW P L ++ A
Sbjct: 173 FVTGGADNLVKIWKYNSDAQTYVLESTLE----GHSDWVRDVAWSP--TVLLRSYMA--- 223
Query: 299 DSQISVLNLNKTKGRACVTFLDDK---PHVKGIINSIIF--LPW------ENPCFATGGS 347
+ ++ R C+ + D P K ++ F + W A G
Sbjct: 224 ---------SVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGG 274
Query: 348 DHAVVLWSERDAEDSWKP 365
D+ V LW E + E W+P
Sbjct: 275 DNKVTLWKE-NLEGKWEP 291
>pdb|3FM0|A Chain A, Crystal Structure Of Wd40 Protein Ciao1
Length = 345
Score = 36.2 bits (82), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 47/167 (28%), Positives = 74/167 (44%), Gaps = 17/167 (10%)
Query: 232 NPVNEQLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFS 291
NP L + D IR+W + G S + + LS H+R +AW P GN L S
Sbjct: 25 NPAG-TLLASCGGDRRIRIWGTE----GDSWICKS-VLSEGHQRTVRKVAWSPCGNYLAS 78
Query: 292 AHTADSGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAV 351
A S D+ + N+ CVT L+ + + S+ + P N AT D +V
Sbjct: 79 A----SFDATTCIWKKNQDDFE-CVTTLEGH---ENEVKSVAWAPSGNL-LATCSRDKSV 129
Query: 352 VLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVLSAGADKRI 398
+W E D ED ++ ++ N H+ V V ++++ SA D +
Sbjct: 130 WVW-EVDEEDEYECVSV-LNSHTQDVKHVVWHPSQELLASASYDDTV 174
>pdb|3OW8|A Chain A, Crystal Structure Of The Wd Repeat-Containing Protein 61
pdb|3OW8|B Chain B, Crystal Structure Of The Wd Repeat-Containing Protein 61
pdb|3OW8|C Chain C, Crystal Structure Of The Wd Repeat-Containing Protein 61
pdb|3OW8|D Chain D, Crystal Structure Of The Wd Repeat-Containing Protein 61
Length = 321
Score = 36.2 bits (82), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 39/71 (54%), Gaps = 2/71 (2%)
Query: 470 LINQSWSPDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISI 529
+++ ++SPDG Y+ SG+ D +I++FDI + K ++ H + + LL++
Sbjct: 167 ILSIAYSPDGKYLASGAIDGIINIFDI--ATGKLLHTLEGHAMPIRSLTFSPDSQLLVTA 224
Query: 530 SSDLNIGLHKI 540
S D I ++ +
Sbjct: 225 SDDGYIKIYDV 235
>pdb|3CFS|B Chain B, Structural Basis Of The Interaction Of Rbap46RBAP48 WITH
Histone H4
Length = 414
Score = 36.2 bits (82), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 68/165 (41%), Gaps = 12/165 (7%)
Query: 239 FVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHTADSG 298
++++ D + LW + + G + + H ED+AWH SLF +
Sbjct: 195 LLSASDDHTVCLWDINA-GPKEGKIVDAKAIFTGHSAVVEDVAWHLLHESLFGS----VA 249
Query: 299 DSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAVVLWSERD 358
D Q ++ ++ + + L D + +N + F P+ ATG +D V LW R+
Sbjct: 250 DDQKLMIWDTRSNTTSKPSHLVDAHTAE--VNCLSFNPYSEFILATGSADKTVALWDLRN 307
Query: 359 AEDSWKPKALHRNLHSSAVMGVAGMQQKQIVL-SAGADKRIIGFD 402
K K H + V + +L S+G D+R+ +D
Sbjct: 308 L----KLKLHTFESHKDEIFQVHWSPHNETILASSGTDRRLNVWD 348
Score = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 38/164 (23%), Positives = 71/164 (43%), Gaps = 22/164 (13%)
Query: 344 TGGSDHAVVLWSERDAEDSWK---PKALHRNLHSSAVMGVAG-MQQKQIVLSAGADKRII 399
+ DH V LW K KA+ HS+ V VA + + + S D++++
Sbjct: 197 SASDDHTVCLWDINAGPKEGKIVDAKAIFTG-HSAVVEDVAWHLLHESLFGSVADDQKLM 255
Query: 400 GFDAGVGRAD------FKHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRLYDIRLRQTE 453
+D H E C+S P ++ F++ TG+ + + L+D+R + +
Sbjct: 256 IWDTRSNTTSKPSHLVDAHTAEVNCLSFNP----YSEFILATGSADKTVALWDLRNLKLK 311
Query: 454 IHAFGWKQESSESQSALINQSWSPDGLYITSGSA-DPVIHLFDI 496
+H F ES + + + WSP I + S D ++++D+
Sbjct: 312 LHTF----ESHKDE--IFQVHWSPHNETILASSGTDRRLNVWDL 349
>pdb|2PM7|B Chain B, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Selenomethionine Version
pdb|2PM7|D Chain D, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Selenomethionine Version
Length = 297
Score = 35.8 bits (81), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 54/138 (39%), Gaps = 30/138 (21%)
Query: 239 FVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHTADSG 298
FVT D ++++W+ S L ST + H W D+AW P L ++ A
Sbjct: 173 FVTGGADNLVKIWKYNSDAQTYVLESTLE----GHSDWVRDVAWSP--TVLLRSYXA--- 223
Query: 299 DSQISVLNLNKTKGRACVTFLDDK---PHVKGIINSIIF--LPW------ENPCFATGGS 347
+ ++ R C+ + D P K ++ F + W A G
Sbjct: 224 ---------SVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGG 274
Query: 348 DHAVVLWSERDAEDSWKP 365
D+ V LW E + E W+P
Sbjct: 275 DNKVTLWKE-NLEGKWEP 291
>pdb|3I7H|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Hbx
pdb|3I7K|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Whx
pdb|3I7L|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Ddb2
pdb|3I7N|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdtc1
pdb|3I7O|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Iqwd1
pdb|3I7P|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr40a
pdb|3I89|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr22
pdb|3I8C|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr21a
pdb|3I8E|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr42a
pdb|3I8E|B Chain B, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr42a
Length = 1143
Score = 35.8 bits (81), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y++ LR+ E + WKQE+ E++++++ P G I G H D +Y
Sbjct: 190 GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGD-KY 248
Query: 499 SANKP 503
A P
Sbjct: 249 LAIAP 253
>pdb|4A11|A Chain A, Structure Of The Hsddb1-Hscsa Complex
pdb|4A0K|C Chain C, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1159
Score = 35.8 bits (81), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y++ LR+ E + WKQE+ E++++++ P G I G H D +Y
Sbjct: 206 GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGD-KY 264
Query: 499 SANKP 503
A P
Sbjct: 265 LAIAP 269
>pdb|2PM6|B Chain B, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Native Version
pdb|2PM6|D Chain D, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Native Version
