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= psy9964
(595 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I7T|A Chain A, Structure Of Human Cpsf-73
pdb|2I7V|A Chain A, Structure Of Human Cpsf-73
Length = 459
Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 62/156 (39%), Positives = 89/156 (57%), Gaps = 11/156 (7%)
Query: 3 EIKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMID 62
++ + PLGAGQ+VGRSCI++ G+ IMLDCG+H G P I P ID
Sbjct: 11 QLLIRPLGAGQEVGRSCIILEFKGRKIMLDCGIHPGLEGMDALPYIDLIDPAE-----ID 65
Query: 63 CLIISHFHLDHCGALPYFTEMFGYAGPIYMTHPTKAIAPILLEDFRKISVEKKGDSNFFT 122
L+ISHFHLDHCGALP+F + + G +MTH TKAI LL D+ K+S D +T
Sbjct: 66 LLLISHFHLDHCGALPWFLQKTSFKGRTFMTHATKAIYRWLLSDYVKVS-NISADDMLYT 124
Query: 123 S---QMNILKIQILKYVMIKGTS--KVWGHSSDDLL 153
+ ++ KI+ + + +K + K W + + +L
Sbjct: 125 ETDLEESMDKIETINFHEVKEVAGIKFWCYHAGHVL 160
>pdb|3AF5|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii
pdb|3AF6|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii Complexed With Rna-Analog
Length = 651
Score = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 41/115 (35%), Positives = 69/115 (60%), Gaps = 11/115 (9%)
Query: 4 IKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDD--RKFP-----DFKFIAPQGP 56
I++T LG ++VGRS +LV +++D G+++ +D + FP +F+++ +G
Sbjct: 189 IRITGLGGFREVGRSALLVQTDESFVLVDFGVNVAMLNDPYKAFPHFDAPEFQYVLREG- 247
Query: 57 VTDMIDCLIISHFHLDHCGALPYFTEMFGYAGPIYMTHPTKAIAPILLEDFRKIS 111
++D +II+H HLDHCG LPY + GPIY T PT+ + +L +DF +I
Sbjct: 248 ---LLDAIIITHAHLDHCGMLPYLFRYNLFDGPIYTTPPTRDLMVLLQKDFIEIQ 299
>pdb|2XR1|A Chain A, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
pdb|2XR1|B Chain B, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
Length = 640
Score = 78.2 bits (191), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 42/122 (34%), Positives = 72/122 (59%), Gaps = 5/122 (4%)
Query: 4 IKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMIDC 63
++VT LG ++VGRSC L+S I++DCG+++G D + ++ P+ + ID
Sbjct: 184 VRVTALGGCKEVGRSCFLLSTPESRILIDCGVNVG--SDENMTPYLYVPEVFPL-NQIDA 240
Query: 64 LIISHFHLDHCGALPYFTEMFGYAGPIYMTHPTKAIAPILLEDFRKISVEKKGDSNFFTS 123
+I++H HLDH G +P + +GY GP+Y T PT+ + +L D+ ++ K+G + S
Sbjct: 241 VIVTHAHLDHQGLVPLLFK-YGYEGPVYCTPPTRDLMVLLQLDYIDVAA-KEGKKIPYES 298
Query: 124 QM 125
M
Sbjct: 299 GM 300
>pdb|2YCB|A Chain A, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
pdb|2YCB|B Chain B, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
Length = 636
Score = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 37/107 (34%), Positives = 62/107 (57%), Gaps = 3/107 (2%)
Query: 5 KVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMIDCL 64
++T +G ++VGRSC+ + ++LDCG+++ DD+ + ++ D +D +
Sbjct: 181 RLTAMGGFREVGRSCLYLQTPNSRVLLDCGVNVAGGDDKN--SYPYLNVPEFTLDSLDAV 238
Query: 65 IISHFHLDHCGALPYFTEMFGYAGPIYMTHPTKAIAPILLEDFRKIS 111
II+H HLDH G LPY +GY GP+Y T PT+ + +L D I+
Sbjct: 239 IITHAHLDHSGFLPYLYH-YGYDGPVYCTAPTRDLMTLLQLDHIDIA 284
>pdb|3IE1|A Chain A, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|B Chain B, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|C Chain C, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|D Chain D, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
Length = 431
Score = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 43/122 (35%), Positives = 64/122 (52%), Gaps = 14/122 (11%)
Query: 4 IKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMIDC 63
+++ P GA ++V S L+ GG+ ++LDCGM G + R F F + +D
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKE------VDA 54
Query: 64 LIISHFHLDHCGALP-YFTEMFGYAGPIYMTHPTKAIAPILLEDFRKISVEKKGDSNFFT 122
++++H HLDH G LP F E GY GP+Y T T + I+LED K+ D FF
Sbjct: 55 VLLTHAHLDHVGRLPKLFRE--GYRGPVYATRATVLLMEIVLEDALKVM-----DEPFFG 107
Query: 123 SQ 124
+
Sbjct: 108 PE 109
>pdb|3IE2|A Chain A, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|B Chain B, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|C Chain C, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|D Chain D, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 76.3 bits (186), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 43/122 (35%), Positives = 64/122 (52%), Gaps = 14/122 (11%)
Query: 4 IKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMIDC 63
+++ P GA ++V S L+ GG+ ++LDCGM G + R F F + +D
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKE------VDA 54
Query: 64 LIISHFHLDHCGALP-YFTEMFGYAGPIYMTHPTKAIAPILLEDFRKISVEKKGDSNFFT 122
++++H HLDH G LP F E GY GP+Y T T + I+LED K+ D FF
Sbjct: 55 VLLTHAHLDHVGRLPKLFRE--GYRGPVYATRATVLLMEIVLEDALKVM-----DEPFFG 107
Query: 123 SQ 124
+
Sbjct: 108 PE 109
>pdb|3IEK|A Chain A, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|B Chain B, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|C Chain C, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|D Chain D, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEL|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEM|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
Length = 431
Score = 76.3 bits (186), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 43/122 (35%), Positives = 64/122 (52%), Gaps = 14/122 (11%)
Query: 4 IKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMIDC 63
+++ P GA ++V S L+ GG+ ++LDCGM G + R F F + +D
