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= psy1940
(78 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AV8|A Chain A, Kluyveromyces Lactis Hsv2 Complete Loop 6cd
pdb|4AV9|A Chain A, Kluyveromyces Lactis Hsv2
pdb|4EXV|A Chain A, Structure Of Kluyveromyces Lactis Hsv2p
Length = 339
Score = 46.2 bits (108), Expect = 5e-06, Method: Composition-based stats.
Identities = 23/55 (41%), Positives = 33/55 (60%)
Query: 22 VTINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQLVELRRGSDPATL 76
V + AH + + + LN+ G M+AT S GTLIRV+ T V + E RRG D ++
Sbjct: 173 VLVKAHANPVKMVRLNRKGDMVATCSQDGTLIRVFQTDNGVLVREFRRGLDRTSI 227
>pdb|3VU4|A Chain A, Crystal Structure Of Kluyvelomyces Marxianus Hsv2
pdb|3VU4|B Chain B, Crystal Structure Of Kluyvelomyces Marxianus Hsv2
Length = 355
Score = 44.3 bits (103), Expect = 2e-05, Method: Composition-based stats.
Identities = 23/53 (43%), Positives = 31/53 (58%)
Query: 22 VTINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQLVELRRGSDPA 74
V I AH + + + LN+ M+AT S GT+IRV+ T V + E RRG D A
Sbjct: 189 VLIKAHTNPIKMVRLNRKSDMVATCSQDGTIIRVFKTEDGVLVREFRRGLDRA 241
>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 = 30.0 bits (66), Expect = 0.32, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQL 64
T++AH +E+ CL+ N I S + +WD L+ ++L
Sbjct: 276 TVDAHTAEVNCLSFNPYSEFILATGSADKTVALWD-LRNLKL 316
>pdb|2XYI|A Chain A, Crystal Structure Of Nurf55 In Complex With A H4 Peptide
Length = 430
Score = 30.0 bits (66), Expect = 0.34, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQL 64
T++AH +E+ CL+ N I S + +WD L+ ++L
Sbjct: 272 TVDAHTAEVNCLSFNPYSEFILATGSADKTVALWD-LRNLKL 312
>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 = 30.0 bits (66), Expect = 0.34, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQL 64
T++AH +E+ CL+ N I S + +WD L+ ++L
Sbjct: 274 TVDAHTAEVNCLSFNPYSEFILATGSADKTVALWD-LRNLKL 314
>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 = 28.9 bits (63), Expect = 0.74, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQL 64
+++AH +E+ CL+ N I S + +WD L+ ++L
Sbjct: 268 SVDAHTAEVNCLSFNPYSEFILATGSADKTVALWD-LRNLKL 308
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 28.9 bits (63), Expect = 0.78, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 24 INAHQSELACLALNQTGTMIATASSKGTLIRVWDT 58
I AH+ E+ C A + + IAT S+ +++WD+
Sbjct: 660 IKAHEDEVLCCAFSSDDSYIATCSADKK-VKIWDS 693
>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 445
Score = 28.9 bits (63), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 25 NAHQSELACLALNQTGTMIATASSKGTLIRVWD 57
N HQS + CL N+ + T+S GT +++WD
Sbjct: 359 NKHQSAVTCLQFNK--NFVITSSDDGT-VKLWD 388
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 28.9 bits (63), Expect = 0.80, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 24 INAHQSELACLALNQTGTMIATASSKGTLIRVWDT 58
I AH+ E+ C A + + IAT S+ +++WD+
Sbjct: 653 IKAHEDEVLCCAFSSDDSYIATCSADKK-VKIWDS 686
>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 = 28.1 bits (61), Expect = 1.2, Method: Composition-based stats.
Identities = 12/41 (29%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 24 INAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQL 64
++AH +E+ CL+ N I S + +WD L+ ++L
Sbjct: 271 VDAHTAEVNCLSFNPYSEFILATGSADKTVALWD-LRNLKL 310
>pdb|3CFS|B Chain B, Structural Basis Of The Interaction Of Rbap46RBAP48 WITH
Histone H4
Length = 414
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 12/41 (29%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 24 INAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQL 64
++AH +E+ CL+ N I S + +WD L+ ++L
Sbjct: 271 VDAHTAEVNCLSFNPYSEFILATGSADKTVALWD-LRNLKL 310
>pdb|2CR7|A Chain A, Solution Structure Of The First Pah Domain Of The Mouse
Transcriptional Repressor Sin3b
Length = 80
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 46 ASSKGTLIRVWDTLKKVQLVELRRGSDPAT 75
SS + + V D L + V++R GSDPAT
Sbjct: 1 GSSGSSGVHVEDALTYLDQVKIRFGSDPAT 30
>pdb|1R5M|A Chain A, Crystal Structure Of The C-Terminal Wd40 Domain Of Sif2
Length = 425
Score = 26.6 bits (57), Expect = 4.0, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 26 AHQSELACLALNQTGTMIATASSKGTLIRVW 56
H ++ L N T ++ +AS GTL R+W
Sbjct: 245 GHHGPISVLEFNDTNKLLLSASDDGTL-RIW 274
>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 = 26.2 bits (56), Expect = 4.7, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWDTL 59
T AH+S + L+++ G IAT L+ +WD L
Sbjct: 208 TFKAHESNVNHLSISPNGKYIATGGKDKKLL-IWDIL 243
>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 = 25.8 bits (55), Expect = 6.5, Method: Composition-based stats.
Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 24 INAHQSELACLALNQTGTMIATASSKGTLIRVWDTL 59
I AH+ E+ C A + IAT S +++W+++
Sbjct: 659 IKAHEDEVLCCAFSTDDRFIATCSVDKK-VKIWNSM 693
>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 = 25.4 bits (54), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 25 NAHQSELACLALNQTGTMIATASSKGTLIRVW 56
N+H+ ++CL L+ G+ + T S L ++W
Sbjct: 341 NSHEGRISCLGLSSDGSALCTGSWDKNL-KIW 371
>pdb|4G56|B Chain B, Crystal Structure Of Full Length Prmt5/mep50 Complexes
From Xenopus Laevis
pdb|4G56|D Chain D, Crystal Structure Of Full Length Prmt5/mep50 Complexes
From Xenopus Laevis
Length = 357
Score = 25.4 bits (54), Expect = 9.0, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLK 60
+ NAH SE+ C+A I + + I +WDT K
Sbjct: 176 SYNAHSSEVNCVAACPGKDTIFLSCGEDGRILLWDTRK 213
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
0.321 0.130 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,537,193
Number of Sequences: 62578
Number of extensions: 35047
Number of successful extensions: 152
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 139
Number of HSP's gapped (non-prelim): 19
length of query: 78
length of database: 14,973,337
effective HSP length: 47
effective length of query: 31
effective length of database: 12,032,171
effective search space: 372997301
effective search space used: 372997301
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: 45 (21.9 bits)