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= 016890
(381 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 82/193 (42%), Gaps = 32/193 (16%)
Query: 26 TSAVVIVCGTIYLICLLFGYDSFYEICFLPSAVISRFQVYRFYTSIVFHGSLLHVLFNML 85
T ++I C +++ + G P +F+ +R++T + H SL+H+LFN+L
Sbjct: 6 TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 65
Query: 86 ALVPLGSELERIMGSVRMFYITILLATSNXXXXXXXXXXXXXXPFYRLQNVMDECAIGFS 145
LG +E+ +GS ++ IT++ A + Y Q G S
Sbjct: 66 WWWYLGGAVEKRLGSGKLIVITLISALLSG---------------YVQQKFSGPWFGGLS 110
Query: 146 GVIFSLIVI---------ETSLSGAQSRSVFGLFNIPAKWYPLILLVLFQVLMTNVSLLG 196
GV+++L+ ++ + + +F L I A W+ LF + M N +
Sbjct: 111 GVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFD-----LFGMSMANGA--- 162
Query: 197 HLCGILSGFAYTY 209
H+ G+ G A +
Sbjct: 163 HIAGLAVGLAMAF 175
>pdb|2XOV|A Chain A, Crystal Structure Of E.Coli Rhomboid Protease Glpg, Native
Enzyme
Length = 181
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 82/193 (42%), Gaps = 32/193 (16%)
Query: 26 TSAVVIVCGTIYLICLLFGYDSFYEICFLPSAVISRFQVYRFYTSIVFHGSLLHVLFNML 85
T ++I C +++ + G P +F+ +R++T + H SL+H+LFN+L
Sbjct: 7 TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 66
Query: 86 ALVPLGSELERIMGSVRMFYITILLATSNXXXXXXXXXXXXXXPFYRLQNVMDECAIGFS 145
LG +E+ +GS ++ IT++ A + Y Q G S
Sbjct: 67 WWWYLGGAVEKRLGSGKLIVITLISALLSG---------------YVQQKFSGPWFGGLS 111
Query: 146 GVIFSLIVI---------ETSLSGAQSRSVFGLFNIPAKWYPLILLVLFQVLMTNVSLLG 196
GV+++L+ ++ + + +F L I A W+ LF + M N +
Sbjct: 112 GVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFD-----LFGMSMANGA--- 163
Query: 197 HLCGILSGFAYTY 209
H+ G+ G A +
Sbjct: 164 HIAGLAVGLAMAF 176
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 82/193 (42%), Gaps = 32/193 (16%)
Query: 26 TSAVVIVCGTIYLICLLFGYDSFYEICFLPSAVISRFQVYRFYTSIVFHGSLLHVLFNML 85
T ++I C +++ + G P +F+ +R++T + H SL+H+LFN+L
Sbjct: 7 TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 66
Query: 86 ALVPLGSELERIMGSVRMFYITILLATSNXXXXXXXXXXXXXXPFYRLQNVMDECAIGFS 145
LG +E+ +GS ++ IT++ A + Y Q G S
Sbjct: 67 WWWYLGGAVEKRLGSGKLIVITLISALLSG---------------YVQQKFSGPWFGGLS 111
Query: 146 GVIFSLIVI---------ETSLSGAQSRSVFGLFNIPAKWYPLILLVLFQVLMTNVSLLG 196
GV+++L+ ++ + + +F L I A W+ LF + M N +
Sbjct: 112 GVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFD-----LFGMSMANGA--- 163
Query: 197 HLCGILSGFAYTY 209
H+ G+ G A +
Sbjct: 164 HIAGLAVGLAMAF 176
>pdb|3B45|A Chain A, Crystal Structure Of Glpg At 1.9a Resolution
Length = 180
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 82/193 (42%), Gaps = 32/193 (16%)
Query: 26 TSAVVIVCGTIYLICLLFGYDSFYEICFLPSAVISRFQVYRFYTSIVFHGSLLHVLFNML 85
T ++I C +++ + G P +F+ +R++T + H SL+H+LFN+L
Sbjct: 7 TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 66
Query: 86 ALVPLGSELERIMGSVRMFYITILLATSNXXXXXXXXXXXXXXPFYRLQNVMDECAIGFS 145
