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= psy3660
(144 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AQQ|A Chain A, Crystal Structure Of Human Crhsp-24
pdb|3AQQ|C Chain C, Crystal Structure Of Human Crhsp-24
pdb|3AQQ|B Chain B, Crystal Structure Of Human Crhsp-24
pdb|3AQQ|D Chain D, Crystal Structure Of Human Crhsp-24
Length = 147
Score = 65.9 bits (159), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 38/76 (50%), Positives = 42/76 (55%), Gaps = 20/76 (26%)
Query: 35 LPSPIITRRTRTESMDFKATAQRSKGSKEQPNFLISNRALQNPVETGKIKEFCRSKGHGF 94
+PSP+ TRRTRT F AT RA Q PV G K FCRSKGHGF
Sbjct: 39 VPSPLPTRRTRT----FSATV----------------RASQGPVYKGVCKCFCRSKGHGF 78
Query: 95 ITPDSGEPAVFVHISD 110
ITP G P +F+HISD
Sbjct: 79 ITPADGGPDIFLHISD 94
>pdb|2BH8|A Chain A, Combinatorial Protein 1b11
pdb|2BH8|B Chain B, Combinatorial Protein 1b11
Length = 101
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/36 (55%), Positives = 22/36 (61%)
Query: 74 LQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
LQ+ TG +K F KG GFITPD G VFVH S
Sbjct: 12 LQSGKMTGIVKWFNADKGFGFITPDDGSKDVFVHFS 47
>pdb|2L15|A Chain A, Solution Structure Of Cold Shock Protein Cspa Using
Combined Nmr And Cs-Rosetta Method
Length = 70
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/30 (60%), Positives = 19/30 (63%)
Query: 80 TGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
TG +K F KG GFITPD G VFVH S
Sbjct: 6 TGIVKWFNADKGFGFITPDDGSKDVFVHFS 35
>pdb|1MJC|A Chain A, Crystal Structure Of Cspa, The Major Cold Shock Protein Of
Escherichia Coli
Length = 69
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/30 (60%), Positives = 19/30 (63%)
Query: 80 TGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
TG +K F KG GFITPD G VFVH S
Sbjct: 5 TGIVKWFNADKGFGFITPDDGSKDVFVHFS 34
>pdb|3MEF|A Chain A, Major Cold-Shock Protein From Escherichia Coli Solution
Nmr Structure
Length = 69
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/30 (60%), Positives = 19/30 (63%)
Query: 80 TGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
TG +K F KG GFITPD G VFVH S
Sbjct: 5 TGIVKWFNADKGFGFITPDDGSKDVFVHFS 34
>pdb|3I2Z|B Chain B, Structure Of Cold Shock Protein E From Salmonella
Typhimurium
pdb|3I2Z|A Chain A, Structure Of Cold Shock Protein E From Salmonella
Typhimurium
Length = 71
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 17/29 (58%), Positives = 19/29 (65%)
Query: 81 GKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
G +K F SKG GFITP+ G VFVH S
Sbjct: 8 GNVKWFNESKGFGFITPEDGSKDVFVHFS 36
>pdb|3CAM|A Chain A, Crystal Structure Of The Cold Shock Domain Protein From
Neisseria Meningitidis
pdb|3CAM|B Chain B, Crystal Structure Of The Cold Shock Domain Protein From
Neisseria Meningitidis
Length = 67
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 19/30 (63%)
Query: 80 TGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
TG +K F +KG GFITPD G +F H S
Sbjct: 3 TGIVKWFNDAKGFGFITPDEGGEDLFAHFS 32
>pdb|1G6P|A Chain A, Solution Nmr Structure Of The Cold Shock Protein From The
Hyperthermophilic Bacterium Thermotoga Maritima
Length = 66
Score = 35.0 bits (79), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/29 (58%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 81 GKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
GK+K F KG+GFIT D G VFVH S
Sbjct: 3 GKVKWFDSKKGYGFITKDEG-GDVFVHWS 30
>pdb|2LSS|A Chain A, Solution Structure Of The R. Rickettsii Cold Shock-like
Protein
Length = 70
Score = 32.0 bits (71), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 80 TGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
GK+K + +K GFI D+G VFVH S
Sbjct: 6 VGKVKWYNSTKNFGFIEQDNGGKDVFVHKS 35
>pdb|1I5F|A Chain A, Bacillus Caldolyticus Cold-Shock Protein Mutants To Study
Determinants Of Protein Stability
pdb|1I5F|B Chain B, Bacillus Caldolyticus Cold-Shock Protein Mutants To Study
Determinants Of Protein Stability
Length = 66
Score = 31.2 bits (69), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 78 VETGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
++ GK+K F KG+GFI + G VFVH +
Sbjct: 1 MQEGKVKWFNNEKGYGFIEVEGGSD-VFVHFT 31
>pdb|1HZC|A Chain A, Bacillus Caldolyticus Cold-Shock Protein Mutants To Study
Determinants Of Protein Stability
pdb|1HZC|B Chain B, Bacillus Caldolyticus Cold-Shock Protein Mutants To Study
Determinants Of Protein Stability
Length = 66
Score = 31.2 bits (69), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 78 VETGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