pdb|3IKO|A Chain A, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|D Chain D, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|G Chain G, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3MZK|A Chain A, Sec13SEC16 COMPLEX, S.CEREVISIAE
pdb|3MZK|D Chain D, Sec13SEC16 COMPLEX, S.CEREVISIAE
pdb|3MZL|A Chain A, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
pdb|3MZL|C Chain C, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
pdb|3MZL|E Chain E, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
pdb|3MZL|G Chain G, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
Length = 297
Score = 35.8 bits (81), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 54/138 (39%), Gaps = 30/138 (21%)
Query: 239 FVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHTADSG 298
FVT D ++++W+ S L ST + H W D+AW P L ++ A
Sbjct: 173 FVTGGADNLVKIWKYNSDAQTYVLESTLE----GHSDWVRDVAWSP--TVLLRSYLA--- 223
Query: 299 DSQISVLNLNKTKGRACVTFLDDK---PHVKGIINSIIF--LPW------ENPCFATGGS 347
+ ++ R C+ + D P K ++ F + W A G
Sbjct: 224 ---------SVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGG 274
Query: 348 DHAVVLWSERDAEDSWKP 365
D+ V LW E + E W+P
Sbjct: 275 DNKVTLWKE-NLEGKWEP 291
>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1)
Length = 1140
Score = 35.8 bits (81), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y++ LR+ E + WKQE+ E++++++ P G I G H D +Y
Sbjct: 187 GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGD-KY 245
Query: 499 SANKP 503
A P
Sbjct: 246 LAIAP 250
>pdb|2B5L|A Chain A, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5L|B Chain B, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5M|A Chain A, Crystal Structure Of Ddb1
pdb|2HYE|A Chain A, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 1140
Score = 35.8 bits (81), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y++ LR+ E + WKQE+ E++++++ P G I G H D +Y
Sbjct: 187 GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGD-KY 245
Query: 499 SANKP 503
A P
Sbjct: 246 LAIAP 250
>pdb|4E54|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein
(Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna
Repair
pdb|4E5Z|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein
(Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna
Repair
Length = 1150
Score = 35.8 bits (81), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y++ LR+ E + WKQE+ E++++++ P G I G H D +Y
Sbjct: 197 GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGD-KY 255
Query: 499 SANKP 503
A P
Sbjct: 256 LAIAP 260
>pdb|4A0L|A Chain A, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|C Chain C, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1144
Score = 35.8 bits (81), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y++ LR+ E + WKQE+ E++++++ P G I G H D +Y
Sbjct: 191 GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGD-KY 249
Query: 499 SANKP 503
A P
Sbjct: 250 LAIAP 254
>pdb|3EI4|A Chain A, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|C Chain C, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|E Chain E, Structure Of The Hsddb1-Hsddb2 Complex
Length = 1158
Score = 35.8 bits (81), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y++ LR+ E + WKQE+ E++++++ P G I G H D +Y
Sbjct: 205 GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGD-KY 263
Query: 499 SANKP 503
A P
Sbjct: 264 LAIAP 268
>pdb|3EI1|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4
Photoproduct Containing Dna-Duplex
pdb|3EI2|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Abasic Site
Containing Dna-Duplex
pdb|3EI3|A Chain A, Structure Of The Hsddb1-Drddb2 Complex
Length = 1158
Score = 35.8 bits (81), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y++ LR+ E + WKQE+ E++++++ P G I G H D +Y
Sbjct: 205 GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGD-KY 263
Query: 499 SANKP 503
A P
Sbjct: 264 LAIAP 268
>pdb|4A0A|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.6 A Resolution (Cpd 3)
Length = 1159
Score = 35.8 bits (81), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y++ LR+ E + WKQE+ E++++++ P G I G H D +Y
Sbjct: 206 GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPKPFGGAIIIGQESITYHNGD-KY 264
Query: 499 SANKP 503
A P
Sbjct: 265 LAIAP 269
>pdb|4GGA|A Chain A, Structural Analysis Of Human Cdc20 Supports Multi-Site
Degron Recognition By ApcC
Length = 420
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 38/158 (24%), Positives = 64/158 (40%), Gaps = 16/158 (10%)
Query: 342 FATGGSDHAVVLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVLSAG---ADKRI 398
A+GG+D+ V +W E W P H AV VA + VL+ G +D+ I
Sbjct: 245 LASGGNDNLVNVWPSAPGEGGWVPLQTFTQ-HQGAVKAVAWCPWQSNVLATGGGTSDRHI 303
Query: 399 IGFDAGVGRADFKHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRL--YDIRLRQTEIHA 456
++ G S+ S+L +P + + G QL + Y + E+
Sbjct: 304 RIWNVCSGACLSAVDAHSQVCSILWSP-HYKELISGHGFAQNQLVIWKYPTMAKVAELKG 362
Query: 457 FGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLF 494
S +++ + SPDG + S +AD + L+
Sbjct: 363 H---------TSRVLSLTMSPDGATVASAAADETLRLW 391
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/94 (21%), Positives = 42/94 (44%), Gaps = 8/94 (8%)
Query: 428 FNLFMVQTGTPGRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSA 487
+N +++ +G+ + +D+R+ + + S SQ + W+PDG ++ SG
Sbjct: 197 WNSYILSSGSRSGHIHHHDVRVAEHHVATL-----SGHSQE-VCGLRWAPDGRHLASGGN 250
Query: 488 DPVIHLFDIRYSANK--PSQSIRAHQKRVFKAVW 519
D +++++ P Q+ HQ V W
Sbjct: 251 DNLVNVWPSAPGEGGWVPLQTFTQHQGAVKAVAW 284
>pdb|4GGD|A Chain A, Structural Analysis Of Human Cdc20 Supports Multisite
Degron Recognition By ApcC.
