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= 020767
(321 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 = 91.7 bits (226), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 79/271 (29%), Positives = 126/271 (46%), Gaps = 21/271 (7%)
Query: 7 KRIAVLVGCNYPNTKNELHGCINDVLAMRDVIINRFGFDPNHIELLTDAPGSSV-MPTGA 65
+R A+++G NY +KN+L GCIND + + + N +G+ + I +LTD V +PT A
Sbjct: 53 RRKALIIGINYIGSKNQLRGCINDAHNIFNFLTNGYGYSSDDIVILTDDQNDLVRVPTRA 112
Query: 66 NIKAALDRMVSKAEAGDVLLFHYSGHGTRIPSLRPIWPFRQQDEAIVPCDFN----LITD 121
N+ A+ +V A+ D L HYSGHG + L D+ I P DF +I D
Sbjct: 113 NMIRAMQWLVKDAQPNDSLFLHYSGHGGQTEDLDGD-EEDGMDDVIYPVDFETQGPIIDD 171
Query: 122 LDFRQLVNRLPKGASFTVFSDSCHSGGLIDKAKEQIGPSSNIDQLRTKQSPAFRPKTIPF 181
+V L +G T DSCHSG ++D P + + K+ + K +
Sbjct: 172 EMHDIMVKPLQQGVRLTALFDSCHSGTVLDL------PYTYSTKGIIKEPNIW--KDVGQ 223
Query: 182 QSILEHLSSVTKINTSDIGTHLLEFFGVDASLRFRLAPNEVMDLFESWSLKPDDGILLSG 241
+ +S T + IG+ L F +++ + N + D ++LSG
Sbjct: 224 DGLQAAISYATGNRAALIGS-LGSIF---KTVKGGMGNNVDRERVRQIKFSAADVVMLSG 279
Query: 242 CQANETSADMSPMESGGKAYGAFSNAVQRVL 272
+ N+TSAD G+ GA S+A +V+
Sbjct: 280 SKDNQTSADAV---EDGQNTGAMSHAFIKVM 307
>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 = 82.0 bits (201), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 55/149 (36%), Positives = 73/149 (48%), Gaps = 10/149 (6%)
Query: 10 AVLVGCNYPNTKNELHGCINDVLAMRDVIINRFGFDPNHIELLTDA---PGSSVMPTGAN 66
A+ +G NY T L GC NDV M + + G N +L D PG + PT N
Sbjct: 95 ALFIGINYYGTSAALSGCCNDVKQML-ATLQKKGLPINEAVILVDEDNFPGRTDQPTRDN 153
Query: 67 IKAALDRMVSKAEAGDVLLFHYSGHGTRIPSLRPIWPFRQQDEAIVPCDFN---LITDLD 123
I + +V A+ GDVL FHYSGHGT+ S + D+ I P DF I D D
Sbjct: 154 IVRYMAWLVKDAKPGDVLFFHYSGHGTQCKSRGD--SDEKYDQCIAPVDFQKSGCIVDDD 211
Query: 124 FRQLV-NRLPKGASFTVFSDSCHSGGLID 151
+L+ +RLP+ T D HSG ++D
Sbjct: 212 IHKLLFSRLPEKVRLTAVFDCAHSGSIMD 240
>pdb|4AF8|A Chain A, The Structural Basis For Metacaspase Substrate Specificity
And Activation
Length = 367
Score = 82.0 bits (201), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 56/149 (37%), Positives = 73/149 (48%), Gaps = 10/149 (6%)
Query: 10 AVLVGCNYPNTKNELHGCINDVLAMRDVIINRFGFDPNHIELLTDA---PGSSVMPTGAN 66
A+ +G NY T L GC NDV M + R G N +L D PG + PT N
Sbjct: 95 ALFIGINYYGTSAALSGCCNDVKQMLATLQKR-GLPINEAVILVDEDNFPGRTDQPTRDN 153
Query: 67 IKAALDRMVSKAEAGDVLLFHYSGHGTRIPSLRPIWPFRQQDEAIVPCDFN---LITDLD 123
I + +V A+ GDVL FHYSGHGT+ S + D+ I P DF I D D
Sbjct: 154 IVRYMAWLVKDAKPGDVLFFHYSGHGTQCKSRGD--SDEKYDQCIAPVDFQKSGCIVDDD 211
Query: 124 FRQLV-NRLPKGASFTVFSDSCHSGGLID 151
+L+ +RLP+ T D HSG ++D
Sbjct: 212 IHKLLFSRLPEKVRLTAVFDCGHSGSIMD 240
>pdb|4AFP|A Chain A, The Structure Of Metacaspase 2 From T. Brucei Determined
In The Presence Of Samarium
Length = 367
Score = 81.3 bits (199), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 55/149 (36%), Positives = 73/149 (48%), Gaps = 10/149 (6%)
Query: 10 AVLVGCNYPNTKNELHGCINDVLAMRDVIINRFGFDPNHIELLTDA---PGSSVMPTGAN 66
A+ +G NY T L GC NDV M + + G N +L D PG + PT N
Sbjct: 95 ALFIGINYYGTSAALSGCCNDVKQML-ATLQKKGLPINEAVILVDEDNFPGRTDQPTRDN 153