LG +E+ +GS ++ IT++ A + Y Q G S
Sbjct: 67 WWWYLGGAVEKRLGSGKLIVITLISALLSG---------------YVQQKFSGPWFGGLS 111
Query: 146 GVIFSLIVI---------ETSLSGAQSRSVFGLFNIPAKWYPLILLVLFQVLMTNVSLLG 196
GV+++L+ ++ + + +F L I A W+ LF + M N +
Sbjct: 112 GVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFD-----LFGMSMANGA--- 163
Query: 197 HLCGILSGFAYTY 209
H+ G+ G A +
Sbjct: 164 HIAGLAVGLAMAF 176
>pdb|2O7L|A Chain A, The Open-Cap Conformation Of Glpg
Length = 180
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 82/193 (42%), Gaps = 32/193 (16%)
Query: 26 TSAVVIVCGTIYLICLLFGYDSFYEICFLPSAVISRFQVYRFYTSIVFHGSLLHVLFNML 85
T ++I C +++ + G P +F+ +R++T + H SL+H+LFN+L
Sbjct: 5 TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 64
Query: 86 ALVPLGSELERIMGSVRMFYITILLATSNXXXXXXXXXXXXXXPFYRLQNVMDECAIGFS 145
LG +E+ +GS ++ IT++ A + Y Q G S
Sbjct: 65 WWWYLGGAVEKRLGSGKLIVITLISALLSG---------------YVQQKFSGPWFGGLS 109
Query: 146 GVIFSLIVI---------ETSLSGAQSRSVFGLFNIPAKWYPLILLVLFQVLMTNVSLLG 196
GV+++L+ ++ + + +F L I A W+ LF + M N +
Sbjct: 110 GVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFD-----LFGMSMANGA--- 161
Query: 197 HLCGILSGFAYTY 209
H+ G+ G A +
Sbjct: 162 HIAGLAVGLAMAF 174
>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 = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 82/193 (42%), Gaps = 32/193 (16%)
Query: 26 TSAVVIVCGTIYLICLLFGYDSFYEICFLPSAVISRFQVYRFYTSIVFHGSLLHVLFNML 85
T ++I C +++ + G P +F+ +R++T + H SL+H+LFN+L
Sbjct: 6 TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 65
Query: 86 ALVPLGSELERIMGSVRMFYITILLATSNXXXXXXXXXXXXXXPFYRLQNVMDECAIGFS 145
LG +E+ +GS ++ IT++ A + Y Q G S
Sbjct: 66 WWWYLGGAVEKRLGSGKLIVITLISALLSG---------------YVQQKFSGPWFGGLS 110
Query: 146 GVIFSLIVI---------ETSLSGAQSRSVFGLFNIPAKWYPLILLVLFQVLMTNVSLLG 196
GV+++L+ ++ + + +F L I A W+ LF + M N +
Sbjct: 111 GVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFD-----LFGMSMANGA--- 162
Query: 197 HLCGILSGFAYTY 209
H+ G+ G A +
Sbjct: 163 HIAGLAVGLAMAF 175
>pdb|2XTU|A Chain A, Structure Of E.Coli Rhomboid Protease Glpg Active Site
Mutant, S201t In Trigonal Crystal Form
Length = 181
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 46/86 (53%)
Query: 26 TSAVVIVCGTIYLICLLFGYDSFYEICFLPSAVISRFQVYRFYTSIVFHGSLLHVLFNML 85
T ++I C +++ + G P +F+ +R++T + H SL+H+LFN+L
Sbjct: 7 TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 66
Query: 86 ALVPLGSELERIMGSVRMFYITILLA 111
LG +E+ +GS ++ IT++ A
Sbjct: 67 WWWYLGGAVEKRLGSGKLIVITLISA 92
>pdb|2XTV|A Chain A, Structure Of E.Coli Rhomboid Protease Glpg, Active Site
Mutant, S201t, Orthorhombic Crystal Form
Length = 180
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 46/86 (53%)
Query: 26 TSAVVIVCGTIYLICLLFGYDSFYEICFLPSAVISRFQVYRFYTSIVFHGSLLHVLFNML 85