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKE------VDA 54
Query: 64 LIISHFHLDHCGALP-YFTEMFGYAGPIYMTHPTKAIAPILLEDFRKISVEKKGDSNFFT 122
++++H HLDH G LP F E GY GP+Y T T + I+LED K+ D FF
Sbjct: 55 VLLTHAHLDHVGRLPKLFRE--GYRGPVYATRATVLLMEIVLEDALKVM-----DEPFFG 107
Query: 123 SQ 124
+
Sbjct: 108 PE 109
>pdb|3IDZ|A Chain A, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|B Chain B, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|C Chain C, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|D Chain D, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 76.3 bits (186), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 43/122 (35%), Positives = 64/122 (52%), Gaps = 14/122 (11%)
Query: 4 IKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMIDC 63
+++ P GA ++V S L+ GG+ ++LDCGM G + R F F + +D
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKE------VDA 54
Query: 64 LIISHFHLDHCGALP-YFTEMFGYAGPIYMTHPTKAIAPILLEDFRKISVEKKGDSNFFT 122
++++H HLDH G LP F E GY GP+Y T T + I+LED K+ D FF
Sbjct: 55 VLLTHAHLDHVGRLPKLFRE--GYRGPVYATRATVLLMEIVLEDALKVM-----DEPFFG 107
Query: 123 SQ 124
+
Sbjct: 108 PE 109
>pdb|3IE0|A Chain A, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|B Chain B, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|C Chain C, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|D Chain D, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 76.3 bits (186), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 43/122 (35%), Positives = 64/122 (52%), Gaps = 14/122 (11%)
Query: 4 IKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMIDC 63
+++ P GA ++V S L+ GG+ ++LDCGM G + R F F + +D
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKE------VDA 54
Query: 64 LIISHFHLDHCGALP-YFTEMFGYAGPIYMTHPTKAIAPILLEDFRKISVEKKGDSNFFT 122
++++H HLDH G LP F E GY GP+Y T T + I+LED K+ D FF
Sbjct: 55 VLLTHAHLDHVGRLPKLFRE--GYRGPVYATRATVLLMEIVLEDALKVM-----DEPFFG 107
Query: 123 SQ 124
+
Sbjct: 108 PE 109
>pdb|2DKF|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
Length = 431
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 62/121 (51%), Gaps = 14/121 (11%)
Query: 5 KVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMIDCL 64
++ P GA ++V S L+ GG+ ++LDCG G + R F F + +D +
Sbjct: 2 RIVPFGAAREVTGSAHLLLAGGRRVLLDCGXFQGKEEARNHAPFGFDPKE------VDAV 55
Query: 65 IISHFHLDHCGALP-YFTEMFGYAGPIYMTHPTKAIAPILLEDFRKISVEKKGDSNFFTS 123
+++H HLDH G LP F E GY GP+Y T T + I+LED K+ D FF
Sbjct: 56 LLTHAHLDHVGRLPKLFRE--GYRGPVYATRATVLLXEIVLEDALKVX-----DEPFFGP 108
Query: 124 Q 124
+
Sbjct: 109 E 109
>pdb|3A4Y|A Chain A, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|B Chain B, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|C Chain C, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|D Chain D, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 72.4 bits (176), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 42/122 (34%), Positives = 63/122 (51%), Gaps = 14/122 (11%)
Query: 4 IKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMIDC 63
+++ P GA ++V S L+ GG+ ++LDCGM G + R F F + +D
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKE------VDA 54
Query: 64 LIISHFHLDHCGALP-YFTEMFGYAGPIYMTHPTKAIAPILLEDFRKISVEKKGDSNFFT 122
++++H LDH G LP F E GY GP+Y T T + I+LED K+ D FF
Sbjct: 55 VLLTHAALDHVGRLPKLFRE--GYRGPVYATRATVLLMEIVLEDALKVM-----DEPFFG 107
Query: 123 SQ 124
+
Sbjct: 108 PE 109
>pdb|2X3N|A Chain A, Crystal Structure Of Pqsl, A Probable Fad-Dependent
Monooxygenase From Pseudomonas Aeruginosa
Length = 399
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 42/218 (19%), Positives = 88/218 (40%), Gaps = 34/218 (15%)
Query: 186 NIDIVYQKKVAHYELPEQPLNNVKIKFESGESIECKLLLGTDGARSQVRNAM-NVQYSNW 244
++++++ ++ + E+ + +++ G + ++++G DG S VR + ++
Sbjct: 122 TVEMLFETRIEAVQRDERHAID-QVRLNDGRVLRPRVVVGADGIASYVRRRLLDIDVERR 180
Query: 245 SYDQKGIVATVKISTSPPNRTAWQRFTPSGTVALLPLSDEFSSLVWATTPENAKALL-QM 303
Y +V T ++ R + G P+ + + LV + E A+ L+
Sbjct: 181 PYPSPMLVGTFALAPCVAERNRLYVDSQGGLAYFYPIGFDRARLVVSFPREEARELMADT 240
Query: 304 PGESFVDALNSEF-NKPAELNESIQVATKFTHNVLEFFNLSTGNEQVVPPRVMSVEEKSR 362
GES L ++ AE ++ ++F
Sbjct: 241 RGESLRRRLQRFVGDESAEAIAAVTGTSRFK----------------------------- 271
Query: 363 AAFPLGFGHSVRYIGPGCALLGDSAHRIHPLAGQGVNL 400
P+G+ + RY A+LGD+ H +HP+ GQG+NL
Sbjct: 272 -GIPIGYLNLDRYWADNVAMLGDAIHNVHPITGQGMNL 308
>pdb|1GPE|A Chain A, Glucose Oxidase From Penicillium Amagasakiense
pdb|1GPE|B Chain B, Glucose Oxidase From Penicillium Amagasakiense
Length = 587
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 29/43 (67%), Gaps = 3/43 (6%)
Query: 504 SSLGGKQYDVVISGGGMIGTTLACAIAQNPTLKDLSILMIESG 546
S + GK YD +I+GGG+ G T+A + +NP +K +L+IE G
Sbjct: 18 SKVAGKTYDYIIAGGGLTGLTVAAKLTENPKIK---VLVIEKG 57
>pdb|1CF3|A Chain A, Glucose Oxidase From Apergillus Niger
pdb|1GAL|A Chain A, Crystal Structure Of Glucose Oxidase From Aspergillus
Niger: Refined At 2.3 Angstroms Resolution
pdb|3QVP|A Chain A, Crystal Structure Of Glucose Oxidase For Space Group C2221
At 1.2 A Resolution
pdb|3QVR|A Chain A, Crystal Structure Of Glucose Oxidase For Space Group P3121
At 1.3 A Resolution
Length = 583
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 27/39 (69%), Gaps = 3/39 (7%)