pdb|4GGD|B Chain B, Structural Analysis Of Human Cdc20 Supports Multisite
Degron Recognition By ApcC
Length = 431
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 38/158 (24%), Positives = 64/158 (40%), Gaps = 16/158 (10%)
Query: 342 FATGGSDHAVVLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVLSAG---ADKRI 398
A+GG+D+ V +W E W P H AV VA + VL+ G +D+ I
Sbjct: 256 LASGGNDNLVNVWPSAPGEGGWVPLQTFTQ-HQGAVKAVAWCPWQSNVLATGGGTSDRHI 314
Query: 399 IGFDAGVGRADFKHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRL--YDIRLRQTEIHA 456
++ G S+ S+L +P + + G QL + Y + E+
Sbjct: 315 RIWNVCSGACLSAVDAHSQVCSILWSP-HYKELISGHGFAQNQLVIWKYPTMAKVAELKG 373
Query: 457 FGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLF 494
S +++ + SPDG + S +AD + L+
Sbjct: 374 H---------TSRVLSLTMSPDGATVASAAADETLRLW 402
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/94 (21%), Positives = 42/94 (44%), Gaps = 8/94 (8%)
Query: 428 FNLFMVQTGTPGRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSA 487
+N +++ +G+ + +D+R+ + + S SQ + W+PDG ++ SG
Sbjct: 208 WNSYILSSGSRSGHIHHHDVRVAEHHVATL-----SGHSQE-VCGLRWAPDGRHLASGGN 261
Query: 488 DPVIHLFDIRYSANK--PSQSIRAHQKRVFKAVW 519
D +++++ P Q+ HQ V W
Sbjct: 262 DNLVNVWPSAPGEGGWVPLQTFTQHQGAVKAVAW 295
>pdb|4A08|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Duplex (
Purine At D-1 Position) At 3.0 A Resolution (Cpd 1)
pdb|4A09|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 15 Bp Cpd-Duplex
(Purine At D-1 Position) At 3.1 A Resolution (Cpd 2)
Length = 1159
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRY 498
GR ++ Y + LR+ E + WKQE+ E++++++ P G I G H D +Y
Sbjct: 206 GRHVKTYAVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGD-KY 264
Query: 499 SANKP 503
A P
Sbjct: 265 LAIAP 269
>pdb|3GFC|A Chain A, Crystal Structure Of Histone-Binding Protein Rbbp4
pdb|2XU7|A Chain A, Structural Basis For Rbap48 Binding To Fog-1
pdb|2XU7|B Chain B, Structural Basis For Rbap48 Binding To Fog-1
Length = 425
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 40/172 (23%), Positives = 66/172 (38%), Gaps = 12/172 (6%)
Query: 232 NPVNEQLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFS 291
NP ++++ D I LW + + ++ + H ED++WH SLF
Sbjct: 186 NPNLSGHLLSASDDHTICLWDISAVPKEGKVVDAKTIFT-GHTAVVEDVSWHLLHESLFG 244
Query: 292 AHTADSGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAV 351
+ D + N +K V H + N + F P+ ATG +D V
Sbjct: 245 SVADDQKLMIWDTRSNNTSKPSHSV-----DAHTAEV-NCLSFNPYSEFILATGSADKTV 298
Query: 352 VLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVL-SAGADKRIIGFD 402
LW R+ K K H + V + +L S+G D+R+ +D
Sbjct: 299 ALWDLRNL----KLKLHSFESHKDEIFQVQWSPHNETILASSGTDRRLNVWD 346
Score = 32.7 bits (73), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 62/138 (44%), Gaps = 25/138 (18%)
Query: 412 HQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRLYDIRLRQTEIHAFGWKQESSESQSALI 471
H E C+S P ++ F++ TG+ + + L+D+R + ++H+F ES I
Sbjct: 272 HTAEVNCLSFNP----YSEFILATGSADKTVALWDLRNLKLKLHSF-------ESHKDEI 320
Query: 472 NQ-SWSPDGLYITSGSA-DPVIHLFDI---------RYSANKPSQSIR---AHQKRVFKA 517
Q WSP I + S D ++++D+ + + P + + H ++
Sbjct: 321 FQVQWSPHNETILASSGTDRRLNVWDLSKIGEEQSPEDAEDGPPELLFIHGGHTAKISDF 380
Query: 518 VWHYSHPLLISISSDLNI 535
W+ + P +I S+ NI
Sbjct: 381 SWNPNEPWVICSVSEDNI 398
>pdb|4GGC|A Chain A, Structural Analysis Of Human Cdc20 Supports Multi-Site
Degron Recognition By ApcC
Length = 318
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 38/158 (24%), Positives = 64/158 (40%), Gaps = 16/158 (10%)
Query: 342 FATGGSDHAVVLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVLSAG---ADKRI 398
A+GG+D+ V +W E W P H AV VA + VL+ G +D+ I
Sbjct: 165 LASGGNDNLVNVWPSAPGEGGWVPLQTFTQ-HQGAVKAVAWCPWQSNVLATGGGTSDRHI 223
Query: 399 IGFDAGVGRADFKHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRL--YDIRLRQTEIHA 456
++ G S+ S+L +P + + G QL + Y + E+
Sbjct: 224 RIWNVCSGACLSAVDAHSQVCSILWSP-HYKELISGHGFAQNQLVIWKYPTMAKVAELKG 282
Query: 457 FGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLF 494
S +++ + SPDG + S +AD + L+
Sbjct: 283 H---------TSRVLSLTMSPDGATVASAAADETLRLW 311
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/94 (21%), Positives = 42/94 (44%), Gaps = 8/94 (8%)
Query: 428 FNLFMVQTGTPGRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSA 487
+N +++ +G+ + +D+R+ + + S SQ + W+PDG ++ SG
