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= psy17558
(317 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NR9|A Chain A, Crystal Structure Of Glpg, Rhomboid Peptidase From
Haemophilus Influenzae
pdb|3ODJ|A Chain A, Crystal Structure Of H. Influenzae Rhomboid Glpg With
Disordered Loop 4, Helix 5 And Loop 5
Length = 196
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 45/79 (56%), Gaps = 3/79 (3%)
Query: 221 AEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLVG-VLAGSLATSI 279
+EVWR++++ LVH+ H++ NL + G +E ++L++Y+V + G + +
Sbjct: 48 SEVWRYISHTLVHLSNLHILFNLSWFFIFGGMIERTFGSVKLLMLYVVASAITGYVQNYV 107
Query: 280 TDPHVFLAGASGGVYALIA 298
+ P F G SG VYA++
Sbjct: 108 SGPAFF--GLSGVVYAVLG 124
>pdb|2XOV|A Chain A, Crystal Structure Of E.Coli Rhomboid Protease Glpg, Native
Enzyme
Length = 181
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 46/85 (54%), Gaps = 3/85 (3%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLV-GVLAG 273
++P + E WR+ T+ L+H H++ NLL LG +E ++++I L+ +L+G
Sbjct: 37 FDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSG 96
Query: 274 SLATSITDPHVFLAGASGGVYALIA 298
+ + P + G SG VYAL+
Sbjct: 97 YVQQKFSGP--WFGGLSGVVYALMG 119
>pdb|2IRV|A Chain A, Crystal Structure Of Glpg, A Rhomboid Intramembrane Serine
Protease
pdb|2IRV|B Chain B, Crystal Structure Of Glpg, A Rhomboid Intramembrane Serine
Protease
Length = 182
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 46/85 (54%), Gaps = 3/85 (3%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLV-GVLAG 273
++P + E WR+ T+ L+H H++ NLL LG +E ++++I L+ +L+G
Sbjct: 36 FDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSG 95
Query: 274 SLATSITDPHVFLAGASGGVYALIA 298
+ + P + G SG VYAL+
Sbjct: 96 YVQQKFSGP--WFGGLSGVVYALMG 118
>pdb|2IC8|A Chain A, Crystal Structure Of Glpg
pdb|2NRF|A Chain A, Crystal Structure Of Glpg, A Rhomboid Family Intramembrane
Protease
pdb|2NRF|B Chain B, Crystal Structure Of Glpg, A Rhomboid Family Intramembrane
Protease
pdb|3UBB|A Chain A, The Crystal Structure Of Glpg In Complex With A
Phosphonofluoridate Inhibitor
Length = 182
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 46/85 (54%), Gaps = 3/85 (3%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLV-GVLAG 273
++P + E WR+ T+ L+H H++ NLL LG +E ++++I L+ +L+G
Sbjct: 37 FDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSG 96
Query: 274 SLATSITDPHVFLAGASGGVYALIA 298
+ + P + G SG VYAL+
Sbjct: 97 YVQQKFSGP--WFGGLSGVVYALMG 119
>pdb|3B45|A Chain A, Crystal Structure Of Glpg At 1.9a Resolution
Length = 180
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 46/85 (54%), Gaps = 3/85 (3%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLV-GVLAG 273
++P + E WR+ T+ L+H H++ NLL LG +E ++++I L+ +L+G
Sbjct: 37 FDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSG 96
Query: 274 SLATSITDPHVFLAGASGGVYALIA 298
+ + P + G SG VYAL+
Sbjct: 97 YVQQKFSGP--WFGGLSGVVYALMG 119
>pdb|2XOW|A Chain A, Structure Of Glpg In Complex With A Mechanism-Based
Isocoumarin Inhibitor
pdb|3TXT|A Chain A, Crystal Structure Of Glpg In Complex With Inhibitor Dfp
pdb|3ZEB|A Chain A, A Complex Of Glpg With Isocoumarin Inhibitor Covalently
Bonded To Serine 201 And Histidine 150
Length = 179