Query: 508 GKQYDVVISGGGMIGTTLACAIAQNPTLKDLSILMIESG 546
G+ D +I+GGG+ G T A + +NP ++S+L+IESG
Sbjct: 17 GRTVDYIIAGGGLTGLTTAARLTENP---NISVLVIESG 52
>pdb|3Q9T|A Chain A, Crystal Structure Analysis Of Formate Oxidase
pdb|3Q9T|B Chain B, Crystal Structure Analysis Of Formate Oxidase
pdb|3Q9T|C Chain C, Crystal Structure Analysis Of Formate Oxidase
Length = 577
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 27/39 (69%), Gaps = 3/39 (7%)
Query: 508 GKQYDVVISGGGMIGTTLACAIAQNPTLKDLSILMIESG 546
G +D VI GGG G T+A +A+NP ++++L++E+G
Sbjct: 4 GSHFDFVIVGGGTAGNTVAGRLAENP---NVTVLIVEAG 39
>pdb|3ZQ4|A Chain A, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|C Chain C, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|D Chain D, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|E Chain E, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
Length = 555
Score = 37.0 bits (84), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 9/90 (10%)
Query: 6 VTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHD----DRKFPDFKFIAPQGPVTDMI 61
V LG ++G++ V + +++D G+ + D PD+ ++ D I
Sbjct: 11 VFALGGLGEIGKNTYAVQFQDEIVLIDAGIKFPEDELLGIDYVIPDYTYLVKN---EDKI 67
Query: 62 DCLIISHFHLDHCGALPYFTEMFGYAGPIY 91
L I+H H DH G +PY P+Y
Sbjct: 68 KGLFITHGHEDHIGGIPYLLRQVNI--PVY 95
>pdb|2Y6R|A Chain A, Structure Of The Tetx Monooxygenase In Complex With The
Substrate 7-Chlortetracycline
pdb|2Y6R|B Chain B, Structure Of The Tetx Monooxygenase In Complex With The
Substrate 7-Chlortetracycline
pdb|2Y6R|C Chain C, Structure Of The Tetx Monooxygenase In Complex With The
Substrate 7-Chlortetracycline
pdb|2Y6R|D Chain D, Structure Of The Tetx Monooxygenase In Complex With The
Substrate 7-Chlortetracycline
Length = 398
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 34/126 (26%), Positives = 57/126 (45%), Gaps = 29/126 (23%)
Query: 307 SFVDALNSEFNKPAELNESIQVATKFTHNVLEFFNLSTGNEQVVPPRVMSVEEKSRAAFP 366
S VD L EF ++ +E + + H L F L+T R+ +E+ ++ P
Sbjct: 268 SVVDFLLKEF---SDWDERYK---ELIHTTLSFVGLAT--------RIFPLEKPWKSKRP 313
Query: 367 LGFGHSVRYIGPGCALLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPE 426
L ++GD+AH + P AGQGVN G D L ++++++G E
Sbjct: 314 LP-----------ITMIGDAAHLMPPFAGQGVNSGLVDALIL----SDNLADGKFNSIEE 358
Query: 427 SLTKYE 432
++ YE
Sbjct: 359 AVKNYE 364
>pdb|2XDO|A Chain A, Structure Of The Tetracycline Degrading Monooxygenase
Tetx2 From Bacteroides Thetaiotaomicron
pdb|2XDO|B Chain B, Structure Of The Tetracycline Degrading Monooxygenase
Tetx2 From Bacteroides Thetaiotaomicron
pdb|2XDO|C Chain C, Structure Of The Tetracycline Degrading Monooxygenase
Tetx2 From Bacteroides Thetaiotaomicron
pdb|2XDO|D Chain D, Structure Of The Tetracycline Degrading Monooxygenase
Tetx2 From Bacteroides Thetaiotaomicron
pdb|2Y6Q|A Chain A, Structure Of The Tetx Monooxygenase In Complex With The
Substrate 7-Iodtetracycline
pdb|2Y6Q|B Chain B, Structure Of The Tetx Monooxygenase In Complex With The
Substrate 7-Iodtetracycline
pdb|2Y6Q|C Chain C, Structure Of The Tetx Monooxygenase In Complex With The
Substrate 7-Iodtetracycline
pdb|2Y6Q|D Chain D, Structure Of The Tetx Monooxygenase In Complex With The
Substrate 7-Iodtetracycline
pdb|4A6N|B Chain B, Structure Of The Tetracycline Degrading Monooxygenase Tetx
In Complex With Tigecycline
pdb|4A6N|C Chain C, Structure Of The Tetracycline Degrading Monooxygenase Tetx
In Complex With Tigecycline
pdb|4A6N|D Chain D, Structure Of The Tetracycline Degrading Monooxygenase Tetx
In Complex With Tigecycline
pdb|4A99|A Chain A, Structure Of The Tetracycline Degrading Monooxygenase Tetx
In Complex With Minocycline
pdb|4A99|B Chain B, Structure Of The Tetracycline Degrading Monooxygenase Tetx
In Complex With Minocycline
pdb|4A99|C Chain C, Structure Of The Tetracycline Degrading Monooxygenase Tetx
In Complex With Minocycline
pdb|4A99|D Chain D, Structure Of The Tetracycline Degrading Monooxygenase Tetx
In Complex With Minocycline
Length = 398
Score = 36.2 bits (82), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 34/126 (26%), Positives = 57/126 (45%), Gaps = 29/126 (23%)
Query: 307 SFVDALNSEFNKPAELNESIQVATKFTHNVLEFFNLSTGNEQVVPPRVMSVEEKSRAAFP 366
S VD L EF ++ +E + + H L F L+T R+ +E+ ++ P
Sbjct: 268 SVVDFLLKEF---SDWDERYK---ELIHTTLSFVGLAT--------RIFPLEKPWKSKRP 313
Query: 367 LGFGHSVRYIGPGCALLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPE 426
L ++GD+AH + P AGQGVN G D L ++++++G E
Sbjct: 314 LP-----------ITMIGDAAHLMPPFAGQGVNSGLVDALIL----SDNLADGKFNSIEE 358
Query: 427 SLTKYE 432
++ YE
Sbjct: 359 AVKNYE 364
>pdb|4A6N|A Chain A, Structure Of The Tetracycline Degrading Monooxygenase Tetx
In Complex With Tigecycline
Length = 398
Score = 35.8 bits (81), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 46/102 (45%), Gaps = 23/102 (22%)
Query: 331 KFTHNVLEFFNLSTGNEQVVPPRVMSVEEKSRAAFPLGFGHSVRYIGPGCALLGDSAHRI 390
+ H L F L+T R+ +E+ ++ PL ++GD+AH +
Sbjct: 286 ELIHTTLSFVGLAT--------RIFPLEKPWKSKRPLP-----------ITMIGDAAHLM 326
Query: 391 HPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYE 432
P AGQGVN G D L ++++++G E++ YE
Sbjct: 327 PPFAGQGVNSGLVDALIL----SDNLADGKFNSIEEAVKNYE 364
>pdb|3V3N|A Chain A, Crystal Structure Of Tetx2 T280a: An Adaptive Mutant In
Complex With Minocycline
pdb|3V3N|B Chain B, Crystal Structure Of Tetx2 T280a: An Adaptive Mutant In
