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= 025695
(249 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GMY|A Chain A, Cathepsin B Complexed With Dipeptidyl Nitrile Inhibitor
pdb|1GMY|B Chain B, Cathepsin B Complexed With Dipeptidyl Nitrile Inhibitor
pdb|1GMY|C Chain C, Cathepsin B Complexed With Dipeptidyl Nitrile Inhibitor
Length = 261
Score = 197 bits (500), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 104/240 (43%), Positives = 145/240 (60%), Gaps = 18/240 (7%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX--XXXXXXXXXXXYPISAWRY 72
QG CGSCWAFGAVEA+SDR CIH ++S+ V+ YP AW +
Sbjct: 24 QGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLLTCCGSMCGDGCNGGYPAEAWNF 83
Query: 73 FVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCVRKCVKK-NQLWR 118
+ G+V+ C PY C H P C TPKC + C + ++
Sbjct: 84 WTRKGLVSGGLYESHVGCRPY-SIPPCEHHVNGSRPPCTGEGDTPKCSKICEPGYSPTYK 142
Query: 119 NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAV 178
KHY ++Y +++ +DIMAEIYKNGPVE +F+VY DF YKSGVY+H+TG++MGGHA+
Sbjct: 143 QDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGEMMGGHAI 202
Query: 179 KLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSSKNLVKEI 238
+++GWG ++G YW++AN WN WG +G+FKI RG + CGIE +VVAG+P + ++I
Sbjct: 203 RILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQDHCGIESEVVAGIPRTDQYWEKI 261
>pdb|1PBH|A Chain A, Crystal Structure Of Human Recombinant Procathepsin B At
3.2 Angstrom Resolution
pdb|2PBH|A Chain A, Crystal Structure Of Human Procathepsin B At 3.3 Angstrom
Resolution
pdb|3PBH|A Chain A, Refined Crystal Structure Of Human Procathepsin B At 2.5
Angstrom Resolution
Length = 317
Score = 196 bits (499), Expect = 8e-51, Method: Compositional matrix adjust.
Identities = 103/233 (44%), Positives = 142/233 (60%), Gaps = 18/233 (7%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX--XXXXXXXXXXXYPISAWRY 72
QG CGSCWAFGAVEA+SDR CIH ++S+ V+ YP AW +
Sbjct: 86 QGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLLTCCGSMCGDGCNGGYPAEAWNF 145
Query: 73 FVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCVRKCVKK-NQLWR 118
+ G+V+ C PY C H P C TPKC + C + ++
Sbjct: 146 WTRKGLVSGGLYESHVGCRPY-SIPPCEHHVNGSRPPCTGEGDTPKCSKICEPGYSPTYK 204
Query: 119 NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAV 178
KHY ++Y +++ +DIMAEIYKNGPVE +F+VY DF YKSGVY+H+TG++MGGHA+
Sbjct: 205 QDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGEMMGGHAI 264
Query: 179 KLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSS 231
+++GWG ++G YW++AN WN WG +G+FKI RG + CGIE +VVAG+P +
Sbjct: 265 RILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQDHCGIESEVVAGIPRT 316
>pdb|1CTE|A Chain A, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B-Inhibitor Complex: Implications For
Structure- Based Inhibitor Design
pdb|1CTE|B Chain B, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B-Inhibitor Complex: Implications For
Structure- Based Inhibitor Design
Length = 254
Score = 196 bits (499), Expect = 9e-51, Method: Compositional matrix adjust.
Identities = 105/246 (42%), Positives = 144/246 (58%), Gaps = 18/246 (7%)
Query: 3 FTNSEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXXXXXXXXXXXX 60
++N + + QG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 11 WSNCPTIAQIRDQGSCGSCWAFGAVEAMSDRICIHTNGRVNVEVSAEDLLTCCGIQCGDG 70
Query: 61 XXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCV 107
YP AW ++ G+V+ C PY C H P C TPKC
Sbjct: 71 CNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPP-CEHHVNGARPPCTGEGDTPKCN 129
Query: 108 RKC-VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK 166
+ C + ++ KHY ++Y ++ ++IMAEIYKNGPVE +FTV+ DF YKSGVYK
Sbjct: 130 KMCEAGYSTSYKEDKHYGYTSYSVSDSEKEIMAEIYKNGPVEGAFTVFSDFLTYKSGVYK 189
Query: 167 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVA 226
H GDVMGGHA++++GWG ++G YW++AN WN WG +G+FKI RG N CGIE ++VA
Sbjct: 190 HEAGDVMGGHAIRILGWGI-ENGVPYWLVANSWNADWGDNGFFKILRGENHCGIESEIVA 248
Query: 227 GLPSSK 232
G+P ++
Sbjct: 249 GIPRTQ 254
>pdb|3AI8|B Chain B, Cathepsin B In Complex With The Nitroxoline
pdb|3AI8|A Chain A, Cathepsin B In Complex With The Nitroxoline
Length = 256
Score = 196 bits (498), Expect = 9e-51, Method: Compositional matrix adjust.
Identities = 103/233 (44%), Positives = 142/233 (60%), Gaps = 18/233 (7%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX--XXXXXXXXXXXYPISAWRY 72
QG CGSCWAFGAVEA+SDR CIH ++S+ V+ YP AW +
Sbjct: 25 QGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLLTCCGSMCGDGCNGGYPAEAWNF 84
Query: 73 FVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCVRKCVKK-NQLWR 118
+ G+V+ C PY C H P C TPKC + C + ++
Sbjct: 85 WTRKGLVSGGLYESHVGCRPY-SIPPCEHHVNGSRPPCTGEGDTPKCSKICEPGYSPTYK 143
Query: 119 NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAV 178
KHY ++Y +++ +DIMAEIYKNGPVE +F+VY DF YKSGVY+H+TG++MGGHA+
Sbjct: 144 QDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGEMMGGHAI 203
Query: 179 KLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSS 231
+++GWG ++G YW++AN WN WG +G+FKI RG + CGIE +VVAG+P +
Sbjct: 204 RILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQDHCGIESEVVAGIPRT 255
>pdb|1CPJ|A Chain A, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B-Inhibitor Complex: Implications For
Structure- Based Inhibitor Design
pdb|1CPJ|B Chain B, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B-Inhibitor Complex: Implications For
Structure- Based Inhibitor Design
pdb|1THE|A Chain A, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B- Inhibitor Complex: Implications For
Structure-Based Inhibitor Design
pdb|1THE|B Chain B, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B- Inhibitor Complex: Implications For
Structure-Based Inhibitor Design
Length = 260
Score = 196 bits (498), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 105/246 (42%), Positives = 144/246 (58%), Gaps = 18/246 (7%)
Query: 3 FTNSEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXXXXXXXXXXXX 60
++N + + QG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 17 WSNCPTIAQIRDQGSCGSCWAFGAVEAMSDRICIHTNGRVNVEVSAEDLLTCCGIQCGDG 76
Query: 61 XXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCV 107
YP AW ++ G+V+ C PY C H P C TPKC
Sbjct: 77 CNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPP-CEHHVNGARPPCTGEGDTPKCN 135
Query: 108 RKC-VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK 166
+ C + ++ KHY ++Y ++ ++IMAEIYKNGPVE +FTV+ DF YKSGVYK
Sbjct: 136 KMCEAGYSTSYKEDKHYGYTSYSVSDSEKEIMAEIYKNGPVEGAFTVFSDFLTYKSGVYK 195
Query: 167 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVA 226
H GDVMGGHA++++GWG ++G YW++AN WN WG +G+FKI RG N CGIE ++VA
Sbjct: 196 HEAGDVMGGHAIRILGWGI-ENGVPYWLVANSWNADWGDNGFFKILRGENHCGIESEIVA 254
Query: 227 GLPSSK 232
G+P ++
Sbjct: 255 GIPRTQ 260
>pdb|3K9M|A Chain A, Cathepsin B In Complex With Stefin A
pdb|3K9M|B Chain B, Cathepsin B In Complex With Stefin A
Length = 254
Score = 196 bits (498), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 103/233 (44%), Positives = 142/233 (60%), Gaps = 18/233 (7%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX--XXXXXXXXXXXYPISAWRY 72
QG CGSCWAFGAVEA+SDR CIH ++S+ V+ YP AW +
Sbjct: 23 QGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLLTCCGSMCGDGCNGGYPAEAWNF 82
Query: 73 FVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCVRKCVKK-NQLWR 118
+ G+V+ C PY C H P C TPKC + C + ++
Sbjct: 83 WTRKGLVSGGLYESHVGCRPY-SIPPCEHHVNGSRPPCTGEGDTPKCSKICEPGYSPTYK 141
Query: 119 NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAV 178
KHY ++Y +++ +DIMAEIYKNGPVE +F+VY DF YKSGVY+H+TG++MGGHA+
Sbjct: 142 QDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGEMMGGHAI 201
Query: 179 KLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSS 231
+++GWG ++G YW++AN WN WG +G+FKI RG + CGIE +VVAG+P +
Sbjct: 202 RILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQDHCGIESEVVAGIPRT 253
>pdb|3CBJ|A Chain A, Chagasin-cathepsin B Complex
pdb|3CBK|A Chain A, Chagasin-Cathepsin B
Length = 266
Score = 194 bits (492), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 102/239 (42%), Positives = 144/239 (60%), Gaps = 16/239 (6%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX--XXXXXXXXXXXYPISAWRY 72
QG CGS WAFGAVEA+SDR CIH ++S+ V+ YP AW +
Sbjct: 29 QGSCGSAWAFGAVEAISDRICIHTNAHVSVEVSAEDLLTCCGSMCGDGCNGGYPAEAWNF 88
Query: 73 FVHHGVVTEE-------CDPYFDSTGCSH-----PGCEPAYPTPKCVRKCVKK-NQLWRN 119
+ G+V+ C PY +H P C TPKC + C + ++
Sbjct: 89 WTRKGLVSGGLYESHVGCRPYSIPPCEAHVNGARPPCTGEGDTPKCSKICEPGYSPTYKQ 148
Query: 120 SKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVK 179
KHY ++Y +++ +DIMAEIYKNGPVE +F+VY DF YKSGVY+H+TG++MGGHA++
Sbjct: 149 DKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGEMMGGHAIR 208
Query: 180 LIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSSKNLVKEI 238
++GWG ++G YW++AN WN WG +G+FKI RG + CGIE +VVAG+P + ++I
Sbjct: 209 ILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQDHCGIESEVVAGIPRTDQYWEKI 266
>pdb|1MIR|A Chain A, Rat Procathepsin B
pdb|1MIR|B Chain B, Rat Procathepsin B
Length = 322
Score = 192 bits (487), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 104/246 (42%), Positives = 143/246 (58%), Gaps = 18/246 (7%)
Query: 3 FTNSEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXXXXXXXXXXXX 60
++N + + QG CGS WAFGAVEA+SDR CIH +N+ +S
Sbjct: 73 WSNCPTIAQIRDQGSCGSSWAFGAVEAMSDRICIHTNGRVNVEVSAEDLLTCCGIQCGDG 132