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 46/85 (54%), Gaps = 3/85 (3%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLV-GVLAG 273
++P + E WR+ T+ L+H H++ NLL LG +E ++++I L+ +L+G
Sbjct: 36 FDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSG 95
Query: 274 SLATSITDPHVFLAGASGGVYALIA 298
+ + P + G SG VYAL+
Sbjct: 96 YVQQKFSGP--WFGGLSGVVYALMG 118
>pdb|2O7L|A Chain A, The Open-Cap Conformation Of Glpg
Length = 180
Score = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 46/85 (54%), Gaps = 3/85 (3%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLV-GVLAG 273
++P + E WR+ T+ L+H H++ NLL LG +E ++++I L+ +L+G
Sbjct: 35 FDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSG 94
Query: 274 SLATSITDPHVFLAGASGGVYALIA 298
+ + P + G SG VYAL+
Sbjct: 95 YVQQKFSGP--WFGGLSGVVYALMG 117
>pdb|2XTU|A Chain A, Structure Of E.Coli Rhomboid Protease Glpg Active Site
Mutant, S201t In Trigonal Crystal Form
Length = 181
Score = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 46/85 (54%), Gaps = 3/85 (3%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLV-GVLAG 273
++P + E WR+ T+ L+H H++ NLL LG +E ++++I L+ +L+G
Sbjct: 37 FDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSG 96
Query: 274 SLATSITDPHVFLAGASGGVYALIA 298
+ + P + G +G VYAL+
Sbjct: 97 YVQQKFSGP--WFGGLTGVVYALMG 119
>pdb|2XTV|A Chain A, Structure Of E.Coli Rhomboid Protease Glpg, Active Site
Mutant, S201t, Orthorhombic Crystal Form
Length = 180
Score = 35.4 bits (80), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 46/85 (54%), Gaps = 3/85 (3%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLV-GVLAG 273
++P + E WR+ T+ L+H H++ NLL LG +E ++++I L+ +L+G
Sbjct: 35 FDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSG 94
Query: 274 SLATSITDPHVFLAGASGGVYALIA 298
+ + P + G +G VYAL+
Sbjct: 95 YVQQKFSGP--WFGGLTGVVYALMG 117
>pdb|3B44|A Chain A, Crystal Structure Of Glpg W136a Mutant
Length = 180
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 45/85 (52%), Gaps = 3/85 (3%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLV-GVLAG 273
++P + E R+ T+ L+H H++ NLL LG +E ++++I L+ +L+G
Sbjct: 37 FDPTLKFEFARYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSG 96
Query: 274 SLATSITDPHVFLAGASGGVYALIA 298
+ + P + G SG VYAL+
Sbjct: 97 YVQQKFSGP--WFGGLSGVVYALMG 119
>pdb|2ISA|A Chain A, Crystal Structure Of Vibrio Salmonicida Catalase
pdb|2ISA|B Chain B, Crystal Structure Of Vibrio Salmonicida Catalase
pdb|2ISA|C Chain C, Crystal Structure Of Vibrio Salmonicida Catalase
pdb|2ISA|D Chain D, Crystal Structure Of Vibrio Salmonicida Catalase
pdb|2ISA|E Chain E, Crystal Structure Of Vibrio Salmonicida Catalase
pdb|2ISA|F Chain F, Crystal Structure Of Vibrio Salmonicida Catalase
pdb|2ISA|G Chain G, Crystal Structure Of Vibrio Salmonicida Catalase
pdb|2ISA|H Chain H, Crystal Structure Of Vibrio Salmonicida Catalase
Length = 483
Score = 31.2 bits (69), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 210 AKTLIYNPFHRAEVWRFMTYMLVHVGGFHLVVN 242
A T+ YNPF +VW Y L+ VG F L N
Sbjct: 267 AATVPYNPFDLTKVWPHKDYPLIEVGEFELNRN 299
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 92 AKTLIYNPFHRAEVWRFMTYMLVHVGIWE 120
A T+ YNPF +VW Y L+ VG +E
Sbjct: 267 AATVPYNPFDLTKVWPHKDYPLIEVGEFE 295
