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= 046439
(269 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 13 PATSCIIGICSVIWFYIQKKNIGYSHVGL----SYETAVDGHHWRIITSAFSHISVLHLV 68
P T ++ C V+ +I + +G V L ++ + WR T A H S++H++
Sbjct: 4 PVTWVMMIACVVV--FIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHIL 61
Query: 69 FNMSALWSLG--VVEQLGD 85
FN+ W LG V ++LG
Sbjct: 62 FNLLWWWYLGGAVEKRLGS 80
>pdb|2XTU|A Chain A, Structure Of E.Coli Rhomboid Protease Glpg Active Site
Mutant, S201t In Trigonal Crystal Form
Length = 181
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 13 PATSCIIGICSVIWFYIQKKNIGYSHVGL----SYETAVDGHHWRIITSAFSHISVLHLV 68
P T ++ C V+ +I + +G V L ++ + WR T A H S++H++
Sbjct: 5 PVTWVMMIACVVV--FIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHIL 62
Query: 69 FNMSALWSLG--VVEQLGD 85
FN+ W LG V ++LG
Sbjct: 63 FNLLWWWYLGGAVEKRLGS 81
>pdb|3B45|A Chain A, Crystal Structure Of Glpg At 1.9a Resolution
Length = 180
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 13 PATSCIIGICSVIWFYIQKKNIGYSHVGL----SYETAVDGHHWRIITSAFSHISVLHLV 68
P T ++ C V+ +I + +G V L ++ + WR T A H S++H++
Sbjct: 5 PVTWVMMIACVVV--FIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHIL 62
Query: 69 FNMSALWSLG--VVEQLGD 85
FN+ W LG V ++LG
Sbjct: 63 FNLLWWWYLGGAVEKRLGS 81
>pdb|2XOV|A Chain A, Crystal Structure Of E.Coli Rhomboid Protease Glpg,
Native Enzyme
Length = 181
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 13 PATSCIIGICSVIWFYIQKKNIGYSHVGL----SYETAVDGHHWRIITSAFSHISVLHLV 68
P T ++ C V+ +I + +G V L ++ + WR T A H S++H++
Sbjct: 5 PVTWVMMIACVVV--FIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHIL 62
Query: 69 FNMSALWSLG--VVEQLGD 85
FN+ W LG V ++LG
Sbjct: 63 FNLLWWWYLGGAVEKRLGS 81
>pdb|2XTV|A Chain A, Structure Of E.Coli Rhomboid Protease Glpg, Active Site
Mutant, S201t, Orthorhombic Crystal Form
Length = 180
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 13 PATSCIIGICSVIWFYIQKKNIGYSHVGL----SYETAVDGHHWRIITSAFSHISVLHLV 68
P T ++ C V+ +I + +G V L ++ + WR T A H S++H++
Sbjct: 3 PVTWVMMIACVVV--FIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHIL 60
Query: 69 FNMSALWSLG--VVEQLGD 85
FN+ W LG V ++LG
Sbjct: 61 FNLLWWWYLGGAVEKRLGS 79
>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 = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 13 PATSCIIGICSVIWFYIQKKNIGYSHVGL----SYETAVDGHHWRIITSAFSHISVLHLV 68
P T ++ C V+ +I + +G V L ++ + WR T A H S++H++
Sbjct: 4 PVTWVMMIACVVV--FIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHIL 61
Query: 69 FNMSALWSLG--VVEQLGD 85
FN+ W LG V ++LG
Sbjct: 62 FNLLWWWYLGGAVEKRLGS 80
>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 = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 13 PATSCIIGICSVIWFYIQKKNIGYSHVGL----SYETAVDGHHWRIITSAFSHISVLHLV 68
P T ++ C V+ +I + +G V L ++ + WR T A H S++H++
Sbjct: 5 PVTWVMMIACVVV--FIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHIL 62
Query: 69 FNMSALWSLG--VVEQLGD 85
FN+ W LG V ++LG
Sbjct: 63 FNLLWWWYLGGAVEKRLGS 81
>pdb|2O7L|A Chain A, The Open-Cap Conformation Of Glpg
Length = 180
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 13 PATSCIIGICSVIWFYIQKKNIGYSHVGL----SYETAVDGHHWRIITSAFSHISVLHLV 68
P T ++ C V+ +I + +G V L ++ + WR T A H S++H++
Sbjct: 3 PVTWVMMIACVVV--FIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHIL 60
Query: 69 FNMSALWSLG--VVEQLGD 85
FN+ W LG V ++LG
Sbjct: 61 FNLLWWWYLGGAVEKRLGS 79
>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 = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 11 EKPATSCIIGICSVIWFYIQ---KKNIGYSHVGLSYETAVDGHHWRIITSAFSHISVLHL 67
+ T + +C +I+ Q + +I Y +YE D WR I+ H+S LH+
Sbjct: 8 QGKITLILTALCVLIYIAQQLGFEDDIMYLMHYPAYEEQ-DSEVWRYISHTLVHLSNLHI 66
Query: 68 VFNMS 72
+FN+S
Sbjct: 67 LFNLS 71
>pdb|3B44|A Chain A, Crystal Structure Of Glpg W136a Mutant
Length = 180
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 8/79 (10%)
Query: 13 PATSCIIGICSVIWFYIQKKNIGYSHVGL----SYETAVDGHHWRIITSAFSHISVLHLV 68
P T ++ C V+ +I + +G V L ++ + R T A H S++H++
Sbjct: 5 PVTWVMMIACVVV--FIAMQILGDQEVMLWLAWPFDPTLKFEFARYFTHALMHFSLMHIL 62
Query: 69 FNMSALWSLG--VVEQLGD 85
FN+ W LG V ++LG
Sbjct: 63 FNLLWWWYLGGAVEKRLGS 81
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
0.327 0.142 0.449
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,715,962
Number of Sequences: 62578
Number of extensions: 292278
Number of successful extensions: 659
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 649
Number of HSP's gapped (non-prelim): 11
length of query: 269
length of database: 14,973,337
effective HSP length: 97
effective length of query: 172
effective length of database: 8,903,271
effective search space: 1531362612
effective search space used: 1531362612
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)