Sbjct: 117 WNSYILSSGSRSGHIHHHDVRVAEHHVATL-----SGHSQE-VCGLRWAPDGRHLASGGN 170
Query: 488 DPVIHLFDIRYSANK--PSQSIRAHQKRVFKAVW 519
D +++++ P Q+ HQ V W
Sbjct: 171 DNLVNVWPSAPGEGGWVPLQTFTQHQGAVKAVAW 204
>pdb|4AEZ|A Chain A, Crystal Structure Of Mitotic Checkpoint Complex
pdb|4AEZ|D Chain D, Crystal Structure Of Mitotic Checkpoint Complex
pdb|4AEZ|G Chain G, Crystal Structure Of Mitotic Checkpoint Complex
Length = 401
Score = 33.5 bits (75), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 48/108 (44%), Gaps = 15/108 (13%)
Query: 412 HQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRLYDIRLRQTEIHAFGWKQESSESQSALI 471
HQ C+S +N ++ +G+ + +D+R+ +I + SSE +
Sbjct: 175 HQARVGCLS-------WNRHVLSSGSRSGAIHHHDVRIANHQIGTL--QGHSSE----VC 221
Query: 472 NQSWSPDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVW 519
+W DGL + SG D V+ ++D R S K +++ H V W
Sbjct: 222 GLAWRSDGLQLASGGNDNVVQIWDARSSIPKFTKT--NHNAAVKAVAW 267
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 40/154 (25%), Positives = 69/154 (44%), Gaps = 22/154 (14%)
Query: 342 FATGGSDHAVVLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVLSAGA---DKRI 398
A+GG+D+ V +W R + PK N H++AV VA + +L+ G DK+I
Sbjct: 232 LASGGNDNVVQIWDARSS----IPKFTKTN-HNAAVKAVAWCPWQSNLLATGGGTMDKQI 286
Query: 399 IGFDAGVGRADFKHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRLYDIR----LRQTEI 454
++A G S+ S++ +P + M G P L ++ +Q +I
Sbjct: 287 HFWNAATGARVNTVDAGSQVTSLIWSPHSKEI-MSTHGFPDNNLSIWSYSSSGLTKQVDI 345
Query: 455 HAFGWKQESSESQSALINQSWSPDGLYITSGSAD 488
A ++ SAL SPDG +++ ++D
Sbjct: 346 PA----HDTRVLYSAL-----SPDGRILSTAASD 370
>pdb|3IZ6|AA Chain a, Localization Of The Small Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 380
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 26/120 (21%), Positives = 53/120 (44%), Gaps = 16/120 (13%)
Query: 385 QKQIVLSAGADKRIIGFDAGVGR------ADFKHQIESKCMSVLPNPCDFNLFMVQTGTP 438
Q+ +++ D+ + +D G+ ++F + +S+ N + N+F+ +G+
Sbjct: 169 QETRLITGSGDQTCVLWDVTTGQRISIFGSEFPSGHTADVLSLSINSLNANMFI--SGSC 226
Query: 439 GRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQ-SWSPDGLYITSGSADPVIHLFDIR 497
+RL+D+R+ + + IN + PDG +GS D LFD+R
Sbjct: 227 DTTVRLWDLRITSRAVRTY-------HGHEGDINSVKFFPDGQRFGTGSDDGTCRLFDMR 279
>pdb|2YMU|A Chain A, Structure Of A Highly Repetitive Propeller Structure
pdb|2YMU|B Chain B, Structure Of A Highly Repetitive Propeller Structure
Length = 577
Score = 32.7 bits (73), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 44/166 (26%), Positives = 70/166 (42%), Gaps = 31/166 (18%)
Query: 235 NEQLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHT 294
++Q +++ D ++LW + LL T S R +A+ P G ++ SA
Sbjct: 437 DDQTIASASDDKTVKLWNRNGQ-----LLQTLTGHSSSVR----GVAFSPDGQTIASA-- 485
Query: 295 ADSGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAVVLW 354
S D + + N N G+ T V+G+ F P + A+ D V LW
Sbjct: 486 --SDDKTVKLWNRN---GQLLQTLTGHSSSVRGVA----FSP-DGQTIASASDDKTVKLW 535
Query: 355 SERDAEDSWKPKALHRNL--HSSAVMGVAGMQQKQIVLSAGADKRI 398
R+ + L + L HSS+V GVA Q + SA +DK +
Sbjct: 536 -NRNGQ-------LLQTLTGHSSSVWGVAFSPDGQTIASASSDKTV 573
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 58/260 (22%), Positives = 104/260 (40%), Gaps = 36/260 (13%)
Query: 280 IAWHPQGNSLFSAHTADSGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWEN 339
+A+ P G ++ SA S D + + N N G+ T V+G+ F P +
Sbjct: 350 VAFSPDGQTIASA----SDDKTVKLWNRN---GQLLQTLTGHSSSVRGVA----FSP-DG 397
Query: 340 PCFATGGSDHAVVLWSERDAEDSWKPKALHRNL--HSSAVMGVAGMQQKQIVLSAGADKR 397
A+ D V LW R+ + L + L HSS+V GVA Q + SA DK
Sbjct: 398 QTIASASDDKTVKLW-NRNGQ-------LLQTLTGHSSSVWGVAFSPDDQTIASASDDKT 449
Query: 398 IIGFDAGVGRADFKHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRLYDIRLRQTEIHAF 457
+ ++ + SV + + + + + ++L++ R ++
Sbjct: 450 VKLWNR---NGQLLQTLTGHSSSVRGVAFSPDGQTIASASDDKTVKLWN---RNGQL--- 500
Query: 458 GWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKA 517
Q + S++ ++SPDG I S S D + L++ + Q++ H V+
Sbjct: 501 --LQTLTGHSSSVRGVAFSPDGQTIASASDDKTVKLWNRN---GQLLQTLTGHSSSVWGV 555
Query: 518 VWHYSHPLLISISSDLNIGL 537
+ + S SSD + L
Sbjct: 556 AFSPDGQTIASASSDKTVKL 575
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 52/121 (42%), Gaps = 22/121 (18%)
Query: 280 IAWHPQGNSLFSAHTADSGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWEN 339
+A+ P G ++ SA S D + + N N G+ T V+G+ F P +
Sbjct: 63 VAFSPDGQTIASA----SDDKTVKLWNRN---GQLLQTLTGHSSSVRGVA----FSP-DG 110
