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= psy11602
(1083 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VBB|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|C Chain C, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|D Chain D, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|E Chain E, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|F Chain F, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
Length = 522
Score = 320 bits (819), Expect = 3e-87, Method: Compositional matrix adjust.
Identities = 155/235 (65%), Positives = 183/235 (77%), Gaps = 16/235 (6%)
Query: 1 VIGKGEKVGDSAPEKDELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQEV 60
VIGKG + D + D+KYLIATSEQPI A+HRD WL LPI+Y G+STCFRQEV
Sbjct: 250 VIGKGSEKSDD----NSYDEKYLIATSEQPIAALHRDEWLRPEDLPIKYAGLSTCFRQEV 305
Query: 61 GSHGRDTRGIFRVHQFEKVEQFVLTSPHDDESWKMLDEMIQNSEEFYADLGIAYRVVNIV 120
GSHGRDTRGIFRVHQFEK+EQFV +SPHD++SW+M +EMI +EEFY LGI Y +VNIV
Sbjct: 306 GSHGRDTRGIFRVHQFEKIEQFVYSSPHDNKSWEMFEEMITTAEEFYQSLGIPYHIVNIV 365
Query: 121 SGALNHAAAKKLDLEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKQ---------K 171
SG+LNHAA+KKLDLEAWFPGSGAFRELVSCSNC DYQ+RRL +RYGQTK+
Sbjct: 366 SGSLNHAASKKLDLEAWFPGSGAFRELVSCSNCTDYQARRLRIRYGQTKKMMDKVEFVHM 425
Query: 172 IYATACATTRVICAILETHQTETGVRIPDCLRKFVPAVYLNEAGEIPFVKTAPID 226
+ AT CATTR ICAILE +QTE G+ +P+ L++F+P L E IPFVK API+
Sbjct: 426 LNATMCATTRTICAILENYQTEKGITVPEKLKEFMPP-GLQEL--IPFVKPAPIE 477
Score = 258 bits (660), Expect = 9e-69, Method: Compositional matrix adjust.
Identities = 120/170 (70%), Positives = 143/170 (84%), Gaps = 3/170 (1%)
Query: 303 DTRGIFRVHQFEKVEQFVLTSPHDDESWKTLDEMIQNSEEFYADLGIAYRVVNIVSGALN 362
DTRGIFRVHQFEK+EQFV +SPHD++SW+ +EMI +EEFY LGI Y +VNIVSG+LN
Sbjct: 311 DTRGIFRVHQFEKIEQFVYSSPHDNKSWEMFEEMITTAEEFYQSLGIPYHIVNIVSGSLN 370
Query: 363 HAAAKKLDLEAWFPGSGAFRELVSCSNCLAYQSRRLLVRYGQTKKMNEKIEFVHMLNATA 422
HAA+KKLDLEAWFPGSGAFRELVSCSNC YQ+RRL +RYGQTKKM +K+EFVHMLNAT
Sbjct: 371 HAASKKLDLEAWFPGSGAFRELVSCSNCTDYQARRLRIRYGQTKKMMDKVEFVHMLNATM 430
Query: 423 CATTRVICAILETHQTETGVRIPDCLRKFVPAVYVNEAGEIPFVKTAPID 472
CATTR ICAILE +QTE G+ +P+ L++F+P + E IPFVK API+
Sbjct: 431 CATTRTICAILENYQTEKGITVPEKLKEFMPP-GLQEL--IPFVKPAPIE 477
Score = 76.6 bits (187), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 38/73 (52%), Positives = 48/73 (65%), Gaps = 4/73 (5%)
Query: 504 IATEKERNNALREVIGKGEKVGDSAPEKDELDDKYLIATSEQPICAVHRDSWLPEASLPI 563
+A + + L +VIGKG + D + D+KYLIATSEQPI A+HRD WL LPI
Sbjct: 237 VAQLSQFDEELYKVIGKGSEKSDD----NSYDEKYLIATSEQPIAALHRDEWLRPEDLPI 292
Query: 564 RYLGVSTCFRQEC 576
+Y G+STCFRQE
Sbjct: 293 KYAGLSTCFRQEV 305
>pdb|3LSQ|A Chain A, Trypanosoma Brucei Seryl-Trna Synthetase
pdb|3LSQ|B Chain B, Trypanosoma Brucei Seryl-Trna Synthetase
pdb|3LSS|A Chain A, Trypanosoma Brucei Seryl-Trna Synthetase In Complex With
Atp
pdb|3LSS|B Chain B, Trypanosoma Brucei Seryl-Trna Synthetase In Complex With
Atp
Length = 484
Score = 248 bits (633), Expect = 1e-65, Method: Compositional matrix adjust.
