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= 048616
(272 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 22/99 (22%), Positives = 44/99 (44%), Gaps = 9/99 (9%)
Query: 2 REMGVKPDIVSYNCLIDV---------YCKDRQVEKAYKIVEKMRDEDISPDVISYTSII 52
R GV+ YN L+ V + + + + I ++M + + P+ ++T+
Sbjct: 53 RRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGA 112
Query: 53 GGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYC 91
P+ A D++K+MK +G P +Y A+ +C
Sbjct: 113 RLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 59 GQPDKARDV-LKEMKEYGCYPDAAAYNAAIRNYC 91
G PD ++ LKE+ Y P ++A ++ IRNY
Sbjct: 21 GMPDHVKETALKELNRYEKIPSSSAESSVIRNYI 54
>pdb|6PAX|A Chain A, Crystal Structure Of The Human Pax-6 Paired Domain-Dna
Complex Reveals A General Model For Pax Protein-Dna
Interactions
Length = 133
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 23/104 (22%), Positives = 44/104 (42%), Gaps = 6/104 (5%)
Query: 52 IGGLGLVGQP--DKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRD--ASGLMDEMV 107
+GG+ + G+P D R + E+ G P + + N C++K L A+G +
Sbjct: 8 LGGVFVNGRPLPDSTRQRIVELAHSGARPCDISRILQVSNGCVSKILGRYYATGSIRPRA 67
Query: 108 EKGLSPNATTYNLFFRVFYWSNDLRS--SWNLYCRMMGTGCLPN 149
G P T + ++ + + S +W + R++ G N
Sbjct: 68 IGGSKPRVATPEVVSKIAQYKQECPSIFAWEIRDRLLSEGVCTN 111
>pdb|3I5P|A Chain A, Nup170(Aa979-1502), S.Cerevisiae
Length = 525
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 8/73 (10%)
Query: 141 MMGTGCLPNTQSCMFLVKLCKRQEKVEIALQ------LWNDMVEKGFGSYILVSDVLFDL 194
M+ P +S FL+ + +K ++A Q L ND ++ + ILV D++FD
Sbjct: 77 MLSVNYYP--KSIEFLLNIANSMDKGKLACQYVANGFLENDDRKQYYDKRILVYDLVFDT 134
Query: 195 LCDMGKLVEAEKS 207
L + +L E ++S
Sbjct: 135 LIKVDELAEKKQS 147
>pdb|3O59|X Chain X, Dna Polymerase D Large Subunit Dp2(1-300) From
Pyrococcus Horikoshii
Length = 300
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 5/57 (8%)
Query: 24 RQVEKAYKIVEKMRDEDISPDV---ISYTSIIGGL--GLVGQPDKARDVLKEMKEYG 75
R+++KAY+I +K R + P + I S G LVG P A + + +KEYG
Sbjct: 19 REIDKAYEIAKKARAQGKDPSLDVEIPQASDXAGRVESLVGPPGVAERIRELVKEYG 75
>pdb|3DLX|A Chain A, Crystal Structure Of Human 3-Oxoacid Coa Transferase 1
pdb|3DLX|B Chain B, Crystal Structure Of Human 3-Oxoacid Coa Transferase 1
pdb|3DLX|C Chain C, Crystal Structure Of Human 3-Oxoacid Coa Transferase 1
pdb|3DLX|D Chain D, Crystal Structure Of Human 3-Oxoacid Coa Transferase 1
Length = 489
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 33 VEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI 92
VE ++D PD T ++GG GL G P+ D L + G A + NA + N+ +
Sbjct: 9 VEAVKD---IPD--GATVLVGGFGLCGIPENLIDALLKTGVKGL--TAVSNNAGVDNFGL 61
Query: 93 AKRLR 97
LR
Sbjct: 62 GLLLR 66
>pdb|3LKE|A Chain A, Crystal Structure Of Enoyl-Coa Hydratase From Bacillus
Halodurans
pdb|3LKE|B Chain B, Crystal Structure Of Enoyl-Coa Hydratase From Bacillus
Halodurans
pdb|3LKE|C Chain C, Crystal Structure Of Enoyl-Coa Hydratase From Bacillus
Halodurans
Length = 263
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 5/67 (7%)
Query: 200 KLVEAEKSFLEMIEKGHKPSQVSFRRI---KALMELANKQEALQNLSNKMALFGPSMIPK 256
+L E K++L+ + +G+ P+ + +++ KA EL KQ+ Q +ALF + I K
Sbjct: 192 ELQERVKNYLKAVSEGYVPAIAATKKLLKGKAAEEL--KQQLEQETEELVALFKQTEIKK 249
Query: 257 REEYLAE 263
R E L E
Sbjct: 250 RLEALVE 256
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
0.321 0.136 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,889,457
Number of Sequences: 62578
Number of extensions: 316346
Number of successful extensions: 840
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 832
Number of HSP's gapped (non-prelim): 15
length of query: 272
length of database: 14,973,337
effective HSP length: 97
effective length of query: 175
effective length of database: 8,903,271
effective search space: 1558072425
effective search space used: 1558072425
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: 51 (24.3 bits)