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= psy15865
(156 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Xylose
pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Glucose
pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To
6-Bromo-6-Deoxy-D-Glucose
Length = 491
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 39/85 (45%), Gaps = 20/85 (23%)
Query: 11 YVAEITQPHLRGMLSATASMTTIFGTVSQLFLGSFL------------HWR----SAAIL 54
Y+AE+ H+RG L + IFG + + F+ WR S I
Sbjct: 150 YIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGDASWLNTDGWRYMFASECIP 209
Query: 55 NLLFPILALCALYFIPESPHWLISK 79
LLF +L LY +PESP WL+S+
Sbjct: 210 ALLFLML----LYTVPESPRWLMSR 230
>pdb|3D54|A Chain A, Stucture Of Purlqs From Thermotoga Maritima
pdb|3D54|E Chain E, Stucture Of Purlqs From Thermotoga Maritima
pdb|3D54|I Chain I, Stucture Of Purlqs From Thermotoga Maritima
Length = 629
Score = 31.2 bits (69), Expect = 0.25, Method: Composition-based stats.
Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 9/68 (13%)
Query: 82 PIGLSALATSAKNMLLFSYGTTLGLPTI---AIPYLSYSIKAIPYQTAGSGSLEKPAPGQ 138
P+GLSA+ T+ KN FS G+P A Y +Y K IP T G L K P +
Sbjct: 479 PVGLSAMMTALKNACEFS-----GVPVASGNASLYNTYQGKPIP-PTLVVGMLGKVNPQK 532
Query: 139 IAPDGPPK 146
+A P K
Sbjct: 533 VAKPKPSK 540
>pdb|2HS0|A Chain A, T. Maritima Purl Complexed With Atp
pdb|2HS3|A Chain A, T. Maritima Purl Complexed With Fgar
pdb|2HS4|A Chain A, T. Maritima Purl Complexed With Fgar And Amppcp
Length = 603
Score = 31.2 bits (69), Expect = 0.26, Method: Composition-based stats.
Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 9/68 (13%)
Query: 82 PIGLSALATSAKNMLLFSYGTTLGLPTI---AIPYLSYSIKAIPYQTAGSGSLEKPAPGQ 138
P+GLSA+ T+ KN FS G+P A Y +Y K IP T G L K P +
Sbjct: 453 PVGLSAMMTALKNACEFS-----GVPVASGNASLYNTYQGKPIP-PTLVVGMLGKVNPQK 506
Query: 139 IAPDGPPK 146
+A P K
Sbjct: 507 VAKPKPSK 514
>pdb|2HRU|A Chain A, T. Maritima Purl Complexed With Adp
pdb|2HRY|A Chain A, T. Maritima Purl Complexed With Amppcp
Length = 603
Score = 31.2 bits (69), Expect = 0.27, Method: Composition-based stats.
Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 9/68 (13%)
Query: 82 PIGLSALATSAKNMLLFSYGTTLGLPTI---AIPYLSYSIKAIPYQTAGSGSLEKPAPGQ 138
P+GLSA+ T+ KN FS G+P A Y +Y K IP T G L K P +
Sbjct: 453 PVGLSAMMTALKNACEFS-----GVPVASGNASLYNTYQGKPIP-PTLVVGMLGKVNPQK 506
Query: 139 IAPDGPPK 146
+A P K
Sbjct: 507 VAKPKPSK 514
>pdb|1VK3|A Chain A, Crystal Structure Of Phosphoribosylformylglycinamidine
Synthase Ii (Tm1246) From Thermotoga Maritima At 2.15 A
Resolution
Length = 615
Score = 30.8 bits (68), Expect = 0.34, Method: Composition-based stats.