++ GK+K F KG+GFI + G VFVH +
Sbjct: 1 MQEGKVKWFNNEKGYGFIEVEGGSD-VFVHFT 31
>pdb|1HZ9|A Chain A, Bacillus Caldolyticus Cold-Shock Protein Mutants To Study
Determinants Of Protein Stability
pdb|1HZ9|B Chain B, Bacillus Caldolyticus Cold-Shock Protein Mutants To Study
Determinants Of Protein Stability
Length = 66
Score = 31.2 bits (69), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 78 VETGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
++ GK+K F KG+GFI + G VFVH +
Sbjct: 1 MQRGKVKWFNNEKGYGFIEVEGGSD-VFVHFT 31
>pdb|1HZA|A Chain A, Bacillus Caldolyticus Cold-Shock Protein Mutants To Study
Determinants Of Protein Stability
pdb|1HZA|B Chain B, Bacillus Caldolyticus Cold-Shock Protein Mutants To Study
Determinants Of Protein Stability
Length = 67
Score = 31.2 bits (69), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 78 VETGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
++ GK+K F KG+GFI + G VFVH +
Sbjct: 1 MQRGKVKWFNNEKGYGFIEVEGGSD-VFVHFT 31
>pdb|1C9O|A Chain A, Crystal Structure Analysis Of The Bacillus Caldolyticus
Cold Shock Protein Bc-Csp
pdb|1C9O|B Chain B, Crystal Structure Analysis Of The Bacillus Caldolyticus
Cold Shock Protein Bc-Csp
pdb|2HAX|A Chain A, Crystal Structure Of Bacillus Caldolyticus Cold Shock
Protein In Complex With Hexathymidine
pdb|2HAX|B Chain B, Crystal Structure Of Bacillus Caldolyticus Cold Shock
Protein In Complex With Hexathymidine
Length = 66
Score = 31.2 bits (69), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 78 VETGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
++ GK+K F KG+GFI + G VFVH +
Sbjct: 1 MQRGKVKWFNNEKGYGFIEVEGGSD-VFVHFT 31
>pdb|1HZB|A Chain A, Bacillus Caldolyticus Cold-Shock Protein Mutants To Study
Determinants Of Protein Stability
pdb|1HZB|B Chain B, Bacillus Caldolyticus Cold-Shock Protein Mutants To Study
Determinants Of Protein Stability
Length = 66
Score = 30.8 bits (68), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 78 VETGKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
++ GK+K F KG+GFI + G VFVH +
Sbjct: 1 MQRGKVKWFNNEKGYGFIEVEGGSD-VFVHFT 31
>pdb|2ES2|A Chain A, Crystal Structure Analysis Of The Bacillus Subtilis Cold
Shock Protein Bs-Cspb In Complex With Hexathymidine
pdb|2F52|A Chain A, Solution Structure Of Cold Shock Protein Cspb From
Bacillus Subtilis In Complex With Heptathymidine
pdb|1CSP|A Chain A, Crystal Structure Of The Bacillus Subtilis Major Cold
Shock Protein, Cspb: A Universal Nucleic-Acid Binding
Domain
pdb|1CSQ|A Chain A, Crystal Structure Of The Bacillus Subtilis Major Cold
Shock Protein, Cspb: A Universal Nucleic-Acid Binding
Domain
pdb|1NMF|A Chain A, Major Cold-Shock Protein, Nmr, 20 Structures
pdb|1NMG|A Chain A, Major Cold-Shock Protein, Nmr, Minimized Average Structure
pdb|3PF4|A Chain A, Crystal Structure Of Bs-Cspb In Complex With R(Gucuuua)
pdb|3PF4|B Chain B, Crystal Structure Of Bs-Cspb In Complex With R(Gucuuua)
pdb|3PF5|A Chain A, Crystal Structure Of Bs-Cspb In Complex With Ru6
pdb|3PF5|B Chain B, Crystal Structure Of Bs-Cspb In Complex With Ru6
Length = 67
Score = 30.4 bits (67), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 81 GKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
GK+K F KG GFI + G+ VFVH S
Sbjct: 4 GKVKWFNSEKGFGFIEVE-GQDDVFVHFS 31
>pdb|2I5M|X Chain X, Crystal Structure Of Bacillus Subtilis Cold Shock Protein
Cspb Variant A46k S48r
Length = 67
Score = 30.4 bits (67), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 81 GKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
GK+K F KG GFI + G+ VFVH S
Sbjct: 4 GKVKWFNSEKGFGFIEVE-GQDDVFVHFS 31
>pdb|2I5L|X Chain X, Crystal Structure Of Bacillus Subtilis Cold Shock Protein
Variant Bs-Cspb M1rE3KK65I
Length = 67
Score = 30.4 bits (67), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 81 GKIKEFCRSKGHGFITPDSGEPAVFVHIS 109
GK+K F KG GFI + G+ VFVH S
Sbjct: 4 GKVKWFNSEKGFGFIEVE-GQDDVFVHFS 31
>pdb|3A0J|A Chain A, Crystal Structure Of Cold Shock Protein 1 From Thermus
Thermophilus Hb8
pdb|3A0J|B Chain B, Crystal Structure Of Cold Shock Protein 1 From Thermus
Thermophilus Hb8
Length = 73
Score = 30.0 bits (66), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 33/64 (51%), Gaps = 13/64 (20%)
Query: 78 VETGKIKEFCRSKGHGFITPDSGEPAVFVHISDYVIMPKLISQINKALQGSKTCNSCNIS 137
++ G++K F KG+GFI + G+ VFVH + IN +G +T N +I
Sbjct: 1 MQKGRVKWFNAEKGYGFIERE-GDTDVFVH----------YTAIN--AKGFRTLNEGDIV 47
Query: 138 SVEL 141
+ ++
Sbjct: 48 TFDV 51
>pdb|3Q6P|A Chain A, Salivary Protein From Lutzomyia Longipalpis.
