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= psy8528
(240 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FUG|2 Chain 2, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|B Chain B, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|K Chain K, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|T Chain T, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|3I9V|2 Chain 2, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3I9V|B Chain B, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3IAM|2 Chain 2, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAM|B Chain B, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAS|2 Chain 2, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|B Chain B, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|K Chain K, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|T Chain T, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3M9S|2 Chain 2, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|3M9S|B Chain B, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|2YBB|2 Chain 2, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|4HEA|2 Chain 2, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
pdb|4HEA|C Chain C, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
Length = 181
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 46/102 (45%), Gaps = 8/102 (7%)
Query: 48 FTPDNKKRAEAIISIYPVGHERAAVIPLLDLAQRQHGWLPISAMHYVADFLNLPKMRVYE 107
F D + E + YP RAA++PLL Q++ GW+ + +A + V
Sbjct: 3 FFDDKQDFLEETFAKYPPEGRRAAIMPLLRRVQQEEGWIRPERIEEIARLVGTTPTEVMG 62
Query: 108 VATFYTMFIRKPIGEERIKSILQYHLNWCTTTPCWLRNSDAI 149
VA+FY+ + P G +YHL C T C L ++ +
Sbjct: 63 VASFYSYYQFVPTG--------KYHLQVCATLSCKLAGAEEL 96
>pdb|1YHV|A Chain A, Crystal Structure Of Pak1 Kinase Domain With Two Point
Mutations (K299r, T423e)
pdb|2HY8|1 Chain 1, Pak1 Complex With St2001
Length = 297
Score = 35.0 bits (79), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 57/126 (45%), Gaps = 22/126 (17%)
Query: 28 HDALFVHRDTKDDNL-----------DVKF--EFTPDNKKRAEAIISIYPVGHE---RAA 71
H +HRD K DN+ D F + TP+ KR+E + + Y + E R A
Sbjct: 133 HSNQVIHRDIKSDNILLGMDGSVKLTDFGFCAQITPEQSKRSEMVGTPYWMAPEVVTRKA 192
Query: 72 VIPLLDLAQRQHGWLPISAMHYVADFLNLPKMR-VYEVATFYTMFIRKPIGEERIKSILQ 130
P +D+ G + I + +LN +R +Y +AT T ++ P E++ +I +
Sbjct: 193 YGPKVDIWSL--GIMAIEMIEGEPPYLNENPLRALYLIATNGTPELQNP---EKLSAIFR 247
Query: 131 YHLNWC 136
LN C
Sbjct: 248 DFLNRC 253
>pdb|3FXZ|A Chain A, Crystal Structure Of Pak1 Kinase Domain With Ruthenium
Complex Lambda-Fl172
pdb|3FY0|A Chain A, Crystal Structure Of Pak1 Kinase Domain With Ruthenium
Complex Dw1
pdb|4DAW|A Chain A, Crystal Structure Of Pak1 Kinase Domain With The Ruthenium
Phthalimide Complex
Length = 297
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 58/136 (42%), Gaps = 22/136 (16%)
Query: 28 HDALFVHRDTKDDNL-----------DVKF--EFTPDNKKRAEAIISIYPVGHE---RAA 71
H +HRD K DN+ D F + TP+ KR+ + + Y + E R A
Sbjct: 133 HSNQVIHRDIKSDNILLGMDGSVKLTDFGFCAQITPEQSKRSXMVGTPYWMAPEVVTRKA 192
Query: 72 VIPLLDLAQRQHGWLPISAMHYVADFLNLPKMR-VYEVATFYTMFIRKPIGEERIKSILQ 130
P +D+ G + I + +LN +R +Y +AT T ++ P E++ +I +
Sbjct: 193 YGPKVDIWSL--GIMAIEMIEGEPPYLNENPLRALYLIATNGTPELQNP---EKLSAIFR 247
Query: 131 YHLNWCTTTPCWLRNS 146
LN C R S
Sbjct: 248 DFLNRCLEMDVEKRGS 263
>pdb|3Q52|A Chain A, Structure Of Phosphorylated Pak1 Kinase Domain