Identities = 26/68 (38%), Positives = 32/68 (47%), Gaps = 9/68 (13%)
Query: 82 PIGLSALATSAKNMLLFSYGTTLGLPTI---AIPYLSYSIKAIPYQTAGSGSLEKPAPGQ 138
P+GLSA T+ KN FS G+P A Y +Y K IP T G L K P +
Sbjct: 465 PVGLSAXXTALKNACEFS-----GVPVASGNASLYNTYQGKPIP-PTLVVGXLGKVNPQK 518
Query: 139 IAPDGPPK 146
+A P K
Sbjct: 519 VAKPKPSK 526
>pdb|3IFU|A Chain A, The Crystal Structure Of Porcine Reproductive And
Respiratory Syndrome Virus (Prrsv) Leader Protease Nsp1
Length = 180
Score = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 33 IFGTVSQLFLGSFLHWRSAAILNLLFPILALCALYFIPESP-HWLISKYLP 82
+F Q++ L RS LNL P L + L++ PE P W + + P
Sbjct: 16 VFVAEGQVYCTRCLSARSLLPLNLQVPELGVLGLFYRPEEPLRWTLPRAFP 66
>pdb|1UM9|B Chain B, Branched-chain 2-oxo Acid Dehydrogenase (e1) From Thermus
Thermophilus Hb8 In Apo-form
pdb|1UM9|D Chain D, Branched-chain 2-oxo Acid Dehydrogenase (e1) From Thermus
Thermophilus Hb8 In Apo-form
pdb|1UMB|B Chain B, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 In Holo-Form
pdb|1UMB|D Chain D, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 In Holo-Form
pdb|1UMC|B Chain B, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 With 4-Methylpentanoate
pdb|1UMC|D Chain D, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 With 4-Methylpentanoate
pdb|1UMD|B Chain B, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 With 4-Methyl-2-Oxopentanoate As An
Intermediate
pdb|1UMD|D Chain D, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 With 4-Methyl-2-Oxopentanoate As An
Intermediate
Length = 324
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 81 LPIGLSALATSAKNMLLFSYGTTL 104
LPIG +AL K++ L YGT +
Sbjct: 191 LPIGKAALRREGKDLTLICYGTVM 214
>pdb|1YY8|A Chain A, Crystal Structure Of The Fab Fragment From The Monoclonal
Antibody CetuximabERBITUXIMC-C225
pdb|1YY8|C Chain C, Crystal Structure Of The Fab Fragment From The Monoclonal
Antibody CetuximabERBITUXIMC-C225
pdb|1YY9|C Chain C, Structure Of The Extracellular Domain Of The Epidermal
Growth Factor Receptor In Complex With The Fab Fragment
Of Cetuximab/erbitux/imc- C225
Length = 213
Score = 26.9 bits (58), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 103 TLGLPTIAIPYLSYSIKAIPYQTAGSGS 130
T G P + I Y S SI IP + +GSGS
Sbjct: 40 TNGSPRLLIKYASESISGIPSRFSGSGS 67
>pdb|2HFE|B Chain B, Rb+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
Length = 211
Score = 26.9 bits (58), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 103 TLGLPTIAIPYLSYSIKAIPYQTAGSGS 130
T G P + I Y S SI IP + +GSGS
Sbjct: 40 TNGSPRLLIKYASESISGIPSRFSGSGS 67
>pdb|1K4D|B Chain B, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
K+
pdb|1K4C|B Chain B, Potassium Channel Kcsa-Fab Complex In High Concentration
Of K+
pdb|1R3I|L Chain L, Potassium Channel Kcsa-Fab Complex In Rb+
pdb|1R3J|A Chain A, Potassium Channel Kcsa-Fab Complex In High Concentration
Of Tl+
pdb|1R3K|A Chain A, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
Tl+
pdb|1R3L|A Chain A, Potassium Channel Kcsa-Fab Complex In Cs+
pdb|1S5H|A Chain A, Potassium Channel Kcsa-Fab Complex T75c Mutant In K+
pdb|2BOB|B Chain B, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetrabutylammonium (Tba)
pdb|2BOC|B Chain B, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetraethylarsonium (Teas)
pdb|1ZWI|B Chain B, Structure Of Mutant Kcsa Potassium Channel
pdb|2ATK|B Chain B, Structure Of A Mutant Kcsa K+ Channel
