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= psy13973
(230 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LJ8|A Chain A, Solution Structure Of AdfCOFILIN FROM TRYPANOSOMA BRUCEI
Length = 144
Score = 60.5 bits (145), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 47/75 (62%), Gaps = 4/75 (5%)
Query: 8 LHASGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEYIGDRNATYDSFLEDLQKA 67
+ SGV+V+D C T +++ KK RYV+ I D+K I V+ IG+R A +D F+E + K
Sbjct: 9 MAMSGVSVADECVTALNDLRH-KKSRYVIMHIVDQKSIAVKTIGERGANFDQFIEAIDK- 66
Query: 68 GSGECRYGLFDFEYT 82
+ C Y FDFEYT
Sbjct: 67 -NVPC-YAAFDFEYT 79
>pdb|1AHQ|A Chain A, Recombinant Actophorin
Length = 137
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/72 (38%), Positives = 43/72 (59%), Gaps = 4/72 (5%)
Query: 11 SGVTVSDICKTTYEEIKKDKKHRYVVFFIR-DEKQIDVEYIGDRNATYDSFLEDLQKAGS 69
SG+ VSD C + E+K +HRYV F + ++ VE++G NATY+ F L +
Sbjct: 1 SGIAVSDDCVQKFNELKLGHQHRYVTFKMNASNTEVVVEHVGGPNATYEDFKSQLPER-- 58
Query: 70 GECRYGLFDFEY 81
+CRY +FD+E+
Sbjct: 59 -DCRYAIFDYEF 69
>pdb|1F7S|A Chain A, Crystal Structure Of Adf1 From Arabidopsis Thaliana
Length = 139
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 49/86 (56%), Gaps = 6/86 (6%)
Query: 10 ASGVTVSDICKTTYEEIKKDKKHRYVVFFIRD-EKQIDVEYIGDRNATYDSFLEDLQKAG 68
ASG+ V D CK + E+K + HR++V+ I + +KQ+ VE +G TY+ F L
Sbjct: 5 ASGMAVHDDCKLRFLELKAKRTHRFIVYKIEEKQKQVVVEKVGQPIQTYEEFAACL---P 61
Query: 69 SGECRYGLFDFEYT--HQCQGTTELY 92
+ ECRY ++DF++ CQ + +
Sbjct: 62 ADECRYAIYDFDFVTAENCQKSKIFF 87
>pdb|1CNU|A Chain A, Phosphorylated Actophorin From Acantamoeba Polyphaga
Length = 137
Score = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 42/71 (59%), Gaps = 4/71 (5%)
Query: 12 GVTVSDICKTTYEEIKKDKKHRYVVFFIR-DEKQIDVEYIGDRNATYDSFLEDLQKAGSG 70
G+ VSD C + E+K +HRYV F + ++ VE++G NATY+ F L +
Sbjct: 2 GIAVSDDCVQKFNELKLGHQHRYVTFKMNASNTEVVVEHVGGPNATYEDFKSQLPER--- 58
Query: 71 ECRYGLFDFEY 81
+CRY +FD+E+
Sbjct: 59 DCRYAIFDYEF 69
>pdb|1CFY|A Chain A, Yeast Cofilin, Monoclinic Crystal Form
pdb|1CFY|B Chain B, Yeast Cofilin, Monoclinic Crystal Form
pdb|1QPV|A Chain A, Yeast Cofilin
pdb|1COF|A Chain A, Yeast Cofilin, Orthorhombic Crystal Form
Length = 143
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 42/71 (59%), Gaps = 3/71 (4%)
Query: 11 SGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEYIGDRNATYDSFLEDLQKAGSG 70
SGV V+D T + ++K KK+++++F + D K V + +YD+FLE L +
Sbjct: 4 SGVAVADESLTAFNDLKLGKKYKFILFGLNDAKTEIVVKETSTDPSYDAFLEKLPE---N 60
Query: 71 ECRYGLFDFEY 81
+C Y ++DFEY
Sbjct: 61 DCLYAIYDFEY 71
>pdb|2I2Q|A Chain A, Fission Yeast Cofilin
Length = 137
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 45/77 (58%), Gaps = 9/77 (11%)
Query: 8 LHASGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEYIGDRNAT---YDSFLEDL 64