>pdb|1H7K|A Chain A, Formation Of A Tyrosyl Radical Intermediate In Proteus
Mirabilis Catalase By Directed Mutagenesis And
Consequences For Nucleotide Reactivity
Length = 483
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 210 AKTLIYNPFHRAEVWRFMTYMLVHVGGFHLVVN 242
A T+ YNPF +VW Y L+ VG F L N
Sbjct: 267 ASTVPYNPFDLTKVWPHADYPLMDVGYFELNRN 299
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 92 AKTLIYNPFHRAEVWRFMTYMLVHVGIWE 120
A T+ YNPF +VW Y L+ VG +E
Sbjct: 267 ASTVPYNPFDLTKVWPHADYPLMDVGYFE 295
>pdb|1M85|A Chain A, Structure Of Proteus Mirabilis Catalase For The Native
Form
pdb|1MQF|A Chain A, Compound I From Proteus Mirabilis Catalase
pdb|1NM0|A Chain A, Proteus Mirabilis Catalase In Complex With Formiate
pdb|2CAG|A Chain A, Catalase Compound Ii
pdb|2CAH|A Chain A, Structure Of Proteus Mirabilis Pr Catalase For The Native
Form (e- Fe(iii)) Complexed With Nadph
Length = 484
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 210 AKTLIYNPFHRAEVWRFMTYMLVHVGGFHLVVN 242
A T+ YNPF +VW Y L+ VG F L N
Sbjct: 268 ASTVPYNPFDLTKVWPHADYPLMDVGYFELNRN 300
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 92 AKTLIYNPFHRAEVWRFMTYMLVHVGIWE 120
A T+ YNPF +VW Y L+ VG +E
Sbjct: 268 ASTVPYNPFDLTKVWPHADYPLMDVGYFE 296
>pdb|1E93|A Chain A, High Resolution Structure And Biochemical Properties Of A
Recombinant Catalase Depleted In Iron
Length = 484
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 210 AKTLIYNPFHRAEVWRFMTYMLVHVGGFHLVVN 242
A T+ YNPF +VW Y L+ VG F L N
Sbjct: 268 ASTVPYNPFDLTKVWPHADYPLMDVGYFELNRN 300
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 92 AKTLIYNPFHRAEVWRFMTYMLVHVGIWE 120
A T+ YNPF +VW Y L+ VG +E
Sbjct: 268 ASTVPYNPFDLTKVWPHADYPLMDVGYFE 296
>pdb|1H6N|A Chain A, Formation Of A Tyrosyl Radical Intermediate In Proteus
Mirabilis Catalase By Directed Mutagenesis And
Consequences For Nucleotide Reactivity
Length = 484
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 210 AKTLIYNPFHRAEVWRFMTYMLVHVGGFHLVVN 242
A T+ YNPF +VW Y L+ VG F L N
Sbjct: 268 ASTVPYNPFDLTKVWPHADYPLMDVGYFELNRN 300
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 92 AKTLIYNPFHRAEVWRFMTYMLVHVGIWE 120
A T+ YNPF +VW Y L+ VG +E
Sbjct: 268 ASTVPYNPFDLTKVWPHADYPLMDVGYFE 296
>pdb|3HB6|A Chain A, Inactive Mutant H54f Of Proteus Mirabilis Catalase
Length = 484
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 210 AKTLIYNPFHRAEVWRFMTYMLVHVGGFHLVVN 242
A T+ YNPF +VW Y L+ VG F L N
Sbjct: 268 ASTVPYNPFDLTKVWPHADYPLMDVGYFELNRN 300
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 92 AKTLIYNPFHRAEVWRFMTYMLVHVGIWE 120
A T+ YNPF +VW Y L+ VG +E
Sbjct: 268 ASTVPYNPFDLTKVWPHADYPLMDVGYFE 296
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
0.328 0.143 0.454
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,493,121
Number of Sequences: 62578
Number of extensions: 383093
Number of successful extensions: 864
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 833
Number of HSP's gapped (non-prelim): 31
length of query: 317
length of database: 14,973,337
effective HSP length: 99
effective length of query: 218
effective length of database: 8,778,115
effective search space: 1913629070
effective search space used: 1913629070
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.3 bits)