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= 004644
(740 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FO7|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
(Trigonal Crystal Form)
pdb|2HYZ|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
(Orthorombic Crystal Form)
Length = 136
Score = 43.9 bits (102), Expect = 3e-04, Method: Composition-based stats.
Identities = 30/134 (22%), Positives = 65/134 (48%), Gaps = 9/134 (6%)
Query: 173 SWNSMLSGYTKNGEMHLASKFFEA---MEERDVVSWNLMLDGYVELDDLDSAWKFFQKIP 229
+W ++ + Y K G+ A ++++ ++ R +W + + Y + D D A +++QK
Sbjct: 3 AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL 62
Query: 230 E---QNVVSWVTMLSGYARNGRMLEARRLFD---QMPIRNVVAWNAMIAAYVQRGQIEEA 283
E ++ +W + + Y + G EA + ++ R+ AW + AY ++G +EA
Sbjct: 63 ELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEA 122
Query: 284 ARLFIEMPERNPVS 297
+ + E +P S
Sbjct: 123 IEYYQKALELDPRS 136
>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 125
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 45/98 (45%), Gaps = 6/98 (6%)
Query: 204 SWNLMLDGYVELDDLDSAWKFFQKIPE---QNVVSWVTMLSGYARNGRMLEARRLFD--- 257
+W + + Y + D D A +++QK E N +W + + Y + G EA +
Sbjct: 11 AWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL 70
Query: 258 QMPIRNVVAWNAMIAAYVQRGQIEEAARLFIEMPERNP 295
++ N AW + AY ++G +EA + + E +P
Sbjct: 71 ELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP 108
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 6/92 (6%)
Query: 229 PEQNVVSWVTMLSGYARNGRMLEARRLFD---QMPIRNVVAWNAMIAAYVQRGQIEEAAR 285
P + +W + + Y + G EA + ++ N AW + AY ++G +EA
Sbjct: 5 PGNSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIE 64
Query: 286 LF---IEMPERNPVSWTTMIDGYVRIAKLDEA 314
+ +E+ N +W + + Y + DEA
Sbjct: 65 YYQKALELDPNNAEAWYNLGNAYYKQGDYDEA 96
Score = 36.6 bits (83), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 44/96 (45%), Gaps = 6/96 (6%)
Query: 167 PSKNIVSWNSMLSGYTKNGEMHLASKFFEAMEERD---VVSWNLMLDGYVELDDLDSAWK 223
P + +W ++ + Y K G+ A ++++ E D +W + + Y + D D A +
Sbjct: 5 PGNSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIE 64
Query: 224 FFQKIPE---QNVVSWVTMLSGYARNGRMLEARRLF 256
++QK E N +W + + Y + G EA +
Sbjct: 65 YYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYY 100
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 48/96 (50%), Gaps = 8/96 (8%)
Query: 142 CWNAMVAGYAKIGNYNEA----KKLLDAMPSKNIVSWNSMLSGYTKNGEMHLASKFFEAM 197
W + Y K G+Y+EA +K L+ P+ N +W ++ + Y K G+ A ++++
Sbjct: 11 AWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKA 69
Query: 198 EERD---VVSWNLMLDGYVELDDLDSAWKFFQKIPE 230
E D +W + + Y + D D A +++QK E
Sbjct: 70 LELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE 105
>pdb|2WQH|A Chain A, Crystal Structure Of Ctpr3y3
Length = 125
Score = 37.7 bits (86), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 6/92 (6%)
Query: 229 PEQNVVSWVTMLSGYARNGRMLEARRLFD---QMPIRNVVAWNAMIAAYVQRGQIEEAAR 285
P + +W + + Y + G EA + ++ N AW + AY ++G +EA
Sbjct: 5 PGNSAEAWYNLGNAYYKQGDYDEAIEYYQKALELYPNNAEAWYNLGNAYYKQGDYDEAIE 64
Query: 286 LF---IEMPERNPVSWTTMIDGYVRIAKLDEA 314
+ +E+ N +W + + Y + DEA
Sbjct: 65 YYQKALELYPNNAEAWYNLGNAYYKQGDYDEA 96
Score = 37.0 bits (84), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 44/98 (44%), Gaps = 6/98 (6%)
Query: 204 SWNLMLDGYVELDDLDSAWKFFQKIPE---QNVVSWVTMLSGYARNGRMLEARRLFD--- 257
+W + + Y + D D A +++QK E N +W + + Y + G EA +
Sbjct: 11 AWYNLGNAYYKQGDYDEAIEYYQKALELYPNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL 70
Query: 258 QMPIRNVVAWNAMIAAYVQRGQIEEAARLFIEMPERNP 295
++ N AW + AY ++G +EA + + E P
Sbjct: 71 ELYPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELYP 108
>pdb|3AS8|A Chain A, Mama Msr-1 P41212
pdb|3ASF|A Chain A, Mama Msr-1 C2
pdb|3ASF|B Chain B, Mama Msr-1 C2
Length = 186
Score = 32.7 bits (73), Expect = 0.71, Method: Composition-based stats.
