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= psy10776
(803 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 = 285 bits (729), Expect = 7e-77, Method: Compositional matrix adjust.
Identities = 153/362 (42%), Positives = 211/362 (58%), Gaps = 24/362 (6%)
Query: 450 FTNIKEIHNRRYNLQEKAIELFLINGKNYLFAFENHNDREHFLNEL------STCNLPNR 503
F+ I+ + +RRY LQ A+E+F N + F F + + + L ++ LP
Sbjct: 60 FSEIRAVFSRRYLLQNTALEVFXANRTSVXFNFPDQATVKKVVYSLPRVGVGTSYGLPQA 119
Query: 504 MSSDLL--------SDTIQLWREGHLTNWAYLMILNKMAGRSYNDLMQYPVLPFILSDYK 555
L S+ Q W+ ++N+ YL LN +AGR+YNDL QYPV P++L++Y+
Sbjct: 120 RRISLATPRQLYKSSNXTQRWQRREISNFEYLXFLNTIAGRTYNDLNQYPVFPWVLTNYE 179
Query: 556 SATLDLTDPKSFRNLKKPMAVQDKKNESHYVNNYNYLAREMCDAVGGVNQEPYHYGSHYS 615
S LDLT P +FR+L KP+ + K Y Y + PYHY +HYS
Sbjct: 180 SEELDLTLPGNFRDLSKPIGALNPKRAVFYAERYETWEDDQS--------PPYHYNTHYS 231
Query: 616 NSGTVLHFLVRIPPFTSMFLNYQDNNFDLPDRTFHNLATTWRLTSSESTTDVKELIPELF 675
+ + L +LVRI PFT+ FLN D FD PDRTF ++A +WR TS T+DVKELIPE +
Sbjct: 232 TATSTLSWLVRIEPFTTFFLNANDGKFDHPDRTFSSVARSWR-TSQRDTSDVKELIPEFY 290
Query: 676 YLADILVNNEGFDFGVRQNGQRVDSVILPPWAPDPRTFIMVHRQSLESELVSENLPHWID 735
YL + VN+ G++ GVR++ V+ V LPPWA P F+ ++R +LESE VS L WID
Sbjct: 291 YLPEXFVNSNGYNLGVREDEVVVNDVDLPPWAKKPEDFVRINRXALESEFVSCQLHQWID 350
Query: 736 LVFGYKQSGKAAVDAINVFHPATYYG-FDIAAIPDPLERTAWETMIRTYGQTPRQLFKSA 794
L+FGYKQ G AV A+NVFH TY G ++ +I DP+ R A E I+ +GQTP QL
Sbjct: 351 LIFGYKQRGPEAVRALNVFHYLTYEGSVNLDSITDPVLREAXEAQIQNFGQTPSQLLIEP 410
Query: 795 HP 796
HP
Sbjct: 411 HP 412
>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 = 274 bits (700), Expect = 2e-73, Method: Compositional matrix adjust.
Identities = 149/362 (41%), Positives = 209/362 (57%), Gaps = 24/362 (6%)
Query: 450 FTNIKEIHNRRYNLQEKAIELFLINGKNYLFAFENHNDREHFLNEL------STCNLPNR 503
FT I+ I +RRY LQ A+E+F+ N +F F + + +N L ++ LP
Sbjct: 60 FTEIRSIFSRRYLLQNTALEIFMANRVAVMFNFPDPATVKKVVNFLPRVGVGTSFGLPQT 119
Query: 504 MSSDLLS--------DTIQLWREGHLTNWAYLMILNKMAGRSYNDLMQYPVLPFILSDYK 555
L S + Q W+ ++N+ YLM LN +AGRSYNDL QYPV P+++++Y+
Sbjct: 120 RRISLASPRQLFKASNMTQRWQHREISNFEYLMFLNTIAGRSYNDLNQYPVFPWVITNYE 179
Query: 556 SATLDLTDPKSFRNLKKPMAVQDKKNESHYVNNYNYLAREMCDAVGGVNQEPYHYGSHYS 615
S LDLT P +FR+L KP+ + K + + Y + +HYG+HYS
Sbjct: 180 SEELDLTLPTNFRDLSKPIGALNPKRAAFFAERYESWEDDQVPK--------FHYGTHYS 231
Query: 616 NSGTVLHFLVRIPPFTSMFLNYQDNNFDLPDRTFHNLATTWRLTSSESTTDVKELIPELF 675
+ VL +L+RI PFT+ FLN Q FD DRTF +++ WR S T+D+KELIPE +
Sbjct: 232 TASFVLAWLLRIEPFTTYFLNLQGGKFDHADRTFSSISRAWR-NSQRDTSDIKELIPEFY 290
Query: 676 YLADILVNNEGFDFGVRQNGQRVDSVILPPWAPDPRTFIMVHRQSLESELVSENLPHWID 735
YL ++ VN ++ GV +G V V LPPWA F+ ++R +LESE VS L WID
Sbjct: 291 YLPEMFVNFNNYNLGVMDDGTVVSDVELPPWAKTSEEFVHINRLALESEFVSCQLHQWID 350
Query: 736 LVFGYKQSGKAAVDAINVFHPATYYG-FDIAAIPDPLERTAWETMIRTYGQTPRQLFKSA 794
L+FGYKQ G AV A+NVF+ TY G ++ +I DP+ R A E IR++GQTP QL
Sbjct: 351 LIFGYKQQGPEAVRALNVFYYLTYEGAVNLNSITDPVLREAVEAQIRSFGQTPSQLLIEP 410
Query: 795 HP 796
HP
Sbjct: 411 HP 412
>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 = 1.8, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 559 LDLTDPKSFRNLKKPMAVQDKKNESHYVNNYNYLARE 595
+D P R+L KP+A +D++ Y N+ YL R+
Sbjct: 356 VDAKTPXIGRDLTKPLAREDERAXXQYDKNFGYLTRD 392
>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 = 29.6 bits (65), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 14/85 (16%)
Query: 509 LSDTIQLWREGHLTNWAYLMILNKMA-GRSYND--LMQYPVLPFILSDYKSATLDLTDPK 565
L+DT ++ R+ L+IL+++ G S +D + Y L + + D KS TL +T
Sbjct: 740 LTDTAEIIRKA---TSQSLVILDELGRGTSTHDGIAIAYATLEYFIRDVKSLTLFVT--- 793
Query: 566 SFRNLKKPMAVQDKKNESHYVNNYN 590
P + +KN SH V NY+
Sbjct: 794 -----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 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,067,079
Number of Sequences: 62578
Number of extensions: 939636
Number of successful extensions: 2054
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 2042
Number of HSP's gapped (non-prelim): 5
length of query: 803
length of database: 14,973,337
effective HSP length: 107
effective length of query: 696
effective length of database: 8,277,491
effective search space: 5761133736
effective search space used: 5761133736
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)