Query: 61 XXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCV 107
YP AW ++ G+V+ C PY C H P C TPKC
Sbjct: 133 CNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPP-CEHHVNGARPPCTGEGDTPKCN 191
Query: 108 RKC-VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK 166
+ C + ++ KHY ++Y ++ ++IMAEIYKNGPVE +FTV+ DF YKSGVYK
Sbjct: 192 KMCEAGYSTSYKEDKHYGYTSYSVSDSEKEIMAEIYKNGPVEGAFTVFSDFLTYKSGVYK 251
Query: 167 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVA 226
H GDVMGGHA++++GWG ++G YW++AN WN WG +G+FKI RG N CGIE ++VA
Sbjct: 252 HEAGDVMGGHAIRILGWGI-ENGVPYWLVANSWNADWGDNGFFKILRGENHCGIESEIVA 310
Query: 227 GLPSSK 232
G+P ++
Sbjct: 311 GIPRTQ 316
>pdb|1QDQ|A Chain A, X-Ray Crystal Structure Of Bovine Cathepsin B-Ca074
Complex
Length = 253
Score = 191 bits (486), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 100/245 (40%), Positives = 145/245 (59%), Gaps = 18/245 (7%)
Query: 3 FTNSEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXXXXXXXXXXXX 60
+ N ++ + QG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 11 WPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHSNGRVNVEVSAEDMLTCCGGECGDG 70
Query: 61 XXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCV 107
P AW ++ G+V+ C PY C H P C TPKC
Sbjct: 71 CNGGEPSGAWNFWTKKGLVSGGLYNSHVGCRPY-SIPPCEHHVNGSRPPCTGEGDTPKCS 129
Query: 108 RKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK 166
+ C + ++ KH+ S+Y + ++ ++IMAEIYKNGPVE +F+VY DF YKSGVY+
Sbjct: 130 KTCEPGYSPSYKEDKHFGCSSYSVANNEKEIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQ 189
Query: 167 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVA 226
H++G++MGGHA++++GWG ++G YW++AN WN WG +G+FKI RG + CGIE ++VA
Sbjct: 190 HVSGEIMGGHAIRILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQDHCGIESEIVA 248
Query: 227 GLPSS 231
G+P +
Sbjct: 249 GMPCT 253
>pdb|1ITO|A Chain A, Crystal Structure Analysis Of Bovine Spleen Cathepsin B-
E64c Complex
pdb|2DC6|A Chain A, X-ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-ca073 Complex
pdb|2DC7|A Chain A, X-ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-ca042 Complex
pdb|2DC8|A Chain A, X-ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-ca059 Complex
pdb|2DC9|A Chain A, X-Ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-Ca074me Complex
pdb|2DCA|A Chain A, X-ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-ca075 Complex
pdb|2DCB|A Chain A, X-Ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-Ca076 Complex
pdb|2DCC|A Chain A, X-Ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-Ca077 Complex
pdb|2DCD|A Chain A, X-Ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-Ca078 Complex
Length = 256
Score = 191 bits (486), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 99/245 (40%), Positives = 145/245 (59%), Gaps = 18/245 (7%)
Query: 3 FTNSEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXXXXXXXXXXXX 60
+ N ++ + QG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 11 WPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHSNGRVNVEVSAEDMLTCCGGECGDG 70
Query: 61 XXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCV 107
+P AW ++ G+V+ C PY C H P C TPKC
Sbjct: 71 CNGGFPSGAWNFWTKKGLVSGGLYNSHVGCRPY-SIPPCEHHVNGSRPPCTGEGDTPKCS 129
Query: 108 RKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK 166
+ C + ++ KH+ S+Y + ++ ++IMAEIYKNGPVE +F+VY DF YKSGVY+
Sbjct: 130 KTCEPGYSPSYKEDKHFGCSSYSVANNEKEIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQ 189
Query: 167 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVA 226
H++G++MGGHA++++GWG ++G YW++ N WN WG +G+FKI RG + CGIE ++VA
Sbjct: 190 HVSGEIMGGHAIRILGWGV-ENGTPYWLVGNSWNTDWGDNGFFKILRGQDHCGIESEIVA 248
Query: 227 GLPSS 231
G+P +
Sbjct: 249 GMPCT 253
>pdb|3QSD|A Chain A, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With Ca074 Inhibitor
pdb|3S3Q|A Chain A, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11017 Inhibitor
pdb|3S3R|A Chain A, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11777 Inhibitor
pdb|3S3R|B Chain B, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11777 Inhibitor
pdb|3S3R|C Chain C, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11777 Inhibitor
Length = 254
Score = 180 bits (456), Expect = 8e-46, Method: Compositional matrix adjust.
Identities = 103/236 (43%), Positives = 134/236 (56%), Gaps = 20/236 (8%)
Query: 9 VEILVIQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLS-VNXXXXXXXXXXXXXXXXXY 65
+ + Q CGSCWAFGAVEA+SDR CI G N+ LS V+
Sbjct: 19 IATIRDQSRCGSCWAFGAVEAMSDRSCIQSGGKQNVELSAVDLLSCCESCGLGCEGGILG 78
Query: 66 PISAWRYFVHHGVVTEE-------CDPY-----FDSTGCSHPGC-EPAYPTPKCVRKCVK 112
P AW Y+V G+VT C+PY T +P C Y TP+C + C K
Sbjct: 79 P--AWDYWVKEGIVTGSSKENHAGCEPYPFPKCEHHTKGKYPPCGSKIYKTPRCKQTCQK 136
Query: 113 KNQL-WRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGD 171
K + + KH S+Y + +D + I EI K GPVE FTVYEDF +YKSG+YKHITG+
Sbjct: 137 KYKTPYTQDKHRGKSSYNVKNDEKAIQKEIMKYGPVEAGFTVYEDFLNYKSGIYKHITGE 196
Query: 172 VMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAG 227
+GGHA+++IGWG + YW++AN WN WG +GYF+I RG +EC IE +V AG
Sbjct: 197 TLGGHAIRIIGWGVENKA-PYWLIANSWNEDWGENGYFRIVRGRDECSIESEVTAG 251
>pdb|3MOR|A Chain A, Crystal Structure Of Cathepsin B From Trypanosoma Brucei
pdb|3MOR|B Chain B, Crystal Structure Of Cathepsin B From Trypanosoma Brucei
Length = 317
Score = 162 bits (410), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 94/237 (39%), Positives = 123/237 (51%), Gaps = 12/237 (5%)
Query: 5 NSEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXX 64
N + + Q CGSCWA A A+SDRFC G+
Sbjct: 83 NCPTIPQIADQSACGSCWAVAAASAMSDRFCTMGGVQDVHISAGDLLACCSDCGDGCNGG 142
Query: 65 YPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYP--------TPKCVRKCVKKNQL 116
P AW YF G+V++ C PY H + YP TPKC C
Sbjct: 143 DPDRAWAYFSSTGLVSDYCQPYPFPHCSHHSKSKNGYPPCSQFNFDTPKCNYTCDDPTIP 202
Query: 117 WRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGH 176
N + S ++Y + + +D M E++ GP EV+F VYEDF Y SGVY H++G +GGH
Sbjct: 203 VVNYR--SWTSYALQGE-DDYMRELFFRGPFEVAFDVYEDFIAYNSGVYHHVSGQYLGGH 259
Query: 177 AVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSSKN 233
AV+L+GWGTS +G YW +AN WN WG DGYF I+RGS+ECGIE+ AG+P + N
Sbjct: 260 AVRLVGWGTS-NGVPYWKIANSWNTEWGMDGYFLIRRGSSECGIEDGGSAGIPLAPN 315
>pdb|3HHI|A Chain A, Crystal Structure Of Cathepsin B From T. Brucei In Complex
With Ca074
pdb|3HHI|B Chain B, Crystal Structure Of Cathepsin B From T. Brucei In Complex
With Ca074
Length = 325
Score = 162 bits (409), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 94/237 (39%), Positives = 123/237 (51%), Gaps = 12/237 (5%)
Query: 5 NSEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXX 64
N + + Q CGSCWA A A+SDRFC G+
Sbjct: 84 NCPTIPQIADQSACGSCWAVAAASAMSDRFCTMGGVQDVHISAGDLLACCSDCGDGCNGG 143
Query: 65 YPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYP--------TPKCVRKCVKKNQL 116
P AW YF G+V++ C PY H + YP TPKC C
Sbjct: 144 DPDRAWAYFSSTGLVSDYCQPYPFPHCSHHSKSKNGYPPCSQFNFDTPKCDYTCDDPTIP 203
Query: 117 WRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGH 176
N + S ++Y + + +D M E++ GP EV+F VYEDF Y SGVY H++G +GGH
Sbjct: 204 VVNYR--SWTSYALQGE-DDYMRELFFRGPFEVAFDVYEDFIAYNSGVYHHVSGQYLGGH 260
Query: 177 AVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSSKN 233
AV+L+GWGTS +G YW +AN WN WG DGYF I+RGS+ECGIE+ AG+P + N
Sbjct: 261 AVRLVGWGTS-NGVPYWKIANSWNTEWGMDGYFLIRRGSSECGIEDGGSAGIPLAPN 316
>pdb|4HWY|A Chain A, Trypanosoma Brucei Procathepsin B Solved From 40 Fs
Free-electron Laser Pulse Data By Serial Femtosecond
X-ray Crystallography
Length = 340
Score = 162 bits (409), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 94/237 (39%), Positives = 123/237 (51%), Gaps = 12/237 (5%)
Query: 5 NSEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXX 64
N + + Q CGSCWA A A+SDRFC G+
Sbjct: 106 NCPTIPQIADQSACGSCWAVAAASAMSDRFCTMGGVQDVHISAGDLLACCSDCGDGCNGG 165
Query: 65 YPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYP--------TPKCVRKCVKKNQL 116
P AW YF G+V++ C PY H + YP TPKC C
Sbjct: 166 DPDRAWAYFSSTGLVSDYCQPYPFPHCSHHSKSKNGYPPCSQFNFDTPKCNYTCDDPTIP 225
Query: 117 WRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGH 176
N + S ++Y + + +D M E++ GP EV+F VYEDF Y SGVY H++G +GGH
Sbjct: 226 VVNYR--SWTSYALQGE-DDYMRELFFRGPFEVAFDVYEDFIAYNSGVYHHVSGQYLGGH 282
Query: 177 AVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSSKN 233
AV+L+GWGTS +G YW +AN WN WG DGYF I+RGS+ECGIE+ AG+P + N
Sbjct: 283 AVRLVGWGTS-NGVPYWKIANSWNTEWGMDGYFLIRRGSSECGIEDGGSAGIPLAPN 338
>pdb|1HUC|B Chain B, The Refined 2.15 Angstroms X-Ray Crystal Structure Of
Human Liver Cathepsin B: The Structural Basis For Its
Specificity
pdb|1HUC|D Chain D, The Refined 2.15 Angstroms X-Ray Crystal Structure Of
Human Liver Cathepsin B: The Structural Basis For Its
Specificity
pdb|1CSB|B Chain B, Crystal Structure Of Cathepsin B Inhibited With Ca030 At
2.1 Angstroms Resolution: A Basis For The Design Of
Specific Epoxysuccinyl Inhibitors
pdb|1CSB|E Chain E, Crystal Structure Of Cathepsin B Inhibited With Ca030 At
2.1 Angstroms Resolution: A Basis For The Design Of
Specific Epoxysuccinyl Inhibitors
pdb|2IPP|B Chain B, Crystal Structure Of The Tetragonal Form Of Human Liver
Cathepsin B
Length = 205
Score = 160 bits (406), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 81/181 (44%), Positives = 115/181 (63%), Gaps = 16/181 (8%)
