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= 005325
(702 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 33.9 bits (76), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 70/155 (45%), Gaps = 20/155 (12%)
Query: 145 RMGRDMAYNSWSCDLLCAASSPE---LYRINL--EQGRFLSS---LNTQSPALNVVSRSK 196
+ G +++NS L +AS L+ IN ++G+ + + S + V+
Sbjct: 180 KEGYGLSWNSNLSGHLLSASDDHTVCLWDINAGPKEGKIVDAKAIFTGHSAVVEDVAWHL 239
Query: 197 LH-GLIACGGEDGAVECFDMRMRSSAARINAVAPAGDADQ-EVTALEFDSNGGFLMGVGS 254
LH L +D + +D R +++ + V DA EV L F+ F++ GS
Sbjct: 240 LHESLFGSVADDQKLXIWDTRSNTTSKPSHLV----DAHTAEVNCLSFNPYSEFILATGS 295
Query: 255 STGKVLIYDLRSSYPIRVKDHMFDS---PIVDIKW 286
+ V ++DLR+ +++K H F+S I + W
Sbjct: 296 ADKTVALWDLRN---LKLKLHTFESHKDEIFQVHW 327
>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 = 33.5 bits (75), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 200 LIACGGEDGAVECFDMRMRSSAARINAVAPAGDADQEVTALEFDSNGGFLMGVGSSTGKV 259
+A GG+D V + + S + V PA E+T++ F +NG FL+ S KV
Sbjct: 462 FVAVGGQDSKVHVYKLSGASVSEVKTIVHPA-----EITSVAFSNNGAFLVATDQSR-KV 515
Query: 260 LIYDLRSSY 268
+ Y + +++
Sbjct: 516 IPYSVANNF 524
>pdb|3CFS|B Chain B, Structural Basis Of The Interaction Of Rbap46RBAP48 WITH
Histone H4
Length = 414
Score = 33.1 bits (74), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 70/155 (45%), Gaps = 20/155 (12%)
Query: 145 RMGRDMAYNSWSCDLLCAASSPE---LYRINL--EQGRFLSS---LNTQSPALNVVSRSK 196
+ G +++NS L +AS L+ IN ++G+ + + S + V+
Sbjct: 180 KEGYGLSWNSNLSGHLLSASDDHTVCLWDINAGPKEGKIVDAKAIFTGHSAVVEDVAWHL 239
Query: 197 LH-GLIACGGEDGAVECFDMRMRSSAARINAVAPAGDADQ-EVTALEFDSNGGFLMGVGS 254
LH L +D + +D R +++ + V DA EV L F+ F++ GS
Sbjct: 240 LHESLFGSVADDQKLMIWDTRSNTTSKPSHLV----DAHTAEVNCLSFNPYSEFILATGS 295
Query: 255 STGKVLIYDLRSSYPIRVKDHMFDS---PIVDIKW 286
+ V ++DLR+ +++K H F+S I + W
Sbjct: 296 ADKTVALWDLRN---LKLKLHTFESHKDEIFQVHW 327
>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 = 33.1 bits (74), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 49/100 (49%), Gaps = 12/100 (12%)
Query: 192 VSRSKLH-GLIACGGEDGAVECFDMRMRSSAARINAVAPAGDADQ-EVTALEFDSNGGFL 249
VS LH L +D + +D R +++ ++V DA EV L F+ F+
Sbjct: 233 VSWHLLHESLFGSVADDQKLMIWDTRSNNTSKPSHSV----DAHTAEVNCLSFNPYSEFI 288
Query: 250 MGVGSSTGKVLIYDLRSSYPIRVKDHMFDS---PIVDIKW 286
+ GS+ V ++DLR+ +++K H F+S I ++W
Sbjct: 289 LATGSADKTVALWDLRN---LKLKLHSFESHKDEIFQVQW 325
>pdb|2XYI|A Chain A, Crystal Structure Of Nurf55 In Complex With A H4 Peptide
Length = 430
Score = 32.7 bits (73), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 58/129 (44%), Gaps = 17/129 (13%)
Query: 168 LYRINL--EQGRFLSSLNTQSPALNVVSRSKLH----GLIACGGEDGAVECFDMRMRSSA 221
L+ IN ++ R + + N + VV H L +D + +D R +++
