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= 025578
(250 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 = 138 bits (348), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 73/188 (38%), Positives = 118/188 (62%), Gaps = 4/188 (2%)
Query: 47 AVLCGVSYNKGKFRLKGTINDVRNMRDLLINSFKFQEEGIIVLTEEEKDEMYSPTKKNIQ 106
A++ G++Y K +L+G IND N+ + L N + + + I++LT+++ D + PT+ N+
Sbjct: 56 ALIIGINYIGSKNQLRGCINDAHNIFNFLTNGYGYSSDDIVILTDDQNDLVRVPTRANMI 115
Query: 107 KALEWLVNDCRKGDSLVFYFSGHGLRQPDFNNDETDGFDETICPVDFLKEGMIIDNDINS 166
+A++WLV D + DSL ++SGHG + D + DE DG D+ I PVDF +G IID++++
Sbjct: 116 RAMQWLVKDAQPNDSLFLHYSGHGGQTEDLDGDEEDGMDDVIYPVDFETQGPIIDDEMHD 175
Query: 167 IIVKPLKEGVTLHAIVDACHSGTILDLEYVYNKYQMTWEDNRPPSGARKATDGGLAICLS 226
I+VKPL++GV L A+ D+CHSGT+LDL Y Y+ + E P+ + GL +S
Sbjct: 176 IMVKPLQQGVRLTALFDSCHSGTVLDLPYTYSTKGIIKE----PNIWKDVGQDGLQAAIS 231
Query: 227 ACQDNQLA 234
N+ A
Sbjct: 232 YATGNRAA 239
>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 = 104 bits (259), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 64/196 (32%), Positives = 97/196 (49%), Gaps = 8/196 (4%)
Query: 47 AVLCGVSYNKGKFRLKGTINDVRNMRDLLINSFKFQEEGIIVLTEEE-KDEMYSPTKKNI 105
A+ G++Y L G NDV+ M L E +I++ E+ PT+ NI
Sbjct: 95 ALFIGINYYGTSAALSGCCNDVKQMLATLQKKGLPINEAVILVDEDNFPGRTDQPTRDNI 154
Query: 106 QKALEWLVNDCRKGDSLVFYFSGHGLRQPDFNNDETDGFDETICPVDFLKEGMIIDNDIN 165
+ + WLV D + GD L F++SGHG Q D + +D+ I PVDF K G I+D+DI+
Sbjct: 155 VRYMAWLVKDAKPGDVLFFHYSGHG-TQCKSRGDSDEKYDQCIAPVDFQKSGCIVDDDIH 213
Query: 166 SIIVKPLKEGVTLHAIVDACHSGTILDLEYVYNKYQMTWEDNRPPSGARKATDG----GL 221
++ L E V L A+ D HSG+I+DL + Y P ++ +G G
Sbjct: 214 KLLFSRLPEKVRLTAVFDCAHSGSIMDLPFTYVCSGGEQASGTP--HMKRIREGNDVLGD 271
Query: 222 AICLSACQDNQLASDT 237
+ +S C D Q ++D
Sbjct: 272 VMMISGCADEQTSADV 287
>pdb|4AFP|A Chain A, The Structure Of Metacaspase 2 From T. Brucei Determined
In The Presence Of Samarium
Length = 367
Score = 103 bits (256), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 64/196 (32%), Positives = 97/196 (49%), Gaps = 8/196 (4%)
Query: 47 AVLCGVSYNKGKFRLKGTINDVRNMRDLLINSFKFQEEGIIVLTEEE-KDEMYSPTKKNI 105
A+ G++Y L G NDV+ M L E +I++ E+ PT+ NI
Sbjct: 95 ALFIGINYYGTSAALSGCCNDVKQMLATLQKKGLPINEAVILVDEDNFPGRTDQPTRDNI 154
Query: 106 QKALEWLVNDCRKGDSLVFYFSGHGLRQPDFNNDETDGFDETICPVDFLKEGMIIDNDIN 165
+ + WLV D + GD L F++SGHG Q D + +D+ I PVDF K G I+D+DI+
Sbjct: 155 VRYMAWLVKDAKPGDVLFFHYSGHG-TQCKSRGDSDEKYDQCIAPVDFQKSGCIVDDDIH 213
Query: 166 SIIVKPLKEGVTLHAIVDACHSGTILDLEYVYNKYQMTWEDNRPPSGARKATDG----GL 221
++ L E V L A+ D HSG+I+DL + Y P ++ +G G
Sbjct: 214 KLLFSRLPEKVRLTAVFDCGHSGSIMDLPFTYVCSGGEQASGTP--HMKRIREGNDVLGD 271
Query: 222 AICLSACQDNQLASDT 237
+ +S C D Q ++D
Sbjct: 272 VMMISGCADEQTSADV 287
>pdb|4AF8|A Chain A, The Structural Basis For Metacaspase Substrate Specificity
And Activation
Length = 367