Query: 65 YPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCVRKCV 111
YP AW ++ G+V+ C PY C H P C TPKC + C
Sbjct: 26 YPAEAWNFWTRKGLVSGGLYESHVGCRPY-SIPPCEHHVNGSRPPCTGEGDTPKCSKICE 84
Query: 112 KK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITG 170
+ ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+VY DF YKSGVY+H+TG
Sbjct: 85 PGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTG 144
Query: 171 DVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPS 230
++MGGHA++++GWG ++G YW++AN WN WG +G+FKI RG + CGIE +VVAG+P
Sbjct: 145 EMMGGHAIRILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQDHCGIESEVVAGIPR 203
Query: 231 S 231
+
Sbjct: 204 T 204
>pdb|1SP4|B Chain B, Crystal Structure Of Ns-134 In Complex With Bovine
Cathepsin B: A Two Headed Epoxysuccinyl Inhibitor
Extends Along The Whole Active Site Cleft
Length = 205
Score = 155 bits (391), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 76/181 (41%), Positives = 114/181 (62%), Gaps = 16/181 (8%)
Query: 65 YPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGCEPAYPTPKCVRKCV 111
+P AW ++ G+V+ C PY C H P C TPKC + C
Sbjct: 27 FPSGAWNFWTKKGLVSGGLYNSHVGCRPY-SIPPCEHHVNGSRPPCTGEGDTPKCNKTCE 85
Query: 112 KK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITG 170
+ ++ KH+ S+Y + ++ ++IMAEIYKNGPVE +F+VY DF YKSGVY+H++G
Sbjct: 86 PGYSPSYKEDKHFGCSSYSVANNEKEIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVSG 145
Query: 171 DVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPS 230
++MGGHA++++GWG ++G YW++ N WN WG +G+FKI RG + CGIE ++VAG+P
Sbjct: 146 EIMGGHAIRILGWGV-ENGTPYWLVGNSWNTDWGDNGFFKILRGQDHCGIESEIVAGMPC 204
Query: 231 S 231
+
Sbjct: 205 T 205
>pdb|3PDF|A Chain A, Discovery Of Novel Cyanamide-Based Inhibitors Of Cathepsin
C
Length = 441
Score = 107 bits (268), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 73/229 (31%), Positives = 109/229 (47%), Gaps = 29/229 (12%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYP-ISAWRYF 73
Q CGSC++F ++ L R I + + ++ +P + A +Y
Sbjct: 228 QASCGSCYSFASMGMLEARIRILTNNSQTPILSPQEVVSCSQYAQGCEGGFPYLIAGKYA 287
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWR--NSKHYSISAYRIN 131
G+V E C PY TG P C K +R +S+++ + +
Sbjct: 288 QDFGLVEEACFPY---TGTDSP--------------CKMKEDCFRYYSSEYHYVGGFYGG 330
Query: 132 SDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDV-------MGGHAVKLIGWG 184
+ + E+ +GP+ V+F VY+DF HYK G+Y H TG + HAV L+G+G
Sbjct: 331 CNEALMKLELVHHGPMAVAFEVYDDFLHYKKGIYHH-TGLRDPFNPFELTNHAVLLVGYG 389
Query: 185 T-SDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSSK 232
T S G DYWI+ N W WG +GYF+I+RG++EC IE VA P K
Sbjct: 390 TDSASGMDYWIVKNSWGTGWGENGYFRIRRGTDECAIESIAVAATPIPK 438
>pdb|1JQP|A Chain A, Dipeptidyl Peptidase I (Cathepsin C), A Tetrameric
Cysteine Protease Of The Papain Family
Length = 438
Score = 102 bits (254), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 70/227 (30%), Positives = 108/227 (47%), Gaps = 25/227 (11%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYP-ISAWRYF 73
Q CGSC++F ++ L R I + + ++ +P + A +Y
Sbjct: 227 QESCGSCYSFASLGMLEARIRILTNNSQTPILSPQEVVSCSPYAQGCDGGFPYLIAGKYA 286
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
GVV E C PY + P P C+R + +S++Y + + +
Sbjct: 287 QDFGVVEENCFPYTATDA-------PCKPKENCLR--------YYSSEYYYVGGFYGGCN 331
Query: 134 PEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDV-------MGGHAVKLIGWGTS 186
+ E+ K+GP+ V+F V++DF HY SG+Y H TG + HAV L+G+G
Sbjct: 332 EALMKLELVKHGPMAVAFEVHDDFLHYHSGIYHH-TGLSDPFNPFELTNHAVLLVGYGKD 390
Query: 187 D-DGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSSK 232
G DYWI+ N W WG GYF+I+RG++EC IE +A +P K
Sbjct: 391 PVTGLDYWIVKNSWGSQWGESGYFRIRRGTDECAIESIAMAAIPIPK 437
>pdb|1EF7|A Chain A, Crystal Structure Of Human Cathepsin X
pdb|1EF7|B Chain B, Crystal Structure Of Human Cathepsin X
Length = 242
Score = 88.6 bits (218), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 58/202 (28%), Positives = 83/202 (41%), Gaps = 15/202 (7%)
Query: 14 IQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYF 73
I +CGSCWA + A++DR I ++ +S W Y
Sbjct: 24 IPQYCGSCWAHASTSAMADRINIKRKGAWPSTLLSVQNVIDCGNAGSCEGGNDLSVWDYA 83
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKC--VRKC--VKKNQLWRNSKHYSISAYR 129
HG+ E C+ Y C+ C ++C ++ LWR + S+S
Sbjct: 84 HQHGIPDETCNNY----QAKDQECDKFNQCGTCNEFKECHAIRNYTLWRVGDYGSLSG-- 137
Query: 130 INSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDG 189
E +MAEIY NGP+ E A+Y G+Y H V + GWG S DG
Sbjct: 138 ----REKMMAEIYANGPISCGIMATERLANYTGGIYAEYQDTTYINHVVSVAGWGIS-DG 192
Query: 190 EDYWILANQWNRSWGADGYFKI 211
+YWI+ N W WG G+ +I
Sbjct: 193 TEYWIVRNSWGEPWGERGWLRI 214
>pdb|1DEU|A Chain A, Crystal Structure Of Human Procathepsin X: A Cysteine
Protease With The Proregion Covalently Linked To The
Active Site Cysteine
pdb|1DEU|B Chain B, Crystal Structure Of Human Procathepsin X: A Cysteine
Protease With The Proregion Covalently Linked To The
Active Site Cysteine
Length = 277
Score = 88.2 bits (217), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 58/202 (28%), Positives = 83/202 (41%), Gaps = 15/202 (7%)
Query: 14 IQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYF 73
I +CGSCWA + A++DR I ++ +S W Y
Sbjct: 59 IPQYCGSCWAHASTSAMADRINIKRKGAWPSTLLSVQNVIDCGNAGSCEGGNDLSVWDYA 118
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKC--VRKC--VKKNQLWRNSKHYSISAYR 129
HG+ E C+ Y C+ C ++C ++ LWR + S+S
Sbjct: 119 HQHGIPDETCNNY----QAKDQECDKFNQCGTCNEFKECHAIRNYTLWRVGDYGSLSGR- 173
Query: 130 INSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDG 189
E +MAEIY NGP+ E A+Y G+Y H V + GWG S DG
Sbjct: 174 -----EKMMAEIYANGPISCGIMATERLANYTGGIYAEYQDTTYINHVVSVAGWGIS-DG 227
Query: 190 EDYWILANQWNRSWGADGYFKI 211
+YWI+ N W WG G+ +I
Sbjct: 228 TEYWIVRNSWGEPWGERGWLRI 249
>pdb|8PCH|A Chain A, Crystal Structure Of Porcine Cathepsin H Determined At 2.1
Angstrom Resolution: Location Of The Mini-Chain
C-Terminal Carboxyl Group Defines Cathepsin H
Aminopeptidase Function
pdb|1NB3|A Chain A, Crystal Structure Of Stefin A In Complex With Cathepsin H:
N-Terminal Residues Of Inhibitors Can Adapt To The
Active Sites Of Endo-And Exopeptidases
pdb|1NB3|B Chain B, Crystal Structure Of Stefin A In Complex With Cathepsin H:
N-Terminal Residues Of Inhibitors Can Adapt To The
Active Sites Of Endo-And Exopeptidases
pdb|1NB3|C Chain C, Crystal Structure Of Stefin A In Complex With Cathepsin H:
N-Terminal Residues Of Inhibitors Can Adapt To The
Active Sites Of Endo-And Exopeptidases
pdb|1NB3|D Chain D, Crystal Structure Of Stefin A In Complex With Cathepsin H:
N-Terminal Residues Of Inhibitors Can Adapt To The
Active Sites Of Endo-And Exopeptidases
pdb|1NB5|A Chain A, Crystal Structure Of Stefin A In Complex With Cathepsin H
pdb|1NB5|B Chain B, Crystal Structure Of Stefin A In Complex With Cathepsin H
pdb|1NB5|C Chain C, Crystal Structure Of Stefin A In Complex With Cathepsin H
pdb|1NB5|D Chain D, Crystal Structure Of Stefin A In Complex With Cathepsin H
Length = 220
Score = 81.6 bits (200), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 60/211 (28%), Positives = 89/211 (42%), Gaps = 26/211 (12%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCW F AL I G LSL+ P A+ Y
Sbjct: 20 QGSCGSCWTFSTTGALESAVAIATGKMLSLAEQQLVDCAQNFNNHGCQGGLPSQAFEYIR 79
Query: 75 HH-GVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
++ G++ E+ PY C + K ++ + +++ D
Sbjct: 80 YNKGIMGEDTYPYKGQDD-------------HCKFQPDKAIAFVKDVANITMN------D 120
Query: 134 PEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK----HITGDVMGGHAVKLIGWGTSDDG 189
E ++ + PV +F V DF Y+ G+Y H T D + HAV +G+G ++G
Sbjct: 121 EEAMVEAVALYNPVSFAFEVTNDFLMYRKGIYSSTSCHKTPDKVN-HAVLAVGYG-EENG 178
Query: 190 EDYWILANQWNRSWGADGYFKIKRGSNECGI 220
YWI+ N W WG +GYF I+RG N CG+
Sbjct: 179 IPYWIVKNSWGPQWGMNGYFLIERGKNMCGL 209
>pdb|3QJ3|A Chain A, Structure Of Digestive Procathepsin L2 Proteinase From
Tenebrio Molitor Larval Midgut
pdb|3QJ3|B Chain B, Structure Of Digestive Procathepsin L2 Proteinase From
Tenebrio Molitor Larval Midgut
Length = 331
Score = 81.3 bits (199), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 69/221 (31%), Positives = 100/221 (45%), Gaps = 29/221 (13%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF + A+ + I G SV+ + A+ Y
Sbjct: 134 QGSCGSSWAFSSTGAIESQMKIANGAGYDSSVSEQQLVDCVPNALGCSGGWMNDAFTYVA 193
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKC-VKKNQLWRNSKHYSISAYRINSD 133
+G + DS G AYP C NQ+ +S Y S
Sbjct: 194 QNGGI--------DSEG--------AYPYEMADGNCHYDPNQV-----AARLSGYVYLSG 232
Query: 134 P-EDIMAE-IYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMG-GHAVKLIGWGTSDDGE 190
P E+++A+ + GPV V+F + F Y GVY + T + HAV ++G+G +++G+
Sbjct: 233 PDENMLADMVATKGPVAVAFDADDPFGSYSGGVYYNPTCETNKFTHAVLIVGYG-NENGQ 291
Query: 191 DYWILANQWNRSWGADGYFKIKRGSNE-CGIEEDVVAGLPS 230
DYW++ N W WG DGYFKI R +N CGI VA +P+
Sbjct: 292 DYWLVKNSWGDGWGLDGYFKIARNANNHCGIAG--VASVPT 330
>pdb|1AEC|A Chain A, Crystal Structure Of Actinidin-E-64 Complex+
Length = 218
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 64/222 (28%), Positives = 97/222 (43%), Gaps = 33/222 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CG CWAF A+ + I G+ +SLS Y +++ +
Sbjct: 19 QGECGGCWAFSAIATVEGINKIVTGVLISLSEQELIDCGRTQNTRGCNGGYITDGFQFII 78
Query: 75 HHG-VVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR-INS 132
++G + TEE PY G +C N +N K+ +I Y +