Identities = 120/205 (58%), Positives = 143/205 (69%), Gaps = 12/205 (5%)
Query: 19 DDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQEVGSHGRDTRGIFRVHQFEK 78
D KYLIATSE PI A HR W E P++Y G+STCFR+E G+HGRDT GIFRVHQF+K
Sbjct: 262 DKKYLIATSEMPIAAYHRGRWFTELKEPLKYAGMSTCFRKEAGAHGRDTLGIFRVHQFDK 321
Query: 79 VEQFVLTSPHDDESWKMLDEMIQNSEEFYADLGIAYRVVNIVSGALNHAAAKKLDLEAWF 138
+EQFV+ SP +ESW+ L++MI SEEF LG+ YRVVNI SGALN+AAAKK DLEAWF
Sbjct: 322 IEQFVVCSPRQEESWRHLEDMITTSEEFNKSLGLPYRVVNICSGALNNAAAKKYDLEAWF 381
Query: 139 PGSGAFRELVSCSNCLDYQSRRLLVRYGQTKQKIYA------------TACATTRVICAI 186
P SGAFRELVSCSNC DYQS+ + RYG + A T CA TR +C I
Sbjct: 382 PASGAFRELVSCSNCTDYQSQSVNCRYGPNLRGTAAQNVKEYCHMLNGTLCAITRTMCCI 441
Query: 187 LETHQTETGVRIPDCLRKFVPAVYL 211
E +QTE GV IPD LR ++ + +
Sbjct: 442 CENYQTEEGVVIPDVLRPYMMGIEM 466
Score = 194 bits (494), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 97/157 (61%), Positives = 114/157 (72%), Gaps = 5/157 (3%)
Query: 303 DTRGIFRVHQFEKVEQFVLTSPHDDESWKTLDEMIQNSEEFYADLGIAYRVVNIVSGALN 362
DT GIFRVHQF+K+EQFV+ SP +ESW+ L++MI SEEF LG+ YRVVNI SGALN
Sbjct: 309 DTLGIFRVHQFDKIEQFVVCSPRQEESWRHLEDMITTSEEFNKSLGLPYRVVNICSGALN 368
Query: 363 HAAAKKLDLEAWFPGSGAFRELVSCSNCLAYQSRRLLVRYG----QTKKMNEKIEFVHML 418
+AAAKK DLEAWFP SGAFRELVSCSNC YQS+ + RYG T N K E+ HML
Sbjct: 369 NAAAKKYDLEAWFPASGAFRELVSCSNCTDYQSQSVNCRYGPNLRGTAAQNVK-EYCHML 427
Query: 419 NATACATTRVICAILETHQTETGVRIPDCLRKFVPAV 455
N T CA TR +C I E +QTE GV IPD LR ++ +
Sbjct: 428 NGTLCAITRTMCCICENYQTEEGVVIPDVLRPYMMGI 464
Score = 60.5 bits (145), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 26/44 (59%), Positives = 30/44 (68%)
Query: 535 DDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQECDA 578
D KYLIATSE PI A HR W E P++Y G+STCFR+E A
Sbjct: 262 DKKYLIATSEMPIAAYHRGRWFTELKEPLKYAGMSTCFRKEAGA 305
>pdb|3QNE|A Chain A, Candida Albicans Seryl-Trna Synthetase
pdb|3QO7|A Chain A, Crystal Structure Of The Seryl-Trna Synthetase From
Candida Albicans
pdb|3QO8|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Candida
Albicans
Length = 485
Score = 238 bits (608), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 122/220 (55%), Positives = 146/220 (66%), Gaps = 17/220 (7%)
Query: 16 DELDDKYLIATSEQPICAVHRDSWL--PEASLPIRYLGVSTCFRQEVGSHGRDTRGIFRV 73
D D+KYLIATSEQPI A H W P LP+RY G S+CFR+E GSHG+D GIFRV
Sbjct: 236 DGEDEKYLIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRREAGSHGKDAWGIFRV 295
Query: 74 HQFEKVEQFVLTSPHDDESWKMLDEMIQNSEEFYADLGIAYRVVNIVSGALNHAAAKKLD 133
H FEK+EQFVLT P ++SW+ D MI SEEFY LG+ YRVV IVSG LN+AAAKK D
Sbjct: 296 HAFEKIEQFVLTEP--EKSWEEFDRMIGCSEEFYQSLGLPYRVVGIVSGELNNAAAKKYD 353
Query: 134 LEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKQK---------IYATACATTRVIC 184
LEAWFP ++ELVSCSNC DYQSR L +R G +Q + +T AT R IC
Sbjct: 354 LEAWFPFQQEYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHCLNSTLSATERTIC 413
Query: 185 AILETHQTETGVRIPDCLRKFVPAVYLNEAGEIPFVKTAP 224
ILE +Q E G+ IP+ LRK++P E IP++K P
Sbjct: 414 CILENYQKEDGLVIPEVLRKYIPG----EPEFIPYIKELP 449
Score = 185 bits (470), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 93/168 (55%), Positives = 116/168 (69%), Gaps = 6/168 (3%)
Query: 303 DTRGIFRVHQFEKVEQFVLTSPHDDESWKTLDEMIQNSEEFYADLGIAYRVVNIVSGALN 362
D GIFRVH FEK+EQFVLT P ++SW+ D MI SEEFY LG+ YRVV IVSG LN
Sbjct: 288 DAWGIFRVHAFEKIEQFVLTEP--EKSWEEFDRMIGCSEEFYQSLGLPYRVVGIVSGELN 345
Query: 363 HAAAKKLDLEAWFPGSGAFRELVSCSNCLAYQSRRLLVRYGQTKKMNEKIEFVHMLNATA 422
+AAAKK DLEAWFP ++ELVSCSNC YQSR L +R G ++ ++ ++VH LN+T
Sbjct: 346 NAAAKKYDLEAWFPFQQEYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHCLNSTL 405
Query: 423 CATTRVICAILETHQTETGVRIPDCLRKFVPAVYVNEAGEIPFVKTAP 470
AT R IC ILE +Q E G+ IP+ LRK++P E IP++K P
Sbjct: 406 SATERTICCILENYQKEDGLVIPEVLRKYIPG----EPEFIPYIKELP 449
Score = 59.3 bits (142), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/49 (55%), Positives = 32/49 (65%), Gaps = 2/49 (4%)
Query: 532 DELDDKYLIATSEQPICAVHRDSWL--PEASLPIRYLGVSTCFRQECDA 578
D D+KYLIATSEQPI A H W P LP+RY G S+CFR+E +
Sbjct: 236 DGEDEKYLIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRREAGS 284