Sbjct: 208 LWDINATPKEHRVIDAKNIFTGHTAVVEDVAWHLLHESLFGSVADDQKLMIWDTRNNNTS 267
Query: 222 ARINAVAPAGDADQ-EVTALEFDSNGGFLMGVGSSTGKVLIYDLRSSYPIRVKDHMFDS- 279
+ V DA EV L F+ F++ GS+ V ++DLR+ +++K H F+S
Sbjct: 268 KPSHTV----DAHTAEVNCLSFNPYSEFILATGSADKTVALWDLRN---LKLKLHSFESH 320
Query: 280 --PIVDIKW 286
I ++W
Sbjct: 321 KDEIFQVQW 329
>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 = 32.3 bits (72), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 58/129 (44%), Gaps = 17/129 (13%)
Query: 168 LYRINL--EQGRFLSSLNTQSPALNVVSRSKLH----GLIACGGEDGAVECFDMRMRSSA 221
L+ IN ++ R + + N + VV H L +D + +D R +++
Sbjct: 210 LWDINATPKEHRVIDAKNIFTGHTAVVEDVAWHLLHESLFGSVADDQKLMIWDTRNNNTS 269
Query: 222 ARINAVAPAGDADQ-EVTALEFDSNGGFLMGVGSSTGKVLIYDLRSSYPIRVKDHMFDS- 279
+ V DA EV L F+ F++ GS+ V ++DLR+ +++K H F+S
Sbjct: 270 KPSHTV----DAHTAEVNCLSFNPYSEFILATGSADKTVALWDLRN---LKLKLHSFESH 322
Query: 280 --PIVDIKW 286
I ++W
Sbjct: 323 KDEIFQVQW 331
>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 = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 58/129 (44%), Gaps = 17/129 (13%)
Query: 168 LYRINL--EQGRFLSSLNTQSPALNVVSRSKLH----GLIACGGEDGAVECFDMRMRSSA 221
L+ IN ++ R + + N + VV H L +D + +D R +++
Sbjct: 212 LWDINATPKEHRVIDAKNIFTGHTAVVEDVAWHLLHESLFGSVADDQKLMIWDTRNNNTS 271
Query: 222 ARINAVAPAGDADQ-EVTALEFDSNGGFLMGVGSSTGKVLIYDLRSSYPIRVKDHMFDS- 279
+ V DA EV L F+ F++ GS+ V ++DLR+ +++K H F+S
Sbjct: 272 KPSHTV----DAHTAEVNCLSFNPYSEFILATGSADKTVALWDLRN---LKLKLHSFESH 324
Query: 280 --PIVDIKW 286
I ++W
Sbjct: 325 KDEIFQVQW 333
>pdb|2PM9|A Chain A, Crystal Structure Of Yeast Sec1331 VERTEX ELEMENT OF THE
Copii Vesicular Coat
Length = 416
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/110 (20%), Positives = 54/110 (49%), Gaps = 10/110 (9%)
Query: 189 LNVVSRSKLHGLIACGGEDGAVECFDMRMRSSAARINAVAPAGDADQEVTALEFDSNGGF 248
N + S + +IA ++G++E + ++A IN++A + V ++F++
Sbjct: 70 FNDLDWSHNNKIIAGALDNGSLELYSTNEANNA--INSMARFSNHSSSVKTVKFNAKQDN 127
Query: 249 LMGVGSSTGKVLIYDLR------SSY-PIRVKDHMFD-SPIVDIKWHQSI 290
++ G + G++ I+D+ S+Y P+ M ++ + W+QS+
Sbjct: 128 VLASGGNNGEIFIWDMNKCTESPSNYTPLTPGQSMSSVDEVISLAWNQSL 177
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
0.318 0.134 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,418,163
Number of Sequences: 62578
Number of extensions: 682365
Number of successful extensions: 1446
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1435
Number of HSP's gapped (non-prelim): 19
length of query: 702
length of database: 14,973,337
effective HSP length: 106
effective length of query: 596
effective length of database: 8,340,069
effective search space: 4970681124
effective search space used: 4970681124
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)