Complex With Minocycline
pdb|3V3N|C Chain C, Crystal Structure Of Tetx2 T280a: An Adaptive Mutant In
Complex With Minocycline
pdb|3V3N|D Chain D, Crystal Structure Of Tetx2 T280a: An Adaptive Mutant In
Complex With Minocycline
pdb|3V3O|A Chain A, Crystal Structure Of Tetx2 T280a: An Adaptive Mutant In
Complex With Tigecycline
pdb|3V3O|B Chain B, Crystal Structure Of Tetx2 T280a: An Adaptive Mutant In
Complex With Tigecycline
pdb|3V3O|C Chain C, Crystal Structure Of Tetx2 T280a: An Adaptive Mutant In
Complex With Tigecycline
pdb|3V3O|D Chain D, Crystal Structure Of Tetx2 T280a: An Adaptive Mutant In
Complex With Tigecycline
Length = 378
Score = 35.8 bits (81), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 46/103 (44%), Gaps = 23/103 (22%)
Query: 331 KFTHNVLEFFNLSTGNEQVVPPRVMSVEEKSRAAFPLGFGHSVRYIGPGCALLGDSAHRI 390
+ H L F L+T R+ +E+ ++ PL ++GD+AH +
Sbjct: 266 ELIHATLSFVGLAT--------RIFPLEKPWKSKRPLP-----------ITMIGDAAHLM 306
Query: 391 HPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYES 433
P AGQGVN G D L ++++++G E++ YE
Sbjct: 307 PPFAGQGVNSGLVDALIL----SDNLADGKFNSIEEAVKNYEQ 345
>pdb|3GMC|A Chain A, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase
With Substrate Bound
pdb|3GMC|B Chain B, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase
With Substrate Bound
Length = 415
Score = 35.8 bits (81), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 176 DAVTKKLNTLNIDIVYQKKVAHYELPEQPLNNVKIKFESGESIECKLLLGTDGARSQVRN 235
DA+ + L +DI V + P+ ++ ++GE +E L++G DG S+VR+
Sbjct: 147 DALVNRARALGVDI----SVNSEAVAADPVG--RLTLQTGEVLEADLIVGADGVGSKVRD 200
Query: 236 AMNVQYSNW 244
++ + W
Sbjct: 201 SIGFKQDRW 209
>pdb|3ALK|A Chain A, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase,
Mutant Y270f
Length = 379
Score = 35.4 bits (80), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 176 DAVTKKLNTLNIDIVYQKKVAHYELPEQPLNNVKIKFESGESIECKLLLGTDGARSQVRN 235
DA+ + L +DI V + P+ ++ ++GE +E L++G DG S+VR+
Sbjct: 111 DALVNRARALGVDI----SVNSEAVAADPVG--RLTLQTGEVLEADLIVGADGVGSKVRD 164
Query: 236 AMNVQYSNW 244
++ + W
Sbjct: 165 SIGFKQDRW 173
>pdb|3ALH|A Chain A, Higher Resolution And Native Structure Of
2-Methyl-3-Hydroxypyridine- 5-Carboxylic Acid Oxygenase
pdb|3ALH|B Chain B, Higher Resolution And Native Structure Of
2-Methyl-3-Hydroxypyridine- 5-Carboxylic Acid Oxygenase
pdb|3ALI|A Chain A, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase,
5-Pyridoxic Acid Bound Form
pdb|3ALI|B Chain B, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase,
5-Pyridoxic Acid Bound Form
pdb|3ALJ|A Chain A, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase,
Reduced Form
Length = 379
Score = 35.4 bits (80), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 176 DAVTKKLNTLNIDIVYQKKVAHYELPEQPLNNVKIKFESGESIECKLLLGTDGARSQVRN 235
DA+ + L +DI V + P+ ++ ++GE +E L++G DG S+VR+
Sbjct: 111 DALVNRARALGVDI----SVNSEAVAADPVG--RLTLQTGEVLEADLIVGADGVGSKVRD 164
Query: 236 AMNVQYSNW 244
++ + W
Sbjct: 165 SIGFKQDRW 173
>pdb|3ALL|A Chain A, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase,
Mutant Y270a
pdb|3ALL|B Chain B, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase,
Mutant Y270a
Length = 379
Score = 35.4 bits (80), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 176 DAVTKKLNTLNIDIVYQKKVAHYELPEQPLNNVKIKFESGESIECKLLLGTDGARSQVRN 235
DA+ + L +DI V + P+ ++ ++GE +E L++G DG S+VR+
Sbjct: 111 DALVNRARALGVDI----SVNSEAVAADPVG--RLTLQTGEVLEADLIVGADGVGSKVRD 164
Query: 236 AMNVQYSNW 244
++ + W
Sbjct: 165 SIGFKQDRW 173
>pdb|3ALM|A Chain A, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase,
Mutant C294a
pdb|3ALM|B Chain B, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase,
Mutant C294a
Length = 379
Score = 35.4 bits (80), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 176 DAVTKKLNTLNIDIVYQKKVAHYELPEQPLNNVKIKFESGESIECKLLLGTDGARSQVRN 235
DA+ + L +DI V + P+ ++ ++GE +E L++G DG S+VR+
Sbjct: 111 DALVNRARALGVDI----SVNSEAVAADPVG--RLTLQTGEVLEADLIVGADGVGSKVRD 164
Query: 236 AMNVQYSNW 244
++ + W
Sbjct: 165 SIGFKQDRW 173
>pdb|3GMB|A Chain A, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase
pdb|3GMB|B Chain B, Crystal Structure Of
2-Methyl-3-Hydroxypyridine-5-Carboxylic Acid Oxygenase
Length = 415
Score = 35.4 bits (80), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 176 DAVTKKLNTLNIDIVYQKKVAHYELPEQPLNNVKIKFESGESIECKLLLGTDGARSQVRN 235
DA+ + L +DI V + P+ ++ ++GE +E L++G DG S+VR+
Sbjct: 147 DALVNRARALGVDI----SVNSEAVAADPVG--RLTLQTGEVLEADLIVGADGVGSKVRD 200
Query: 236 AMNVQYSNW 244
++ + W
Sbjct: 201 SIGFKQDRW 209
>pdb|3BK1|A Chain A, Crystal Structure Analysis Of Rnase J
pdb|3BK2|A Chain A, Crystal Structure Analysis Of The Rnase JUMP COMPLEX
Length = 562
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 50/113 (44%), Gaps = 14/113 (12%)
Query: 4 IKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMID- 62
+++ PLG ++G++ + + +LD G+ + P + P+ V +I+
Sbjct: 17 VEIIPLGGXGEIGKNITVFRFRDEIFVLDGGLAF---PEEGXPGVDLLIPR--VDYLIEH 71
Query: 63 -----CLIISHFHLDHCGALPY-FTEMFGYAG--PIYMTHPTKAIAPILLEDF 107
+++H H DH G LP+ +FG PIY T + LE+F
Sbjct: 72 RHKIKAWVLTHGHEDHIGGLPFLLPXIFGKESPVPIYGARLTLGLLRGKLEEF 124
>pdb|1BGJ|A Chain A, P-hydroxybenzoate Hydroxylase (phbh) Mutant With Cys 116
