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= 025383
(253 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PG7|A Chain A, Crystal Structure Of The H. Sapiens Nf1 Sec-Ph Domain
(Del1750 Mutant)
pdb|3PG7|B Chain B, Crystal Structure Of The H. Sapiens Nf1 Sec-Ph Domain
(Del1750 Mutant)
Length = 256
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 47/110 (42%), Gaps = 6/110 (5%)
Query: 55 EDFSDLDSLQFFCLQGSDKSGNRIFRLVGKYFPAPVVGGERLKKYIFHKICSELP--DGP 112
E+F L +L F G+ K+GN IF V + F + G+ L I+H + + P P
Sbjct: 2 EEFKALKTLSIFYQAGTSKAGNPIFYYVARRFKTGQINGDLL---IYHVLLTLKPYYAKP 58
Query: 113 FCIVYMHTCVQKEDNYPGFTILRWIYEELPSRIKNRLQIMYFIHPGLWSR 162
+ IV T + + + +W + P + + +Y + W R
Sbjct: 59 YEIVVDLTHTGPSNRFKTDFLSKW-FVVFPGFAYDNVSAVYIYNCNSWVR 107
>pdb|3PEG|B Chain B, Crystal Structure Of Neurofibromins Sec14-Ph Module
Containing A Patient Derived Duplication (Td)
pdb|3PEG|A Chain A, Crystal Structure Of Neurofibromins Sec14-Ph Module
Containing A Patient Derived Duplication (Td)
Length = 290
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 55 EDFSDLDSLQFFCLQGSDKSGNRIFRLVGKYFPAPVVGGERLKKYIFHKICSELP--DGP 112
E+F L +L F G+ K+GN IF V + F + G+ L I+H + + P P
Sbjct: 21 EEFKALKTLSIFYQAGTSKAGNPIFYYVARRFKTGQINGDLL---IYHVLLTLKPYYAKP 77
Query: 113 FCIV 116
+ IV
Sbjct: 78 YEIV 81
>pdb|2E2X|A Chain A, Sec14 Homology Module Of Neurofibromin In Complex With
Phosphatitylethanolamine
pdb|2E2X|B Chain B, Sec14 Homology Module Of Neurofibromin In Complex With
Phosphatitylethanolamine
Length = 277
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 55 EDFSDLDSLQFFCLQGSDKSGNRIFRLVGKYFPAPVVGGERLKKYIFHKICSELP--DGP 112
E+F L +L F G+ K+GN IF V + F + G+ L I+H + + P P
Sbjct: 22 EEFKALKTLSIFYQAGTSKAGNPIFYYVARRFKTGQINGDLL---IYHVLLTLKPYYAKP 78
Query: 113 FCIV 116
+ IV
Sbjct: 79 YEIV 82
>pdb|2D4Q|A Chain A, Crystal Structure Of The Sec-Ph Domain Of The Human
Neurofibromatosis Type 1 Protein
pdb|2D4Q|B Chain B, Crystal Structure Of The Sec-Ph Domain Of The Human
Neurofibromatosis Type 1 Protein
Length = 257
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 55 EDFSDLDSLQFFCLQGSDKSGNRIFRLVGKYFPAPVVGGERLKKYIFHKICSELP--DGP 112
E+F L +L F G+ K+GN IF V + F + G+ L I+H + + P P
Sbjct: 2 EEFKALKTLSIFYQAGTSKAGNPIFYYVARRFKTGQINGDLL---IYHVLLTLKPYYAKP 58
Query: 113 FCIV 116
+ IV
Sbjct: 59 YEIV 62
>pdb|3P7Z|A Chain A, Crystal Structure Of The Neurofibromin Sec14-Ph Module
Containing The Patient Derived Mutation I1584v
pdb|3P7Z|B Chain B, Crystal Structure Of The Neurofibromin Sec14-Ph Module
Containing The Patient Derived Mutation I1584v
Length = 276
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 55 EDFSDLDSLQFFCLQGSDKSGNRIFRLVGKYFPAPVVGGERLKKYIFHKICSELP--DGP 112
E+F L +L F G+ K+GN +F V + F + G+ L I+H + + P P
Sbjct: 21 EEFKALKTLSIFYQAGTSKAGNPVFYYVARRFKTGQINGDLL---IYHVLLTLKPYYAKP 77
Query: 113 FCIV 116
+ IV
Sbjct: 78 YEIV 81
>pdb|1XAT|A Chain A, Structure Of The Hexapeptide Xenobiotic
Acetyltransferase From Pseudomonas Aeruginosa
pdb|2XAT|A Chain A, Complex Of The Hexapeptide Xenobiotic Acetyltransferase
With Chloramphenicol And Desulfo-Coenzyme A
Length = 212
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 46 DCAQYLSPDEDFSDLDSLQFFCLQGSDKS 74
DCA+YL PD D D + FC GS +
Sbjct: 42 DCARYLMPDRDDVDKLVIGSFCSIGSGAA 70
>pdb|3N4F|A Chain A, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
pdb|3N4F|B Chain B, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
pdb|3N4F|C Chain C, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
pdb|3N4F|D Chain D, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
pdb|3OPS|A Chain A, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