>pdb|3QO5|A Chain A, Crystal Structure Of The Seryl-Trna Synthetase From
Candida Albicans
Length = 485
Score = 238 bits (607), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 122/220 (55%), Positives = 146/220 (66%), Gaps = 17/220 (7%)
Query: 16 DELDDKYLIATSEQPICAVHRDSWL--PEASLPIRYLGVSTCFRQEVGSHGRDTRGIFRV 73
D D+KYLIATSEQPI A H W P LP+RY G S+CFR+E GSHG+D GIFRV
Sbjct: 236 DGEDEKYLIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRREAGSHGKDAWGIFRV 295
Query: 74 HQFEKVEQFVLTSPHDDESWKMLDEMIQNSEEFYADLGIAYRVVNIVSGALNHAAAKKLD 133
H FEK+EQFVLT P ++SW+ D MI SEEFY LG+ YRVV IVSG LN+AAAKK D
Sbjct: 296 HAFEKIEQFVLTEP--EKSWEEFDRMIGCSEEFYQSLGLPYRVVGIVSGELNNAAAKKYD 353
Query: 134 LEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKQK---------IYATACATTRVIC 184
LEAWFP ++ELVSCSNC DYQSR L +R G +Q + +T AT R IC
Sbjct: 354 LEAWFPFQQEYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHCLNSTLSATERTIC 413
Query: 185 AILETHQTETGVRIPDCLRKFVPAVYLNEAGEIPFVKTAP 224
ILE +Q E G+ IP+ LRK++P E IP++K P
Sbjct: 414 CILENYQKEDGLVIPEVLRKYIPG----EPEFIPYIKELP 449
Score = 185 bits (470), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 93/168 (55%), Positives = 116/168 (69%), Gaps = 6/168 (3%)
Query: 303 DTRGIFRVHQFEKVEQFVLTSPHDDESWKTLDEMIQNSEEFYADLGIAYRVVNIVSGALN 362
D GIFRVH FEK+EQFVLT P ++SW+ D MI SEEFY LG+ YRVV IVSG LN
Sbjct: 288 DAWGIFRVHAFEKIEQFVLTEP--EKSWEEFDRMIGCSEEFYQSLGLPYRVVGIVSGELN 345
Query: 363 HAAAKKLDLEAWFPGSGAFRELVSCSNCLAYQSRRLLVRYGQTKKMNEKIEFVHMLNATA 422
+AAAKK DLEAWFP ++ELVSCSNC YQSR L +R G ++ ++ ++VH LN+T
Sbjct: 346 NAAAKKYDLEAWFPFQQEYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHCLNSTL 405
Query: 423 CATTRVICAILETHQTETGVRIPDCLRKFVPAVYVNEAGEIPFVKTAP 470
AT R IC ILE +Q E G+ IP+ LRK++P E IP++K P
Sbjct: 406 SATERTICCILENYQKEDGLVIPEVLRKYIPG----EPEFIPYIKELP 449
Score = 59.3 bits (142), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/49 (55%), Positives = 32/49 (65%), Gaps = 2/49 (4%)
Query: 532 DELDDKYLIATSEQPICAVHRDSWL--PEASLPIRYLGVSTCFRQECDA 578
D D+KYLIATSEQPI A H W P LP+RY G S+CFR+E +
Sbjct: 236 DGEDEKYLIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRREAGS 284
>pdb|2DQ0|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With A Seryl-Adenylate Analog
pdb|2DQ0|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With A Seryl-Adenylate Analog
pdb|2ZR2|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With Atp
pdb|2ZR2|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With Atp
pdb|2ZR3|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii
pdb|2ZR3|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii
Length = 455
Score = 203 bits (517), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 104/199 (52%), Positives = 139/199 (69%), Gaps = 10/199 (5%)
Query: 15 KDELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQEVGSHGRDTRGIFRVH 74
K E +D YLI T+E P+ +H + L LP+ Y+GVS CFR+E G+ G+DT+GIFRVH
Sbjct: 241 KVEDEDLYLIPTAEHPLAGMHANEILDGKDLPLLYVGVSPCFRKEAGTAGKDTKGIFRVH 300
Query: 75 QFEKVEQFVLTSPHDDESWKMLDEMIQNSEEFYADLGIAYRVVNIVSGALNHAAAKKLDL 134
QF KVEQFV + P +ESW+ +++I+N+EE + +L I YRVVNI +G L + AAKK D+
Sbjct: 301 QFHKVEQFVYSRP--EESWEWHEKIIRNAEELFQELEIPYRVVNICTGDLGYVAAKKYDI 358
Query: 135 EAWFPGSGAFRELVSCSNCLDYQSRRLLVRY-GQTKQK------IYATACATTRVICAIL 187
EAW PG G FRE+VS SNC D+Q+RRL +R+ +T +K + +TA AT+R I AIL
Sbjct: 359 EAWMPGQGKFREVVSASNCTDWQARRLNIRFRDRTDEKPRYVHTLNSTAIATSRAIVAIL 418
Query: 188 ETHQTETG-VRIPDCLRKF 205
E HQ E G VRIP L K+
Sbjct: 419 ENHQEEDGTVRIPKVLWKY 437
Score = 168 bits (426), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 85/153 (55%), Positives = 110/153 (71%), Gaps = 5/153 (3%)
Query: 300 ADLDTRGIFRVHQFEKVEQFVLTSPHDDESWKTLDEMIQNSEEFYADLGIAYRVVNIVSG 359
A DT+GIFRVHQF KVEQFV + P +ESW+ +++I+N+EE + +L I YRVVNI +G
Sbjct: 289 AGKDTKGIFRVHQFHKVEQFVYSRP--EESWEWHEKIIRNAEELFQELEIPYRVVNICTG 346
Query: 360 ALNHAAAKKLDLEAWFPGSGAFRELVSCSNCLAYQSRRLLVRYGQTKKMNEKIEFVHMLN 419
L + AAKK D+EAW PG G FRE+VS SNC +Q+RRL +R+ + +EK +VH LN
Sbjct: 347 DLGYVAAKKYDIEAWMPGQGKFREVVSASNCTDWQARRLNIRF--RDRTDEKPRYVHTLN 404
Query: 420 ATACATTRVICAILETHQTETG-VRIPDCLRKF 451
