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= 013256
(447 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DT7|A Chain A, Solution Structure Of The Second Surp Domain Of Human
Splicing Factor Sf3a120 In Complex With A Fragment Of
Human Splicing Factor Sf3a60
Length = 38
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 14/25 (56%), Positives = 22/25 (88%)
Query: 82 TGTNVFSSFYDRLKEIREYHRRHPS 106
+G N F+ FY+RLK+I+E+HR+HP+
Sbjct: 7 SGPNEFAEFYNRLKQIKEFHRKHPN 31
>pdb|1YVN|A Chain A, The Yeast Actin Val 159 Asn Mutant Complex With Human
Gelsolin Segment 1
Length = 375
Score = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 51/124 (41%), Gaps = 24/124 (19%)
Query: 166 FSRPHEIPRKLKMTRQYREYIEKLLEYLIYFFQRT---EPLQDLDRIFSKVVADFEEQWV 222
FS PH I R R +Y+ K+L Y F T E ++D+ V DFE++
Sbjct: 169 FSLPHAILRIDLAGRDLTDYLMKILSERGYSFSTTAEREIVRDIKEKLCYVALDFEQEMQ 228
Query: 223 TSTLQGWETEGQENGHVPAQHSELDLDYYSTVEELMEVGSERLKEELA-----AKGLKSG 277
T+ AQ S ++ Y +++ +G+ER + A GL+S
Sbjct: 229 TA----------------AQSSSIEKSYELPDGQVITIGNERFRAPEALFHPSVLGLESA 272
Query: 278 GTLQ 281
G Q
Sbjct: 273 GIDQ 276
>pdb|3B63|A Chain A, Actin Filament Model In The Extended Form Of Acromsomal
Bundle In The Limulus Sperm
pdb|3B63|G Chain G, Actin Filament Model In The Extended Form Of Acromsomal
Bundle In The Limulus Sperm
Length = 365
Score = 32.3 bits (72), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 51/124 (41%), Gaps = 24/124 (19%)
Query: 166 FSRPHEIPRKLKMTRQYREYIEKLLEYLIYFFQRT---EPLQDLDRIFSKVVADFEEQWV 222
FS PH I R R +Y+ K+L Y F T E ++D+ V DFE++
Sbjct: 164 FSLPHAILRIDLAGRDLTDYLMKILSERGYSFSTTAEREIVRDIKEKLCYVALDFEQEMQ 223
Query: 223 TSTLQGWETEGQENGHVPAQHSELDLDYYSTVEELMEVGSERLKEELA-----AKGLKSG 277
T+ AQ S ++ Y +++ +G+ER + A GL+S
Sbjct: 224 TA----------------AQSSSIEKSYELPDGQVITIGNERFRAPEALFHPSVLGLESA 267
Query: 278 GTLQ 281
G Q
Sbjct: 268 GIDQ 271
>pdb|1YAG|A Chain A, Structure Of The Yeast Actin-human Gelsolin Segment 1
Complex
Length = 375
Score = 32.3 bits (72), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 51/124 (41%), Gaps = 24/124 (19%)
Query: 166 FSRPHEIPRKLKMTRQYREYIEKLLEYLIYFFQRT---EPLQDLDRIFSKVVADFEEQWV 222
FS PH I R R +Y+ K+L Y F T E ++D+ V DFE++
Sbjct: 169 FSLPHAILRIDLAGRDLTDYLMKILSERGYSFSTTAEREIVRDIKEKLCYVALDFEQEMQ 228
Query: 223 TSTLQGWETEGQENGHVPAQHSELDLDYYSTVEELMEVGSERLKEELA-----AKGLKSG 277
T+ AQ S ++ Y +++ +G+ER + A GL+S
Sbjct: 229 TA----------------AQSSSIEKSYELPDGQVITIGNERFRAPEALFHPSVLGLESA 272
Query: 278 GTLQ 281
G Q
Sbjct: 273 GIDQ 276
>pdb|3B63|C Chain C, Actin Filament Model In The Extended Form Of Acromsomal
Bundle In The Limulus Sperm
pdb|3B63|I Chain I, Actin Filament Model In The Extended Form Of Acromsomal