pdb|3Q53|A Chain A, Structure Of Phosphorylated Pak1 Kinase Domain In Complex
With Atp
Length = 306
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 58/136 (42%), Gaps = 22/136 (16%)
Query: 28 HDALFVHRDTKDDNL-----------DVKF--EFTPDNKKRAEAIISIYPVGHE---RAA 71
H +HRD K DN+ D F + TP+ KR+ + + Y + E R A
Sbjct: 134 HSNQVIHRDIKSDNILLGMDGSVKLTDFGFCAQITPEQSKRSXMVGTPYWMAPEVVTRKA 193
Query: 72 VIPLLDLAQRQHGWLPISAMHYVADFLNLPKMR-VYEVATFYTMFIRKPIGEERIKSILQ 130
P +D+ G + I + +LN +R +Y +AT T ++ P E++ +I +
Sbjct: 194 YGPKVDIWSL--GIMAIEMIEGEPPYLNENPLRALYLIATNGTPELQNP---EKLSAIFR 248
Query: 131 YHLNWCTTTPCWLRNS 146
LN C R S
Sbjct: 249 DFLNRCLEMDVEKRGS 264
>pdb|1F3M|C Chain C, Crystal Structure Of Human SerineTHREONINE KINASE PAK1
pdb|1F3M|D Chain D, Crystal Structure Of Human SerineTHREONINE KINASE PAK1
pdb|1YHW|A Chain A, Crystal Structure Of Pak1 Kinase Domain With One Point
Mutations (K299r)
Length = 297
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 34/126 (26%), Positives = 56/126 (44%), Gaps = 22/126 (17%)
Query: 28 HDALFVHRDTKDDNL-----------DVKF--EFTPDNKKRAEAIISIYPVGHE---RAA 71
H +HRD K DN+ D F + TP+ KR+ + + Y + E R A
Sbjct: 133 HSNQVIHRDIKSDNILLGMDGSVKLTDFGFCAQITPEQSKRSTMVGTPYWMAPEVVTRKA 192
Query: 72 VIPLLDLAQRQHGWLPISAMHYVADFLNLPKMR-VYEVATFYTMFIRKPIGEERIKSILQ 130
P +D+ G + I + +LN +R +Y +AT T ++ P E++ +I +
Sbjct: 193 YGPKVDIWSL--GIMAIEMIEGEPPYLNENPLRALYLIATNGTPELQNP---EKLSAIFR 247
Query: 131 YHLNWC 136
LN C
Sbjct: 248 DFLNRC 253
>pdb|4H1L|H Chain H, Tcr Interaction With Peptide Mimics Of Nickel Offers
Structural Insights In Nickel Contact Allergy
pdb|4H1L|J Chain J, Tcr Interaction With Peptide Mimics Of Nickel Offers
Structural Insights In Nickel Contact Allergy
Length = 111
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 15 QNVRSLSTTQRLNHDALFVHRDTKDDNLDVKFEFTPDNKKRAEAIISIYPVGHERAAVIP 74
QNV +LS Q LNHDA++ +R L + + N + I Y V E+ P
Sbjct: 15 QNV-TLSCEQNLNHDAMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAEGYSVSREKKESFP 73
Query: 75 L 75
L
Sbjct: 74 L 74
>pdb|2YPL|E Chain E, Structural Features Underlying T-cell Receptor
Sensitivity To Concealed Mhc Class I Micropolymorphisms
Length = 238
Score = 30.4 bits (67), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 15 QNVRSLSTTQRLNHDALFVHRDTKDDNLDVKFEFTPDNKKRAEAIISIYPVGHERAAVIP 74
QNV +LS Q LNHDA++ +R L + + N + I Y V E+ P
Sbjct: 15 QNV-TLSCEQNLNHDAMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAEGYSVSREKKESFP 73
Query: 75 L 75
L
Sbjct: 74 L 74
>pdb|1OGA|E Chain E, A Structural Basis For Immunodominant Human T-Cell
Receptor Recognition
Length = 252
Score = 30.4 bits (67), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 15 QNVRSLSTTQRLNHDALFVHRDTKDDNLDVKFEFTPDNKKRAEAIISIYPVGHERAAVIP 74
QNV +LS Q LNHDA++ +R L + + N + I Y V E+ P
Sbjct: 19 QNV-TLSCEQNLNHDAMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAEGYSVSREKKESFP 77
Query: 75 L 75
L
Sbjct: 78 L 78
>pdb|2XN9|B Chain B, Crystal Structure Of The Ternary Complex Between Human T
Cell Receptor, Staphylococcal Enterotoxin H And Human
Major Histocompatibility Complex Class Ii
pdb|2XNA|B Chain B, Crystal Structure Of The Complex Between Human T Cell
Receptor And Staphylococcal Enterotoxin
Length = 244
Score = 30.4 bits (67), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 15 QNVRSLSTTQRLNHDALFVHRDTKDDNLDVKFEFTPDNKKRAEAIISIYPVGHERAAVIP 74