Sbjct: 79 NNGGINTEENYPYTAQDG-----------------EC---NVDLQNEKYVTIDTYENVPY 118
Query: 133 DPEDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGED 191
+ E + PV V+ D F Y SG++ G + HAV ++G+GT + G D
Sbjct: 119 NNEWALQTAVTYQPVSVALDAAGDAFKQYSSGIFTGPCGTAID-HAVTIVGYGT-EGGID 176
Query: 192 YWILANQWNRSWGADGYFKIKR---GSNECGIEEDVVAGLPS 230
YWI+ N W+ +WG +GY +I R G+ CGI A +PS
Sbjct: 177 YWIVKNSWDTTWGEEGYMRILRNVGGAGTCGI-----ATMPS 213
>pdb|3P5W|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi)
Length = 220
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 58/211 (27%), Positives = 91/211 (43%), Gaps = 26/211 (12%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF + A+ I G +SLS + +++ +
Sbjct: 19 QGQCGSCWAFSTIAAVEGINKIATGDLISLSEQELVDCGRTQNTRGCDGGFMTDGFQFII 78
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR-INSD 133
++G + E + YP +C N + K+ SI Y + +
Sbjct: 79 NNGGINTEAN----------------YPYTAEEGQC---NLDLQQEKYVSIDTYENVPYN 119
Query: 134 PEDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDY 192
E + PV V+ +F HY SG++ G + HAV ++G+GT + G DY
Sbjct: 120 NEWALQTAVAYQPVSVALEAAGYNFQHYSSGIFTGPCGTAVD-HAVTIVGYGT-EGGIDY 177
Query: 193 WILANQWNRSWGADGYFKIKR---GSNECGI 220
WI+ N W +WG +GY +I+R G +CGI
Sbjct: 178 WIVKNSWGTTWGEEGYMRIQRNVGGVGQCGI 208
>pdb|1CQD|A Chain A, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinale
pdb|1CQD|B Chain B, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinale
pdb|1CQD|C Chain C, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinale
pdb|1CQD|D Chain D, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinale
Length = 221
Score = 72.0 bits (175), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 60/213 (28%), Positives = 93/213 (43%), Gaps = 32/213 (15%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF V A+ I G +SLS P A+++ V
Sbjct: 21 QGGCGSCWAFSTVAAVEGINQIVTGDLISLSEQQLVDCTTANHGCRGGWMNP--AFQFIV 78
Query: 75 HHG-VVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR-INS 132
++G + +EE PY G C P SI +Y + S
Sbjct: 79 NNGGINSEETYPYRGQDGI----CNSTVNAPVV-----------------SIDSYENVPS 117
Query: 133 DPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGED 191
E + + N PV V+ DF Y+SG++ + ++ HA+ ++G+GT +D +D
Sbjct: 118 HNEQSLQKAVANQPVSVTMDAAGRDFQLYRSGIFTG-SCNISANHALTVVGYGTEND-KD 175
Query: 192 YWILANQWNRSWGADGYFKIKRG----SNECGI 220
+WI+ N W ++WG GY + +R +CGI
Sbjct: 176 FWIVKNSWGKNWGESGYIRAERNIENPDGKCGI 208
>pdb|3P5U|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi)
pdb|3P5V|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi)
pdb|3P5X|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi)
Length = 220
Score = 71.6 bits (174), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 57/211 (27%), Positives = 90/211 (42%), Gaps = 26/211 (12%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF + A+ I G +SLS + +++ +
Sbjct: 19 QGQCGSXWAFSTIAAVEGINKIATGDLISLSEQELVDCGRTQNTRGCDGGFMTDGFQFII 78
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR-INSD 133
++G + E + YP +C N + K+ SI Y + +
Sbjct: 79 NNGGINTEAN----------------YPYTAEEGQC---NLDLQQEKYVSIDTYENVPYN 119
Query: 134 PEDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDY 192
E + PV V+ +F HY SG++ G + HAV ++G+GT + G DY
Sbjct: 120 NEWALQTAVAYQPVSVALEAAGYNFQHYSSGIFTGPCGTAVD-HAVTIVGYGT-EGGIDY 177
Query: 193 WILANQWNRSWGADGYFKIKR---GSNECGI 220
WI+ N W +WG +GY +I+R G +CGI
Sbjct: 178 WIVKNSWGTTWGEEGYMRIQRNVGGVGQCGI 208
>pdb|2O6X|A Chain A, Crystal Structure Of Procathepsin L1 From Fasciola
Hepatica
Length = 310
Score = 71.6 bits (174), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 61/218 (27%), Positives = 89/218 (40%), Gaps = 26/218 (11%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG+CGS WAF + ++ + ++S S +A++Y
Sbjct: 110 QGNCGSGWAFSTTGTMEGQYMKNERTSISFSEQQLVDCSRPWGNNGCGGGLMENAYQYLK 169
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDP 134
G+ TE PY G +C QL Y ++S
Sbjct: 170 QFGLETESSYPYTAVEG-----------------QCRYNKQL---GVAKVTGFYTVHSGS 209
Query: 135 E-DIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHIT-GDVMGGHAVKLIGWGTSDDGEDY 192
E ++ + GP V+ V DF Y+SG+Y+ T + HAV +G+GT G DY
Sbjct: 210 EVELKNLVGAEGPAAVAVDVESDFMMYRSGIYQSQTCSPLRVNHAVLAVGYGTQG-GTDY 268
Query: 193 WILANQWNRSWGADGYFKIKRG-SNECGIEEDVVAGLP 229
WI+ N W SWG GY ++ R N CGI +A LP
Sbjct: 269 WIVKNSWGLSWGERGYIRMVRNRGNMCGIAS--LASLP 304
>pdb|3QT4|A Chain A, Structure Of Digestive Procathepsin L 3 Of Tenebrio
Molitor Larval Midgut
Length = 329
Score = 70.9 bits (172), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 55/217 (25%), Positives = 88/217 (40%), Gaps = 22/217 (10%)
Query: 6 SEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXY 65
S V + QG CGS W+F A+ + + G SLS +
Sbjct: 124 SNAVSEVKDQGQCGSSWSFSTTGAVEGQLALQRGRLTSLSEQNLIDCSSSYGNAGCDGGW 183
Query: 66 PISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSI 125
SA+ Y +G+++E PY G + + + V S +Y +
Sbjct: 184 MDSAFSYIHDYGIMSESAYPY------EAQGDYCRFDSSQSVTTL---------SGYYDL 228
Query: 126 SAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGV-YKHITGDVMGGHAVKLIGWG 184
+ D + + + GPV V+ ++ Y G+ Y H V ++G+G
Sbjct: 229 PS----GDENSLADAVGQAGPVAVAIDATDELQFYSGGLFYDQTCNQSDLNHGVLVVGYG 284
Query: 185 TSDDGEDYWILANQWNRSWGADGYFK-IKRGSNECGI 220
SD+G+DYWIL N W WG GY++ ++ N CGI
Sbjct: 285 -SDNGQDYWILKNSWGSGWGESGYWRQVRNYGNNCGI 320
>pdb|3D6S|A Chain A, Crystal Structure Of Mite Allergen Der F 1
pdb|3D6S|B Chain B, Crystal Structure Of Mite Allergen Der F 1
pdb|3D6S|C Chain C, Crystal Structure Of Mite Allergen Der F 1
pdb|3RVV|A Chain A, Crystal Structure Of Der F 1 Complexed With Fab 4c1
Length = 223
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 60/220 (27%), Positives = 86/220 (39%), Gaps = 32/220 (14%)
Query: 9 VEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPIS 68
V + +QG CGSCWAF V A + + +L LS I
Sbjct: 23 VTPIRMQGGCGSCWAFSGVAATESAYLAYRNTSLDLSEQELVDCASQHGCHGDTIPRGIE 82
Query: 69 AWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAY 128
Y +GVV E PY +C R NS+HY IS Y
Sbjct: 83 ---YIQQNGVVEERSYPYVARE-------------QRCRRP---------NSQHYGISNY 117
Query: 129 RINSDPE-----DIMAEIYKNGPVEVSFTVYEDFAHYK-SGVYKHITGDVMGGHAVKLIG 182
P+ + + + + V + F HY + +H G HAV ++G
Sbjct: 118 CQIYPPDVKQIREALTQTHTAIAVIIGIKDLRAFQHYDGRTIIQHDNGYQPNYHAVNIVG 177
Query: 183 WGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEE 222
+G S G+DYWI+ N W+ +WG GY + G+N IE+
Sbjct: 178 YG-STQGDDYWIVRNSWDTTWGDSGYGYFQAGNNLMMIEQ 216
>pdb|3OVX|A Chain A, Cathepsin S In Complex With A Covalent Inhibitor With An
Aldehyde Warhead
pdb|3OVX|B Chain B, Cathepsin S In Complex With A Covalent Inhibitor With An
Aldehyde Warhead
Length = 218
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 59/213 (27%), Positives = 95/213 (44%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+CWAF AV AL + + G +SLS N + +A++Y
Sbjct: 20 QGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 79
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 80 I-------------DNKGIDS---DASYPYKAMDQKC------QYDSKYRAATCSKYTEL 117
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 118 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDL-N 176
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 177 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 209
>pdb|3N3G|A Chain A, 4-(3-Trifluoromethylphenyl)-Pyrimidine-2-Carbonitrile As
Cathepsin S Inhibitors: N3, Not N1 Is Critically
Important
pdb|3N3G|B Chain B, 4-(3-Trifluoromethylphenyl)-Pyrimidine-2-Carbonitrile As
Cathepsin S Inhibitors: N3, Not N1 Is Critically
Important
pdb|3N4C|A Chain A, 6-Phenyl-1h-Imidazo[4,5-C]pyridine-4-Carbonitrile As
Cathepsin S Inhibitors
pdb|3N4C|B Chain B, 6-Phenyl-1h-Imidazo[4,5-C]pyridine-4-Carbonitrile As
Cathepsin S Inhibitors
Length = 217
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 59/213 (27%), Positives = 95/213 (44%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+CWAF AV AL + + G +SLS N + +A++Y
Sbjct: 19 QGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 78
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 79 I-------------DNKGIDS---DASYPYKAMDQKC------QYDSKYRAATCSKYTEL 116
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 117 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDL-N 175
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 176 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 208
>pdb|2F1G|A Chain A, Cathepsin S In Complex With Non-Covalent
2-(Benzoxazol-2-Ylamino)- Acetamide
pdb|2F1G|B Chain B, Cathepsin S In Complex With Non-Covalent
2-(Benzoxazol-2-Ylamino)- Acetamide
pdb|2HH5|B Chain B, Crystal Structure Of Cathepsin S In Complex With A Zinc
Mediated Non-Covalent Arylaminoethyl Amide
pdb|2HH5|A Chain A, Crystal Structure Of Cathepsin S In Complex With A Zinc
Mediated Non-Covalent Arylaminoethyl Amide
pdb|2H7J|A Chain A, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor.
pdb|2H7J|B Chain B, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor.
pdb|2HXZ|A Chain A, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor (hexagonal Spacegroup)
pdb|2HXZ|B Chain B, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor (hexagonal Spacegroup)
pdb|2HXZ|C Chain C, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor (hexagonal Spacegroup)
pdb|2HHN|A Chain A, Cathepsin S In Complex With Non Covalent Arylaminoethyl
Amide.
pdb|2HHN|B Chain B, Cathepsin S In Complex With Non Covalent Arylaminoethyl
Amide.