Replaced By Ser (c116s) And His 162 Replaced By Arg
(h162r), In Complex With Fad And 4-hydroxybenzoic Acid
Length = 394
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|2DKH|A Chain A, Crystal Structure Of 3-Hydroxybenzoate Hydroxylase From
Comamonas Testosteroni, In Complex With The Substrate
pdb|2DKI|A Chain A, Crystal Structure Of 3-Hydroxybenzoate Hydroxylase From
Comamonas Testosteroni, Under Pressure Of Xenon Gas (12
Atm)
Length = 639
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 45/200 (22%), Positives = 80/200 (40%), Gaps = 38/200 (19%)
Query: 216 ESIECKLLLGTDGARSQVRNAMNVQYSNWSYDQK-GIVATVKISTSPPNRTAWQRFTPSG 274
E+++ + ++G DGARS VR A+ Q S +Q G++ + ++ P R + G
Sbjct: 196 ETVQARYVVGCDGARSNVRRAIGRQLVGDSANQAWGVMDVLAVTDFPDVRYKVAIQSEQG 255
Query: 275 TVALLPLSDEFSSLVWATTPENAKALLQMPGESFVDALNSEFNKPAELNESIQVATKFTH 334
V ++P E LV + ++M D L+++ + A N +++
Sbjct: 256 NVLIIPR--EGGHLV--------RFYVEM------DKLDAD-ERVASRNITVEQLIATAQ 298
Query: 335 NVLEFFNLSTGN----------EQVVPPRVMSVEEKSRAAFPLGFGHSVRYIGPGCALLG 384
VL + L N +++ V+ + PL P + G
Sbjct: 299 RVLHPYKLEVKNVPWWSVYEIGQRICAKYDDVVDAVATPDSPL----------PRVFIAG 348
Query: 385 DSAHRIHPLAGQGVNLGFGD 404
D+ H P AGQG+N D
Sbjct: 349 DACHTHSPKAGQGMNFSMQD 368
>pdb|1CC4|A Chain A, Phe161 And Arg166 Variants Of P-Hydroxybenzoate
Hydroxylase. Implications For Nadph Recognition And
Structural Stability
Length = 394
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1BGN|A Chain A, P-Hydroxybenzoate Hydroxylase (Phbh) Mutant With Cys 116
Replaced By Ser (C116s) And Arg 269 Replaced By Thr
(R269t), In Complex With Fad And 4-Hydroxybenzoic Acid
Length = 394
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1PBF|A Chain A, Crystal Structures Of Wild-type P-hydroxybenzoate
Hydroxylase Complexed With 4-aminobenzoate,
2,4-dihydroxybenzoate And 2-hydroxy- 4-aminobenzoate And
Of The Try222ala Mutant, Complexed With 2-
Hydroxy-4-aminobenzoate. Evidence For A Proton Channel
And A New Binding Mode Of The Flavin Ring
Length = 394
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1CJ4|A Chain A, Mutant Q34t Of Para-hydroxybenzoate Hydroxylase
Length = 392
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1PBB|A Chain A, Crystal Structures Of Wild-type P-hydroxybenzoate
Hydroxylase Complexed With 4-aminobenzoate,
2,4-dihydroxybenzoate And 2-hydroxy- 4-aminobenzoate And
Of The Try222ala Mutant, Complexed With 2-
Hydroxy-4-aminobenzoate. Evidence For A Proton Channel
And A New Binding Mode Of The Flavin Ring
pdb|1PBC|A Chain A, Crystal Structures Of Wild-Type P-Hydroxybenzoate
Hydroxylase Complexed With 4-Aminobenzoate,
2,4-Dihydroxybenzoate And 2-Hydroxy- 4-Aminobenzoate And
Of The Try222ala Mutant, Complexed With 2-
Hydroxy-4-Aminobenzoate. Evidence For A Proton Channel
And A New Binding Mode Of The Flavin Ring
pdb|1PBD|A Chain A, Crystal Structures Of Wild-Type P-Hydroxybenzoate
Hydroxylase Complexed With 4-Aminobenzoate,
2,4-Dihydroxybenzoate And 2-Hydroxy- 4-Aminobenzoate And
Of The Try222ala Mutant, Complexed With 2-
Hydroxy-4-Aminobenzoate. Evidence For A Proton Channel
And A New Binding Mode Of The Flavin Ring
Length = 394
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1BKW|A Chain A, P-hydroxybenzoate Hydroxylase (phbh) Mutant With Cys116
Replaced By Ser (c116s) And Arg44 Replaced By Lys
(r44k), In Complex With Fad And 4-hydroxybenzoic Acid
Length = 394
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1BF3|A Chain A, P-Hydroxybenzoate Hydroxylase (Phbh) Mutant With Cys 116
Replaced By Ser (C116s) And Arg 42 Replaced By Lys
(R42k), In Complex With Fad And 4-Hydroxybenzoic Acid
Length = 394
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1CJ3|A Chain A, Mutant Tyr38glu Of Para-Hydroxybenzoate Hydroxylase
Length = 392
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|2XYO|A Chain A, Structural Basis For A New Tetracycline Resistance
Mechanism Relying On The Tetx Monooxygenase
pdb|2XYO|B Chain B, Structural Basis For A New Tetracycline Resistance
Mechanism Relying On The Tetx Monooxygenase
pdb|2XYO|C Chain C, Structural Basis For A New Tetracycline Resistance
Mechanism Relying On The Tetx Monooxygenase
pdb|2XYO|D Chain D, Structural Basis For A New Tetracycline Resistance
Mechanism Relying On The Tetx Monooxygenase
Length = 399
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 38/143 (26%), Positives = 62/143 (43%), Gaps = 32/143 (22%)
Query: 293 TPENAKALLQMPGE---SFVDALNSEFNKPAELNESIQVATKFTHNVLEFFNLSTGNEQV 349
TP+ K Q+ + S VD L EF ++ +E + + H L F L+T
Sbjct: 252 TPDEWKNQTQVDFQNRNSVVDFLLKEF---SDWDERYK---ELIHTTLSFVGLAT----- 300
Query: 350 VPPRVMSVEEKSRAAFPLGFGHSVRYIGPGCALLGDSAHRIHPLAGQGVNLGFGDIACLV 409
R+ +E+ ++ PL +GD+AH P AGQGVN G D L
Sbjct: 301 ---RIFPLEKPWKSKRPLP-----------ITXIGDAAHLXPPFAGQGVNSGLVDALIL- 345
Query: 410 QLSAESVSNGYPIGHPESLTKYE 432
++++++G E++ YE
Sbjct: 346 ---SDNLADGKFNSIEEAVKNYE 365
>pdb|1CJ2|A Chain A, Mutant Gln34arg Of Para-Hydroxybenzoate Hydroxylase
Length = 391
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1CC6|A Chain A, Phe161 And Arg166 Variants Of P-Hydroxybenzoate
Hydroxylase. Implications For Nadph Recognition And
Structural Stability
Length = 394
