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= psy14126
(81 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HY5|A Chain A, Crystal Structure Of Cralbp
Length = 316
Score = 34.3 bits (77), Expect = 0.018, Method: Composition-based stats.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 13/71 (18%)
Query: 11 DTLPADYGGNKPKINYSSAQWY---------PVLDEIEDSIMYFHGNKMSSLHKYIHPDT 61
D+ PA + I++ WY P L ++ HG+ +S ++ I +
Sbjct: 228 DSFPARFKA----IHFIHQPWYFTTTYNVVKPFLKSKLLERVFVHGDDLSGFYQEIDENI 283
Query: 62 LPADYGGNKPK 72
LP+D+GG PK
Sbjct: 284 LPSDFGGTLPK 294
>pdb|3HX3|A Chain A, Crystal Structure Of Cralbp Mutant R234w
Length = 316
Score = 33.1 bits (74), Expect = 0.039, Method: Composition-based stats.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 13/71 (18%)
Query: 11 DTLPADYGGNKPKINYSSAQWY---------PVLDEIEDSIMYFHGNKMSSLHKYIHPDT 61
D+ PA + I++ WY P L ++ HG+ +S ++ I +
Sbjct: 228 DSFPAWFKA----IHFIHQPWYFTTTYNVVKPFLKSKLLERVFVHGDDLSGFYQEIDENI 283
Query: 62 LPADYGGNKPK 72
LP+D+GG PK
Sbjct: 284 LPSDFGGTLPK 294
>pdb|1OLM|E Chain E, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
Length = 403
Score = 30.4 bits (67), Expect = 0.29, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 29/76 (38%), Gaps = 20/76 (26%)
Query: 10 PDTLPADYGGNKPKINYSSAQWYPVLDEIEDSIMYFHGNKMSSLHKYIHPDTLPADYGGN 69
P P Y KP ++ ++ IM N L K+I PD +P +YGG
Sbjct: 195 PKLFPVAYNLIKPFLS----------EDTRKKIMVLGANWKEVLLKHISPDQVPVEYGGT 244
Query: 70 ----------KPKINY 75
K KINY
Sbjct: 245 MTDPDGNPKCKSKINY 260
Score = 27.3 bits (59), Expect = 2.4, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 14/60 (23%)
Query: 4 LHKYIHPDTLPADYGGN----------KPKINYSS--AQWYPVLDEIEDSIMYFHGNKMS 51
L K+I PD +P +YGG K KINY + Y V D+++ Y H ++S
Sbjct: 228 LLKHISPDQVPVEYGGTMTDPDGNPKCKSKINYGGDIPRKYYVRDQVKQQ--YEHSVQIS 285
>pdb|1OLM|A Chain A, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
pdb|1OLM|C Chain C, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
Length = 403
Score = 30.0 bits (66), Expect = 0.30, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 29/76 (38%), Gaps = 20/76 (26%)
Query: 10 PDTLPADYGGNKPKINYSSAQWYPVLDEIEDSIMYFHGNKMSSLHKYIHPDTLPADYGGN 69
P P Y KP ++ ++ IM N L K+I PD +P +YGG
Sbjct: 195 PKLFPVAYNLIKPFLS----------EDTRKKIMVLGANWKEVLLKHISPDQVPVEYGGT 244
Query: 70 ----------KPKINY 75
K KINY
Sbjct: 245 MTDPDGNPKCKSKINY 260
Score = 27.3 bits (59), Expect = 2.4, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 14/60 (23%)
Query: 4 LHKYIHPDTLPADYGGN----------KPKINYSS--AQWYPVLDEIEDSIMYFHGNKMS 51
L K+I PD +P +YGG K KINY + Y V D+++ Y H ++S
Sbjct: 228 LLKHISPDQVPVEYGGTMTDPDGNPKCKSKINYGGDIPRKYYVRDQVKQQ--YEHSVQIS 285
>pdb|1OIP|A Chain A, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-tocopherol Transfer Protein
pdb|1OIZ|A Chain A, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-Tocopherol Transfer Protein
pdb|1OIZ|B Chain B, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-Tocopherol Transfer Protein
Length = 278
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 9/77 (11%)
Query: 11 DTLPADYGG----NKPKINYSS-AQWYPVLDEIEDSIMYFHGN--KMSSLHKYIHPDTLP 63
D+ P G N+P I ++ + P L E ++ HGN K S L + PD LP
Sbjct: 185 DSFPLKVRGIHLINEPVIFHAVFSMIKPFLTEKIKERIHMHGNNYKQSLLQHF--PDILP 242
Query: 64 ADYGGNKPKINYSSAQW 80
+YGG + + +W
Sbjct: 243 LEYGGEEFSMEDICQEW 259
>pdb|3Q3U|A Chain A, Trametes Cervina Lignin Peroxidase