+TA AT+R I AILE HQ E G VRIP L K+
Sbjct: 405 STAIATSRAIVAILENHQEEDGTVRIPKVLWKY 437
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 29/46 (63%)
Query: 531 KDELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQEC 576
K E +D YLI T+E P+ +H + L LP+ Y+GVS CFR+E
Sbjct: 241 KVEDEDLYLIPTAEHPLAGMHANEILDGKDLPLLYVGVSPCFRKEA 286
>pdb|2DQ3|A Chain A, Crystal Structure Of Aq_298
pdb|2DQ3|B Chain B, Crystal Structure Of Aq_298
Length = 425
Score = 157 bits (397), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 79/198 (39%), Positives = 120/198 (60%), Gaps = 10/198 (5%)
Query: 17 ELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQEVGSHGRDTRGIFRVHQF 76
E D+ YLI T+E P+ ++R+ L E +LPI + C+R+E G++G+D RGI R HQF
Sbjct: 222 ERDNLYLIPTAEVPLTNLYREEILKEENLPIYLTAYTPCYRREAGAYGKDIRGIIRQHQF 281
Query: 77 EKVEQFVLTSPHDDESWKMLDEMIQNSEEFYADLGIAYRVVNIVSGALNHAAAKKLDLEA 136
+KVE + P D S+ L+++++++EE LG+ YRVV + +G L +AAK D+E
Sbjct: 282 DKVELVKIVHP--DTSYDELEKLVKDAEEVLQLLGLPYRVVELCTGDLGFSAAKTYDIEV 339
Query: 137 WFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTK-------QKIYATACATTRVICAILET 189
WFP +RE+ SCSNC D+Q+RR R+ +K + + A R + AILE
Sbjct: 340 WFPSQNKYREISSCSNCEDFQARRXNTRFKDSKTGKNRFVHTLNGSGLAVGRTLAAILEN 399
Query: 190 HQTETG-VRIPDCLRKFV 206
+Q E G V +P+ LR +V
Sbjct: 400 YQQEDGSVVVPEVLRDYV 417
Score = 127 bits (318), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 65/151 (43%), Positives = 92/151 (60%), Gaps = 5/151 (3%)
Query: 303 DTRGIFRVHQFEKVEQFVLTSPHDDESWKTLDEMIQNSEEFYADLGIAYRVVNIVSGALN 362
D RGI R HQF+KVE + P D S+ L+++++++EE LG+ YRVV + +G L
Sbjct: 271 DIRGIIRQHQFDKVELVKIVHP--DTSYDELEKLVKDAEEVLQLLGLPYRVVELCTGDLG 328
Query: 363 HAAAKKLDLEAWFPGSGAFRELVSCSNCLAYQSRRLLVRYGQTKKMNEKIEFVHMLNATA 422
+AAK D+E WFP +RE+ SCSNC +Q+RR R+ +K K FVH LN +
Sbjct: 329 FSAAKTYDIEVWFPSQNKYREISSCSNCEDFQARRXNTRFKDSK--TGKNRFVHTLNGSG 386
Query: 423 CATTRVICAILETHQTETG-VRIPDCLRKFV 452
A R + AILE +Q E G V +P+ LR +V
Sbjct: 387 LAVGRTLAAILENYQQEDGSVVVPEVLRDYV 417
Score = 40.0 bits (92), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 28/46 (60%)
Query: 533 ELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQECDA 578
E D+ YLI T+E P+ ++R+ L E +LPI + C+R+E A
Sbjct: 222 ERDNLYLIPTAEVPLTNLYREEILKEENLPIYLTAYTPCYRREAGA 267
>pdb|3ERR|A Chain A, Microtubule Binding Domain From Mouse Cytoplasmic Dynein
As A Fusion With Seryl-Trna Synthetase
pdb|3ERR|B Chain B, Microtubule Binding Domain From Mouse Cytoplasmic Dynein
As A Fusion With Seryl-Trna Synthetase
Length = 536
Score = 152 bits (383), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 77/190 (40%), Positives = 114/190 (60%), Gaps = 7/190 (3%)
Query: 20 DKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQEVGSHGRDTRGIFRVHQFEKV 79
D YL T+E + A+H LP +LP+RY G + FR E GS G+D RG+ RVHQF KV
Sbjct: 328 DLYLTGTAEVVLNALHSGEILPYEALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKV 387
Query: 80 EQFVLTSPHDDESWKMLDEMIQNSEEFYADLGIAYRVVNIVSGALNHAAAKKLDLEAWFP 139
EQ+VLT + S + E+++N+EE L + YR+V + +G + +++D+E + P
Sbjct: 388 EQYVLTEASLEASDRAFQELLENAEEILRLLELPYRLVEVATGDMGPGKWRQVDIEVYLP 447
Query: 140 GSGAFRELVSCSNCLDYQSRRLLVRYGQTKQKI-YA-----TACATTRVICAILETHQTE 193
G +RE SCS LD+Q+RR +RY + ++ YA TA AT R++ +LE HQ +
Sbjct: 448 SEGRYRETHSCSALLDWQARRANLRYRDPEGRVRYAYTLNNTALATPRILAMLLENHQLQ 507
Query: 194 TG-VRIPDCL 202
G VR+P L
Sbjct: 508 DGRVRVPQAL 517
Score = 115 bits (289), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 56/147 (38%), Positives = 88/147 (59%), Gaps = 4/147 (2%)
Query: 303 DTRGIFRVHQFEKVEQFVLTSPHDDESWKTLDEMIQNSEEFYADLGIAYRVVNIVSGALN 362
D RG+ RVHQF KVEQ+VLT + S + E+++N+EE L + YR+V + +G +
Sbjct: 374 DVRGLMRVHQFHKVEQYVLTEASLEASDRAFQELLENAEEILRLLELPYRLVEVATGDMG 433
Query: 363 HAAAKKLDLEAWFPGSGAFRELVSCSNCLAYQSRRLLVRYGQTKKMNEKIEFVHMLNATA 422
+++D+E + P G +RE SCS L +Q+RR +RY + ++ + + LN TA
Sbjct: 434 PGKWRQVDIEVYLPSEGRYRETHSCSALLDWQARRANLRY---RDPEGRVRYAYTLNNTA 490
Query: 423 CATTRVICAILETHQTETG-VRIPDCL 448
AT R++ +LE HQ + G VR+P L
Sbjct: 491 LATPRILAMLLENHQLQDGRVRVPQAL 517
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 41/79 (51%), Gaps = 10/79 (12%)
