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= 010423
(511 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 = 40.0 bits (92), Expect = 0.003, 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 = 32.7 bits (73), 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|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|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 = 0.60, 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: 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|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 = 32.3 bits (72), Expect = 0.62, 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 = 1.8, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 6/61 (9%)
Query: 38 LVQSHRVRNMIDTITDT-TERLIEIYADKDNARKDE-----IAALGGQTATGTNVFSSFY 91
L++ N+ + +TDT T L+ I +K+N R + I +G Q ATG VF SF
Sbjct: 131 LIKLDDAVNVDEIMTDTSTSYLLCISENKENVRDKKKGNIFIGIVGVQPATGEVVFDSFQ 190
Query: 92 D 92
D
Sbjct: 191 D 191
>pdb|4AHC|A Chain A, Crystal Structure Of An Evolved Replicating Dna Polymerase
pdb|4AHC|B Chain B, Crystal Structure Of An Evolved Replicating Dna Polymerase
pdb|4AIL|C Chain C, Crystal Structure Of An Evolved Replicating Dna Polymerase
Length = 775
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 44/97 (45%), Gaps = 6/97 (6%)
Query: 418 CEICG-NYSYWGRRAFERHFKEWRHQHGMRCLGIPNTKNFNEITSIEEAKELWKKIQERQ 476
C+ C + + WGR+ E +KE + G + L I +T + E++E+ KK E
Sbjct: 507 CKECAESVTAWGRKYIELVWKELEEKFGFKVLYI-DTDGLHATIPGGESEEIKKKALEFV 565
Query: 477 GGI--KWRPELEEEYED--KEGNIYNKKTYTDLQRQG 509
I K LE EYE K G KK Y + +G
Sbjct: 566 KYINSKLPGLLELEYEGFYKRGFFVTKKRYAVIDEEG 602
>pdb|4DGW|A Chain A, Crystal Structure Of The Sf3a Splicing Factor Complex Of
U2 Snrnp
Length = 402
Score = 29.6 bits (65), Expect = 4.0, 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|2JGU|A Chain A, Crystal Structure Of Dna-directed Dna Polymerase
Length = 775
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 42/101 (41%), Gaps = 14/101 (13%)
Query: 418 CEICG-NYSYWGRRAFERHFKEWRHQHGMRCLGIPNTKNFNEITSIE------EAKELWK 470
C+ C + + WGR+ E +KE + G + L I + I E +A E K
Sbjct: 507 CKECAESVTAWGRKYIELVWKELEEKFGFKVLYIDTDGLYATIPGGESEEIKKKALEFVK 566
Query: 471 KIQERQGGIKWRPELEEEYED--KEGNIYNKKTYTDLQRQG 509
I + G+ LE EYE K G KK Y + +G
Sbjct: 567 YINSKLPGL-----LELEYEGFYKRGFFVTKKRYAVIDEEG 602
>pdb|3A2F|A Chain A, Crystal Structure Of Pyrococcus Furiosus Dna
PolymerasePCNA Monomer Mutant Complex
Length = 775
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 42/101 (41%), Gaps = 14/101 (13%)
Query: 418 CEICG-NYSYWGRRAFERHFKEWRHQHGMRCLGIPNTKNFNEITSIE------EAKELWK 470
C+ C + + WGR+ E +KE + G + L I + I E +A E K
Sbjct: 507 CKECAESVTAWGRKYIELVWKELEEKFGFKVLYIDTDGLYATIPGGESEEIKKKALEFVK 566
Query: 471 KIQERQGGIKWRPELEEEYED--KEGNIYNKKTYTDLQRQG 509
I + G+ LE EYE K G KK Y + +G
Sbjct: 567 YINSKLPGL-----LELEYEGFYKRGFFVTKKRYAVIDEEG 602
>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 = 7.2, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 88 SSFYDRLKE---IREYHRRHPSARVAVDASEDYENLLKEEPLVEFSGEEA 134
S Y LK+ R+Y HPSA V D Y PL SG+EA
Sbjct: 2 CSHYQALKDQERXRKYFAAHPSAEVPADXWPRYXGAFIRRPLEWDSGDEA 51
>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 = 28.5 bits (62), Expect = 9.9, 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
0.316 0.134 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,947,450
Number of Sequences: 62578
Number of extensions: 650163
Number of successful extensions: 2052
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 2044
Number of HSP's gapped (non-prelim): 28
length of query: 511
length of database: 14,973,337
effective HSP length: 103
effective length of query: 408
effective length of database: 8,527,803
effective search space: 3479343624
effective search space used: 3479343624
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)