Bundle In The Limulus Sperm
Length = 365
Score = 32.0 bits (71), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 51/124 (41%), Gaps = 24/124 (19%)
Query: 166 FSRPHEIPRKLKMTRQYREYIEKLLEYLIYFFQRT---EPLQDLDRIFSKVVADFEEQWV 222
FS PH I R R +Y+ K+L Y F T E ++D+ V DFE++
Sbjct: 164 FSLPHAILRIDLAGRDLTDYLMKILSERGYSFSTTAEREIVRDIKEKLCYVALDFEQEMQ 223
Query: 223 TSTLQGWETEGQENGHVPAQHSELDLDYYSTVEELMEVGSERLKEELA-----AKGLKSG 277
T+ AQ S ++ Y +++ +G+ER + A GL+S
Sbjct: 224 TA----------------AQSSSIEKSYELPDGQVITIGNERFRAPEALFHPSVLGLESA 267
Query: 278 GTLQ 281
G Q
Sbjct: 268 GIDQ 271
>pdb|3THW|B Chain B, Human Mutsbeta Complexed With An Idl Of 4 Bases (Loop4)
And Adp
pdb|3THX|B Chain B, Human Mutsbeta Complexed With An Idl Of 3 Bases (Loop3)
And Adp
pdb|3THY|B Chain B, Human Mutsbeta Complexed With An Idl Of 2 Bases (Loop2)
And Adp
pdb|3THZ|B Chain B, Human Mutsbeta Complexed With An Idl Of 6 Bases (Loop6)
And Adp
Length = 918
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 46 NMIDTITDT-TERLIEIYADKDNARKDE-----IAALGGQTATGTNVFSSFYD 92
N+ + +TDT T L+ I +K+N R + I +G Q ATG VF SF D
Sbjct: 139 NVDEIMTDTSTSYLLCISENKENVRDKKKGNIFIGIVGVQPATGEVVFDSFQD 191
>pdb|1ZN6|A Chain A, X-Ray Crystal Structure Of Protein Q7wlm8 From Bordetella
Bronchiseptica. Northeast Structural Genomics Consortium
Target Bor19
Length = 227
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 89 SFYDRLKE---IREYHRRHPSARVAVDASEDYENLLKEEPLVEFSGEEA 134
S Y LK+ R+Y HPSA V D Y PL SG+EA
Sbjct: 3 SHYQALKDQERXRKYFAAHPSAEVPADXWPRYXGAFIRRPLEWDSGDEA 51
>pdb|4DGW|A Chain A, Crystal Structure Of The Sf3a Splicing Factor Complex Of
U2 Snrnp
Length = 402
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 22/106 (20%), Positives = 49/106 (46%), Gaps = 6/106 (5%)
Query: 129 FSGEEAYGRYLDLHELYNQYINSKFGKEIEYSAYLDVFSRPHE------IPRKLKMTRQY 182
F+ +E YG Y +L + ++ ++N + +LD+ + P + +Y
Sbjct: 183 FTRDEQYGEYXELEQFHSLWLNVIKRGDCSLLQFLDILELFLDDEKYLLTPPXDRKNDRY 242
Query: 183 REYIEKLLEYLIYFFQRTEPLQDLDRIFSKVVADFEEQWVTSTLQG 228
++ KL +Y+ FF ++ L D + + + +DFE + +L+
Sbjct: 243 XAFLLKLSKYVETFFFKSYALLDAAAVENLIKSDFEHSYCRGSLRS 288
>pdb|3SR4|A Chain A, Crystal Structure Of Human Dot1l In Complex With A
Selective Inhibitor
Length = 351
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 389 NPLKLPMGWDGKPIPYWLYKLHG--LGQVFSSL 419
+PLK + W GKP+ Y+L+ + L FSSL
Sbjct: 297 SPLKGSVSWTGKPVSYYLHTIDRTILENYFSSL 329
>pdb|2HF3|A Chain A, Crystal Structure Of Monomeric Actin In The Adp Bound
State
pdb|2HF4|A Chain A, Crystal Structure Of Monomeric Actin In Its Atp-Bound
State
pdb|3MN7|A Chain A, Structures Of Actin-Bound Wh2 Domains Of Spire And The