T ++I C +++ + G P +F+ +R++T + H SL+H+LFN+L
Sbjct: 5 TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 64
Query: 86 ALVPLGSELERIMGSVRMFYITILLA 111
LG +E+ +GS ++ IT++ A
Sbjct: 65 WWWYLGGAVEKRLGSGKLIVITLISA 90
>pdb|3B44|A Chain A, Crystal Structure Of Glpg W136a Mutant
Length = 180
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 81/193 (41%), Gaps = 32/193 (16%)
Query: 26 TSAVVIVCGTIYLICLLFGYDSFYEICFLPSAVISRFQVYRFYTSIVFHGSLLHVLFNML 85
T ++I C +++ + G P +F+ R++T + H SL+H+LFN+L
Sbjct: 7 TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFARYFTHALMHFSLMHILFNLL 66
Query: 86 ALVPLGSELERIMGSVRMFYITILLATSNXXXXXXXXXXXXXXPFYRLQNVMDECAIGFS 145
LG +E+ +GS ++ IT++ A + Y Q G S
Sbjct: 67 WWWYLGGAVEKRLGSGKLIVITLISALLSG---------------YVQQKFSGPWFGGLS 111
Query: 146 GVIFSLIVI---------ETSLSGAQSRSVFGLFNIPAKWYPLILLVLFQVLMTNVSLLG 196
GV+++L+ ++ + + +F L I A W+ LF + M N +
Sbjct: 112 GVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFD-----LFGMSMANGA--- 163
Query: 197 HLCGILSGFAYTY 209
H+ G+ G A +
Sbjct: 164 HIAGLAVGLAMAF 176
>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 = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%)
Query: 32 VCGTIYLICLLFGYDSFYEICFLPSAVISRFQVYRFYTSIVFHGSLLHVLFNMLALVPLG 91
+C IY+ L D + P+ +V+R+ + + H S LH+LFN+ G
Sbjct: 18 LCVLIYIAQQLGFEDDIMYLMHYPAYEEQDSEVWRYISHTLVHLSNLHILFNLSWFFIFG 77
Query: 92 SELERIMGSVRMFYITIL 109
+ER GSV++ + ++
Sbjct: 78 GMIERTFGSVKLLMLYVV 95
>pdb|1XDX|A Chain A, Solution Structure Of The Tctex1 Light Chain From
Chlamydomonas Inner Dynein Arm I1
pdb|1XDX|B Chain B, Solution Structure Of The Tctex1 Light Chain From
Chlamydomonas Inner Dynein Arm I1
Length = 114
Score = 29.6 bits (65), Expect = 3.0, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 9 AGLSTRANQWWESIPFFTSAVVIVCGTIYLICLLFG 44
AGL T A+ WW+S + V ++Y IC +FG
Sbjct: 76 AGLHTAASCWWDSTTDGSRTVRWENKSMYCICTVFG 111
>pdb|3S3Y|A Chain A, Crystal Structure An Tandem Cyanovirin-N Dimer, Cvn2l0
Length = 213
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 186 QVLMTNVSLLGHLCGILSGFAYTYGFFNLLMPGTSFYSAIESSSLLSTCIR 236
Q + T ++L H+ I Y G F T + SAI+ S L STC R
Sbjct: 90 QFVSTKINLDDHIANIDGTLKYELGKF----SQTCYNSAIQGSVLTSTCER 136
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
0.325 0.138 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,338,360
Number of Sequences: 62578
Number of extensions: 394613
Number of successful extensions: 873
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 862
Number of HSP's gapped (non-prelim): 14
length of query: 381
length of database: 14,973,337
effective HSP length: 101
effective length of query: 280
effective length of database: 8,652,959
effective search space: 2422828520
effective search space used: 2422828520
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)