Query: 67 IKAALDRMVSKAEAGDVLLFHYSGHGTRIPSLRPIWPFRQQDEAIVPCDFN---LITDLD 123
I + +V A+ GDVL FHYSGHGT+ S + D+ I P DF I D D
Sbjct: 154 IVRYMAWLVKDAKPGDVLFFHYSGHGTQCKSRGD--SDEKYDQCIAPVDFQKSGCIVDDD 211
Query: 124 FRQLV-NRLPKGASFTVFSDSCHSGGLID 151
+L+ +RLP+ T D HSG ++D
Sbjct: 212 IHKLLFSRLPEKVRLTAVFDCGHSGSIMD 240
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 56/220 (25%), Positives = 81/220 (36%), Gaps = 52/220 (23%)
Query: 63 TGANIKAALDRMVSKAEAGDVLLFHYSGHGTRIPSLRPIWPFRQQDEAIVPCDFNLITDL 122
T A + A+ + GD+ YSGHG ++P P DE D LI D
Sbjct: 56 TRAKVIDAIGKAAKALGKGDIFXLSYSGHGGQVPDTSNDEP-DGVDETWCLFDGELIDD- 113
Query: 123 DFRQLVNRLPKGASFTVFSDSCHSGGLID-------KAKEQIGPSSNIDQLRTKQSPAFR 175
+ L+ + G VFSDSCHSG ++ A GP ++R + P
Sbjct: 114 ELYALLGKFAAGVRVLVFSDSCHSGTVVKXAYYNGTTAARSAGPDEG--EIRYRAXP--- 168
Query: 176 PKTIPFQSILEHLSSVTK--INTSDIGTHLLEFFGVDASLRFRLAPNEVMDLFESWSLKP 233
QS+ + +T T ++ V AS+
Sbjct: 169 ------QSVAXRTYRANREFYDTIQQKTKKVDLADVKASI-------------------- 202
Query: 234 DDGILLSGCQANETSADMSPMESGGKAYGAFSNAVQRVLK 273
+L+SGCQ N+ S D G GAF+ + RV K
Sbjct: 203 ---LLISGCQDNQLSQD-------GAFNGAFTGQLLRVWK 232
>pdb|3RIT|A Chain A, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg And Dipeptide
L-Arg-D-Lys
pdb|3RIT|B Chain B, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg And Dipeptide
L-Arg-D-Lys
pdb|3RIT|C Chain C, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg And Dipeptide
L-Arg-D-Lys
pdb|3RIT|D Chain D, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg And Dipeptide
L-Arg-D-Lys
pdb|3RIT|E Chain E, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg And Dipeptide
L-Arg-D-Lys
pdb|3RO6|B Chain B, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg Ion
pdb|3RO6|A Chain A, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg Ion
pdb|3RO6|C Chain C, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg Ion
pdb|3RO6|D Chain D, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg Ion
pdb|3RO6|E Chain E, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg Ion
pdb|3RO6|F Chain F, Crystal Structure Of Dipeptide Epimerase From
Methylococcus Capsulatus Complexed With Mg Ion
Length = 356
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 165 QLRTKQSPAFRPKTIPFQSILEHLSSVTKINTSD 198
Q+RT+ P RP I F+SI E + + +I T+D
Sbjct: 7 QVRTEHFPLTRPYRIAFRSIEEIDNLIVEIRTAD 40
>pdb|1M54|A Chain A, Cystathionine-Beta Synthase: Reduced Vicinal Thiols
pdb|1M54|B Chain B, Cystathionine-Beta Synthase: Reduced Vicinal Thiols
pdb|1M54|C Chain C, Cystathionine-Beta Synthase: Reduced Vicinal Thiols
pdb|1M54|D Chain D, Cystathionine-Beta Synthase: Reduced Vicinal Thiols
pdb|1M54|E Chain E, Cystathionine-Beta Synthase: Reduced Vicinal Thiols
pdb|1M54|F Chain F, Cystathionine-Beta Synthase: Reduced Vicinal Thiols
Length = 363
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 11/77 (14%)
Query: 171 SPAFRPKTIPFQSILEHLSSVTKINTSDIGTHL---------LEFFGVDASLRFRLAPNE 221
+PA PK +P IL+ + + + IG EFF S++ R++
Sbjct: 26 APAKSPKILP--DILKKIGDTPMVRINKIGKKFGLKCELLAKCEFFNAGGSVKDRISLRM 83