pdb|2H8P|B Chain B, Structure Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HG5|B Chain B, Cs+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HJF|B Chain B, Potassium Channel Kcsa-Fab Complex With Tetrabutylammonium
(Tba)
pdb|2IH1|B Chain B, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2IH3|B Chain B, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2DWD|B Chain B, Crystal Structure Of Kcsa-Fab-Tba Complex In Tl+
pdb|2DWE|B Chain B, Crystal Structure Of Kcsa-Fab-Tba Complex In Rb+
pdb|2HVJ|B Chain B, Crystal Structure Of Kcsa-fab-tba Complex In Low K+
pdb|2HVK|B Chain B, Crystal Structure Of The Kcsa-Fab-Tba Complex In High K+
pdb|2ITC|B Chain B, Potassium Channel Kcsa-Fab Complex In Sodium Chloride
pdb|2ITD|B Chain B, Potassium Channel Kcsa-Fab Complex In Barium Chloride
pdb|2NLJ|A Chain A, Potassium Channel Kcsa(M96v)-Fab Complex In Kcl
pdb|2P7T|B Chain B, Crystal Structure Of Kcsa Mutant
pdb|2JK5|B Chain B, Potassium Channel Kcsa In Complex With Tetrabutylammonium
In High K
pdb|2W0F|B Chain B, Potassium Channel Kcsa-Fab Complex With Tetraoctylammonium
pdb|3GB7|B Chain B, Potassium Channel Kcsa-Fab Complex In Li+
pdb|3IGA|B Chain B, Potassium Channel Kcsa-Fab Complex In Li+ And K+
pdb|3F5W|B Chain B, Kcsa Potassium Channel In The Open-Inactivated State With
32 A Opening At T112
pdb|3F7V|B Chain B, Kcsa Potassium Channel In The Open-Inactivated State With
23 A Opening At T112
pdb|3F7Y|B Chain B, Kcsa Potassium Channel In The Partially Open State With 17
A Opening At T112
pdb|3FB5|B Chain B, Kcsa Potassium Channel In The Partially Open State With
14.5 A Opening At T112
pdb|3FB6|B Chain B, Kcsa Potassium Channel In The Partially Open State With 16
A Opening At T112
pdb|3FB8|B Chain B, Kcsa Potassium Channel In The Open-Conductive State With
20 At T112 In The Presence Of Rb+ Ion
pdb|3HPL|B Chain B, Kcsa E71h-F103a Mutant In The Closed State
pdb|3FB7|B Chain B, Open Kcsa Potassium Channel In The Presence Of Rb+ Ion
pdb|3OR6|B Chain B, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71q
pdb|3OR7|B Chain B, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71i
pdb|3OGC|B Chain B, Kcsa E71a Variant In Presence Of Na+
pdb|3STL|B Chain B, Kcsa Potassium Channel Mutant Y82c With Cadmium Bound
pdb|3STZ|B Chain B, Kcsa Potassium Channel Mutant Y82c With Nitroxide Spin
Label
Length = 212
Score = 26.9 bits (58), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 103 TLGLPTIAIPYLSYSIKAIPYQTAGSGS 130
T G P + I Y S SI IP + +GSGS
Sbjct: 40 TNGSPRLLIKYASESISGIPSRFSGSGS 67
>pdb|2OZ4|L Chain L, Structural Plasticity In Igsf Domain 4 Of Icam-1 Mediates
Cell Surface Dimerization
Length = 214
Score = 26.6 bits (57), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 105 GLPTIAIPYLSYSIKAIPYQTAGSGS 130
G P + I Y S SI IP + +GSGS
Sbjct: 42 GSPRLLIEYASESISGIPSRFSGSGS 67
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 0.136 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,339,458
Number of Sequences: 62578
Number of extensions: 153802
Number of successful extensions: 634
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 606
Number of HSP's gapped (non-prelim): 31
length of query: 156
length of database: 14,973,337
effective HSP length: 91
effective length of query: 65
effective length of database: 9,278,739
effective search space: 603118035
effective search space used: 603118035
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: 47 (22.7 bits)