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= 035822
(471 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EP8|A Chain A, Solution Structure Of The Brct Domain From Human
Pescadillo Homolog 1
Length = 100
Score = 109 bits (273), Expect = 3e-24, Method: Composition-based stats.
Identities = 49/90 (54%), Positives = 63/90 (70%), Gaps = 3/90 (3%)
Query: 326 KNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWEGE---GAPFSETDQSITHQIVDRPTQ 382
K LF+ ++FFL+REVPRE++ F+I +FGG VSW+ GA + TD ITHQIVDRP Q
Sbjct: 10 KKLFEGLKFFLNREVPREALAFIIRSFGGEVSWDKSLCIGATYDVTDSRITHQIVDRPGQ 69
Query: 383 GHVYLSREYVQPQWVYDCVNTRIILPTDAY 412
+ R YVQPQWV+D VN R++LP Y
Sbjct: 70 QTSVIGRCYVQPQWVFDSVNARLLLPVAEY 99
>pdb|1CDZ|A Chain A, Brct Domain From Dna-Repair Protein Xrcc1
Length = 96
Score = 36.6 bits (83), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 43/99 (43%), Gaps = 15/99 (15%)
Query: 324 ECKNLFKNMRFFLSREVP---RESMLFVIPAFGGTV-SWEGEGAPF----SETDQSITHQ 375
E + F+ FFL E P R ++ + AF G + + + F E D S
Sbjct: 1 ELPDFFQGKHFFLYGEFPGDERRKLIRYVTAFNGELEDYMSDRVQFVITAQEWDPSFEEA 60
Query: 376 IVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMV 414
++D P S +V+P+W+Y C + +LP Y V
Sbjct: 61 LMDNP-------SLAFVRPRWIYSCNEKQKLLPHQLYGV 92
>pdb|3PC6|A Chain A, X-Ray Crystal Structure Of The Second Xrcc1 Brct Domain.
pdb|3PC6|B Chain B, X-Ray Crystal Structure Of The Second Xrcc1 Brct Domain
Length = 104
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 43/99 (43%), Gaps = 15/99 (15%)
Query: 324 ECKNLFKNMRFFLSREVP---RESMLFVIPAFGGTV-SWEGEGAPF----SETDQSITHQ 375
E + F+ FFL E P R ++ + AF G + + E F E D +
Sbjct: 3 ELPDFFEGKHFFLYGEFPGDERRRLIRYVTAFNGELEDYMNERVQFVITAQEWDPNFEEA 62
Query: 376 IVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMV 414
+++ P S +V+P+W+Y C + +LP Y V
Sbjct: 63 LMENP-------SLAFVRPRWIYSCNEKQKLLPHQLYGV 94
>pdb|3QVG|B Chain B, Xrcc1 Bound To Dna Ligase
pdb|3QVG|D Chain D, Xrcc1 Bound To Dna Ligase
Length = 106
Score = 32.3 bits (72), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 42/99 (42%), Gaps = 15/99 (15%)
Query: 324 ECKNLFKNMRFFLSREVP---RESMLFVIPAFGGTVSWE-GEGAPF----SETDQSITHQ 375
E + F+ FFL E P R ++ + AF G + E F E D +
Sbjct: 11 ELPDFFEGKHFFLYGEFPGDERRRLIRYVTAFNGELEDRMNERVQFVITAQEWDPNFEEA 70
Query: 376 IVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMV 414
+++ P S +V+P+W+Y C + +LP Y V
Sbjct: 71 LMENP-------SLAFVRPRWIYSCNEKQKLLPHQLYGV 102
>pdb|3PC8|A Chain A, X-Ray Crystal Structure Of The Heterodimeric Complex Of
Xrcc1 And Dna Ligase Iii-Alpha Brct Domains.
pdb|3PC8|B Chain B, X-Ray Crystal Structure Of The Heterodimeric Complex Of
Xrcc1 And Dna Ligase Iii-Alpha Brct Domains
Length = 98
Score = 32.3 bits (72), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 42/99 (42%), Gaps = 15/99 (15%)
Query: 324 ECKNLFKNMRFFLSREVP---RESMLFVIPAFGGTVSWE-GEGAPF----SETDQSITHQ 375
E + F+ FFL E P R ++ + AF G + E F E D +
Sbjct: 3 ELPDFFEGKHFFLYGEFPGDERRRLIRYVTAFNGELEDRMNERVQFVITAQEWDPNFEEA 62
Query: 376 IVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMV 414
+++ P S +V+P+W+Y C + +LP Y V
Sbjct: 63 LMENP-------SLAFVRPRWIYSCNEKQKLLPHQLYGV 94
>pdb|1O67|A Chain A, Crystal Structure Of An Hypothetical Protein
pdb|1O67|B Chain B, Crystal Structure Of An Hypothetical Protein
pdb|1O67|C Chain C, Crystal Structure Of An Hypothetical Protein
Length = 246
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 334 FFLSREVPRESMLFVIPAFGGTVSWEG 360
+ +RE P ++ LFV PAFG +S +G
Sbjct: 78 LYWAREFPEQAELFVAPAFGENLSTDG 104
>pdb|1O65|A Chain A, Crystal Structure Of An Hypothetical Protein
pdb|1O65|B Chain B, Crystal Structure Of An Hypothetical Protein
pdb|1O65|C Chain C, Crystal Structure Of An Hypothetical Protein
Length = 246
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 334 FFLSREVPRESMLFVIPAFGGTVSWEG 360
+ +RE P ++ LFV PAFG +S +G
Sbjct: 78 LYWAREFPEQAELFVAPAFGENLSTDG 104
>pdb|1Z56|C Chain C, Co-Crystal Structure Of Lif1p-Lig4p
Length = 264
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 8/93 (8%)
Query: 381 TQGHVYLSREY--VQPQWVYDCVN-TRIIL--PTDAYMVGRVPPPHLSPFVDNEEEGYVP 435
T+ + R Y + P WV DC+ R+IL P + V + VD + +
Sbjct: 65 TECKALIDRGYDILHPNWVLDCIAYKRLILIEPNYCFNVSQKMRAVAEKRVDCLGDSFEN 124
Query: 436 DYAETIKRLKSAAKNEILPMPGMGKEDLDDPTK 468
D +ET +L S K++ L +P MG+ ++D +
Sbjct: 125 DISET--KLSSLYKSQ-LSLPPMGELEIDSEVR 154
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 0.137 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,949,222
Number of Sequences: 62578
Number of extensions: 481760
Number of successful extensions: 804
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 800
Number of HSP's gapped (non-prelim): 9
length of query: 471
length of database: 14,973,337
effective HSP length: 102
effective length of query: 369
effective length of database: 8,590,381
effective search space: 3169850589
effective search space used: 3169850589
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: 53 (25.0 bits)