Query: 222 VMDLFESWSLKPDDGIL 238
+ D +LKP D I+
Sbjct: 84 IEDAERDGTLKPGDTII 100
>pdb|1JBQ|A Chain A, Structure Of Human Cystathionine Beta-Synthase: A Unique
Pyridoxal 5'- Phosphate Dependent Hemeprotein
pdb|1JBQ|B Chain B, Structure Of Human Cystathionine Beta-Synthase: A Unique
Pyridoxal 5'- Phosphate Dependent Hemeprotein
pdb|1JBQ|C Chain C, Structure Of Human Cystathionine Beta-Synthase: A Unique
Pyridoxal 5'- Phosphate Dependent Hemeprotein
pdb|1JBQ|D Chain D, Structure Of Human Cystathionine Beta-Synthase: A Unique
Pyridoxal 5'- Phosphate Dependent Hemeprotein
pdb|1JBQ|E Chain E, Structure Of Human Cystathionine Beta-Synthase: A Unique
Pyridoxal 5'- Phosphate Dependent Hemeprotein
pdb|1JBQ|F Chain F, Structure Of Human Cystathionine Beta-Synthase: A Unique
Pyridoxal 5'- Phosphate Dependent Hemeprotein
Length = 435
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 11/77 (14%)
Query: 171 SPAFRPKTIPFQSILEHLSSVTKINTSDIGTHL---------LEFFGVDASLRFRLAPNE 221
+PA PK +P IL+ + + + IG EFF S++ R++
Sbjct: 91 APAKSPKILP--DILKKIGDTPMVRINKIGKKFGLKCELLAKCEFFNAGGSVKDRISLRM 148
Query: 222 VMDLFESWSLKPDDGIL 238
+ D +LKP D I+
Sbjct: 149 IEDAERDGTLKPGDTII 165
>pdb|1EOV|A Chain A, Free Aspartyl-Trna Synthetase (Asprs) (E.C. 6.1.1.12) From
Yeast
Length = 487
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 170 QSPAFRPKTI---PFQSILEHLSSVTKINTSDIGTHLLEFFGVDASLRFRLAPNEVMD 224
QSP F + + F+ + E + V + S+ H+ EF G+D + F +EV+D
Sbjct: 230 QSPQFNKQQLIVADFERVYE-IGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLD 286
>pdb|1ASY|A Chain A, Class Ii Aminoacyl Transfer Rna Synthetases: Crystal
Structure Of Yeast Aspartyl-Trna Synthetase Complexed
With Trna Asp
pdb|1ASY|B Chain B, Class Ii Aminoacyl Transfer Rna Synthetases: Crystal
Structure Of Yeast Aspartyl-Trna Synthetase Complexed
With Trna Asp
pdb|1ASZ|A Chain A, The Active Site Of Yeast Aspartyl-Trna Synthetase:
Structural And Functional Aspects Of The Aminoacylation
Reaction
pdb|1ASZ|B Chain B, The Active Site Of Yeast Aspartyl-Trna Synthetase:
Structural And Functional Aspects Of The Aminoacylation
Reaction
Length = 490
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 170 QSPAFRPKTI---PFQSILEHLSSVTKINTSDIGTHLLEFFGVDASLRFRLAPNEVMD 224
QSP F + + F+ + E + V + S+ H+ EF G+D + F +EV+D
Sbjct: 233 QSPQFNKQQLIVADFERVYE-IGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLD 289
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 0.135 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,271,399
Number of Sequences: 62578
Number of extensions: 372896
Number of successful extensions: 988
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 968
Number of HSP's gapped (non-prelim): 15
length of query: 321
length of database: 14,973,337
effective HSP length: 99
effective length of query: 222
effective length of database: 8,778,115
effective search space: 1948741530
effective search space used: 1948741530
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: 51 (24.3 bits)