Query: 340 PCFATGGSDHAVVLWSERDAEDSWKPKALHRNL--HSSAVMGVAGMQQKQIVLSAGADKR 397
A+ D V LW R+ + L + L HSS+V GVA Q + SA DK
Sbjct: 111 QTIASASDDKTVKLW-NRNGQ-------LLQTLTGHSSSVWGVAFSPDGQTIASASDDKT 162
Query: 398 I 398
+
Sbjct: 163 V 163
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 44/164 (26%), Positives = 66/164 (40%), Gaps = 31/164 (18%)
Query: 237 QLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHTAD 296
Q +++ D ++LW + LL T S R +A+ P G ++ SA
Sbjct: 193 QTIASASDDKTVKLWNRNGQ-----LLQTLTGHSSSVR----GVAFSPDGQTIASA---- 239
Query: 297 SGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAVVLWSE 356
S D + + N N G+ T V G+ F P + A+ D V LW
Sbjct: 240 SDDKTVKLWNRN---GQLLQTLTGHSSSVNGVA----FRP-DGQTIASASDDKTVKLW-N 290
Query: 357 RDAEDSWKPKALHRNL--HSSAVMGVAGMQQKQIVLSAGADKRI 398
R+ + L + L HSS+V GVA Q + SA DK +
Sbjct: 291 RNGQ-------LLQTLTGHSSSVWGVAFSPDGQTIASASDDKTV 327
Score = 28.5 bits (62), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 44/164 (26%), Positives = 66/164 (40%), Gaps = 31/164 (18%)
Query: 237 QLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHTAD 296
Q +++ D ++LW + LL T S R +A+ P G ++ SA
Sbjct: 70 QTIASASDDKTVKLWNRNGQ-----LLQTLTGHSSSVR----GVAFSPDGQTIASA---- 116
Query: 297 SGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAVVLWSE 356
S D + + N N G+ T V G+ F P + A+ D V LW
Sbjct: 117 SDDKTVKLWNRN---GQLLQTLTGHSSSVWGVA----FSP-DGQTIASASDDKTVKLW-N 167
Query: 357 RDAEDSWKPKALHRNL--HSSAVMGVAGMQQKQIVLSAGADKRI 398
R+ + L + L HSS+V GVA Q + SA DK +
Sbjct: 168 RNGQ-------LLQTLTGHSSSVWGVAFSPDGQTIASASDDKTV 204
>pdb|4GQB|B Chain B, Crystal Structure Of The Human Prmt5:mep50 Complex
Length = 344
Score = 32.3 bits (72), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 54/122 (44%), Gaps = 15/122 (12%)
Query: 232 NPVNEQLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFS 291
+P + +F++ + D I LW + S C +P + P +AWHPQ + +F
Sbjct: 178 SPHKDSVFLSCSEDNRILLWDTRCPKPA----SQIGCSAPGYL--PTSLAWHPQQSEVFV 231
Query: 292 AHTADSGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAV 351
GD +V +L TK +CV L H + + ++F P P A+ D ++
Sbjct: 232 F-----GDENGTV-SLVDTKSTSCV--LSSAVHSQ-CVTGLVFSPHSVPFLASLSEDCSL 282
Query: 352 VL 353
+
Sbjct: 283 AV 284
>pdb|2HES|X Chain X, Cytosolic Iron-sulphur Assembly Protein- 1
Length = 330
Score = 32.0 bits (71), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 474 SWSPDGLYITSGSADPVIHLFDIRYSANKPS--QSIRAHQKRVFKAVWHYSHPLLISISS 531
+WS DG Y+ + S D + +++ S + ++ H + V +WH S LL S S
Sbjct: 114 AWSNDGYYLATCSRDKSVWIWETDESGEEYECISVLQEHSQDVKHVIWHPSEALLASSSY 173
Query: 532 DLNIGLHK 539
D + + K
Sbjct: 174 DDTVRIWK 181
>pdb|3ZEY|7 Chain 7, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 318
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 61/270 (22%), Positives = 107/270 (39%), Gaps = 33/270 (12%)
Query: 235 NEQLFVTSALDGVIRLWQLQSRGSGASLLS-TTDCLSPKHRRWPEDIAWHPQGNSLFSAH 293
N V+++ D +RLW LQ+ L T D LS +A+ P + S
Sbjct: 78 NGNFAVSASWDHSLRLWNLQNGQCQYKFLGHTKDVLS---------VAFSPDNRQIVSGG 128
Query: 294 TADSGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLP-WENPCFATGGSDHAVV 352
D+ + V N+ KG C+ L H ++ + F P + P +GG D+ V
Sbjct: 129 R----DNALRVWNV---KGE-CMHTLSRGAHTD-WVSCVRFSPSLDAPVIVSGGWDNLVK 179
Query: 353 LWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVLSAGADKRIIG--FDAGVGRADF 410
+W K H N +S + G L A +DK + +D G A
Sbjct: 180 VWDLATGRLVTDLKG-HTNYVTSVTVSPDGS------LCASSDKDGVARLWDLTKGEALS 232
Query: 411 KHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRLYDIRLRQTEIHAFGWKQESSESQSAL 470
+ + + +P N + + T + +R++D+ + + Q S +
Sbjct: 233 EMAAGAPINQICFSP---NRYWMCAATE-KGIRIFDLENKDIIVELAPEHQGSKKIVPEC 288
Query: 471 INQSWSPDGLYITSGSADPVIHLFDIRYSA 500
++ +WS DG + SG D VI ++ + +A
Sbjct: 289 VSIAWSADGSTLYSGYTDNVIRVWGVSENA 318
>pdb|1ERJ|A Chain A, Crystal Structure Of The C-Terminal Wd40 Domain Of Tup1
pdb|1ERJ|B Chain B, Crystal Structure Of The C-Terminal Wd40 Domain Of Tup1
pdb|1ERJ|C Chain C, Crystal Structure Of The C-Terminal Wd40 Domain Of Tup1
Length = 393
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 36/167 (21%), Positives = 66/167 (39%), Gaps = 27/167 (16%)
Query: 237 QLFVTSALDGVIRLWQLQSRGSGASLLSTTDCLSPKHRRWPEDIAWHPQGNSLFSAHTAD 296
+ T A D +IR+W +++R L H + + + P G+ L S
Sbjct: 136 KFLATGAEDRLIRIWDIENRKIVMIL--------QGHEQDIYSLDYFPSGDKLVSG---- 183
