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= psy17685
(286 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FMY|A Chain A, Co-Dependent Transcription Factor Cooa From
Carboxydothermus Hydrogenoformans (Imidazole-Bound Form)
pdb|2FMY|B Chain B, Co-Dependent Transcription Factor Cooa From
Carboxydothermus Hydrogenoformans (Imidazole-Bound Form)
pdb|2FMY|C Chain C, Co-Dependent Transcription Factor Cooa From
Carboxydothermus Hydrogenoformans (Imidazole-Bound Form)
pdb|2FMY|D Chain D, Co-Dependent Transcription Factor Cooa From
Carboxydothermus Hydrogenoformans (Imidazole-Bound Form)
Length = 220
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Query: 83 ERMTSEEYNNVLKEF---HHSEKSQLYSDDT-----FLQKLDHVTQVMGYH 125
E + SEEY+ VLKEF +S+K+ LY+ +T FL K V + Y
Sbjct: 13 EVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVRVYLAYE 63
>pdb|2HKX|A Chain A, Structure Of Cooa Mutant (N127lS128L) FROM
Carboxydothermus Hydrogenoformans
pdb|2HKX|B Chain B, Structure Of Cooa Mutant (N127lS128L) FROM
Carboxydothermus Hydrogenoformans
Length = 221
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Query: 83 ERMTSEEYNNVLKEF---HHSEKSQLYSDDT-----FLQKLDHVTQVMGYH 125
E + SEEY+ VLKEF +S+K+ LY+ +T FL K V + Y
Sbjct: 14 EVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVRVYLAYE 64
>pdb|3CP3|A Chain A, Crystal Structure Of Conserved Protein Of Unknown
Function Dip1874 From Corynebacterium Diphtheriae
Length = 148
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 6/54 (11%)
Query: 10 LLHHALNFLSLPVDFLLGF------LYFRGSIFFEPFRPNLNRDLLFAGIRHDD 57
++H + PV+F+L + +YFR + + F NLN D+LF R DD
Sbjct: 33 VVHRKDDLDIFPVNFVLDYSAEQPRVYFRTAEGTKLFSVNLNSDVLFEVDRFDD 86
>pdb|4AF8|A Chain A, The Structural Basis For Metacaspase Substrate Specificity
And Activation
Length = 367
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 22/111 (19%), Positives = 40/111 (36%), Gaps = 26/111 (23%)
Query: 155 AIMAAGRHQCSYLINLQKEEFLSQGGDQDWLKGLSYAP---KKLGL------------LY 199
++ G H CS + L L+ WL +S P + LGL
Sbjct: 13 GLVPGGSHMCSLITQLCDAGQLADYVGLGWLNAVSSQPYLVQALGLQPPPRRVDVDAAFR 72
Query: 200 EVNKILAHRPWLLNPSHLQKLTKNGWSLGELCHALVLLVNFHSLASFVFAC 250
+ + H+PW+ P G+ AL + +N++ ++ + C
Sbjct: 73 DAKGLHGHQPWVATPLP-----------GQTVRALFIGINYYGTSAALSGC 112
>pdb|4AFP|A Chain A, The Structure Of Metacaspase 2 From T. Brucei Determined
In The Presence Of Samarium
Length = 367
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 22/111 (19%), Positives = 40/111 (36%), Gaps = 26/111 (23%)
Query: 155 AIMAAGRHQCSYLINLQKEEFLSQGGDQDWLKGLSYAP---KKLGL------------LY 199
++ G H CS + L L+ WL +S P + LGL
Sbjct: 13 GLVPGGSHMCSLITQLCDAGQLADYVGLGWLNAVSSQPYLVQALGLQPPPRRVDVDAAFR 72
Query: 200 EVNKILAHRPWLLNPSHLQKLTKNGWSLGELCHALVLLVNFHSLASFVFAC 250
+ + H+PW+ P G+ AL + +N++ ++ + C
Sbjct: 73 DAKGLHGHQPWVATPLP-----------GQTVRALFIGINYYGTSAALSGC 112
>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 = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 22/111 (19%), Positives = 40/111 (36%), Gaps = 26/111 (23%)
Query: 155 AIMAAGRHQCSYLINLQKEEFLSQGGDQDWLKGLSYAP---KKLGL------------LY 199
++ G H CS + L L+ WL +S P + LGL
Sbjct: 13 GLVPGGSHMCSLITQLCDAGQLADYVGLGWLNAVSSQPYLVQALGLQPPPRRVDVDAAFR 72
Query: 200 EVNKILAHRPWLLNPSHLQKLTKNGWSLGELCHALVLLVNFHSLASFVFAC 250
+ + H+PW+ P G+ AL + +N++ ++ + C
Sbjct: 73 DAKGLHGHQPWVATPLP-----------GQTVRALFIGINYYGTSAALSGC 112
>pdb|1RHY|A Chain A, Crystal Structure Of Imidazole Glycerol Phosphate
Dehydratase
pdb|1RHY|B Chain B, Crystal Structure Of Imidazole Glycerol Phosphate
Dehydratase
Length = 202
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 43/94 (45%), Gaps = 12/94 (12%)
Query: 173 EEFLSQGGDQDWLK--GLSYAPKKLGLLYEVNKILAHRPWLLNPSHLQKLTKNGWSLGEL 230
E F G++ +K G +YAP L V I + RP+ + HL T+ +G+L
Sbjct: 83 EAFKKALGERKGIKRYGYAYAPLDESLSRAVIDI-SSRPYFM--CHL-PFTRE--KVGDL 136
Query: 231 CHALVLLVNFHSLASFVFACGVNEELDSLTDSKN 264
+V H L SF FA GV +DS+ N
Sbjct: 137 STEMV----SHLLQSFAFAAGVTLHIDSIRGENN 166
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 0.138 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,929,836
Number of Sequences: 62578
Number of extensions: 375588
Number of successful extensions: 901
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 897
Number of HSP's gapped (non-prelim): 18
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
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)