Implication For Filament Nucleation
pdb|3MN9|A Chain A, Structures Of Actin-Bound Wh2 Domains Of Spire And The
Implication For Filament Nucleation
pdb|3MMV|A Chain A, Structures Of Actin-Bound Wh2 Domains Of Spire And The
Implication For Filament Nucleation
pdb|3MN6|A Chain A, Structures Of Actin-Bound Wh2 Domains Of Spire And The
Implication For Filament Nucleation
pdb|3MN6|F Chain F, Structures Of Actin-Bound Wh2 Domains Of Spire And The
Implication For Filament Nucleation
pdb|3MN6|K Chain K, Structures Of Actin-Bound Wh2 Domains Of Spire And The
Implication For Filament Nucleation
Length = 374
Score = 28.5 bits (62), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 43/104 (41%), Gaps = 19/104 (18%)
Query: 166 FSRPHEIPRKLKMTRQYREYIEKLLEYLIYFFQRTEP---LQDLDRIFSKVVADFEEQWV 222
++ PH I R R +Y+ K+L Y F TE ++D+ V DFE++
Sbjct: 168 YALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTEEREIVRDIKEKLCYVALDFEQEMA 227
Query: 223 TSTLQGWETEGQENGHVPAQHSELDLDYYSTVEELMEVGSERLK 266
T+ A S L+ Y +++ +G+ER +
Sbjct: 228 TA----------------ASSSSLEKSYELKDGQVITIGNERFR 255
>pdb|4ER3|A Chain A, Crystal Structure Of Human Dot1l In Complex With Inhibitor
Epz004777
Length = 352
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 389 NPLKLPMGWDGKPIPYWLYKLHG--LGQVFSSL 419
+PLK + W GKP+ Y+L+ + L FSSL
Sbjct: 298 SPLKGSVSWTGKPVSYYLHTIDRTILENYFSSL 330
>pdb|3EKS|A Chain A, Crystal Structure Of Monomeric Actin Bound To Cytochalasin
D
pdb|3EKU|A Chain A, Crystal Structure Of Monomeric Actin Bound To Cytochalasin
D
pdb|3EL2|A Chain A, Crystal Structure Of Monomeric Actin Bound To Ca-Atp
Length = 375
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 43/104 (41%), Gaps = 19/104 (18%)
Query: 166 FSRPHEIPRKLKMTRQYREYIEKLLEYLIYFFQRTEP---LQDLDRIFSKVVADFEEQWV 222
++ PH I R R +Y+ K+L Y F TE ++D+ V DFE++
Sbjct: 169 YALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTEEREIVRDIKEKLCYVALDFEQEMA 228
Query: 223 TSTLQGWETEGQENGHVPAQHSELDLDYYSTVEELMEVGSERLK 266
T+ A S L+ Y +++ +G+ER +
Sbjct: 229 TA----------------ASSSSLEKSYELKDGQVITIGNERFR 256
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
0.317 0.134 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,418,450
Number of Sequences: 62578
Number of extensions: 525180
Number of successful extensions: 1675
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1668
Number of HSP's gapped (non-prelim): 31
length of query: 447
length of database: 14,973,337
effective HSP length: 102
effective length of query: 345
effective length of database: 8,590,381
effective search space: 2963681445
effective search space used: 2963681445
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: 53 (25.0 bits)