Query: 536 DKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQECDA------GMCRTY-FHVT 588
D YL T+E + A+H LP +LP+RY G + FR E + G+ R + FH
Sbjct: 328 DLYLTGTAEVVLNALHSGEILPYEALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKV 387
Query: 589 CAQREGLLSEATSEEVDQA 607
+ +L+EA+ E D+A
Sbjct: 388 ---EQYVLTEASLEASDRA 403
>pdb|1SRY|A Chain A, Refined Crystal Structure Of The Seryl-Trna Synthetase
From Thermus Thermophilus At 2.5 Angstroms Resolution
pdb|1SRY|B Chain B, Refined Crystal Structure Of The Seryl-Trna Synthetase
From Thermus Thermophilus At 2.5 Angstroms Resolution
pdb|1SER|A Chain A, The 2.9 Angstroms Crystal Structure Of T. Thermophilus
Seryl-Trna Synthetase Complexed With Trna Ser
pdb|1SER|B Chain B, The 2.9 Angstroms Crystal Structure Of T. Thermophilus
Seryl-Trna Synthetase Complexed With Trna Ser
pdb|1SES|A Chain A, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SES|B Chain B, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SET|A Chain A, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SET|B Chain B, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
Length = 421
Score = 151 bits (381), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 77/190 (40%), Positives = 114/190 (60%), Gaps = 7/190 (3%)
Query: 20 DKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQEVGSHGRDTRGIFRVHQFEKV 79
D YL T+E + A+H LP +LP+RY G + FR E GS G+D RG+ RVHQF KV
Sbjct: 219 DLYLTGTAEVVLNALHSGEILPYEALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKV 278
Query: 80 EQFVLTSPHDDESWKMLDEMIQNSEEFYADLGIAYRVVNIVSGALNHAAAKKLDLEAWFP 139
EQ+VLT + S + E+++N+EE L + YR+V + +G + +++D+E + P
Sbjct: 279 EQYVLTEASLEASDRAFQELLENAEEILRLLELPYRLVEVATGDMGPGKWRQVDIEVYLP 338
Query: 140 GSGAFRELVSCSNCLDYQSRRLLVRYGQTKQKI-YA-----TACATTRVICAILETHQTE 193
G +RE SCS LD+Q+RR +RY + ++ YA TA AT R++ +LE HQ +
Sbjct: 339 SEGRYRETHSCSALLDWQARRANLRYRDPEGRVRYAYTLNNTALATPRILAMLLENHQLQ 398
Query: 194 TG-VRIPDCL 202
G VR+P L
Sbjct: 399 DGRVRVPQAL 408
Score = 115 bits (289), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 56/147 (38%), Positives = 88/147 (59%), Gaps = 4/147 (2%)
Query: 303 DTRGIFRVHQFEKVEQFVLTSPHDDESWKTLDEMIQNSEEFYADLGIAYRVVNIVSGALN 362
D RG+ RVHQF KVEQ+VLT + S + E+++N+EE L + YR+V + +G +
Sbjct: 265 DVRGLMRVHQFHKVEQYVLTEASLEASDRAFQELLENAEEILRLLELPYRLVEVATGDMG 324
Query: 363 HAAAKKLDLEAWFPGSGAFRELVSCSNCLAYQSRRLLVRYGQTKKMNEKIEFVHMLNATA 422
+++D+E + P G +RE SCS L +Q+RR +RY + ++ + + LN TA
Sbjct: 325 PGKWRQVDIEVYLPSEGRYRETHSCSALLDWQARRANLRY---RDPEGRVRYAYTLNNTA 381
Query: 423 CATTRVICAILETHQTETG-VRIPDCL 448
AT R++ +LE HQ + G VR+P L
Sbjct: 382 LATPRILAMLLENHQLQDGRVRVPQAL 408
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 41/79 (51%), Gaps = 10/79 (12%)
Query: 536 DKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQECDA------GMCRTY-FHVT 588
D YL T+E + A+H LP +LP+RY G + FR E + G+ R + FH
Sbjct: 219 DLYLTGTAEVVLNALHSGEILPYEALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKV 278
Query: 589 CAQREGLLSEATSEEVDQA 607
+ +L+EA+ E D+A
Sbjct: 279 ---EQYVLTEASLEASDRA 294
>pdb|1WLE|A Chain A, Crystal Structure Of Mammalian Mitochondrial Seryl-Trna
Synthetase Complexed With Seryl-Adenylate
pdb|1WLE|B Chain B, Crystal Structure Of Mammalian Mitochondrial Seryl-Trna
Synthetase Complexed With Seryl-Adenylate
Length = 501
Score = 132 bits (331), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 72/214 (33%), Positives = 116/214 (54%), Gaps = 8/214 (3%)
Query: 18 LDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQEVGSHGRDTRGIFRVHQFE 77
+D L T+E + D + LPIR + STC+R E + G++ G++RVH F
Sbjct: 274 FEDLNLAGTAEVGLAGYFMDHSVAFRDLPIRMVCSSTCYRAETDT-GKEPWGLYRVHHFT 332
Query: 78 KVEQFVLTSPHDDESWKMLDEMIQNSEEFYADLGIAYRVVNIVSGALNHAAAKKLDLEAW 137
KVE F +T P ++S ++L+E + E +LG+ +RV+++ + L A +K D+EAW
Sbjct: 333 KVEMFGVTGPGLEQSSELLEEFLSLQMEILTELGLHFRVLDMPTQELGLPAYRKFDIEAW 392
Query: 138 FPGSGAFRELVSCSNCLDYQSRRLLVRYG------QTKQKIYATACATTRVICAILETHQ 191
PG G F E+ S SNC D+QSRRL + + Q + AT CA R++ A+LE++Q
Sbjct: 393 MPGRGRFGEVTSASNCTDFQSRRLHIMFQTEAGELQFAHTVNATGCAVPRLLIALLESYQ 452
