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= 039205
(158 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F6O|A Chain A, Crystal Structure Of The Yeast Metacaspase Yca1
Length = 350
Score = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 55/240 (22%), Positives = 83/240 (34%), Gaps = 105/240 (43%)
Query: 4 DPLKWPTKYNMRMALCWLMQGCQPGDSLVFHFSGHA------------------------ 39
D ++ PT+ NM A+ WL++ QP DSL H+SGH
Sbjct: 104 DLVRVPTRANMIRAMQWLVKDAQPNDSLFLHYSGHGGQTEDLDGDEEDGMDDVIYPVDFE 163
Query: 40 ------------------------SCIIDACHSGTMLDLPFL--CRMDRRGRYIWEDHRP 73
+ + D+CHSGT+LDLP+ + + IW+D
Sbjct: 164 TQGPIIDDEMHDIMVKPLQQGVRLTALFDSCHSGTVLDLPYTYSTKGIIKEPNIWKDVGQ 223
Query: 74 RS-----------------------GTWKGASGGEA-------ISFSSCD--------DN 95
T KG G I FS+ D DN
Sbjct: 224 DGLQAAISYATGNRAALIGSLGSIFKTVKGGMGNNVDRERVRQIKFSAADVVMLSGSKDN 283
Query: 96 QTSADTSSLTDIELFNLMLYERALSNIPSIGAITYSFIQASELGHGTTYGRMLTSMRSTI 155
QTSAD A+ + + GA++++FI+ L +Y +L +MR +
Sbjct: 284 QTSAD-----------------AVEDGQNTGAMSHAFIKVMTLQPQQSYLSLLQNMRKEL 326
>pdb|4AFR|A Chain A, The Structure Of Metacaspase 2 (C213a Mutant) From T.
Brucei
pdb|4AFV|A Chain A, The Structure Of Metacaspase 2 From T. Brucei Determined
In The Presence Of Calcium Chloride
Length = 367
Score = 46.6 bits (109), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 55/150 (36%), Gaps = 52/150 (34%)
Query: 3 PDPLKWPTKYNMRMALCWLMQGCQPGDSLVFHFSGHAS---------------------- 40
P PT+ N+ + WL++ +PGD L FH+SGH +
Sbjct: 143 PGRTDQPTRDNIVRYMAWLVKDAKPGDVLFFHYSGHGTQCKSRGDSDEKYDQCIAPVDFQ 202
Query: 41 ---CII----------------------DACHSGTMLDLPF--LCRMDRRGRYIWEDHRP 73
CI+ D HSG+++DLPF +C + R
Sbjct: 203 KSGCIVDDDIHKLLFSRLPEKVRLTAVFDCAHSGSIMDLPFTYVCSGGEQASGTPHMKRI 262
Query: 74 RSGTWKGASGGEAISFSSCDDNQTSADTSS 103
R G G+ + S C D QTSAD +
Sbjct: 263 REGN---DVLGDVMMISGCADEQTSADVKN 289
>pdb|4AFP|A Chain A, The Structure Of Metacaspase 2 From T. Brucei Determined
In The Presence Of Samarium
Length = 367
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 55/150 (36%), Gaps = 52/150 (34%)
Query: 3 PDPLKWPTKYNMRMALCWLMQGCQPGDSLVFHFSGHAS---------------------- 40
P PT+ N+ + WL++ +PGD L FH+SGH +
Sbjct: 143 PGRTDQPTRDNIVRYMAWLVKDAKPGDVLFFHYSGHGTQCKSRGDSDEKYDQCIAPVDFQ 202
Query: 41 ---CII----------------------DACHSGTMLDLPF--LCRMDRRGRYIWEDHRP 73
CI+ D HSG+++DLPF +C + R
Sbjct: 203 KSGCIVDDDIHKLLFSRLPEKVRLTAVFDCGHSGSIMDLPFTYVCSGGEQASGTPHMKRI 262
Query: 74 RSGTWKGASGGEAISFSSCDDNQTSADTSS 103
R G G+ + S C D QTSAD +
Sbjct: 263 REGN---DVLGDVMMISGCADEQTSADVKN 289
>pdb|4AF8|A Chain A, The Structural Basis For Metacaspase Substrate Specificity
And Activation
Length = 367
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 55/150 (36%), Gaps = 52/150 (34%)
Query: 3 PDPLKWPTKYNMRMALCWLMQGCQPGDSLVFHFSGHAS---------------------- 40
P PT+ N+ + WL++ +PGD L FH+SGH +
Sbjct: 143 PGRTDQPTRDNIVRYMAWLVKDAKPGDVLFFHYSGHGTQCKSRGDSDEKYDQCIAPVDFQ 202
Query: 41 ---CII----------------------DACHSGTMLDLPF--LCRMDRRGRYIWEDHRP 73
CI+ D HSG+++DLPF +C + R