Query: 297 SGDSQISVLNLNKTKGRACVTFLDDKPHVKGIINSIIFLPWENPCFATGGSDHAVVLWSE 356
SGD + + +L G+ +T ++ + ++ P + A G D AV +W
Sbjct: 184 SGDRTVRIWDLR--TGQCSLTL-----SIEDGVTTVAVSPGDGKYIAAGSLDRAVRVW-- 234
Query: 357 RDAEDSWKPKALHR-----NLHSSAVMGVAGMQQKQIVLSAGADKRI 398
D+E + + L H +V V + Q V+S D+ +
Sbjct: 235 -DSETGFLVERLDSENESGTGHKDSVYSVVFTRDGQSVVSGSLDRSV 280
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 33/66 (50%), Gaps = 7/66 (10%)
Query: 432 MVQTGTPGRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVI 491
+ TG R +R++DI R+ + G +Q+ + + + P G + SGS D +
Sbjct: 137 FLATGAEDRLIRIWDIENRKIVMILQGHEQD-------IYSLDYFPSGDKLVSGSGDRTV 189
Query: 492 HLFDIR 497
++D+R
Sbjct: 190 RIWDLR 195
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 475 WSPDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISISSDLN 534
+SPDG ++ +G+ D +I ++DI K ++ H++ ++ + S L+S S D
Sbjct: 131 FSPDGKFLATGAEDRLIRIWDIE--NRKIVMILQGHEQDIYSLDYFPSGDKLVSGSGDRT 188
Query: 535 I 535
+
Sbjct: 189 V 189
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 34/170 (20%), Positives = 70/170 (41%), Gaps = 20/170 (11%)
Query: 343 ATGGSDHAVVLWSERDAEDSWKPKALHRNLHSSAVMGVAGMQQKQIVLSAGADKRIIGFD 402
A+ G+D + ++ E K L H V+ A + + + DK++ ++
Sbjct: 637 ASCGADKTLQVFKAETGE-----KLLEIKAHEDEVLCCAFSTDDRFIATCSVDKKVKIWN 691
Query: 403 AGVGRADFKHQIESKCMSVLPNPCDF----NLFMVQTGTPGRQLRLYDIRLRQTEIHAFG 458
+ G + H + V N C F + ++ TG+ L+L+D+ ++ FG
Sbjct: 692 SMTG--ELVHTYDEHSEQV--NCCHFTNSSHHLLLATGSSDCFLKLWDLNQKECRNTMFG 747
Query: 459 WKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDIRYSANKPSQSIR 508
+ + +SPD + S SAD + L+D + + S +++
Sbjct: 748 HTNSVNHCR-------FSPDDKLLASCSADGTLKLWDATSANERKSINVK 790
>pdb|3MKQ|A Chain A, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
pdb|3MKQ|C Chain C, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
pdb|3MKQ|E Chain E, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
Length = 814
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 477 PDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISISSD 532
PD Y+ + S D I ++D Y ++ H V AV+H + P++IS S D
Sbjct: 196 PDKPYMITASDDLTIKIWD--YQTKSCVATLEGHMSNVSFAVFHPTLPIIISGSED 249
>pdb|2YNO|A Chain A, Yeast Betaprime Cop 1-304h6
pdb|2YNO|B Chain B, Yeast Betaprime Cop 1-304h6
Length = 310
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 477 PDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISISSD 532
PD Y+ + S D I ++D Y ++ H V AV+H + P++IS S D
Sbjct: 196 PDKPYMITASDDLTIKIWD--YQTKSCVATLEGHMSNVSFAVFHPTLPIIISGSED 249
>pdb|2YNN|A Chain A, Yeast Betaprime Cop 1-304 With Ktktn Motif
Length = 304
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 477 PDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISISSD 532
PD Y+ + S D I ++D Y ++ H V AV+H + P++IS S D
Sbjct: 196 PDKPYMITASDDLTIKIWD--YQTKSCVATLEGHMSNVSFAVFHPTLPIIISGSED 249
>pdb|2YNP|A Chain A, Yeast Betaprime Cop 1-604 With Ktktn Motif
Length = 604
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 477 PDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISISSD 532
PD Y+ + S D I ++D Y ++ H V AV+H + P++IS S D
Sbjct: 196 PDKPYMITASDDLTIKIWD--YQTKSCVATLEGHMSNVSFAVFHPTLPIIISGSED 249
>pdb|3VE1|A Chain A, The 2.9 Angstrom Crystal Structure Of Transferrin Binding
Protein B (Tbpb) From Serogroup B M982 Neisseria
Meningitidis In Complex With Human Transferrin
pdb|3VE1|C Chain C, The 2.9 Angstrom Crystal Structure Of Transferrin Binding
Protein B (Tbpb) From Serogroup B M982 Neisseria
Meningitidis In Complex With Human Transferrin
pdb|3VE2|A Chain A, The 2.1 Angstrom Crystal Structure Of Transferrin Binding
Protein B (Tbpb) From Serogroup B M982 Neisseria
Meningitidis
pdb|3VE2|B Chain B, The 2.1 Angstrom Crystal Structure Of Transferrin Binding
Protein B (Tbpb) From Serogroup B M982 Neisseria
Meningitidis
Length = 658
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 496 IRYSANKPSQSIRAHQKRVFKAVWHY 521
I Y KPS+ + A K ++K VWH+
Sbjct: 130 IFYHGEKPSRQLPASGKVIYKGVWHF 155
>pdb|2PM9|A Chain A, Crystal Structure Of Yeast Sec1331 VERTEX ELEMENT OF THE
Copii Vesicular Coat
Length = 416
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 46/100 (46%), Gaps = 8/100 (8%)
Query: 444 LYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDG----LYITSGSADPVIHLFDIRYS 499
++D++ ++ IH + +S + L W P T DP I ++D+R +
Sbjct: 192 IWDLKAKKEVIH-LSYTSPNSGIKQQLSVVEWHPKNSTRVATATGSDNDPSILIWDLR-N 249