Query: 192 TETG-VRIPDCLRKFVPAVYLNEAGEIPFVKTAP 224
+ G V +P L+ ++ + +P P
Sbjct: 453 QKDGSVLVPPALQPYLGTDRITTPTHVPLQYIGP 486
Score = 120 bits (301), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 65/185 (35%), Positives = 107/185 (57%), Gaps = 8/185 (4%)
Query: 291 MIQNSEEFYADLDTR----GIFRVHQFEKVEQFVLTSPHDDESWKTLDEMIQNSEEFYAD 346
M+ +S + A+ DT G++RVH F KVE F +T P ++S + L+E + E +
Sbjct: 305 MVCSSTCYRAETDTGKEPWGLYRVHHFTKVEMFGVTGPGLEQSSELLEEFLSLQMEILTE 364
Query: 347 LGIAYRVVNIVSGALNHAAAKKLDLEAWFPGSGAFRELVSCSNCLAYQSRRLLVRYGQTK 406
LG+ +RV+++ + L A +K D+EAW PG G F E+ S SNC +QSRRL + + QT+
Sbjct: 365 LGLHFRVLDMPTQELGLPAYRKFDIEAWMPGRGRFGEVTSASNCTDFQSRRLHIMF-QTE 423
Query: 407 KMNEKIEFVHMLNATACATTRVICAILETHQTETG-VRIPDCLRKFVPAVYVNEAGEIPF 465
+++F H +NAT CA R++ A+LE++Q + G V +P L+ ++ + +P
Sbjct: 424 A--GELQFAHTVNATGCAVPRLLIALLESYQQKDGSVLVPPALQPYLGTDRITTPTHVPL 481
Query: 466 VKTAP 470
P
Sbjct: 482 QYIGP 486
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%)
Query: 534 LDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQECDAG 579
+D L T+E + D + LPIR + STC+R E D G
Sbjct: 274 FEDLNLAGTAEVGLAGYFMDHSVAFRDLPIRMVCSSTCYRAETDTG 319
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 1040 CGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKTK 1079
C LC DP CD C + +H+ CLDPPL +P + +
Sbjct: 177 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDE 216
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 1040 CGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKTK 1079
C LC DP CD C + +H+ CLDPPL +P + +
Sbjct: 193 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDE 232
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 39.7 bits (91), Expect = 0.009, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 10/63 (15%)
Query: 693 VCCVCLGERSDDVNEIVECDSCGVTVHEGCYGVQDXXXXXXXXXXXXXEPWFCESCRAGI 752
VC +C+ S + N I+ CD C + VH+ CYGV W C C
Sbjct: 18 VCSICMDGESQNSNVILFCDMCNLAVHQECYGVP----------YIPEGQWLCRHCLQSR 67
Query: 753 AEP 755
A P
Sbjct: 68 ARP 70
Score = 30.0 bits (66), Expect = 8.0, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 632 VCCVCLGERSDDVNEIVECDSCGVTVHE 659
VC +C+ S + N I+ CD C + VH+
Sbjct: 18 VCSICMDGESQNSNVILFCDMCNLAVHQ 45
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 39.3 bits (90), Expect = 0.012, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 19/35 (54%)
Query: 1042 LCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPK 1076
C + + CDTC YHL CLDPPL +PK
Sbjct: 11 FCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPK 45
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger Protein
107
Length = 77
Score = 38.9 bits (89), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 27/41 (65%)
Query: 1037 SHKCGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKK 1077
S C +C H+P+ CD C++ YH+ CL+PPL ++P++
Sbjct: 26 SCSCRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEE 66
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 37.0 bits (84), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 1040 CGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKTK 1079
C LC DP CD C + +H+ CLDPPL +P + +
Sbjct: 8 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDE 47
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 36.6 bits (83), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 1040 CGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKTK 1079
C LC DP CD C + +H+ CLDPPL +P + +
Sbjct: 29 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDE 68
>pdb|3T6R|A Chain A, Structure Of Uhrf1 In Complex With Unmodified H3 N-Terminal
Tail
pdb|3T6R|B Chain B, Structure Of Uhrf1 In Complex With Unmodified H3 N-Terminal
Tail
Length = 72
Score = 36.6 bits (83), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 1040 CGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKTK 1079
C LC DP CD C + +H+ CLDPPL +P + +
Sbjct: 26 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDE 65
>pdb|3ZVY|A Chain A, Phd Finger Of Human Uhrf1 In Complex With Unmodified Histone
H3 N-Terminal Tail
pdb|3ZVY|B Chain B, Phd Finger Of Human Uhrf1 In Complex With Unmodified Histone
