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= psy10782
(105 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1MI1|A Chain A, Crystal Structure Of The Ph-Beach Domain Of Human
Neurobeachin
pdb|1MI1|B Chain B, Crystal Structure Of The Ph-Beach Domain Of Human
Neurobeachin
Length = 414
Score = 94.4 bits (233), Expect = 1e-20, Method: Composition-based stats.
Identities = 46/105 (43%), Positives = 64/105 (60%), Gaps = 8/105 (7%)
Query: 1 MAGRSYNDLMQYPVLPFILSDYKSATLDLTDPKSFRNLKKPMAVQDKKNESHYVNNYNYL 60
+AGR+YNDL QYPV P++L++Y+S LDLT P +FR+L KP+ + K Y Y
Sbjct: 157 IAGRTYNDLNQYPVFPWVLTNYESEELDLTLPGNFRDLSKPIGALNPKRAVFYAERYETW 216
Query: 61 AREMCDAVGGVNQEPYHYGSHYSNSGTVLHFLVRIPPFTSMFLNS 105
+ PYHY +HYS + + L +LVRI PFT+ FLN+
Sbjct: 217 EDD--------QSPPYHYNTHYSTATSTLSWLVRIEPFTTFFLNA 253
>pdb|1T77|A Chain A, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
pdb|1T77|B Chain B, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
pdb|1T77|C Chain C, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
pdb|1T77|D Chain D, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
Length = 414
Score = 92.8 bits (229), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 64/104 (61%), Gaps = 8/104 (7%)
Query: 1 MAGRSYNDLMQYPVLPFILSDYKSATLDLTDPKSFRNLKKPMAVQDKKNESHYVNNYNYL 60
+AGRSYNDL QYPV P+++++Y+S LDLT P +FR+L KP+ + K + + Y
Sbjct: 157 IAGRSYNDLNQYPVFPWVITNYESEELDLTLPTNFRDLSKPIGALNPKRAAFFAERYESW 216
Query: 61 AREMCDAVGGVNQEPYHYGSHYSNSGTVLHFLVRIPPFTSMFLN 104
+ +HYG+HYS + VL +L+RI PFT+ FLN
Sbjct: 217 EDDQVPK--------FHYGTHYSTASFVLAWLLRIEPFTTYFLN 252
>pdb|3LXQ|A Chain A, The Crystal Structure Of A Protein In The Alkaline
Phosphatase Superfamily From Vibrio Parahaemolyticus To
1.95a
pdb|3LXQ|B Chain B, The Crystal Structure Of A Protein In The Alkaline
Phosphatase Superfamily From Vibrio Parahaemolyticus To
1.95a
Length = 450
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 27 LDLTDPKSFRNLKKPMAVQDKKNESHYVNNYNYLARE 63
+D P R+L KP+A +D++ Y N+ YL R+
Sbjct: 356 VDAKTPXIGRDLTKPLAREDERAXXQYDKNFGYLTRD 392
>pdb|2E0K|A Chain A, Crystal Structure Of Cbil, A Methyltransferase Involved
In Anaerobic Vitamin B12 Biosynthesis
pdb|2E0K|B Chain B, Crystal Structure Of Cbil, A Methyltransferase Involved
In Anaerobic Vitamin B12 Biosynthesis
pdb|2E0N|A Chain A, Crystal Structure Of Cbil In Complex With
S-Adenosylhomocysteine, A Methyltransferase Involved In
Anaerobic Vitamin B12 Biosynthesis
pdb|2E0N|B Chain B, Crystal Structure Of Cbil In Complex With
S-Adenosylhomocysteine, A Methyltransferase Involved In
Anaerobic Vitamin B12 Biosynthesis
Length = 259
Score = 28.5 bits (62), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 5/62 (8%)
Query: 8 DLMQYPVLPFILSDYKSATLDLT-----DPKSFRNLKKPMAVQDKKNESHYVNNYNYLAR 62
D++ YP S LD+ DP R + PM+ E+ Y NY +A
Sbjct: 32 DVIYYPGTVSASGAVTSVALDILKEFDLDPSKLRGMLVPMSRSRGAAEASYAANYASMAE 91
Query: 63 EM 64
E+
Sbjct: 92 EV 93
>pdb|1S2X|A Chain A, Crystal Structure Of Cag-Z From Helicobacter Pylori
Length = 206
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 32/77 (41%)
Query: 19 LSDYKSATLDLTDPKSFRNLKKPMAVQDKKNESHYVNNYNYLAREMCDAVGGVNQEPYHY 78
+ +Y ++ D DP+ F + + + +KN + YNYL + + QE
Sbjct: 39 IQNYATSLKDSNDPQDFLRRVQELRINXQKNFISFDAYYNYLNNLVLASYNRCKQEKTFA 98
Query: 79 GSHYSNSGTVLHFLVRI 95
S N T+ F+ I
Sbjct: 99 ESTIKNELTLGEFVAEI 115
>pdb|3THW|B Chain B, Human Mutsbeta Complexed With An Idl Of 4 Bases (Loop4)
And Adp
pdb|3THX|B Chain B, Human Mutsbeta Complexed With An Idl Of 3 Bases (Loop3)
And Adp
pdb|3THY|B Chain B, Human Mutsbeta Complexed With An Idl Of 2 Bases (Loop2)
And Adp
pdb|3THZ|B Chain B, Human Mutsbeta Complexed With An Idl Of 6 Bases (Loop6)
And Adp
Length = 918
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 8/49 (16%)
Query: 10 MQYPVLPFILSDYKSATLDLTDPKSFRNLKKPMAVQDKKNESHYVNNYN 58
+ Y L + + D KS TL +T P + +KN SH V NY+
Sbjct: 773 IAYATLEYFIRDVKSLTLFVT--------HYPPVCELEKNYSHQVGNYH 813
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
0.319 0.134 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,310,146
Number of Sequences: 62578
Number of extensions: 118360
Number of successful extensions: 269
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 263
Number of HSP's gapped (non-prelim): 6
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)