Selenomethionine Derivative
pdb|3Q6P|B Chain B, Salivary Protein From Lutzomyia Longipalpis.
Selenomethionine Derivative
Length = 381
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 17 SPMLSPQEPHLHSNNTLSLPSPIITRRTRTESMDFKATAQRSKGSKEQP 65
SP+L+ H S+ P+I R +D + RS+G+K+ P
Sbjct: 71 SPLLNKFSGHKTGKELTSIYQPVIDDCRRLWVVDIGSVEYRSRGAKDYP 119
>pdb|3Q6K|A Chain A, Salivary Protein From Lutzomyia Longipalpis
pdb|3Q6K|B Chain B, Salivary Protein From Lutzomyia Longipalpis
pdb|3Q6T|A Chain A, Salivary Protein From Lutzomyia Longipalpis, Ligand Free
pdb|3Q6T|B Chain B, Salivary Protein From Lutzomyia Longipalpis, Ligand Free
Length = 381
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 17 SPMLSPQEPHLHSNNTLSLPSPIITRRTRTESMDFKATAQRSKGSKEQP 65
SP+L+ H S+ P+I R +D + RS+G+K+ P
Sbjct: 71 SPLLNKFSGHKTGKELTSIYQPVIDDCRRLWVVDIGSVEYRSRGAKDYP 119
>pdb|2KCM|A Chain A, Solution Nmr Structure Of The N-Terminal Ob-Domain Of
So_1732 From Shewanella Oneidensis. Northeast Structural
Genomics Consortium Target Sor210a
Length = 74
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 81 GKIKEFCRSKGHGFITPDSGEPAVFVHISD 110
GK+ + +K +GFI D GE + F+H S+
Sbjct: 3 GKVVSYLAAKKYGFIQGDDGE-SYFLHFSE 31
>pdb|3RP2|A Chain A, The Structure Of Rat Mast Cell Protease Ii At
1.9-Angstroms Resolution
pdb|3RP2|B Chain B, The Structure Of Rat Mast Cell Protease Ii At
1.9-Angstroms Resolution
Length = 224
Score = 26.9 bits (58), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 86 FCRSKGHGFIT---PDSGEPAVFVHISDYVIMPKLISQIN 122
C HG ++ PD+ PA+F +S YV P + + IN
Sbjct: 187 LCAGVAHGIVSYGHPDAKPPAIFTRVSTYV--PWINAVIN 224
>pdb|2YJG|A Chain A, Structure Of The Lactate Racemase Apoprotein From
Thermoanaerobacterium Thermosaccharolyticum
pdb|2YJG|B Chain B, Structure Of The Lactate Racemase Apoprotein From
Thermoanaerobacterium Thermosaccharolyticum
Length = 436
Score = 26.6 bits (57), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 15/106 (14%)
Query: 19 MLSPQEPHLHSNNTLSLPSPIITRRTRTESMDFKATAQRSKGSKEQPNFLISNRALQNPV 78
M + + P+ S LP I R+++ +K I RAL+NP+
Sbjct: 1 MANIEIPYGKSKLAFDLPDERIQGILRSKAGSYKVNMSEED---------IVKRALENPI 51
Query: 79 ETGKIKEFCRSKGH-GFITPDSGEPAVFVHISDYVIMPKLISQINK 123
T ++++ K + IT D P + + +P L+ +I K
Sbjct: 52 GTKRLQDLAEGKKNIVIITSDHTRP-----VPSRITLPLLLDEIRK 92
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
0.312 0.128 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,149,915
Number of Sequences: 62578
Number of extensions: 150594
Number of successful extensions: 284
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 266
Number of HSP's gapped (non-prelim): 25
length of query: 144
length of database: 14,973,337
effective HSP length: 89
effective length of query: 55
effective length of database: 9,403,895
effective search space: 517214225
effective search space used: 517214225
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 46 (22.3 bits)