H3 N-Terminal Tail
Length = 72
Score = 36.6 bits (83), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 1040 CGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKTK 1079
C LC DP CD C + +H+ CLDPPL +P + +
Sbjct: 23 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDE 62
>pdb|3SOU|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone H3 1-9
Peptide
pdb|3SOU|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone H3 1-9
Peptide
pdb|3SOW|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOW|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOX|A Chain A, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3SOX|B Chain B, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3ASL|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
Length = 70
Score = 36.6 bits (83), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 1040 CGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKTK 1079
C LC DP CD C + +H+ CLDPPL +P + +
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDE 60
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 36.6 bits (83), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 27/66 (40%), Gaps = 10/66 (15%)
Query: 693 VCCVCLGERSDDVNEIVECDSCGVTVHEGCYGVQDXXXXXXXXXXXXXEPWFCESCRAGI 752
VC +C+ S + N I+ CD C + VH+ CYGV W C C
Sbjct: 27 VCSICMDGESQNSNVILFCDMCNLAVHQECYGV----------PYIPEGQWLCRHCLQSR 76
Query: 753 AEPTCE 758
A P E
Sbjct: 77 ARPALE 82
>pdb|2LGG|A Chain A, Structure Of Phd Domain Of Uhrf1 In Complex With H3 Peptide
pdb|2LGK|A Chain A, Nmr Structure Of Uhrf1 Phd Domains In A Complex With Histone
H3 Peptide
pdb|2LGL|A Chain A, Nmr Structure Of The Uhrf1 Phd Domain
Length = 69
Score = 36.6 bits (83), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 1040 CGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKTK 1079
C LC DP CD C + +H+ CLDPPL +P + +
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDE 60
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 36.2 bits (82), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 1051 TMAKCDTCHLYYHLACLDPPLLRMPK 1076
M CD+C +H+ C DPPL RMPK
Sbjct: 74 NMLFCDSCDRGFHMECCDPPLTRMPK 99
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 36.2 bits (82), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 1051 TMAKCDTCHLYYHLACLDPPLLRMPK 1076
M CD+C +H+ C DPPL RMPK
Sbjct: 76 NMLFCDSCDRGFHMECCDPPLTRMPK 101
>pdb|1XWH|A Chain A, Nmr Structure Of The First Phd Finger Of Autoimmune
Regulator Protein (Aire1): Insights Into Apeced
pdb|2KE1|A Chain A, Molecular Basis Of Non-Modified Histone H3 Tail Recognition
By The First Phd Finger Of Autoimmune Regulator
Length = 66
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 1043 CHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKT 1078
C + D + CD C +HLACL PPL +P T
Sbjct: 11 CAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGT 46
>pdb|2PUY|A Chain A, Crystal Structure Of The Bhc80 Phd Finger
pdb|2PUY|B Chain B, Crystal Structure Of The Bhc80 Phd Finger
Length = 60
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/22 (68%), Positives = 16/22 (72%)
Query: 1055 CDTCHLYYHLACLDPPLLRMPK 1076
CDTC YHL CLDPPL +PK
Sbjct: 20 CDTCSRVYHLDCLDPPLKTIPK 41
>pdb|2KFT|A Chain A, Nmr Solution Structure Of The First Phd Finger Domain Of
Human Autoimmune Regulator (Aire) In Complex With Histone
H3(1-20cys) Peptide
Length = 56
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 1043 CHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKT 1078
C + D + CD C +HLACL PPL +P T
Sbjct: 8 CAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGT 43
>pdb|2YSM|A Chain A, Solution Structure Of The First And Second Phd Domain From
MyeloidLYMPHOID OR MIXED-Lineage Leukemia Protein 3
Homolog
Length = 111
Score = 34.3 bits (77), Expect = 0.43, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 24/58 (41%), Gaps = 5/58 (8%)
Query: 1027 PLSKQAWGVLSHK-CGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKTKLMGW 1083
PL + W K C C S + M CDTC YH CL P + +P GW
Sbjct: 43 PLKRAGWQCPECKVCQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTN----GW 96