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1PBE|A Chain A, Crystal Structure Of The P-Hydroxybenzoate
Hydroxylase-Substrate Complex Refined At 1.9 Angstroms
Resolution. Analysis Of The Enzyme- Substrate And
Enzyme-Product Complexes
pdb|1PDH|A Chain A, Crystal Structure Of P-hydroxybenzoate Hydroxylase
Reconstituted With The Modified Fad Present In Alcohol
Oxidase From Methylotrophic Yeasts: Evidence For An
Arabinoflavin
pdb|1PHH|A Chain A, Crystal Structure Of P-Hydroxybenzoate Hydroxylase
Complexed With Its Reaction Product
3,4-Dihydroxybenzoate
pdb|2PHH|A Chain A, The Coenzyme Analogue Adenosine 5-Diphosphoribose
Displaces Fad In The Active Site Of P-Hydroxybenzoate
Hydroxylase. An X-Ray Crystallographic Investigation
Length = 394
Score = 33.9 bits (76), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1D7L|A Chain A, Structure-function Correlations Of The Reaction Of Reduced
Nicotinamide Analogs With P-hydroxybenzoate Hydroxylase
Substituted With A Series Of 8-substituted Flavins
pdb|1DOC|A Chain A, The Mobil Flavin Of 4-oh Benzoate Hydroxylase: Motion Of A
Prosthetic Group Regulates Catalysis
pdb|1DOD|A Chain A, The Mobil Flavin Of 4-oh Benzoate Hydroxylase: Motion Of A
Prosthetic Group Regulates Catalysis
pdb|1DOE|A Chain A, The Mobil Flavin Of 4-Oh Benzoate Hydroxylase: Motion Of A
Prosthetic Group Regulates Catalysis
pdb|1IUS|A Chain A, P-Hydroxybenzoate Hydroxylase Complexed With
4-Aminobenzoate At Ph 5.0
pdb|1IUT|A Chain A, P-Hydroxybenzoate Hydroxylase Complexed With
4-Aminobenzoate At Ph 7.4
pdb|1IUU|A Chain A, P-Hydroxybenzoate Hydroxylase Complexed With
4-Aminobenzoate At Ph 9.4
pdb|1IUV|A Chain A, P-Hydroxybenzoate Hydroxylase Complexed With
4-4-Hydroxybenzoate At Ph 5.0
pdb|1IUW|A Chain A, P-hydroxybenzoate Hydroxylase Complexed With
4-4-hydroxybenzoate At Ph 7.4
pdb|1IUX|A Chain A, P-Hydroxybenzoate Hydroxylase Complexed With
4-4-Hydroxybenzoate At Ph 9.4
Length = 394
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1YKJ|A Chain A, A45g P-Hydroxybenzoate Hydroxylase With P-Hydroxybenzoate
Bound
pdb|1YKJ|B Chain B, A45g P-Hydroxybenzoate Hydroxylase With P-Hydroxybenzoate
Bound
Length = 394
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1DOB|A Chain A, The Mobil Flavin Of 4-Oh Benzoate Hydroxylase: Motion Of A
Prosthetic Group Regulates Catalysis
Length = 394
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1K0I|A Chain A, Pseudomonas Aeruginosa Phbh R220q In Complex With 100mm
Phb
pdb|1K0J|A Chain A, Pseudomonas Aeruginosa Phbh R220q In Complex With Nadph
And Free Of P- Ohb
pdb|1K0L|A Chain A, Pseudomonas Aeruginosa Phbh R220q Free Of P-ohb
Length = 394
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1PXC|A Chain A, Crystal Structures Of Mutant Pseudomonas Aeruginosa
P-Hydroxybenzoate Hydroxylase: The Tyr201phe, Tyr385phe,
And Asn300asp Variants
Length = 394
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1PXB|A Chain A, Crystal Structures Of Mutant Pseudomonas Aeruginosa
P-hydroxybenzoate Hydroxylase: The Tyr201phe, Tyr385phe,
And Asn300asp Variants
Length = 394
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G+NL D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLNLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|3P9U|A Chain A, Crystal Structure Of Tetx2 From Bacteroides
Thetaiotaomicron With Substrate Analogue
pdb|3P9U|B Chain B, Crystal Structure Of Tetx2 From Bacteroides
Thetaiotaomicron With Substrate Analogue
pdb|3P9U|C Chain C, Crystal Structure Of Tetx2 From Bacteroides
Thetaiotaomicron With Substrate Analogue
pdb|3P9U|D Chain D, Crystal Structure Of Tetx2 From Bacteroides
Thetaiotaomicron With Substrate Analogue
Length = 378
Score = 33.5 bits (75), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 43/99 (43%), Gaps = 23/99 (23%)
Query: 334 HNVLEFFNLSTGNEQVVPPRVMSVEEKSRAAFPLGFGHSVRYIGPGCALLGDSAHRIHPL 393
H L F L+T R+ +E+ ++ PL +GD+AH P
Sbjct: 269 HTTLSFVGLAT--------RIFPLEKPWKSKRPLP-----------ITXIGDAAHLXPPF 309
Query: 394 AGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYE 432
AGQGVN G D L ++++++G E++ YE
Sbjct: 310 AGQGVNSGLVDALIL----SDNLADGKFNSIEEAVKNYE 344
>pdb|3OZ2|A Chain A, Crystal Structure Of A Geranylgeranyl Bacteriochlorophyll
Reductase- Like (Ta0516) From Thermoplasma Acidophilum
At 1.60 A Resolution
Length = 397
Score = 33.5 bits (75), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 5/62 (8%)
Query: 378 PGCALLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESV-SNGYPIGHPESLTKYES-IR 435
PG L+GD+A I P+ G G+ Q++ E++ SN Y P+ KYE I+
Sbjct: 277 PGLXLVGDAARLIDPITGGGIANAIVSGXYAAQVTKEAIESNDY---SPQXXQKYEKLIK 333
Query: 436 QR 437
+R
Sbjct: 334 ER 335
>pdb|3AJ3|A Chain A, Crystal Structure Of Selenomethionine Substituted
4-Pyridoxolactonase From Mesorhizobium Loti
Length = 274
Score = 33.5 bits (75), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 61 IDCLIISHFHLDHCGALPYF 80
ID ++ SHFH DHCG YF
Sbjct: 89 IDVVVNSHFHFDHCGGNKYF 108
>pdb|3AJ0|A Chain A, Crystal Structure Of 4-Pyridoxolactonase From
Mesorhizobium Loti
Length = 268
Score = 33.1 bits (74), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 61 IDCLIISHFHLDHCGALPYF 80
ID ++ SHFH DHCG YF
Sbjct: 89 IDVVVNSHFHFDHCGGNKYF 108
>pdb|3T37|A Chain A, Crystal Structure Of Pyridoxine 4-Oxidase From Mesorbium