+ SGV VS C ++E+K K RYVVF + D K E + ++ +T +D+FL DL
Sbjct: 1 MSFSGVKVSPECLEAFQELKLGKSLRYVVFKMNDTK---TEIVVEKKSTDKDFDTFLGDL 57
Query: 65 QKAGSGECRYGLFDFEY 81
+ +CRY ++DFE+
Sbjct: 58 PEK---DCRYAIYDFEF 71
>pdb|2KVK|A Chain A, Solution Structure Of AdfCOFILIN (LDCOF) FROM LEISHMANIA
DONOVANI
Length = 144
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 53/108 (49%), Gaps = 13/108 (12%)
Query: 8 LHASGVTVSDICKTTYEEIKKDKKHRYVVFFI-RDEKQIDVEYIGDRNATYDSFLEDLQK 66
+ SGVT+ + + ++++ KK RYV+ I D K+I+V +G+R+ Y DL++
Sbjct: 1 MAISGVTLEESVRGAIDDLRM-KKSRYVMMCIGADGKKIEVTEVGERSVNYT----DLKE 55
Query: 67 AGSGE--CRYGLFDFEYTHQCQGTTELYRCQGTTEHRRPAVDRRNKTM 112
S E C Y FDFEY +L Q + RP R K M
Sbjct: 56 KFSTEKPC-YVAFDFEYNDAGSKREKLILIQWIPDTARP----REKMM 98
>pdb|2L72|A Chain A, Solution Structure And Dynamics Of Adf From Toxoplasma
Gondii (Tgadf)
Length = 139
Score = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 38/69 (55%), Gaps = 6/69 (8%)
Query: 10 ASGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEYIGDRNATYDSFLEDLQKAGS 69
ASG+ V + C + E+K K +++VF I + K I VE G NA D F L +
Sbjct: 23 ASGMGVDENCVARFNELKIRKTVKWIVFKIENTK-IVVEKDGKGNA--DEFRGALP---A 76
Query: 70 GECRYGLFD 78
+CR+G++D
Sbjct: 77 NDCRFGVYD 85
>pdb|4HD1|A Chain A, Crystal Structure Of Squalene Synthase Hpnc From
Alicyclobacillus Acidocaldarius
Length = 294
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 30 KKHRYVVF-FIRDEKQIDVEYIGDRNATYDSFLEDLQKAGSGE 71
+ H Y V+ F R + E+ GDR A D++ E+L++A +GE
Sbjct: 41 RPHFYSVYAFCRGVDDLGDEFAGDRXAALDAYEEELRRAFAGE 83
>pdb|2XF1|A Chain A, Crystal Structure Of Plasmodium Falciparum Actin
Depolymerization Factor 1
Length = 124
Score = 30.0 bits (66), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 11 SGVTVSDICKTTYEEIKKDKK-HRYVVFFIRDEKQIDVEYIGDRNATYDSFLEDLQKAGS 69
SG+ V+D C T + +K K +++F I++ +I + G + T ++ + K
Sbjct: 5 SGIRVNDNCVTEFNNMKIRKTCXGWIIFVIQNXCEIIIHSKG-ASTTLTELVQSIDKNNE 63
Query: 70 GECRYGLFD 78
+C Y +FD
Sbjct: 64 IQCAYVVFD 72
>pdb|3Q2B|A Chain A, Crystal Structure Of An Actin Depolymerizing Factor
Length = 124
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 6/70 (8%)
Query: 11 SGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEYIGDRNA--TYDSFLEDLQKAG 68
SG+ V+D C T + +K K +++F I++ + I I + A T ++ + K
Sbjct: 5 SGIRVNDNCVTEFNNMKIRKTCGWIIFVIQNCEII----IHSKGASTTLTELVQSIDKNN 60
Query: 69 SGECRYGLFD 78
+C Y +FD
Sbjct: 61 EIQCAYVVFD 70
>pdb|2XFA|A Chain A, Crystal Structure Of Plasmodium Berghei Actin
Depolymerization Factor 2
pdb|2XFA|B Chain B, Crystal Structure Of Plasmodium Berghei Actin
Depolymerization Factor 2
Length = 148
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 10 ASGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEYIG-DRNAT-YDSFLEDLQ-K 66