>pdb|1NJ1|A Chain A, Crystal Structure Of Prolyl-Trna Synthetase From
Methanothermobacter Thermautotrophicus Bound To Cysteine
Sulfamoyl Adenylate
pdb|1NJ2|A Chain A, Crystal Structure Of Prolyl-Trna Synthetase From
Methanothermobacter Thermautotrophicus
pdb|1NJ5|A Chain A, Crystal Structure Of Prolyl-trna Synthetase From
Methanothermobacter Thermautotrophicus Bound To Proline
Sulfamoyl Adenylate
pdb|1NJ6|A Chain A, Crystal Structure Of Prolyl-Trna Synthetase From
Methanothermobacter Thermautotrophicus Bound To Alanine
Sulfamoyl Adenylate
Length = 501
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 34/181 (18%), Positives = 75/181 (41%), Gaps = 13/181 (7%)
Query: 45 LPIRYLGVSTCFRQEVGSHGRDTRGIFRVHQFEKVEQFVLTSPHDDESWKMLDEMIQNSE 104
LP+R+ V FR E + TR + RV + ++ E+ + ++ ++ +
Sbjct: 156 LPMRFYQVVNTFRYET----KHTRPLIRVREITTFKEAHTIHATASEAEEQVERAVEIYK 211
Query: 105 EFYADLGIAYRVVNIVSGALNHAAAKKLDLEAWFPGSGAFRELVSCSNCLDYQSRRLLVR 164
EF+ LGI Y + + + + P G ++ + N +R ++
Sbjct: 212 EFFNSLGIPYLITRRPPWDKFPGSEYTVAFDTLMP-DGKTLQIGTVHNLGQTFARTFEIK 270
Query: 165 YGQTK---QKIYATACA-TTRVICAILETHQTETGVRIPDCLRK----FVPAVYLNEAGE 216
+ + + ++ T + RVI +++ H E+G+ +P + VP ++ A E
Sbjct: 271 FETPEGDHEYVHQTCYGLSDRVIASVIAIHGDESGLCLPPDVAAHQVVIVPIIFKKAAEE 330
Query: 217 I 217
+
Sbjct: 331 V 331
>pdb|1WEE|A Chain A, Solution Structure Of Phd Domain In Phd Finger Family
Protein
Length = 72
Score = 32.0 bits (71), Expect = 1.9, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 693 VCCVCLGERSDDVNEIVECDSCGVTVHEGCYGVQD 727
V C C G + DD ++ CD CGV H C G+ +
Sbjct: 17 VDCKC-GTKDDDGERMLACDGCGVWHHTRCIGINN 50
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%)
Query: 1037 SHKCGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPK 1076
S+ C +C + + CD C YH+ CL PPL +P+
Sbjct: 16 SYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPR 55
>pdb|2LQ6|A Chain A, Solution Structure Of Brd1 Phd2 Finger
Length = 87
Score = 32.0 bits (71), Expect = 2.1, Method: Composition-based stats.
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 575 ECDAGMCRTYFHVTCAQREGL 595
+C C T FHVTCAQ+ GL
Sbjct: 33 QCHKANCYTAFHVTCAQKAGL 53
>pdb|2KWJ|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3 Bound To A Histone Peptide
Containing Acetylation At Lysine 14
pdb|2KWK|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3b Bound To A H3 Peptide Wild
Type
pdb|2KWN|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To A
Histone H4 Peptide Containing Acetylation At Lysine 16
pdb|2KWO|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To A
Histone H4 Peptide Containing N-Terminal Acetylation At
Serine 1
Length = 114
Score = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 1040 CGLCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPKKT 1078
C LC S + + CD C YH+ CL+PP+ P+ +
Sbjct: 61 CILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGS 99
>pdb|1MM2|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b
pdb|2L75|A Chain A, Solution Structure Of Chd4-Phd2 In Complex With H3k9me3
Length = 61
Score = 31.2 bits (69), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 19/35 (54%)
Query: 1042 LCHLSHDPHTMAKCDTCHLYYHLACLDPPLLRMPK 1076
C + D + CDTC YH+ CL+PPL +P
Sbjct: 11 FCRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPN 45
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 30.0 bits (66), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 1055 CDTCHLYYHLACLDPPLLRMPK 1076
CDTC YH+ CLDP + + P+
Sbjct: 26 CDTCPRAYHMVCLDPDMEKAPE 47
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
0.322 0.136 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,535,977
Number of Sequences: 62578
Number of extensions: 1216862
Number of successful extensions: 2491
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 2360
Number of HSP's gapped (non-prelim): 101
length of query: 1083
length of database: 14,973,337
effective HSP length: 109
effective length of query: 974
effective length of database: 8,152,335
effective search space: 7940374290
effective search space used: 7940374290
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (26.6 bits)