Length = 338
Score = 28.1 bits (61), Expect = 1.2, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 18 GGNKPKINYSSAQWYPVLDEIEDSIMYFHGNK 49
GG + N + W+PVLD+I+ ++ F+G K
Sbjct: 5 GGGRSVKNAACCAWFPVLDDIQANL--FNGGK 34
>pdb|1O6U|A Chain A, The Crystal Structure Of Human Supernatant Protein Factor
pdb|1O6U|C Chain C, The Crystal Structure Of Human Supernatant Protein Factor
pdb|1O6U|E Chain E, The Crystal Structure Of Human Supernatant Protein Factor
Length = 403
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 28/76 (36%), Gaps = 20/76 (26%)
Query: 10 PDTLPADYGGNKPKINYSSAQWYPVLDEIEDSIMYFHGNKMSSLHKYIHPDTLPADYGGN 69
P P Y KP ++ ++ I N L K+I PD +P +YGG
Sbjct: 195 PKLFPVAYNLIKPFLS----------EDTRKKIXVLGANWKEVLLKHISPDQVPVEYGGT 244
Query: 70 ----------KPKINY 75
K KINY
Sbjct: 245 XTDPDGNPKCKSKINY 260
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 14/60 (23%)
Query: 4 LHKYIHPDTLPADYGGN----------KPKINYSS--AQWYPVLDEIEDSIMYFHGNKMS 51
L K+I PD +P +YGG K KINY + Y V D+++ Y H ++S
Sbjct: 228 LLKHISPDQVPVEYGGTXTDPDGNPKCKSKINYGGDIPRKYYVRDQVKQQ--YEHSVQIS 285
>pdb|4AF3|A Chain A, Human Aurora B Kinase In Complex With Incenp And Vx-680
Length = 292
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 10/27 (37%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 34 VLDEIEDSIMYFHGNKMSSLHKYIHPD 60
+++E+ D++MY HG K+ +H+ I P+
Sbjct: 128 IMEELADALMYCHGKKV--IHRDIKPE 152
>pdb|1QPA|A Chain A, Lignin Peroxidase Isozyme Lip4.65 (Pi 4.65)
pdb|1QPA|B Chain B, Lignin Peroxidase Isozyme Lip4.65 (Pi 4.65)
Length = 345
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 25 NYSSAQWYPVLDEIEDSIMYFHGNK 49
N + W+PVLD+I+ ++ FHG +
Sbjct: 12 NAACCAWFPVLDDIQQNL--FHGGQ 34
>pdb|1R5L|A Chain A, Crystal Structure Of Human Alpha-tocopherol Transfer
Protein Bound To Its Ligand
Length = 262
Score = 25.8 bits (55), Expect = 6.2, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 4/50 (8%)
Query: 33 PVLDEIEDSIMYFHGN--KMSSLHKYIHPDTLPADYGGNKPKINYSSAQW 80
P L E ++ HGN K S L + PD LP +YGG + +W
Sbjct: 196 PFLTEKIKERIHXHGNNYKQSLLQHF--PDILPLEYGGEEFSXEDICQEW 243
>pdb|2D4E|A Chain A, Crystal Structure Of The Hpcc From Thermus Thermophilus
Hb8
pdb|2D4E|B Chain B, Crystal Structure Of The Hpcc From Thermus Thermophilus
Hb8
pdb|2D4E|C Chain C, Crystal Structure Of The Hpcc From Thermus Thermophilus
Hb8
pdb|2D4E|D Chain D, Crystal Structure Of The Hpcc From Thermus Thermophilus
Hb8
Length = 515
Score = 25.4 bits (54), Expect = 7.8, Method: Composition-based stats.
Identities = 13/60 (21%), Positives = 27/60 (45%)
Query: 9 HPDTLPADYGGNKPKINYSSAQWYPVLDEIEDSIMYFHGNKMSSLHKYIHPDTLPADYGG 68
H L + GG P + ++ A LD + I F+G + ++ + + + + D+ G
Sbjct: 264 HLKRLSPELGGKSPALVFADADLERALDAVVFQIFSFNGERCTASSRLLVEEKIFEDFVG 323
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
0.314 0.134 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,150,991
Number of Sequences: 62578
Number of extensions: 120833
Number of successful extensions: 226
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 202
Number of HSP's gapped (non-prelim): 29
length of query: 81
length of database: 14,973,337
effective HSP length: 50
effective length of query: 31
effective length of database: 11,844,437
effective search space: 367177547
effective search space used: 367177547
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)