SGV VSD C + +K ++Y+++ I + ++I V+ + D T D+ + ++
Sbjct: 7 VSGVNVSDECIYEFNRLKVKHLNKYIIYKIENLEKIVVDVLEHDMELTSLDNIIMRIKNN 66
Query: 67 AGSGECRYGLFDF 79
+ ECRY + D
Sbjct: 67 LKNTECRYIIADM 79
>pdb|3E7J|A Chain A, Heparinaseii H202a/y257a Double Mutant Complexed With A
Heparan Sulfate Tetrasaccharide Substrate
pdb|3E7J|B Chain B, Heparinaseii H202a/y257a Double Mutant Complexed With A
Heparan Sulfate Tetrasaccharide Substrate
Length = 749
Score = 27.7 bits (60), Expect = 5.4, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 3/39 (7%)
Query: 11 SGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEY 49
+G V D C Y+++K ++K R+V F+R K ++ Y
Sbjct: 133 TGAIVYDWC---YDQLKPEEKTRFVKAFVRLAKMLECGY 168
>pdb|2FUT|A Chain A, Crystal Structure Of Heparinase Ii Complexed With A
Disaccharide Product
pdb|2FUT|B Chain B, Crystal Structure Of Heparinase Ii Complexed With A
Disaccharide Product
Length = 748
Score = 27.3 bits (59), Expect = 6.7, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 3/39 (7%)
Query: 11 SGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEY 49
+G V D C Y+++K ++K R+V F+R K ++ Y
Sbjct: 132 TGAIVYDWC---YDQLKPEEKTRFVKAFVRLAKXLECGY 167
>pdb|2FUQ|A Chain A, Crystal Structure Of Heparinase Ii
pdb|2FUQ|B Chain B, Crystal Structure Of Heparinase Ii
Length = 747
Score = 26.9 bits (58), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 3/39 (7%)
Query: 11 SGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEY 49
+G V D C Y+++K ++K R+V F+R K ++ Y
Sbjct: 131 TGAIVYDWC---YDQLKPEEKTRFVKAFVRLAKMLECGY 166
>pdb|3E80|A Chain A, Structure Of Heparinase Ii Complexed With Heparan Sulfate
Degradation Disaccharide Product
pdb|3E80|B Chain B, Structure Of Heparinase Ii Complexed With Heparan Sulfate
Degradation Disaccharide Product
pdb|3E80|C Chain C, Structure Of Heparinase Ii Complexed With Heparan Sulfate
Degradation Disaccharide Product
Length = 749
Score = 26.9 bits (58), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 3/39 (7%)
Query: 11 SGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEY 49
+G V D C Y+++K ++K R+V F+R K ++ Y
Sbjct: 133 TGAIVYDWC---YDQLKPEEKTRFVKAFVRLAKMLECGY 168
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
0.320 0.135 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,487,565
Number of Sequences: 62578
Number of extensions: 245406
Number of successful extensions: 570
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 551
Number of HSP's gapped (non-prelim): 16
length of query: 230
length of database: 14,973,337
effective HSP length: 96
effective length of query: 134
effective length of database: 8,965,849
effective search space: 1201423766
effective search space used: 1201423766
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)