Loti
Length = 526
Score = 33.1 bits (74), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 25/37 (67%), Gaps = 3/37 (8%)
Query: 512 DVVISGGGMIGTTLACAIAQNPTLKDLSILMIESGPE 548
D+VI GGG G+ LA ++++P D +L+IE+G E
Sbjct: 19 DIVIVGGGSAGSLLAARLSEDP---DSRVLLIEAGEE 52
>pdb|3ZYV|A Chain A, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|B Chain B, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|C Chain C, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|D Chain D, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
Length = 1335
Score = 33.1 bits (74), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 54/226 (23%), Positives = 83/226 (36%), Gaps = 39/226 (17%)
Query: 302 QMPGESFVDALNSEFNKPAELNESIQVATKFTHNVLEFFNLSTGNEQVVPPRVMSVEEKS 361
QM GE L+ E N+P N V TK + EF L E + PP +M + E+S
Sbjct: 175 QMNGEGKC-CLDEEKNEPERKN---SVCTKL-YEKKEFQPLDPTQELIFPPELMRMAEES 229
Query: 362 RAAFPLGFGHSVRYIGPGCALLGD--SAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNG 419
+ G +I PG L D HP A L G+ + + VS
Sbjct: 230 QNTVLTFRGERTTWIAPG--TLNDLLELKMKHPSA----PLVIGNTYLGLHMKFTDVS-- 281
Query: 420 YPIGHPESLTKYESIRQRENLPVMLSIDLMYRVYRSSLTPVKILGNLGFQLVNAVRPIKS 479
P+++S + ++ + T + G L +K+
Sbjct: 282 --------------------YPIIISPARILELFVVTNTKQGLTLGTGLSLTQ----VKN 317
Query: 480 ILCDIFMRTSMEKVTLLVWNARYYSSLGGKQYDVVISGGGMIGTTL 525
+L D+ R EK + + +L G+Q V S GG I + L
Sbjct: 318 VLSDVVSRLPKEKTQIYCALLKQLKTLAGQQIRNVASLGGHIISRL 363
>pdb|3ADR|A Chain A, The First Crystal Structure Of An Archaeal
Metallo-Beta-Lactamase Superfamily Protein; St1585 From
Sulfolobus Tokodaii
pdb|3ADR|B Chain B, The First Crystal Structure Of An Archaeal
Metallo-Beta-Lactamase Superfamily Protein; St1585 From
Sulfolobus Tokodaii
Length = 261
Score = 32.3 bits (72), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 22/38 (57%), Gaps = 7/38 (18%)
Query: 47 DFKFIAPQGPVTDMIDCLIISHFHLDHCGALPYFTEMF 84
DF F+ D +D ++++H H+DH G LP +++
Sbjct: 44 DFSFL-------DKLDYIVLTHLHIDHIGLLPELLQVY 74
>pdb|1PXA|A Chain A, Crystal Structures Of Mutant Pseudomonas Aeruginosa
P-Hydroxybenzoate Hydroxylase: The Tyr201phe, Tyr385phe,
And Asn300asp Variants
Length = 394
Score = 32.0 bits (71), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 382 LLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIGHPESLTKYESI 434
L GD+AH + P +G++L D++ L +L + Y G E L +Y +I
Sbjct: 283 LAGDAAHIVPPTGAKGLDLAASDVSTLYRL----LLKAYREGRGELLERYSAI 331
>pdb|1FOH|A Chain A, Phenol Hydroxylase From Trichosporon Cutaneum
pdb|1FOH|B Chain B, Phenol Hydroxylase From Trichosporon Cutaneum
pdb|1FOH|C Chain C, Phenol Hydroxylase From Trichosporon Cutaneum
pdb|1FOH|D Chain D, Phenol Hydroxylase From Trichosporon Cutaneum
Length = 664
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 47/219 (21%), Positives = 80/219 (36%), Gaps = 44/219 (20%)
Query: 192 QKKVAHYELPEQPLNNVKIKFESGE--SIECKLLLGTDGARSQVRNAMNVQYSNWSYDQ- 248
+++ A+Y LPE E+GE ++ CK ++G DG S VR + + D
Sbjct: 196 EEEDANYRLPEGK--------EAGEIETVHCKYVIGCDGGHSWVRRTLGFEMIGEQTDYI 247
Query: 249 KGIVATVKISTSPPNRTAWQ-RFTPSGTVALLPLSDEFSSLVWATTPENAKALLQMPGES 307
G++ V S P R+ SG++ ++P + LQ E
Sbjct: 248 WGVLDAVPASNFPDIRSRCAIHSAESGSIMIIPRENNLVRFY---------VQLQARAEK 298
Query: 308 FVDALNSEFNKPAELNESIQVATKFTHNV--LEFFNLSTGNEQVVPPRVMSVEEKSRAAF 365
++F + + ++ +T +V L++F + RV K F
Sbjct: 299 GGRVDRTKFTPEVVIANAKKIFHPYTFDVQQLDWFTAYH-----IGQRVTEKFSKDERVF 353
Query: 366 PLGFGHSVRYIGPGCALLGDSAHRIHPLAGQGVNLGFGD 404
+ GD+ H P AGQG+N D
Sbjct: 354 ----------------IAGDACHTHSPKAGQGMNTSMMD 376
>pdb|1PN0|A Chain A, Phenol Hydroxylase From Trichosporon Cutaneum
pdb|1PN0|B Chain B, Phenol Hydroxylase From Trichosporon Cutaneum
pdb|1PN0|C Chain C, Phenol Hydroxylase From Trichosporon Cutaneum
pdb|1PN0|D Chain D, Phenol Hydroxylase From Trichosporon Cutaneum
Length = 665
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 47/219 (21%), Positives = 80/219 (36%), Gaps = 44/219 (20%)
Query: 192 QKKVAHYELPEQPLNNVKIKFESGE--SIECKLLLGTDGARSQVRNAMNVQYSNWSYDQ- 248
+++ A+Y LPE E+GE ++ CK ++G DG S VR + + D
Sbjct: 197 EEEDANYRLPEGK--------EAGEIETVHCKYVIGCDGGHSWVRRTLGFEMIGEQTDYI 248
Query: 249 KGIVATVKISTSPPNRTAWQ-RFTPSGTVALLPLSDEFSSLVWATTPENAKALLQMPGES 307
G++ V S P R+ SG++ ++P + LQ E
Sbjct: 249 WGVLDAVPASNFPDIRSRCAIHSAESGSIMIIPRENNLVRFY---------VQLQARAEK 299
Query: 308 FVDALNSEFNKPAELNESIQVATKFTHNV--LEFFNLSTGNEQVVPPRVMSVEEKSRAAF 365
++F + + ++ +T +V L++F + RV K F
Sbjct: 300 GGRVDRTKFTPEVVIANAKKIFHPYTFDVQQLDWFTAYH-----IGQRVTEKFSKDERVF 354
Query: 366 PLGFGHSVRYIGPGCALLGDSAHRIHPLAGQGVNLGFGD 404
+ GD+ H P AGQG+N D
Sbjct: 355 ----------------IAGDACHTHSPKAGQGMNTSMMD 377
>pdb|1E5D|A Chain A, Rubredoxin Oxygen:oxidoreductase (Roo) From Anaerobe
Desulfovibrio Gigas
pdb|1E5D|B Chain B, Rubredoxin Oxygen:oxidoreductase (Roo) From Anaerobe
Desulfovibrio Gigas
Length = 402
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 61 IDCLIISHFHLDHCGALPYFTE 82
ID L+I H LDH GALP E
Sbjct: 72 IDYLVIQHLELDHAGALPALIE 93
>pdb|2PJX|A Chain A, Crystal Structure Of The Munc18cSYNTAXIN4 N-Peptide
Complex
pdb|2PJX|B Chain B, Crystal Structure Of The Munc18cSYNTAXIN4 N-Peptide
Complex
pdb|3PUK|A Chain A, Re-Refinement Of The Crystal Structure Of Munc18-3 And
Syntaxin4 N- Peptide Complex