Score = 103 bits (256), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 64/196 (32%), Positives = 97/196 (49%), Gaps = 8/196 (4%)
Query: 47 AVLCGVSYNKGKFRLKGTINDVRNMRDLLINSFKFQEEGIIVLTEEE-KDEMYSPTKKNI 105
A+ G++Y L G NDV+ M L E +I++ E+ PT+ NI
Sbjct: 95 ALFIGINYYGTSAALSGCCNDVKQMLATLQKRGLPINEAVILVDEDNFPGRTDQPTRDNI 154
Query: 106 QKALEWLVNDCRKGDSLVFYFSGHGLRQPDFNNDETDGFDETICPVDFLKEGMIIDNDIN 165
+ + WLV D + GD L F++SGHG Q D + +D+ I PVDF K G I+D+DI+
Sbjct: 155 VRYMAWLVKDAKPGDVLFFHYSGHG-TQCKSRGDSDEKYDQCIAPVDFQKSGCIVDDDIH 213
Query: 166 SIIVKPLKEGVTLHAIVDACHSGTILDLEYVYNKYQMTWEDNRPPSGARKATDG----GL 221
++ L E V L A+ D HSG+I+DL + Y P ++ +G G
Sbjct: 214 KLLFSRLPEKVRLTAVFDCGHSGSIMDLPFTYVCSGGEQASGTP--HMKRIREGNDVLGD 271
Query: 222 AICLSACQDNQLASDT 237
+ +S C D Q ++D
Sbjct: 272 VMMISGCADEQTSADV 287
>pdb|3BIJ|A Chain A, Crystal Structure Of Protein Gsu0716 From Geobacter
Sulfurreducens. Northeast Structural Genomics Target
Gsr13
pdb|3BIJ|B Chain B, Crystal Structure Of Protein Gsu0716 From Geobacter
Sulfurreducens. Northeast Structural Genomics Target
Gsr13
pdb|3BIJ|C Chain C, Crystal Structure Of Protein Gsu0716 From Geobacter
Sulfurreducens. Northeast Structural Genomics Target
Gsr13
Length = 285
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 36/100 (36%), Positives = 55/100 (55%), Gaps = 6/100 (6%)
Query: 99 SPTKKNIQKALEWLVNDCRKGDSLVFYFSGHGLRQPDFNNDETDGFDETICPVDFLKEGM 158
+ T+ + A+ KGD +SGHG + PD +NDE DG DET C L +G
Sbjct: 54 AATRAKVIDAIGKAAKALGKGDIFXLSYSGHGGQVPDTSNDEPDGVDETWC----LFDGE 109
Query: 159 IIDNDINSIIVKPLKEGVTLHAIVDACHSGTILDLEYVYN 198
+ID+++ +++ K GV + D+CHSGT++ Y YN
Sbjct: 110 LIDDELYALLGK-FAAGVRVLVFSDSCHSGTVVKXAY-YN 147
>pdb|2V0O|A Chain A, Fcho2 F-Bar Domain
pdb|2V0O|B Chain B, Fcho2 F-Bar Domain
pdb|2V0O|C Chain C, Fcho2 F-Bar Domain
Length = 276
Score = 26.9 bits (58), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 40/90 (44%), Gaps = 3/90 (3%)
Query: 53 SYNKGKFRLKGTINDVRNMRDLLINSFKFQEEGIIVLTEEEKDEMYSPTKKNIQKALEWL 112
S+ K K + GT+ V+ ++ + K +E E+E+ + T++ I+KA
Sbjct: 113 SHKKTKEEVAGTLEAVQTIQSITQALQKSKENYNAKCVEQERLKKEGATQREIEKA---A 169
Query: 113 VNDCRKGDSLVFYFSGHGLRQPDFNNDETD 142
V + D+ Y + L + DF T+
Sbjct: 170 VKSKKATDTYKLYVEKYALAKADFEQKMTE 199
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 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,217,149
Number of Sequences: 62578
Number of extensions: 294915
Number of successful extensions: 678
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 665
Number of HSP's gapped (non-prelim): 10
length of query: 250
length of database: 14,973,337
effective HSP length: 96
effective length of query: 154
effective length of database: 8,965,849
effective search space: 1380740746
effective search space used: 1380740746
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)