Complexed With MagnesiumTARTRATE
pdb|3OPS|B Chain B, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
Complexed With MagnesiumTARTRATE
pdb|3OPS|C Chain C, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
Complexed With MagnesiumTARTRATE
pdb|3OPS|D Chain D, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
Complexed With MagnesiumTARTRATE
Length = 392
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 18/37 (48%)
Query: 203 EFVQNHDNVLEHRPLTDYGIEPDHLHLPEVPNMAYSF 239
EFV+ D +E ++ Y IE +H+P P F
Sbjct: 333 EFVEYDDITIEGXDVSGYRIENGEIHVPATPGFGIVF 369
>pdb|3V5C|A Chain A, Crystal Structure Of The Mutant E234a Of Galacturonate
Dehydratase From Geobacillus Sp. Complexed With Mg
pdb|3V5C|B Chain B, Crystal Structure Of The Mutant E234a Of Galacturonate
Dehydratase From Geobacillus Sp. Complexed With Mg
pdb|3V5C|C Chain C, Crystal Structure Of The Mutant E234a Of Galacturonate
Dehydratase From Geobacillus Sp. Complexed With Mg
pdb|3V5C|D Chain D, Crystal Structure Of The Mutant E234a Of Galacturonate
Dehydratase From Geobacillus Sp. Complexed With Mg
pdb|3V5F|A Chain A, Crystal Structure Of The Mutant E234a Of Galacturonate
Dehydratase From Geobacillus Sp. Complexed With Mg
Length = 392
Score = 27.3 bits (59), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 18/37 (48%)
Query: 203 EFVQNHDNVLEHRPLTDYGIEPDHLHLPEVPNMAYSF 239
EFV+ D +E ++ Y IE +H+P P F
Sbjct: 333 EFVEYDDITIEGMDVSGYRIENGEIHVPATPGFGIVF 369
>pdb|2Z67|A Chain A, Crystal Structure Of Archaeal O-phosphoseryl-trna(sec)
Selenium Transferase (sepsecs)
pdb|2Z67|B Chain B, Crystal Structure Of Archaeal O-phosphoseryl-trna(sec)
Selenium Transferase (sepsecs)
pdb|2Z67|C Chain C, Crystal Structure Of Archaeal O-phosphoseryl-trna(sec)
Selenium Transferase (sepsecs)
pdb|2Z67|D Chain D, Crystal Structure Of Archaeal O-phosphoseryl-trna(sec)
Selenium Transferase (sepsecs)
Length = 456
Score = 27.3 bits (59), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 24/38 (63%)
Query: 192 NDIKKGEIEIPEFVQNHDNVLEHRPLTDYGIEPDHLHL 229
N K+GE+ + E+++ ++V HR + + GI+ + + L
Sbjct: 33 NXEKRGELVLNEYLKEIEDVFNHRKIPENGIDDEKIKL 70
>pdb|3P3B|A Chain A, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Tartrate
pdb|3P3B|B Chain B, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Tartrate
pdb|3QPE|A Chain A, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Galacturonate And
5-Keto-4-Deoxy-D-Galacturonate
pdb|3QPE|B Chain B, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Galacturonate And
5-Keto-4-Deoxy-D-Galacturonate
pdb|3QPE|C Chain C, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Galacturonate And
5-Keto-4-Deoxy-D-Galacturonate
pdb|3QPE|D Chain D, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Galacturonate And
5-Keto-4-Deoxy-D-Galacturonate
pdb|3VCC|A Chain A, Crystal Structure Of D-Galacturonate Dehydratase From
Geobacillus Sp. Complexed With Mg
pdb|3VCC|B Chain B, Crystal Structure Of D-Galacturonate Dehydratase From
Geobacillus Sp. Complexed With Mg
Length = 392
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 18/37 (48%)
Query: 203 EFVQNHDNVLEHRPLTDYGIEPDHLHLPEVPNMAYSF 239
EFV+ D +E ++ Y IE +H+P P F
Sbjct: 333 EFVEYDDITIEGMDVSGYRIENGEIHVPATPGFGIVF 369
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
0.325 0.144 0.475
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,424,420
Number of Sequences: 62578
Number of extensions: 367154
Number of successful extensions: 510
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 500
Number of HSP's gapped (non-prelim): 10
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)