QNV +LS Q LNHDA++ +R L + + N + I Y V E+ P
Sbjct: 19 QNV-TLSCEQNLNHDAMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAEGYSVSREKKESFP 77
Query: 75 L 75
L
Sbjct: 78 L 78
>pdb|2AXJ|A Chain A, Crystal Structures Of T Cell Receptor Beta Chains
Related To Rheumatoid Arthritis
pdb|2AXJ|B Chain B, Crystal Structures Of T Cell Receptor Beta Chains
Related To Rheumatoid Arthritis
Length = 242
Score = 30.4 bits (67), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 15 QNVRSLSTTQRLNHDALFVHRDTKDDNLDVKFEFTPDNKKRAEAIISIYPVGHERAAVIP 74
QNV +LS Q LNHDA++ +R L + + N + I Y V E+ P
Sbjct: 17 QNV-TLSCEQNLNHDAMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAEGYSVSREKKESFP 75
Query: 75 L 75
L
Sbjct: 76 L 76
>pdb|2VLJ|E Chain E, The Structural Dynamics And Energetics Of An
Immunodominant T-Cell Receptor Are Programmed By Its
Vbeta Domain
pdb|2VLK|E Chain E, The Structural Dynamics And Energetics Of An
Immunodominant T-Cell Receptor Are Programmed By Its
Vbeta Domain
pdb|2VLM|E Chain E, The Structural Dynamics And Energetics Of An
Immunodominant T-Cell Receptor Are Programmed By Its
Vbeta Domain
Length = 244
Score = 30.4 bits (67), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 15 QNVRSLSTTQRLNHDALFVHRDTKDDNLDVKFEFTPDNKKRAEAIISIYPVGHERAAVIP 74
QNV +LS Q LNHDA++ +R L + + N + I Y V E+ P
Sbjct: 19 QNV-TLSCEQNLNHDAMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAEGYSVSREKKESFP 77
Query: 75 L 75
L
Sbjct: 78 L 78
>pdb|2VLR|E Chain E, The Structural Dynamics And Energetics Of An
Immunodominant T-cell Receptor Are Programmed By Its
Vbeta Domain
pdb|2VLR|J Chain J, The Structural Dynamics And Energetics Of An
Immunodominant T-cell Receptor Are Programmed By Its
Vbeta Domain
Length = 244
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 15 QNVRSLSTTQRLNHDALFVHRDTKDDNLDVKFEFTPDNKKRAEAIISIYPVGHERAAVIP 74
QNV +LS Q LNHDA++ +R L + + N + I Y V E+ P
Sbjct: 19 QNV-TLSCEQNLNHDAMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAEGYSVSREKKESFP 77
Query: 75 L 75
L
Sbjct: 78 L 78
>pdb|3DRW|A Chain A, Crystal Structure Of A Phosphofructokinase From Pyrococcus
Horikoshii Ot3 With Amp
pdb|3DRW|B Chain B, Crystal Structure Of A Phosphofructokinase From Pyrococcus
Horikoshii Ot3 With Amp
Length = 474
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 37/157 (23%), Positives = 62/157 (39%), Gaps = 28/157 (17%)
Query: 1 MLSNLAKLASNVVRQNVRSLSTTQRLNHDALFVHRDTKDDNLD---------VKFEFTPD 51
L + K + + L T DA + R K+D ++ V+F D
Sbjct: 229 FLGEIGKEVDGAIFSGYQGLRTKYSDGKDANYYLRRAKEDIIEFKEKDVKIHVEFASVQD 288
Query: 52 NKKRAEAIISIYP----VGHERAAVIPLL------DLAQRQHGWL----PISAMHYVADF 97
K R + I +I P VG + A + +L +LA R + I + D
Sbjct: 289 RKLRKKIITNILPFVDSVGIDEAEIAQILSVLGYRELADRIFTYNRLEDSILGGMIILDE 348
Query: 98 LNLPKMRVYEVATFYTMFIR---KPIGEERIKSILQY 131
LN ++V+ T+Y M+I P+ EE + L++
Sbjct: 349 LNFEILQVH--TTYYLMYITHRDNPLSEEELAKSLEF 383
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 0.135 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,916,914
Number of Sequences: 62578
Number of extensions: 278044
Number of successful extensions: 908
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 898
Number of HSP's gapped (non-prelim): 17
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
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: 50 (23.9 bits)