pdb|2OP3|A Chain A, The Structure Of Cathepsin S With A Novel 2-
Arylphenoxyacetaldehyde Inhibitor Derived By The
Substrate Activity Screening (Sas) Method
pdb|2OP3|B Chain B, The Structure Of Cathepsin S With A Novel 2-
Arylphenoxyacetaldehyde Inhibitor Derived By The
Substrate Activity Screening (Sas) Method
Length = 220
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 59/213 (27%), Positives = 95/213 (44%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+CWAF AV AL + + G +SLS N + +A++Y
Sbjct: 22 QGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 81
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 82 I-------------DNKGIDS---DASYPYKAMDQKC------QYDSKYRAATCSKYTEL 119
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 120 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDL-N 178
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 179 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 211
>pdb|2FQ9|A Chain A, Cathepsin S With Nitrile Inhibitor
pdb|2FQ9|B Chain B, Cathepsin S With Nitrile Inhibitor
pdb|2FRA|A Chain A, Human Cathepsin S With Cra-27934, A Nitrile Inhibitor
pdb|2FRA|B Chain B, Human Cathepsin S With Cra-27934, A Nitrile Inhibitor
pdb|2FRQ|A Chain A, Human Cathepsin S With Inhibitor Cra-26871
pdb|2FRQ|B Chain B, Human Cathepsin S With Inhibitor Cra-26871
pdb|2FT2|A Chain A, Human Cathepsin S With Inhibitor Cra-29728
pdb|2FT2|B Chain B, Human Cathepsin S With Inhibitor Cra-29728
pdb|2FUD|A Chain A, Human Cathepsin S With Inhibitor Cra-27566
pdb|2FUD|B Chain B, Human Cathepsin S With Inhibitor Cra-27566
pdb|2G7Y|A Chain A, Human Cathepsin S With Inhibitor Cra-16981
pdb|2G7Y|B Chain B, Human Cathepsin S With Inhibitor Cra-16981
Length = 225
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 59/213 (27%), Positives = 95/213 (44%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+CWAF AV AL + + G +SLS N + +A++Y
Sbjct: 20 QGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 79
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 80 I-------------DNKGIDS---DASYPYKAMDQKC------QYDSKYRAATCSKYTEL 117
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 118 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDL-N 176
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 177 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 209
>pdb|1MS6|A Chain A, Dipeptide Nitrile Inhibitor Bound To Cathepsin S.
pdb|2R9M|A Chain A, Cathepsin S Complexed With Compound 15
pdb|2R9M|B Chain B, Cathepsin S Complexed With Compound 15
pdb|2R9N|A Chain A, Cathepsin S Complexed With Compound 26
pdb|2R9N|B Chain B, Cathepsin S Complexed With Compound 26
pdb|2R9O|A Chain A, Cathepsin S Complexed With Compound 8
pdb|2R9O|B Chain B, Cathepsin S Complexed With Compound 8
Length = 222
Score = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 59/213 (27%), Positives = 95/213 (44%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+CWAF AV AL + + G +SLS N + +A++Y
Sbjct: 19 QGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 78
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 79 I-------------DNKGID---SDASYPYKAMDQKC------QYDSKYRAATCSKYTEL 116
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 117 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDL-N 175
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 176 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 208
>pdb|2G6D|A Chain A, Human Cathepsin S Mutant With Vinyl Sulfone Inhibitor Cra-
14009
Length = 217
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 59/213 (27%), Positives = 94/213 (44%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+CWAF AV AL + + G +SLS N + +A++Y
Sbjct: 19 QGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 78
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 79 I-------------DNKGIDS---DASYPYKAMDQKC------QYDSKYRAATCRKYTEL 116
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 117 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDL-N 175
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G GY ++ R N CGI
Sbjct: 176 GKEYWLVKNSWGHNFGEKGYIRMARNKGNHCGI 208
>pdb|1NPZ|A Chain A, Crystal Structures Of Cathepsin S Inhibitor Complexes
pdb|1NPZ|B Chain B, Crystal Structures Of Cathepsin S Inhibitor Complexes
pdb|1NQC|A Chain A, Crystal Structures Of Cathepsin S Inhibitor Complexes
Length = 217
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 58/213 (27%), Positives = 95/213 (44%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+CWAF AV AL + + G ++LS N + +A++Y
Sbjct: 19 QGSCGACWAFSAVGALEAQLKLKTGKLVTLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 78
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 79 I-------------DNKGIDS---DASYPYKAMDQKC------QYDSKYRAATCSKYTEL 116
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 117 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDL-N 175
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 176 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 208
>pdb|2FO5|A Chain A, Crystal Structure Of Recombinant Barley Cysteine
Endoprotease B Isoform 2 (Ep-B2) In Complex With
Leupeptin
pdb|2FO5|B Chain B, Crystal Structure Of Recombinant Barley Cysteine
Endoprotease B Isoform 2 (Ep-B2) In Complex With
Leupeptin
pdb|2FO5|C Chain C, Crystal Structure Of Recombinant Barley Cysteine
Endoprotease B Isoform 2 (Ep-B2) In Complex With
Leupeptin
pdb|2FO5|D Chain D, Crystal Structure Of Recombinant Barley Cysteine
Endoprotease B Isoform 2 (Ep-B2) In Complex With
Leupeptin
Length = 262
Score = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 55/207 (26%), Positives = 85/207 (41%), Gaps = 20/207 (9%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF V ++ I G +SLS +A+ Y
Sbjct: 22 QGKCGSCWAFSTVVSVEGINAIRTGSLVSLSEQELIDCDTADNDGCQGGLMD-NAFEYIK 80
Query: 75 HHG-VVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
++G ++TE PY + G T R + H + A +
Sbjct: 81 NNGGLITEAAYPYRAARG-----------TCNVARAAQNSPVVVHIDGHQDVPA-----N 124
Query: 134 PEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDY 192
E+ +A N PV V+ + F Y GV+ G + H V ++G+G ++DG+ Y
Sbjct: 125 SEEDLARAVANQPVSVAVEASGKAFMFYSEGVFTGECGTELD-HGVAVVGYGVAEDGKAY 183
Query: 193 WILANQWNRSWGADGYFKIKRGSNECG 219
W + N W SWG GY ++++ S G
Sbjct: 184 WTVKNSWGPSWGEQGYIRVEKDSGASG 210
>pdb|2ACT|A Chain A, Crystallographic Refinement Of The Structure Of Actinidin
At 1.7 Angstroms Resolution By Fast Fourier
Least-Squares Methods
Length = 220
Score = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 63/221 (28%), Positives = 92/221 (41%), Gaps = 31/221 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CG WAF A+ + I G +SLS Y +++ +
Sbjct: 19 QGECGGXWAFSAIATVEGINKITSGSLISLSEQELIDCGRTQNTRGCDGGYITDGFQFII 78
Query: 75 HHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ G + TEE PY G C+ A K V +N + N
Sbjct: 79 NDGGINTEENYPYTAQDG----DCDVALQDQKYVTIDTYENVPYNNEWALQ--------- 125
Query: 134 PEDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDY 192
A Y+ PV V+ D F Y SG++ G + HA+ ++G+GT + G DY
Sbjct: 126 ----TAVTYQ--PVSVALDAAGDAFKQYASGIFTGPCGTAVD-HAIVIVGYGT-EGGVDY 177
Query: 193 WILANQWNRSWGADGYFKIKR---GSNECGIEEDVVAGLPS 230
WI+ N W+ +WG +GY +I R G+ CGI A +PS
Sbjct: 178 WIVKNSWDTTWGEEGYMRILRNVGGAGTCGI-----ATMPS 213
>pdb|2FYE|A Chain A, Mutant Human Cathepsin S With Irreversible Inhibitor Cra-
14013
Length = 217
Score = 67.4 bits (163), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 58/213 (27%), Positives = 93/213 (43%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+CWAF AV AL + + G +SLS N + +A++Y
Sbjct: 19 QGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTKKYGNKGCNGGFMTTAFQYI 78
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +S + + + +
Sbjct: 79 I-------------DNKGIDS---DASYPYKAMDQKC------QYDSAYRAATCRKYTEL 116
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 117 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLN- 175
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G GY ++ R N CGI
Sbjct: 176 GKEYWLVKNSWGHNFGEKGYIRMARNKGNHCGI 208
>pdb|1K3B|C Chain C, Crystal Structure Of Human Dipeptidyl Peptidase I
(Cathepsin C): Exclusion Domain Added To An
Endopeptidase Framework Creates The Machine For
Activation Of Granular Serine Proteases
pdb|2DJF|C Chain C, Crystal Structure Of Human Dipeptidyl Peptidase I
(Cathepsin C) In Complex With The Inhibitor Gly-Phe-Chn2
pdb|2DJG|C Chain C, Re-determination Of The Native Structure Of Human
Dipeptidyl Peptidase I (cathepsin C)
Length = 69
Score = 67.4 bits (163), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 31/58 (53%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 176 HAVKLIGWGT-SDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSSK 232
HAV L+G+GT S G DYWI+ N W WG +GYF+I+RG++EC IE VA P K
Sbjct: 11 HAVLLVGYGTDSASGMDYWIVKNSWGTGWGENGYFRIRRGTDECAIESIAVAATPIPK 68
>pdb|2C0Y|A Chain A, The Crystal Structure Of A Cys25ala Mutant Of Human
Procathepsin S
Length = 315
Score = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 58/213 (27%), Positives = 94/213 (44%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+ WAF AV AL + + G +SLS N + +A++Y
Sbjct: 117 QGSCGAAWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 176
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 177 I-------------DNKGID---SDASYPYKAMDQKCQ------YDSKYRAATCSKYTEL 214
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 215 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLN- 273
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 274 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 306
>pdb|1S4V|A Chain A, The 2.0 A Crystal Structure Of The Kdel-Tailed Cysteine
Endopeptidase Functioning In Programmed Cell Death Of
Ricinus Communis Endosperm
pdb|1S4V|B Chain B, The 2.0 A Crystal Structure Of The Kdel-Tailed Cysteine
Endopeptidase Functioning In Programmed Cell Death Of
Ricinus Communis Endosperm
Length = 229
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 60/226 (26%), Positives = 89/226 (39%), Gaps = 29/226 (12%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF + A+ I +SLS A+ +
Sbjct: 20 QGQCGSCWAFSTIVAVEGINQIKTNKLVSLSEQELVDCDTDQNQGCNGGLMDY-AFEFIK 78
Query: 75 HHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR-INS 132
G +T E + PY AY V K N+ SI + +
Sbjct: 79 QRGGITTEANYPY------------EAYDGTCDVSK--------ENAPAVSIDGHENVPE 118
Query: 133 DPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGED 191
+ E+ + + N PV V+ DF Y GV+ G + H V ++G+GT+ DG
Sbjct: 119 NDENALLKAVANQPVSVAIDAGGSDFQFYSEGVFTGSCGTELD-HGVAIVGYGTTIDGTK 177
Query: 192 YWILANQWNRSWGADGYFKIKRGSNE----CGIEEDVVAGLPSSKN 233
YW + N W WG GY +++RG ++ CGI + + S N
Sbjct: 178 YWTVKNSWGPEWGEKGYIRMERGISDKEGLCGIAMEASYPIKKSSN 223
>pdb|3IEJ|A Chain A, Pyrazole-Based Cathepsin S Inhibitors With Arylalkynes As