Query: 500 ANKPSQSI-RAHQKRVFKAVW-HYSHPLLISISSDLNIGL 537
AN P Q++ + HQK + W H LL+S D + L
Sbjct: 250 ANTPLQTLNQGHQKGILSLDWCHQDEHLLLSSGRDNTVLL 289
>pdb|2AQ5|A Chain A, Crystal Structure Of Murine Coronin-1
Length = 402
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 50/120 (41%), Gaps = 15/120 (12%)
Query: 297 SGDSQISVLNLNKTKGRACVTFLDDK--PHVKGIINSIIFLPW---ENPCFATGGSDHAV 351
SG VL L KT GR DK P V G ++ + W + A+G D V
Sbjct: 54 SGGGAFLVLPLGKT-GRV------DKNVPLVXGHTAPVLDIAWXPHNDNVIASGSEDCTV 106
Query: 352 VLWSERDAED--SWKPKALHRNLHSSAVMGVAGMQQKQ-IVLSAGADKRIIGFDAGVGRA 408
++W D + + H+ V VA Q ++LSAG D I+ +D G G A
Sbjct: 107 MVWEIPDGGLVLPLREPVITLEGHTKRVGIVAWHPTAQNVLLSAGXDNVILVWDVGTGAA 166
>pdb|3GRE|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Vps15 Wd
Repeat Domain
Length = 437
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 11/84 (13%)
Query: 239 FVTSALDGVIRLWQLQSRGSGASLLS--TTDCLSPKHRRWPEDIAWHPQGNSLFSAHTAD 296
+T + GVI++W L+ G S T DC S + I P F A
Sbjct: 79 LITGSDQGVIKIWNLKEIIVGEVYSSSLTYDCSSTVTQ-----ITMIPN----FDAFAVS 129
Query: 297 SGDSQISVLNLNKTKGRACVTFLD 320
S D QI VL +N + + V FL+
Sbjct: 130 SKDGQIIVLKVNHYQQESEVKFLN 153
>pdb|3ZWL|B Chain B, Structure Of Eukaryotic Translation Initiation Factor
Eif3i Complex With Eif3b C-Terminus (655-700)
pdb|3ZWL|D Chain D, Structure Of Eukaryotic Translation Initiation Factor
Eif3i Complex With Eif3b C-Terminus (655-700)
Length = 369
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 27/115 (23%), Positives = 48/115 (41%), Gaps = 9/115 (7%)
Query: 420 SVLPNPCDFNLFMVQTGTPGRQLRLYDIRLRQTEIHAFGWKQESSESQSALINQSWSPDG 479
+V+ NP N++ ++ + +L ++ + IH K + E A WS G
Sbjct: 136 NVMKNPGSINIYEIERDSATHELT----KVSEEPIH----KIITHEGLDAATVAGWSTKG 187
Query: 480 LYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISISSDLN 534
YI +G D I +D+ + + SI H+K + + I+ S D N
Sbjct: 188 KYIIAGHKDGKISKYDVS-NNYEYVDSIDLHEKSISDMQFSPDLTYFITSSRDTN 241
>pdb|1NR0|A Chain A, Two Seven-Bladed Beta-Propeller Domains Revealed By The
Structure Of A C. Elegans Homologue Of Yeast Actin
Interacting Protein 1 (Aip1).
pdb|1PEV|A Chain A, Crystal Structure Of The Actin Interacting Protein From
Caenorhabditis Elegans
Length = 611
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 38/77 (49%), Gaps = 4/77 (5%)
Query: 324 HVKGIINSIIFLPWENPCFATGGSDHAVVLWSERDAEDS--WKPKALHRNLHSSAVMGVA 381
H K ++S+ + P + FA+ G D +VL++ D + ++ +L HS +V G+
Sbjct: 189 HTK-FVHSVRYNP-DGSLFASTGGDGTIVLYNGVDGTKTGVFEDDSLKNVAHSGSVFGLT 246
Query: 382 GMQQKQIVLSAGADKRI 398
+ SA ADK I
Sbjct: 247 WSPDGTKIASASADKTI 263
>pdb|2B4E|A Chain A, Crystal Structure Of Murine Coronin-1: Monoclinic Form
Length = 402
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 50/120 (41%), Gaps = 15/120 (12%)
Query: 297 SGDSQISVLNLNKTKGRACVTFLDDK--PHVKGIINSIIFLPW---ENPCFATGGSDHAV 351
SG VL L KT GR DK P V G ++ + W + A+G D V
Sbjct: 54 SGGGAFLVLPLGKT-GRV------DKNVPLVCGHTAPVLDIAWCPHNDNVIASGSEDCTV 106
Query: 352 VLWSERDAED--SWKPKALHRNLHSSAVMGVAGMQQKQ-IVLSAGADKRIIGFDAGVGRA 408
++W D + + H+ V VA Q ++LSAG D I+ +D G G A
Sbjct: 107 MVWEIPDGGLVLPLREPVITLEGHTKRVGIVAWHPTAQNVLLSAGCDNVILVWDVGTGAA 166
>pdb|2XZM|R Chain R, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|R Chain R, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 343
Score = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 44/164 (26%), Positives = 66/164 (40%), Gaps = 18/164 (10%)
Query: 341 CFATGGS-DHAVVLWSERDAEDSWKPKALHRNL-HSSAVMGVAGMQQKQIVLSAGADKRI 398
CFA S D + LW R R + H S V VA + +LSAGA++ I
Sbjct: 89 CFAISSSWDKTLRLWDLRTG------TTYKRFVGHQSEVYSVAFSPDNRQILSAGAEREI 142
Query: 399 IGFDAGVGRADF------KHQIESKCMSVLPNPCDFNLFMVQTGTPGRQLRLYDIRLRQT 452
++ +G F H C+ P N VQ P +D RL+
Sbjct: 143 KLWNI-LGECKFSSAEKENHSDWVSCVRYSPIMKSAN--KVQPFAPYFASVGWDGRLKVW 199
Query: 453 EIHAFGWKQESSESQSALINQSWSPDGLYITSGSADPVIHLFDI 496
+ F + +S + + S SP+G YI +G D + ++DI
Sbjct: 200 NTN-FQIRYTFKAHESNVNHLSISPNGKYIATGGKDKKLLIWDI 242
>pdb|3U59|A Chain A, N-Terminal 98-Aa Fragment Of Smooth Muscle Tropomyosin
Beta
pdb|3U59|B Chain B, N-Terminal 98-Aa Fragment Of Smooth Muscle Tropomyosin
Beta
pdb|3U59|C Chain C, N-Terminal 98-Aa Fragment Of Smooth Muscle Tropomyosin
Beta
pdb|3U59|D Chain D, N-Terminal 98-Aa Fragment Of Smooth Muscle Tropomyosin
Beta
Length = 101
Score = 29.3 bits (64), Expect = 6.4, Method: Composition-based stats.