Identities = 26/84 (30%), Positives = 40/84 (47%), Gaps = 6/84 (7%)
Query: 304 GYVRIAKLDEARRLLDQM---PYKNIAAQTAMISGYVQNKRMDEANQIFDKIGTHDVVCW 360
YV+ +D LL++ NI T + YVQ ++ D A + K+ + V +
Sbjct: 51 AYVKTGAVDRGTELLERSIADAPDNIKVATVLGLTYVQVQKYDLAVPLLVKVAEANPVNF 110
Query: 361 NVMIK-GYA--QCGRMDEAINLFR 381
NV + G A GR DEAI+ F+
Sbjct: 111 NVRFRLGVALDNLGRFDEAIDSFK 134
>pdb|3KD7|A Chain A, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|B Chain B, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|C Chain C, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|D Chain D, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|E Chain E, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
Length = 125
Score = 32.7 bits (73), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 20/92 (21%), Positives = 41/92 (44%), Gaps = 6/92 (6%)
Query: 167 PSKNIVSWNSMLSGYTKNGEMHLASKFFEAMEERD---VVSWNLMLDGYVELDDLDSAWK 223
P + +W ++ + Y K G+ A ++++ E D +W + + Y + D A +
Sbjct: 5 PGNSAEAWKNLGNAYYKQGDYQKAIEYYQKALELDPNNASAWYNLGNAYYKQGDYQKAIE 64
Query: 224 FFQKIPE---QNVVSWVTMLSGYARNGRMLEA 252
++QK E N +W + Y + G +A
Sbjct: 65 YYQKALELDPNNAKAWYRRGNAYYKQGDYQKA 96
>pdb|4G6D|B Chain B, G1 Orf67 / Staphyloccus Aureus Sigmaa Domain 4 Complex
pdb|4G94|B Chain B, G1 Orf67 / Staphyloccus Aureus Sigmaa Domain 4 Complex
Length = 198
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 4/42 (9%)
Query: 223 KFFQKIPEQNVVSWVTMLSGY----ARNGRMLEARRLFDQMP 260
K +P N+V W + + Y +RNG LE +RL +P
Sbjct: 23 KTIDNVPTANLVDWYPLSNAYEYKLSRNGEYLELKRLRSTLP 64
>pdb|4DRF|A Chain A, Crystal Structure Of Bacterial Pnkp-CHEN1-N Heterodimer
pdb|4DRF|C Chain C, Crystal Structure Of Bacterial Pnkp-CHEN1-N Heterodimer
pdb|4E6N|A Chain A, Crystal Structure Of Bacterial Pnkp-CHEN1-N Heterodimer
pdb|4E6N|C Chain C, Crystal Structure Of Bacterial Pnkp-CHEN1-N Heterodimer
Length = 427
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 20 KKITQLGKSGRV--EEAIKIFSQMSQKNTVTYNSMISAYAKNGRVNDARKLFEQ 71
++ + +G SGRV +EA+K+ Q S TV+++ KN +N+ + F +
Sbjct: 178 EQYSAVGISGRVVLDEAVKLLKQASLNKTVSFDVSRQTSGKNADINELLQRFTE 231
>pdb|3TY9|A Chain A, Crystal Structure Of C. Thermocellum Pnkp Ligase Domain
Amp-Adenylate
pdb|3TY9|B Chain B, Crystal Structure Of C. Thermocellum Pnkp Ligase Domain
Amp-Adenylate
pdb|3TY9|C Chain C, Crystal Structure Of C. Thermocellum Pnkp Ligase Domain
Amp-Adenylate