Sbjct: 203 KSGCIVDDDIHKLLFSRLPEKVRLTAVFDCGHSGSIMDLPFTYVCSGGEQASGTPHMKRI 262
Query: 74 RSGTWKGASGGEAISFSSCDDNQTSADTSS 103
R G G+ + S C D QTSAD +
Sbjct: 263 REGN---DVLGDVMMISGCADEQTSADVKN 289
>pdb|1URJ|A Chain A, Single Stranded Dna-Binding Protein(Icp8) From Herpes
Simplex Virus-1
pdb|1URJ|B Chain B, Single Stranded Dna-Binding Protein(Icp8) From Herpes
Simplex Virus-1
Length = 1136
Score = 28.1 bits (61), Expect = 2.0, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 38 HASCIIDACHSGTMLD----LPFLCRMDRRGR--YIWEDHRPRSGTWKGASGGEAI 87
H S + H G LD P L R+ R R + + D+ PR G K + GEA+
Sbjct: 89 HYSSSVYVFHGGRHLDPSTQAPNLTRLCERARRHFGFSDYTPRPGDLKHETTGEAL 144
>pdb|2HRG|A Chain A, Crystal Structure Of Blue Laccase From Trametes Trogii
Complexed With P-Methylbenzoate
pdb|2HRH|A Chain A, Crystal Strucure Of Blue Laccase From Trametes Trogii
Length = 496
Score = 26.9 bits (58), Expect = 4.5, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 91 SCDDNQT-SADTSSLTDIELFNLMLYERALSNIPSIGAITYSFIQASELGHGTTYGRML 148
SCD N S D SLT IE ++ L + + +I A YSF+ ++ G + R L
Sbjct: 203 SCDPNHVFSIDGHSLTVIEADSVNLKPQTVDSIQIFAAQRYSFVLNADQDVGNYWIRAL 261
>pdb|1KNM|A Chain A, Streptomyces Lividans Xylan Binding Domain Cbm13 In
Complex With Lactose
Length = 130
Score = 26.2 bits (56), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 23/108 (21%), Positives = 45/108 (41%), Gaps = 4/108 (3%)
Query: 43 IDACHSGTMLDLPFLCRMDRRGRYIWEDHRPRSGTWKGASGGEAISFSSCDDNQTSADTS 102
I SG LD+P D +W+ H + W GE + D +A TS
Sbjct: 9 IKGVGSGRCLDVPDASTSDGTQLQLWDCHSGTNQQWAATDAGELRVYG--DKCLDAAGTS 66
Query: 103 SLTDIELFNLMLYERALSNIPSIGAI--TYSFIQASELGHGTTYGRML 148
+ + +++++ + + S G++ S + +G+GT G ++
Sbjct: 67 NGSKVQIYSCWGGDNQKWRLNSDGSVVGVQSGLCLDAVGNGTANGTLI 114
>pdb|1KNL|A Chain A, Streptomyces Lividans Xylan Binding Domain Cbm13
pdb|1MC9|A Chain A, Strepromyces Lividans Xylan Binding Domain Cbm13 In
Complex With Xylopentaose
Length = 130
Score = 26.2 bits (56), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 23/108 (21%), Positives = 45/108 (41%), Gaps = 4/108 (3%)
Query: 43 IDACHSGTMLDLPFLCRMDRRGRYIWEDHRPRSGTWKGASGGEAISFSSCDDNQTSADTS 102
I SG LD+P D +W+ H + W GE + D +A TS
Sbjct: 9 IKGVGSGRCLDVPDASTSDGTQLQLWDCHSGTNQQWAATDAGELRVYG--DKCLDAAGTS 66
Query: 103 SLTDIELFNLMLYERALSNIPSIGAI--TYSFIQASELGHGTTYGRML 148
+ + +++++ + + S G++ S + +G+GT G ++
Sbjct: 67 NGSKVQIYSCWGGDNQKWRLNSDGSVVGVQSGLCLDAVGNGTANGTLI 114
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
0.322 0.136 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,828,655
Number of Sequences: 62578
Number of extensions: 179178
Number of successful extensions: 333
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 317
Number of HSP's gapped (non-prelim): 18
length of query: 158
length of database: 14,973,337
effective HSP length: 91
effective length of query: 67
effective length of database: 9,278,739
effective search space: 621675513
effective search space used: 621675513
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: 47 (22.7 bits)