Identities = 13/53 (24%), Positives = 31/53 (58%)
Query: 22 CNSKDEQEEALVALIEHRTKEVQHLRQRISYYKSQLEEAEKRLEDSQSKLARL 74
C +E+++ L ++ EV+ + + + +LE+AEK+ D+++++A L
Sbjct: 39 CKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAEKKATDAEAEVASL 91
>pdb|1UF2|K Chain K, The Atomic Structure Of Rice Dwarf Virus (Rdv)
Length = 506
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 37/87 (42%), Gaps = 6/87 (6%)
Query: 122 LIPAVNPKISEPIK---STWSGAKDPSGSSTQASPAAHSIGIVKVKGEKSHRNSSDSEIV 178
L PAV ++ PIK S SG ++P + IGIV KG + SS V
Sbjct: 225 LPPAVAACLNTPIKELFSMGSGKREPLALEFRKDNEGQCIGIVLPKGHEGDTLSSRYPAV 284
Query: 179 EVRDRGTKRKFEQKEHRELIPLVRTSA 205
+ + F KE EL L RT +
Sbjct: 285 FINE---SEPFSDKERSELSELKRTDS 308
>pdb|2ISM|A Chain A, Crystal Structure Of The Putative Oxidoreductase (Glucose
Dehydrogenase) (Ttha0570) From Thermus Theromophilus Hb8
pdb|2ISM|B Chain B, Crystal Structure Of The Putative Oxidoreductase (Glucose
Dehydrogenase) (Ttha0570) From Thermus Theromophilus Hb8
Length = 352
Score = 28.9 bits (63), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 267 DCLSPKHRRWPEDIAWHPQGNSLFSAHTADSGD 299
+ S HR P+ +AWHP+ LFS+ SG+
Sbjct: 195 EVYSLGHRN-PQGLAWHPKTGELFSSEHGPSGE 226
>pdb|3N0D|A Chain A, Crystal Structure Of Wdr5 Mutant (W330f)
Length = 315
Score = 28.9 bits (63), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 475 WSPDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISISSD 532
+SP+G ++ S SAD +I ++ K ++I H+ + W LL+S S D
Sbjct: 34 FSPNGEWLASSSADKLIKIWGAY--DGKFEKTISGHKLGISDVAWSSDSNLLVSASDD 89
>pdb|3N0E|A Chain A, Crystal Structure Of Wdr5 Mutant (W330y)
Length = 315
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 475 WSPDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISISSD 532
+SP+G ++ S SAD +I ++ K ++I H+ + W LL+S S D
Sbjct: 34 FSPNGEWLASSSADKLIKIWGAY--DGKFEKTISGHKLGISDVAWSSDSNLLVSASDD 89
>pdb|2GNQ|A Chain A, Structure Of Wdr5
Length = 336
Score = 28.5 bits (62), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 475 WSPDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISISSD 532
+SP+G ++ S SAD +I ++ K ++I H+ + W LL+S S D
Sbjct: 55 FSPNGEWLASSSADKLIKIWGAY--DGKFEKTISGHKLGISDVAWSSDSNLLVSASDD 110
>pdb|2XL2|A Chain A, Wdr5 In Complex With An Rbbp5 Peptide Recruited To Novel
Site
pdb|2XL2|B Chain B, Wdr5 In Complex With An Rbbp5 Peptide Recruited To Novel
Site
pdb|2XL3|A Chain A, Wdr5 In Complex With An Rbbp5 Peptide And Histone H3
Peptide
pdb|2XL3|B Chain B, Wdr5 In Complex With An Rbbp5 Peptide And Histone H3
Peptide
Length = 334
Score = 28.5 bits (62), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 475 WSPDGLYITSGSADPVIHLFDIRYSANKPSQSIRAHQKRVFKAVWHYSHPLLISISSD 532
+SP+G ++ S SAD +I ++ K ++I H+ + W LL+S S D
Sbjct: 53 FSPNGEWLASSSADKLIKIWGAY--DGKFEKTISGHKLGISDVAWSSDSNLLVSASDD 108
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
0.315 0.129 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,297,692
Number of Sequences: 62578
Number of extensions: 605997
Number of successful extensions: 1595
Number of sequences better than 100.0: 84
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 65
Number of HSP's that attempted gapping in prelim test: 1419
Number of HSP's gapped (non-prelim): 223
length of query: 540
length of database: 14,973,337
effective HSP length: 104
effective length of query: 436
effective length of database: 8,465,225
effective search space: 3690838100
effective search space used: 3690838100
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: 54 (25.4 bits)