P1 Binding Elements
pdb|3IEJ|B Chain B, Pyrazole-Based Cathepsin S Inhibitors With Arylalkynes As
P1 Binding Elements
Length = 222
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 61/229 (26%), Positives = 100/229 (43%), Gaps = 35/229 (15%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+ WAF AV AL + + G +SLS N + +A++Y
Sbjct: 21 QGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 80
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 81 I-------------DNKGIDS---DASYPYKAMDQKC------QYDSKYRAATCSKYTEL 118
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 119 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLN- 177
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGIEEDVVAGLPSSKNLVK 236
G++YW++ N W ++G +GY ++ R N CGI A PS +++
Sbjct: 178 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI-----ASFPSYPEILQ 221
>pdb|3KWN|A Chain A, Cathepsin S In Complex With Thioether Acetamide P3
Inhibitor
pdb|3KWN|B Chain B, Cathepsin S In Complex With Thioether Acetamide P3
Inhibitor
pdb|3MPF|A Chain A, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
pdb|3MPF|B Chain B, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
Length = 219
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 58/213 (27%), Positives = 94/213 (44%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+ WAF AV AL + + G +SLS N + +A++Y
Sbjct: 19 QGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 78
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 79 I-------------DNKGIDS---DASYPYKAMDQKC------QYDSKYRAATCSKYTEL 116
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 117 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLN- 175
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 176 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 208
>pdb|3MPE|A Chain A, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
pdb|3MPE|B Chain B, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
Length = 220
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 58/213 (27%), Positives = 94/213 (44%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+ WAF AV AL + + G +SLS N + +A++Y
Sbjct: 20 QGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 79
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP +KC +SK+ + + +
Sbjct: 80 I-------------DNKGIDS---DASYPYKAMDQKC------QYDSKYRAATCSKYTEL 117
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 118 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLN- 176
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 177 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 209
>pdb|1IWD|A Chain A, Proposed Amino Acid Sequence And The 1.63 Angstrom X-ray
Crystal Structure Of A Plant Cysteine Protease Ervatamin
B: Insight Into The Structural Basis Of Its Stability
And Substrate Specificity
Length = 215
Score = 65.9 bits (159), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 60/223 (26%), Positives = 94/223 (42%), Gaps = 38/223 (17%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
Q CGSCWAF AV A+ I G +SLS + +A++Y +
Sbjct: 19 QKQCGSCWAFSAVAAVESINKIRTGQLISLS--EQELVDCDTASHGCNGGWMNNAFQYII 76
Query: 75 HHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAY-RINS 132
+G + T++ PY G C+P + SI+ + R+
Sbjct: 77 TNGGIDTQQNYPYSAVQG----SCKP------------------YRLRVVSINGFQRVTR 114
Query: 133 DPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGED 191
+ E + + PV V+ F HY SG++ G H V ++G+GT G++
Sbjct: 115 NNESALQSAVASQPVSVTVEAAGAPFQHYSSGIFTGPCGTAQN-HGVVIVGYGT-QSGKN 172
Query: 192 YWILANQWNRSWGADGYFKIKR----GSNECGIEEDVVAGLPS 230
YWI+ N W ++WG GY ++R + CGI + LPS
Sbjct: 173 YWIVRNSWGQNWGNQGYIWMERNVASSAGLCGIAQ-----LPS 210
>pdb|1AIM|A Chain A, Cruzain Inhibited By
Benzoyl-Tyrosine-Alanine-Fluoromethylketone
Length = 215
Score = 65.9 bits (159), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 55/210 (26%), Positives = 82/210 (39%), Gaps = 21/210 (10%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF A+ + ++ + +LS W
Sbjct: 19 QGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGGLMNNAFEWIVQE 78
Query: 75 HHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
++G V TE+ PY G S P + + V+ Q D
Sbjct: 79 NNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ-----------------D 121
Query: 134 PEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 193
I A + NGPV V+ + Y GV + + H V L+G+ S YW
Sbjct: 122 EAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEALD-HGVLLVGYNDSA-AVPYW 178
Query: 194 ILANQWNRSWGADGYFKIKRGSNECGIEED 223
I+ N W WG +GY +I +GSN+C ++E+
Sbjct: 179 IIKNSWTTQWGEEGYIRIAKGSNQCLVKEE 208
>pdb|2P7U|A Chain A, The Crystal Structure Of Rhodesain, The Major Cysteine
Protease Of T. Brucei Rhodesiense, Bound To Inhibitor
K777
pdb|2P86|A Chain A, The High Resolution Crystal Structure Of Rohedsain, The
Major Cathepsin L Protease From T. Brucei Rhodesiense,
Bound To Inhibitor K11002
Length = 215
Score = 65.5 bits (158), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 53/212 (25%), Positives = 89/212 (41%), Gaps = 23/212 (10%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF + + ++ + +SLS W
Sbjct: 19 QGQCGSCWAFSTIGNIEGQWQVAGNPLVSLSEQMLVSCDTIDFGCGGGLMDNAFNWIVNS 78
Query: 75 HHG-VVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAY-RINS 132
+ G V TE PY G P+C Q+ + +I+ + +
Sbjct: 79 NGGNVFTEASYPYVSGNG----------EQPQC--------QMNGHEIGAAITDHVDLPQ 120
Query: 133 DPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDY 192
D + I A + +NGP+ ++ F Y G+ T + + H V L+G+ + + Y
Sbjct: 121 DEDAIAAYLAENGPLAIAVDATS-FMDYNGGILTSCTSEQLD-HGVLLVGYNDASN-PPY 177
Query: 193 WILANQWNRSWGADGYFKIKRGSNECGIEEDV 224
WI+ N W+ WG DGY +I++G+N+C + + V
Sbjct: 178 WIIKNSWSNMWGEDGYIRIEKGTNQCLMNQAV 209
>pdb|1GLO|A Chain A, Crystal Structure Of Cys25ser Mutant Of Human Cathepsin S
Length = 217
Score = 65.5 bits (158), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 58/213 (27%), Positives = 93/213 (43%), Gaps = 30/213 (14%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CG+ WAF AV AL + + G +SLS N + +A++Y
Sbjct: 19 QGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDCSTEKYGNKGCNGGFMTTAFQYI 78
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ D+ G + +YP KC +SK+ + + +
Sbjct: 79 I-------------DNKGIDS---DASYPYKAMDLKC------QYDSKYRAATCSKYTEL 116
Query: 134 P---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
P ED++ E N GPV V + F Y+SGVY + H V ++G+G +
Sbjct: 117 PYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLN- 175
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGS-NECGI 220
G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 176 GKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 208
>pdb|1EWP|A Chain A, Cruzain Bound To Mor-Leu-Hpq
pdb|1F29|A Chain A, Crystal Structure Analysis Of Cruzain Bound To A Vinyl
Sulfone Derived Inhibitor (I)
pdb|1F29|B Chain B, Crystal Structure Analysis Of Cruzain Bound To A Vinyl
Sulfone Derived Inhibitor (I)
pdb|1F29|C Chain C, Crystal Structure Analysis Of Cruzain Bound To A Vinyl
Sulfone Derived Inhibitor (I)
pdb|1F2A|A Chain A, Crystal Structure Analysis Of Cruzain Bound To A Vinyl
Sulfone Derived Inhibitor (Ii)
pdb|1F2B|A Chain A, Crystal Structure Analysis Of Cruzain Bound To Vinyl
Sulfone Derived Inhibitor (Iii)
pdb|1F2C|A Chain A, Crystal Structure Analysis Of Cryzain Bound To Vinyl
Sulfone Derived Inhibitor (Iv)
pdb|1ME3|A Chain A, High Resolution Crystal Structure Analysis Of Cruzain Non-
Covalently Bound To A Hydroxymethyl Ketone Inhibitor
(Ii)
pdb|1ME4|A Chain A, High Resolution Crystal Structure Analysis Of Cruzain
Non-Covalently Bound To A Hydroxymethyl Ketone Inhibitor
(I)
pdb|1EWL|A Chain A, Crystal Structure Of Cruzain Bound To Wrr-99
pdb|1EWM|A Chain A, The Cysteine Protease Cruzain Bound To Wrr-112
pdb|1EWO|A Chain A, The Cysteine Protease Cruzain Bound To Wrr-204
pdb|1U9Q|X Chain X, Crystal Structure Of Cruzain Bound To An Alpha-Ketoester
pdb|2AIM|A Chain A, Cruzain Inhibited With
Benzoyl-Arginine-Alanine-Fluoromethylketone
pdb|2OZ2|A Chain A, Crystal Structure Analysis Of Cruzain Bound To Vinyl
Sulfone Derived Inhibitor (K11777)
pdb|2OZ2|C Chain C, Crystal Structure Analysis Of Cruzain Bound To Vinyl
Sulfone Derived Inhibitor (K11777)
pdb|3I06|A Chain A, Crystal Structure Of Cruzain Covalently Bound To A Purine
Nitrile
pdb|3KKU|A Chain A, Cruzain In Complex With A Non-Covalent Ligand
pdb|3LXS|A Chain A, Crystal Structure Analysis Of Cruzain Bound To Vinyl
Sulfone Derived Inhibitor (Wrr483)
pdb|3LXS|C Chain C, Crystal Structure Analysis Of Cruzain Bound To Vinyl
Sulfone Derived Inhibitor (Wrr483)
Length = 215
Score = 65.1 bits (157), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 55/210 (26%), Positives = 82/210 (39%), Gaps = 21/210 (10%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF A+ + ++ + +LS W
Sbjct: 19 QGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGGLMNNAFEWIVQE 78
Query: 75 HHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
++G V TE+ PY G S P + + V+ Q D
Sbjct: 79 NNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ-----------------D 121
Query: 134 PEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 193
I A + NGPV V+ + Y GV + + H V L+G+ S YW
Sbjct: 122 EAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEQLD-HGVLLVGYNDSA-AVPYW 178
Query: 194 ILANQWNRSWGADGYFKIKRGSNECGIEED 223
I+ N W WG +GY +I +GSN+C ++E+
Sbjct: 179 IIKNSWTTQWGEEGYIRIAKGSNQCLVKEE 208
>pdb|1YVB|A Chain A, The Plasmodium Falciparum Cysteine Protease Falcipain-2
pdb|2GHU|A Chain A, Crystal Structure Of Falcipain-2 From Plasmodium
Falciparum
pdb|2GHU|B Chain B, Crystal Structure Of Falcipain-2 From Plasmodium
Falciparum
pdb|2GHU|C Chain C, Crystal Structure Of Falcipain-2 From Plasmodium
Falciparum
pdb|2GHU|D Chain D, Crystal Structure Of Falcipain-2 From Plasmodium
Falciparum
pdb|2OUL|A Chain A, The Structure Of Chagasin In Complex With A Cysteine
Protease Clarifies The Binding Mode And Evolution Of A
New Inhibitor Family
pdb|3BPF|A Chain A, Crystal Structure Of Falcipain-2 With Its Inhibitor, E64
pdb|3BPF|B Chain B, Crystal Structure Of Falcipain-2 With Its Inhibitor, E64
pdb|3BPF|C Chain C, Crystal Structure Of Falcipain-2 With Its Inhibitor, E64
pdb|3BPF|D Chain D, Crystal Structure Of Falcipain-2 With Its Inhibitor, E64
Length = 241
Score = 64.3 bits (155), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 58/231 (25%), Positives = 96/231 (41%), Gaps = 44/231 (19%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
Q +CGSCWAF ++ ++ ++ I ++LS S Y
Sbjct: 36 QKNCGSCWAFSSIGSVESQYAIRKNKLITLS---------------EQELVDCSFKNYGC 80
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAY---PTPKCVRKCVKKNQLWRNSKHYSISAYRIN 131
+ G++ + + G G P P + +C +K Y I Y
Sbjct: 81 NGGLINNAFEDMIELGGICPDGDYPYVSDAPNLCNIDRCTEK---------YGIKNYL-- 129