pdb|3PUK|B Chain B, Re-Refinement Of The Crystal Structure Of Munc18-3 And
Syntaxin4 N- Peptide Complex
Length = 592
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 193 KKVAHYELPEQPLNNVKIKFESGESIECKLLLGTDGARSQVRNAMNV 239
K+V H L E +N K+ E E L LGTD +V+++M V
Sbjct: 343 KQVVHLNLAEDCMNKFKLNIEKLCKTEQDLALGTDAEGQRVKDSMLV 389
>pdb|3T3N|A Chain A, Molecular Basis For The Recognition And Cleavage Of Rna
(Uuccgu) By The Bifunctional 5'-3' ExoENDORIBONUCLEASE
RNASE J
pdb|3T3O|A Chain A, Molecular Basis For The Recognition And Cleavage Of Rna
(Cugg) By The Bifunctional 5'-3' ExoENDORIBONUCLEASE
RNASE J
Length = 562
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 49/113 (43%), Gaps = 14/113 (12%)
Query: 4 IKVTPLGAGQDVGRSCILVSMGGKNIMLDCGMHMGYHDDRKFPDFKFIAPQGPVTDMID- 62
+++ PLG ++G++ + + +LD G+ + P + P+ V +I+
Sbjct: 18 VEIIPLGGMGEIGKNITVFRFRDEIFVLDGGLAF---PEEGMPGVDLLIPR--VDYLIEH 72
Query: 63 -----CLIISHFHLDHCGALPYFTEM-FGYAG--PIYMTHPTKAIAPILLEDF 107
+++H DH G LP+ M FG PIY T + LE+F
Sbjct: 73 RHKIKAWVLTHGAEDHIGGLPFLLPMIFGKESPVPIYGARLTLGLLRGKLEEF 125
>pdb|2QA2|A Chain A, Crystal Structure Of Cabe, An Aromatic Hydroxylase From
Angucycline Biosynthesis, Determined To 2.7 A Resolution
Length = 499
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 49/216 (22%), Positives = 70/216 (32%), Gaps = 51/216 (23%)
Query: 216 ESIECKLLLGTDGARSQVRNAMNVQYSNWSYDQKGIVATVK---ISTSPPNRTAWQRFTP 272
S+ + ++G DG RS VR A + S ++ +A ++ I+ P T P
Sbjct: 151 RSLTTRYVVGCDGGRSTVRKAAGFDFPGTSASREMFLADIRGCEITPRPIGET-----VP 205
Query: 273 SGTVALLPLSDEFSSLVWATTPENAKALLQMPGESFVDALNSEFNKPAELNESIQVATKF 332
G V PL D ++ A+ P E +
Sbjct: 206 LGMVMSAPLGDGVDRIIVCERGAPAR----------------RRTGPPPYQEVAAAWQRL 249
Query: 333 THNVLEFFNLSTGNEQVV-----PPRVMSVEEKSRAAFPLGFGHSVRYIGPGCALLGDSA 387
T ++S G V P R +S + R L GDSA
Sbjct: 250 TGQ-----DISHGEPVWVSAFGDPARQVSAYRRGR-----------------VLLAGDSA 287
Query: 388 HRIHPLAGQGVNLGFGDIACLVQLSAESVSNGYPIG 423
H P GQG+N+ D L A VS P G
Sbjct: 288 HVHLPAGGQGMNVSVQDSVNLGWKLAAVVSGRAPAG 323
>pdb|3ATQ|A Chain A, Geranylgeranyl Reductase (Ggr) From Sulfolobus
Acidocaldarius
pdb|3ATR|A Chain A, Geranylgeranyl Reductase (Ggr) From Sulfolobus
Acidocaldarius Co- Crystallized With Its Ligand
Length = 453
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 25/38 (65%), Gaps = 4/38 (10%)
Query: 510 QYDVVISGGGMIGTTLACAIAQNPTLKDLSILMIESGP 547
+YDV+I GGG G++ A +++ + L IL+++S P
Sbjct: 6 KYDVLIIGGGFAGSSAAYQLSR----RGLKILLVDSKP 39
>pdb|2VW8|A Chain A, Crystal Structure Of Quinolone Signal Response Protein
Pqse From Pseudomonas Aeruginosa
Length = 303
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 65 IISHFHLDHCGALPYF 80
+I+H H DHCG LPY
Sbjct: 68 LITHKHYDHCGLLPYL 83
>pdb|2Q0J|A Chain A, Structure Of Pseudomonas Quinolone Signal Response Protein
Pqse
pdb|2Q0J|B Chain B, Structure Of Pseudomonas Quinolone Signal Response Protein
Pqse
Length = 321
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 65 IISHFHLDHCGALPYF 80
+I+H H DHCG LPY
Sbjct: 86 LITHKHYDHCGLLPYL 101
>pdb|2Q0I|A Chain A, Structure Of Pseudomonas Quinolone Signal Response
Protein Pqse
Length = 303
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 65 IISHFHLDHCGALPYF 80
+I+H H DHCG LPY
Sbjct: 68 LITHKHYDHCGLLPYL 83
>pdb|3DH8|A Chain A, Structure Of Pseudomonas Quinolone Signal Response
Protein Pqse
Length = 303
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 65 IISHFHLDHCGALPYF 80
+I+H H DHCG LPY
Sbjct: 68 LITHKHYDHCGLLPYL 83
>pdb|3FMW|A Chain A, The Crystal Structure Of Mtmoiv, A Baeyer-Villiger
Monooxygenase From The Mithramycin Biosynthetic Pathway
In Streptomyces Argillaceus.
pdb|3FMW|B Chain B, The Crystal Structure Of Mtmoiv, A Baeyer-Villiger
Monooxygenase From The Mithramycin Biosynthetic Pathway
In Streptomyces Argillaceus.
pdb|3FMW|C Chain C, The Crystal Structure Of Mtmoiv, A Baeyer-Villiger
Monooxygenase From The Mithramycin Biosynthetic Pathway
In Streptomyces Argillaceus
Length = 570
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 18/35 (51%)
Query: 374 RYIGPGCALLGDSAHRIHPLAGQGVNLGFGDIACL 408
RY L GD+AH P+ GQG+N G D L
Sbjct: 318 RYRSGRVLLAGDAAHVHFPIGGQGLNTGLQDAVNL 352
>pdb|4HB9|A Chain A, Crystal Structure Of A Putative Fad Containing
Monooxygenase From Photorhabdus Luminescens Subsp.
Laumondii Tto1 (Target Psi-012791)
Length = 412
Score = 28.9 bits (63), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 371 HSVRYIGPGCALLGDSAHRIHPLAGQGVNLGFGDIACLVQLSAESVSNGY 420
H + + LLGD+ H P G G N D L Q A SV++G+
Sbjct: 304 HLLPWKSSTVTLLGDAIHNXTPXTGSGANTALRDALLLTQKLA-SVASGH 352
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 0.136 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,282,799
Number of Sequences: 62578
Number of extensions: 706707
Number of successful extensions: 2039
Number of sequences better than 100.0: 76
Number of HSP's better than 100.0 without gapping: 62
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1934
Number of HSP's gapped (non-prelim): 99
length of query: 595
length of database: 14,973,337
effective HSP length: 104
effective length of query: 491
effective length of database: 8,465,225
effective search space: 4156425475
effective search space used: 4156425475
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)