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= 005087
(715 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DMX|A Chain A, Solution Structure Of The J Domain Of Dnaj Homolog
Subfamily B Member 8
Length = 92
Score = 38.1 bits (87), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 8/62 (12%)
Query: 646 MASLLRALGIHVGGSFRPLSQEVHAAYKRALLRFHPDRASKTDVRQQVEAEEKFKLISRM 705
MA+ LG+ S +++ AY++ LR+HPD+ + + EAE+KFKL+S
Sbjct: 8 MANYYEVLGVQASAS----PEDIKKAYRKLALRWHPDK----NPDNKEEAEKKFKLVSEA 59
Query: 706 RE 707
E
Sbjct: 60 YE 61
>pdb|1HDJ|A Chain A, Human Hsp40 (Hdj-1), Nmr
Length = 77
Score = 33.1 bits (74), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 10/51 (19%)
Query: 653 LGIHVGGSFRPLSQEVHAAYKRALLRFHPDRASKTDVRQQVEAEEKFKLIS 703
LG+ G S +E+ AY+R LR+HPD+ ++ AEEKFK I+
Sbjct: 9 LGLARGAS----DEEIKRAYRRQALRYHPDK------NKEPGAEEKFKEIA 49
>pdb|1N7V|A Chain A, The Receptor-Binding Protein P2 Of Bacteriophage Prd1:
Crystal Form Iii
Length = 555
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 7/61 (11%)
Query: 234 NTGYKSQNSHPF--VPTDDTNLDTASLNPGMERPSVQSDKKVGQEINSSSKEADFQFRRE 291
NT YK++ P +P DT D +L PG P ++SD + S+S A F F R
Sbjct: 141 NTAYKAEIFRPVNPLPMSDTAPDPETLEPGQTEPLIKSDG-----VYSNSGIASFIFDRP 195
Query: 292 T 292
Sbjct: 196 V 196
>pdb|1N7U|A Chain A, The Receptor-Binding Protein P2 Of Bacteriophage Prd1:
Crystal Form I
Length = 554
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 7/61 (11%)
Query: 234 NTGYKSQNSHPF--VPTDDTNLDTASLNPGMERPSVQSDKKVGQEINSSSKEADFQFRRE 291
NT YK++ P +P DT D +L PG P ++SD + S+S A F F R
Sbjct: 141 NTAYKAEIFRPVNPLPMSDTAPDPETLEPGQTEPLIKSDG-----VYSNSGIASFIFDRP 195
Query: 292 T 292
Sbjct: 196 V 196
>pdb|2DI4|A Chain A, Crystal Structure Of The Ftsh Protease Domain
pdb|2DI4|B Chain B, Crystal Structure Of The Ftsh Protease Domain
Length = 238
Score = 31.2 bits (69), Expect = 1.8, Method: Composition-based stats.
Identities = 24/90 (26%), Positives = 49/90 (54%), Gaps = 5/90 (5%)
Query: 549 INEREKLKETDEYKRA--MEEEWASRQRQLQIQAEEAQRLRKKKRAESMRLLDMERRQKQ 606
I+E K T++Y++A + EE+ + + + E + + ++ E +L +E + K
Sbjct: 151 IDEEVKRIITEQYEKAKAIVEEYKEPLKAVVKKLLEKETITCEEFVEVFKLYGIELKDKC 210
Query: 607 RLEEIRETQKKDEENMNLKEKIRIEVRKEL 636
+ EE+ + +K EEN LK + EV++E+
Sbjct: 211 KKEELFDKDRKSEENKELKSE---EVKEEV 237
>pdb|1A21|A Chain A, Tissue Factor (Tf) From Rabbit
pdb|1A21|B Chain B, Tissue Factor (Tf) From Rabbit
Length = 219
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 13/64 (20%)
Query: 231 NSSNTGYKSQ----NSHPFVPTDDTNLDTASLNPGMERPSVQSDKKVGQEINSSSKEADF 286
N + TG+ + NS F P DTNL +P++QS ++VG ++N + ++A
Sbjct: 80 NGNTTGFPEEPPFRNSPEFTPYLDTNLG---------QPTIQSFEQVGTKLNVTVQDART 130
Query: 287 QFRR 290
RR
Sbjct: 131 LVRR 134
>pdb|1BQ0|A Chain A, J-Domain (Residues 1-77) Of The Escherichia Coli
N-Terminal Fragment (Residues 1-104) Of The Molecular
Chaperone Dnaj, Nmr, 20 Structures
Length = 103
Score = 29.6 bits (65), Expect = 5.7, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 666 QEVHAAYKRALLRFHPDRASKTDVRQQVEAEEKFKLISRMRE 707
+E+ AYKR +++HPDR EAE KFK I E
Sbjct: 18 REIRKAYKRLAMKYHPDRNQGDK-----EAEAKFKEIKEAYE 54
>pdb|1XBL|A Chain A, Nmr Structure Of The J-Domain (Residues 2-76) In The
Escherichia Coli N-Terminal Fragment (Residues 2-108) Of
The Molecular Chaperone Dnaj, 20 Structures
Length = 107
Score = 29.6 bits (65), Expect = 5.7, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 666 QEVHAAYKRALLRFHPDRASKTDVRQQVEAEEKFKLISRMRE 707
+E+ AYKR +++HPDR EAE KFK I E
Sbjct: 18 REIRKAYKRLAMKYHPDRNQGDK-----EAEAKFKEIKEAYE 54
>pdb|3ZEY|6 Chain 6, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 190
Score = 29.3 bits (64), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 13 SLPKTWPRKRTLNGCERKRNLDNVVLIDVDSERLDNVILIDVPESLQHKI 62
+LP+ PR R L G R +D D ++LD V+ + VP+ L+ ++
Sbjct: 60 TLPENHPR-RLLEGSAIMRRCHGYGFLDEDKDKLDYVLSLTVPDILERRL 108
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
0.312 0.127 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,904,992
Number of Sequences: 62578
Number of extensions: 861081
Number of successful extensions: 1869
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 1845
Number of HSP's gapped (non-prelim): 50
length of query: 715
length of database: 14,973,337
effective HSP length: 106
effective length of query: 609
effective length of database: 8,340,069
effective search space: 5079102021
effective search space used: 5079102021
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)