Query: 132 SDPEDIMAEIYK-NGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSD--- 187
S P++ + E + GP+ +S V +DFA YK G++ GD + HAV L+G+G +
Sbjct: 130 SVPDNKLKEALRFLGPISISVAVSDDFAFYKEGIFDGECGDQL-NHAVMLVGFGMKEIVN 188
Query: 188 ----DGED--YWILANQWNRSWGADGYFKIKRGSN----ECGIEEDVVAGL 228
GE Y+I+ N W + WG G+ I+ + +CG+ D L
Sbjct: 189 PLTKKGEKHYYYIIKNSWGQQWGERGFINIETDESGLMRKCGLGTDAFIPL 239
>pdb|3IUT|A Chain A, The Crystal Structure Of Cruzain In Complex With A
Tetrafluorophenoxymethyl Ketone Inhibitor
Length = 221
Score = 63.9 bits (154), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 55/212 (25%), Positives = 84/212 (39%), Gaps = 25/212 (11%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF A+ + ++ + +L+ W
Sbjct: 19 QGQCGSCWAFSAIGNVECQWFLAGHPLTNLAEQMLVSCDKTDSGCSGGLMNNAFEWIVQE 78
Query: 75 HHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
++G V TE+ PY G S P + + V+ Q D
Sbjct: 79 NNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ-----------------D 121
Query: 134 PEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGE--D 191
I A + NGPV V+ + Y GV + + H V L+G+ +DG
Sbjct: 122 EAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEQL-DHGVLLVGY---NDGAAVP 176
Query: 192 YWILANQWNRSWGADGYFKIKRGSNECGIEED 223
YWI+ N W WG +GY +I +GSN+C ++E+
Sbjct: 177 YWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEE 208
>pdb|3HD3|A Chain A, High Resolution Crystal Structure Of Cruzain Bound To The
Vinyl Sulfone Inhibitor Smdc-256047
pdb|3HD3|B Chain B, High Resolution Crystal Structure Of Cruzain Bound To The
Vinyl Sulfone Inhibitor Smdc-256047
Length = 215
Score = 63.9 bits (154), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 55/212 (25%), Positives = 84/212 (39%), Gaps = 25/212 (11%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF A+ + ++ + +L+ W
Sbjct: 19 QGQCGSCWAFSAIGNVECQWFLAGHPLTNLAEQMLVSCDKTDSGCSGGLMNNAFEWIVQE 78
Query: 75 HHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
++G V TE+ PY G S P + + V+ Q D
Sbjct: 79 NNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ-----------------D 121
Query: 134 PEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGE--D 191
I A + NGPV V+ + Y GV + + H V L+G+ +DG
Sbjct: 122 EAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEQL-DHGVLLVGY---NDGAAVP 176
Query: 192 YWILANQWNRSWGADGYFKIKRGSNECGIEED 223
YWI+ N W WG +GY +I +GSN+C ++E+
Sbjct: 177 YWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEE 208
>pdb|3BCN|A Chain A, Crystal Structure Of A Papain-Like Cysteine Protease
Ervatamin-A Complexed With Irreversible Inhibitor E-64
pdb|3BCN|B Chain B, Crystal Structure Of A Papain-Like Cysteine Protease
Ervatamin-A Complexed With Irreversible Inhibitor E-64
Length = 209
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 59/213 (27%), Positives = 84/213 (39%), Gaps = 36/213 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF V + I G +SLS Y A++Y +
Sbjct: 19 QGKCGSCWAFSTVTTVESINQIRTGNLISLS--EQQLVDCSKKNHGCKGGYFDRAYQYII 76
Query: 75 HHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVR--KCVKKNQLWRNSKHYSISAYRIN 131
+G + E + PY G P K VR C Q N+ +++
Sbjct: 77 ANGGIDTEANYPYKAFQG-------PCRAAKKVVRIDGCKGVPQCNENALKNAVA----- 124
Query: 132 SDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGED 191
S P + + + F HYK G++ G + H V ++G+G +D
Sbjct: 125 SQPSVVAID-----------ASSKQFQHYKGGIFTGPCGTKLN-HGVVIVGYG-----KD 167
Query: 192 YWILANQWNRSWGADGYFKIKR--GSNECGIEE 222
YWI+ N W R WG GY ++KR G CGI
Sbjct: 168 YWIVRNSWGRHWGEQGYTRMKRVGGCGLCGIAR 200
>pdb|2PNS|A Chain A, 1.9 Angstrom Resolution Crystal Structure Of A Plant
Cysteine Protease Ervatamin-C Refinement With Cdna
Derived Amino Acid Sequence
pdb|2PNS|B Chain B, 1.9 Angstrom Resolution Crystal Structure Of A Plant
Cysteine Protease Ervatamin-C Refinement With Cdna
Derived Amino Acid Sequence
pdb|2PRE|A Chain A, Crystal Structure Of Plant Cysteine Protease Ervatamin-C
Complexed With Irreversible Inhibitor E-64 At 2.7 A
Resolution
pdb|2PRE|B Chain B, Crystal Structure Of Plant Cysteine Protease Ervatamin-C
Complexed With Irreversible Inhibitor E-64 At 2.7 A
Resolution
Length = 208
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 58/213 (27%), Positives = 85/213 (39%), Gaps = 36/213 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF V + I G +SLS + A++Y +
Sbjct: 19 QGKCGSCWAFSTVSTVESINQIRTGNLISLSEQQLVDCNKKNHGCKGGAF--VYAYQYII 76
Query: 75 HHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR-INS 132
+G + E + PY G P K VR I Y+ +
Sbjct: 77 DNGGIDTEANYPYKAVQG-------PCRAAKKVVR----------------IDGYKGVPH 113
Query: 133 DPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGED 191
E+ + + + P V+ + F HYKSG++ G + H V ++G+ +D
Sbjct: 114 CNENALKKAVASQPSVVAIDASSKQFQHYKSGIFSGPCGTKLN-HGVVIVGYW-----KD 167
Query: 192 YWILANQWNRSWGADGYFKIKR--GSNECGIEE 222
YWI+ N W R WG GY ++KR G CGI
Sbjct: 168 YWIVRNSWGRYWGEQGYIRMKRVGGCGLCGIAR 200
>pdb|3H7D|A Chain A, The Crystal Structure Of The Cathepsin K Variant M5 In
Compl Chondroitin-4-Sulfate
pdb|3H7D|E Chain E, The Crystal Structure Of The Cathepsin K Variant M5 In
Compl Chondroitin-4-Sulfate
Length = 215
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 64/220 (29%), Positives = 91/220 (41%), Gaps = 32/220 (14%)
Query: 8 HVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPI 67
+V + QG CGSCWAF +V AL + G L+LS Y
Sbjct: 12 YVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVDCVSENDGCGGGYMT 69
Query: 68 SAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWR-NSKHYS 124
+A++Y + G+ +E+ PY C + PT K KC ++ N K
Sbjct: 70 NAFQYVQKNRGIDSEDAYPYVGQEESCMYN------PTGKAA-KCRGYREIPEGNEKALK 122
Query: 125 ISAYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLI 181
+ R+ GPV V+ F Y GVY + D + HAV +
Sbjct: 123 RAVARV--------------GPVSVAIDASLTSFQFYSKGVYYDESCNSDNLN-HAVLAV 167
Query: 182 GWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 220
G+G S G +WI+ N W +WG GY K+ R +N CGI
Sbjct: 168 GYGESK-GNKHWIIKNSWGENWGMGGYIKMARNKNNACGI 206
>pdb|3H89|A Chain A, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H89|B Chain B, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H89|C Chain C, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H89|D Chain D, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H89|E Chain E, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H89|F Chain F, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H8B|A Chain A, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|3H8B|B Chain B, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|3H8B|C Chain C, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|3H8B|D Chain D, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|3H8B|E Chain E, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|3H8B|F Chain F, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|2XU3|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2XU4|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2XU5|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2YJ2|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2YJ8|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2YJ9|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2YJB|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2YJC|A Chain A, Cathepsin L With A Nitrile Inhibitor
Length = 220
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 58/224 (25%), Positives = 86/224 (38%), Gaps = 35/224 (15%)
Query: 8 HVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPI 67
+V + QG CGSCWAF A AL + G +SLS
Sbjct: 12 YVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMD 71
Query: 68 SAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA 127
A++Y +G + E +YP C + + YS++
Sbjct: 72 YAFQYVQDNGGLDSE----------------ESYPYEATEESC-------KYNPKYSVAN 108
Query: 128 ----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKL 180
I + +M + GP+ V+ +E F YK G+Y + + M H V +
Sbjct: 109 DTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLV 167
Query: 181 IGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
+G+G T D YW++ N W WG GY K+ K N CGI
Sbjct: 168 VGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 211
>pdb|3HHA|A Chain A, Crystal Structure Of Cathepsin L In Complex With
Az12878478
pdb|3HHA|B Chain B, Crystal Structure Of Cathepsin L In Complex With
Az12878478
pdb|3HHA|C Chain C, Crystal Structure Of Cathepsin L In Complex With
Az12878478
pdb|3HHA|D Chain D, Crystal Structure Of Cathepsin L In Complex With
Az12878478
pdb|2XU1|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2XU1|B Chain B, Cathepsin L With A Nitrile Inhibitor
pdb|2XU1|C Chain C, Cathepsin L With A Nitrile Inhibitor
pdb|2XU1|D Chain D, Cathepsin L With A Nitrile Inhibitor
Length = 220
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 58/224 (25%), Positives = 86/224 (38%), Gaps = 35/224 (15%)
Query: 8 HVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPI 67
+V + QG CGSCWAF A AL + G +SLS
Sbjct: 12 YVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMD 71
Query: 68 SAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA 127
A++Y +G + E +YP C + + YS++
Sbjct: 72 YAFQYVQDNGGLDSE----------------ESYPYEATEESC-------KYNPKYSVAN 108
Query: 128 ----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKL 180
I + +M + GP+ V+ +E F YK G+Y + + M H V +
Sbjct: 109 DAGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLV 167
Query: 181 IGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
+G+G T D YW++ N W WG GY K+ K N CGI
Sbjct: 168 VGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 211
>pdb|3OF8|A Chain A, Structural Basis For Reversible And Irreversible
Inhibition Of Human Cathepsin L By Their Respective
Dipeptidyl Glyoxal And Diazomethylketone Inhibitors
pdb|3OF9|A Chain A, Structural Basis For Irreversible Inhibition Of Human
Cathepsin L By A Diazomethylketone Inhibitor
Length = 221
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 57/217 (26%), Positives = 83/217 (38%), Gaps = 35/217 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF A AL + G +SLS A++Y
Sbjct: 20 QGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQ 79
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YRI 130
+G + E +YP C + + YS++ I
Sbjct: 80 DNGGLDSE----------------ESYPYEATEESC-------KYNPKYSVANDTGFVDI 116
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG--- 184
+ +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 117 PKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLVVGYGFES 175
Query: 185 TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
T D YW++ N W WG GY K+ K N CGI
Sbjct: 176 TESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 212
>pdb|3HWN|A Chain A, Cathepsin L With Az13010160
pdb|3HWN|B Chain B, Cathepsin L With Az13010160
pdb|3HWN|C Chain C, Cathepsin L With Az13010160