pdb|3TY9|D Chain D, Crystal Structure Of C. Thermocellum Pnkp Ligase Domain
Amp-Adenylate
Length = 393
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 20 KKITQLGKSGRV--EEAIKIFSQMSQKNTVTYNSMISAYAKNGRVNDARKLFEQ 71
++ + +G SGRV +EA+K+ Q S TV+++ KN +N+ + F +
Sbjct: 144 EQYSAVGISGRVVLDEAVKLLKQASLNKTVSFDVSRQTSGKNADINELLQRFTE 197
>pdb|3TY8|A Chain A, Crystal Structure Of C. Thermocellum Pnkp Ligase Domain
Apo Form
pdb|3TY8|B Chain B, Crystal Structure Of C. Thermocellum Pnkp Ligase Domain
Apo Form
Length = 413
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 20 KKITQLGKSGRV--EEAIKIFSQMSQKNTVTYNSMISAYAKNGRVNDARKLFEQ 71
++ + +G SGRV +EA+K+ Q S TV+++ KN +N+ + F +
Sbjct: 164 EQYSAVGISGRVVLDEAVKLLKQASLNKTVSFDVSRQTSGKNADINELLQRFTE 217
>pdb|3TY5|A Chain A, Crystal Structure Of C. Thermocellum Pnkp Ligase Domain In
Complex With Atp
pdb|3TY5|B Chain B, Crystal Structure Of C. Thermocellum Pnkp Ligase Domain In
Complex With Atp
Length = 413
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 20 KKITQLGKSGRV--EEAIKIFSQMSQKNTVTYNSMISAYAKNGRVNDARKLFEQ 71
++ + +G SGRV +EA+K+ Q S TV+++ KN +N+ + F +
Sbjct: 164 EQYSAVGISGRVVLDEAVKLLKQASLNKTVSFDVSRQTSGKNADINELLQRFTE 217
>pdb|2LAI|A Chain A, Hyaloperonospora Arabidopsidis Effector Protein Atr13
Length = 101
Score = 30.0 bits (66), Expect = 4.8, Method: Composition-based stats.
Identities = 30/106 (28%), Positives = 47/106 (44%), Gaps = 10/106 (9%)
Query: 95 EARELFDKMFRPDLFSWALMITCYTRKGELEKARELFDLLPNKEDTACWNAMVAGYAKIG 154
+A++ DK F +FS + T Y+ KG EK E DL +K NA + YA +
Sbjct: 6 KAQDPLDKFFSKIIFSGKPIETSYSAKGIHEKIIEAHDLHVSKSK----NAPIQ-YASVM 60
Query: 155 NYNEAKKLLDAMPSKNIVSWNSMLSGYTKNGEMHLASKFFEAMEER 200
Y L P +I S L + + G L +K +A++ +
Sbjct: 61 EY-----LKKTYPGPDIERIVSTLERHDEVGAKDLGAKLRDALDRQ 101
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
0.320 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: 21,380,318
Number of Sequences: 62578
Number of extensions: 860357
Number of successful extensions: 2084
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 2062
Number of HSP's gapped (non-prelim): 38
length of query: 740
length of database: 14,973,337
effective HSP length: 106
effective length of query: 634
effective length of database: 8,340,069
effective search space: 5287603746
effective search space used: 5287603746
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)