pdb|3HWN|D Chain D, Cathepsin L With Az13010160
Length = 258
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 58/224 (25%), Positives = 86/224 (38%), Gaps = 35/224 (15%)
Query: 8 HVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPI 67
+V + QG CGSCWAF A AL + G +SLS
Sbjct: 50 YVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMD 109
Query: 68 SAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA 127
A++Y +G + E +YP C + + YS++
Sbjct: 110 YAFQYVQDNGGLD----------------SEESYPYEATEESC-------KYNPKYSVAN 146
Query: 128 ----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKL 180
I + +M + GP+ V+ +E F YK G+Y + + M H V +
Sbjct: 147 DAGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLV 205
Query: 181 IGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
+G+G T D YW++ N W WG GY K+ K N CGI
Sbjct: 206 VGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 249
>pdb|2BDZ|A Chain A, Mexicain From Jacaratia Mexicana
pdb|2BDZ|B Chain B, Mexicain From Jacaratia Mexicana
pdb|2BDZ|C Chain C, Mexicain From Jacaratia Mexicana
pdb|2BDZ|D Chain D, Mexicain From Jacaratia Mexicana
Length = 214
Score = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 60/212 (28%), Positives = 88/212 (41%), Gaps = 34/212 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
Q CGSCWAF V + I G +SLS Y ++ +Y V
Sbjct: 19 QNPCGSCWAFSTVATIEGINKIITGQLISLS--EQELLDCERRSHGCDGGYQTTSLQYVV 76
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR-INSD 133
+GV TE PY G +C K++ + K Y I+ Y+ + ++
Sbjct: 77 DNGVHTEREYPYEKKQG-----------------RCRAKDK--KGPKVY-ITGYKYVPAN 116
Query: 134 PEDIMAEIYKNGPVEV-SFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDY 192
E + + N PV V + + F YK G+Y+ G HAV +G+G + Y
Sbjct: 117 DEISLIQAIANQPVSVVTDSRGRGFQFYKGGIYEGPCGTNTD-HAVTAVGYGKT-----Y 170
Query: 193 WILANQWNRSWGADGYFKIKRGSNE----CGI 220
+L N W +WG GY +IKR S CG+
Sbjct: 171 LLLKNSWGPNWGEKGYIRIKRASGRSKGTCGV 202
>pdb|2B1M|A Chain A, Crystal Structure Of A Papain-Fold Protein Without The
Catalytic Cysteine From Seeds Of Pachyrhizus Erosus
pdb|2B1N|A Chain A, Crystal Structure Of A Papain-Fold Protein Without The
Catalytic Cysteine From Seeds Of Pachyrhizus Erosus
Length = 246
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 59/205 (28%), Positives = 79/205 (38%), Gaps = 20/205 (9%)
Query: 14 IQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYF 73
QG CGS WAF A A+ I G +SLS Y W
Sbjct: 19 FQGQCGSGWAFSATGAIEAAHAIATGNLVSLSEQELIDCVDESEGCYNGWHYQSFEW--V 76
Query: 74 VHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINS 132
V HG + E D PY G KC ++ N +S S
Sbjct: 77 VKHGGIASEADYPYKARDG-------------KCKANEIQDKVTIDNYGVQILSNESTES 123
Query: 133 DPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK--HITGDVMGGHAVKLIGWGTSDDGE 190
+ E + P+ VS +DF Y G+Y + + H V ++G+G S+DG
Sbjct: 124 EAESSLQSFVLEQPISVSIDA-KDFHFYSGGIYDGGNCSSPYGINHFVLIVGYG-SEDGV 181
Query: 191 DYWILANQWNRSWGADGYFKIKRGS 215
DYWI N W WG DGY +I+R +
Sbjct: 182 DYWIAKNSWGEDWGIDGYIRIQRNT 206
>pdb|2F7D|A Chain A, A Mutant Rabbit Cathepsin K With A Nitrile Inhibitor
Length = 215
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 60/228 (26%), Positives = 91/228 (39%), Gaps = 34/228 (14%)
Query: 1 MPFTNSEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXX 60
+ + +V + QG CGSCWAF +V AL + G L+LS
Sbjct: 5 IDYRKKGYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVDCVSENDG 62
Query: 61 XXXXYPISAWRYFVHH-GVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWR 118
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 63 CGGGYMTNAFQYVQRNRGIDSEDAYPYVGQDESCMY---NPTGKAAKC------------ 107
Query: 119 NSKHYSISAYR--INSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVM 173
YR + + + + + GPV V+ F Y GVY ++ + D +
Sbjct: 108 -------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDENCSSDNL 160
Query: 174 GGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 220
HAV +G+G G +WI+ N W SWG GY + R +N CGI
Sbjct: 161 N-HAVLAVGYGI-QKGNKHWIIKNSWGESWGNKGYILMARNKNNACGI 206
>pdb|3PNR|A Chain A, Structure Of Pbicp-C In Complex With Falcipain-2
Length = 240
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 57/231 (24%), Positives = 95/231 (41%), Gaps = 44/231 (19%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
Q +CGS WAF ++ ++ ++ I ++LS S Y
Sbjct: 35 QKNCGSAWAFSSIGSVESQYAIRKNKLITLS---------------EQELVDCSFKNYGC 79
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAY---PTPKCVRKCVKKNQLWRNSKHYSISAYRIN 131
+ G++ + + G G P P + +C +K Y I Y
Sbjct: 80 NGGLINNAFEDMIELGGICPDGDYPYVSDAPNLCNIDRCTEK---------YGIKNYL-- 128
Query: 132 SDPEDIMAEIYK-NGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSD--- 187
S P++ + E + GP+ +S V +DFA YK G++ GD + HAV L+G+G +
Sbjct: 129 SVPDNKLKEALRFLGPISISVAVSDDFAFYKEGIFDGECGDQL-NHAVMLVGFGMKEIVN 187
Query: 188 ----DGED--YWILANQWNRSWGADGYFKIKRGSN----ECGIEEDVVAGL 228
GE Y+I+ N W + WG G+ I+ + +CG+ D L
Sbjct: 188 PLTKKGEKHYYYIIKNSWGQQWGERGFINIETDESGLMRKCGLGTDAFIPL 238
>pdb|1YAL|A Chain A, Carica Papaya Chymopapain At 1.7 Angstroms Resolution
Length = 218
Score = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 61/216 (28%), Positives = 86/216 (39%), Gaps = 38/216 (17%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF + + I G L LS Y ++ +Y
Sbjct: 19 QGACGSXWAFSTIATVEGINKIVTGNLLELS--EQELVDCDKHSYGCKGGYQTTSLQYVA 76
Query: 75 HHGVVTEECDPY----FDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAY-R 129
++GV T + PY + PG PK I+ Y R
Sbjct: 77 NNGVHTSKVYPYQAKQYKCRATDKPG-------PKV-----------------KITGYKR 112
Query: 130 INSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD 188
+ S+ E N P+ V + F YKSGV+ G + HAV +G+GTSD
Sbjct: 113 VPSNXETSFLGALANQPLSVLVEAGGKPFQLYKSGVFDGPCGTKLD-HAVTAVGYGTSD- 170
Query: 189 GEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 220
G++Y I+ N W +WG GY ++KR S CG+
Sbjct: 171 GKNYIIIKNSWGPNWGEKGYMRLKRQSGNSQGTCGV 206
>pdb|3F75|A Chain A, Activated Toxoplasma Gondii Cathepsin L (Tgcpl) In Complex
With Its Propeptide
Length = 224
Score = 60.8 bits (146), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 57/217 (26%), Positives = 80/217 (36%), Gaps = 29/217 (13%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
Q CGSCWAF AL C G +SLS A++Y +
Sbjct: 25 QRDCGSCWAFSTTGALEGAHCAKTGKLVSLSEQELMDCSRAEGNQSCSGGEMNDAFQYVL 84
Query: 75 HHG-VVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINS 132
G + +E+ PY C CE V K + + R S
Sbjct: 85 DSGGICSEDAYPYLARDEECRAQSCEK-------VVKILGFKDVPRRS------------ 125
Query: 133 DPEDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGE- 190
E M PV ++ + F Y GV+ G + H V L+G+GT + +
Sbjct: 126 --EAAMKAALAKSPVSIAIEADQMPFQFYHEGVFDASCGTDLD-HGVLLVGYGTDKESKK 182
Query: 191 DYWILANQWNRSWGADGYFKI---KRGSNECGIEEDV 224
D+WI+ N W WG DGY + K +CG+ D
Sbjct: 183 DFWIMKNSWGTGWGRDGYMYMAMHKGEEGQCGLLLDA 219
>pdb|1FH0|A Chain A, Crystal Structure Of Human Cathepsin V Complexed With An
Irreversible Vinyl Sulfone Inhibitor
pdb|1FH0|B Chain B, Crystal Structure Of Human Cathepsin V Complexed With An
Irreversible Vinyl Sulfone Inhibitor
Length = 221
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 55/220 (25%), Positives = 90/220 (40%), Gaps = 26/220 (11%)
Query: 8 HVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPI 67
+V + Q CGSCWAF A AL + G +SLS +
Sbjct: 12 YVTPVKNQKQCGSCWAFSATGALEGQMFRKTGKLVSLSEQNLVDCSRPQGNQGCNGGFMA 71
Query: 68 SAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSIS 126
A++Y +G + +EE PY + K +N + +++ ++
Sbjct: 72 RAFQYVKENGGLDSEESYPYV---------------AVDEICKYRPENSVAQDTGFTVVA 116
Query: 127 AYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVYKHITGDVMG-GHAVKLIGWG 184
+ + +M + GP+ V+ + F YKSG+Y H V ++G+G
Sbjct: 117 PGK----EKALMKAVATVGPISVAMDAGHSSFQFYKSGIYFEPDCSSKNLDHGVLVVGYG 172
Query: 185 ---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
+ D YW++ N W WG++GY KI K +N CGI
Sbjct: 173 FEGANSDNSKYWLVKNSWGPEWGSNGYVKIAKDKNNHCGI 212
>pdb|1CJL|A Chain A, Crystal Structure Of A Cysteine Protease Proform
Length = 312
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 57/217 (26%), Positives = 83/217 (38%), Gaps = 35/217 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF A AL + G +SLS A++Y
Sbjct: 111 QGQCGSSWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPEGNEGCNGGLMDYAFQYVQ 170
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YRI 130
+G + E +YP C + + YS++ I
Sbjct: 171 DNGGLD----------------SEESYPYEATEESC-------KYNPKYSVANDAGFVDI 207
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG--- 184
+ +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 208 PKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLVVGYGFES 266
Query: 185 TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
T DG YW++ N W WG GY K+ K N CGI
Sbjct: 267 TESDGNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 303
>pdb|3BPM|A Chain A, Crystal Structure Of Falcipain-3 With Its Inhibitor,
Leupeptin
pdb|3BPM|B Chain B, Crystal Structure Of Falcipain-3 With Its Inhibitor,
Leupeptin
pdb|3BWK|A Chain A, Crystal Structure Of Falcipain-3 With Its Inhibitor,
K11017
pdb|3BWK|B Chain B, Crystal Structure Of Falcipain-3 With Its Inhibitor,
K11017
pdb|3BWK|C Chain C, Crystal Structure Of Falcipain-3 With Its Inhibitor,
K11017
pdb|3BWK|D Chain D, Crystal Structure Of Falcipain-3 With Its Inhibitor,
K11017
Length = 243
Score = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 59/213 (27%), Positives = 84/213 (39%), Gaps = 36/213 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
Q CGSCWAF +V ++ ++ I S S
Sbjct: 38 QALCGSCWAFSSVGSVESQYAIRKKALFLFSEQELV---------------DCSVKNNGC 82
Query: 75 HHGVVTEECDPYFDSTG-CSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+ G +T D D G CS + YP V + L R ++ Y+I +Y S
Sbjct: 83 YGGYITNAFDDMIDLGGLCS----QDDYPY---VSNLPETCNLKRCNERYTIKSYV--SI 133
Query: 134 PEDIMAEIYKN-GPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDD-GED 191
P+D E + GP+ +S +DFA Y+ G Y G HAV L+G+G D ED
Sbjct: 134 PDDKFKEALRYLGPISISIAASDDFAFYRGGFYDGECG-AAPNHAVILVGYGMKDIYNED 192
Query: 192 --------YWILANQWNRSWGADGYFKIKRGSN 216
Y+I+ N W WG GY ++ N
Sbjct: 193 TGRMEKFYYYIIKNSWGSDWGEGGYINLETDEN 225
>pdb|3OVZ|A Chain A, Cathepsin K In Complex With A Covalent Inhibitor With A
Ketoamide Warhead
Length = 213
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 58/214 (27%), Positives = 84/214 (39%), Gaps = 34/214 (15%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF +V AL + G L+LS Y +A++Y
Sbjct: 17 QGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVDCVSENDGCGGGYMTNAFQYVQ 74
Query: 75 -HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR--I 130
+ G+ +E+ PY C + P KC YR
Sbjct: 75 KNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC-------------------RGYREIP 112
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWGTSD 187
+ + + + + GPV V+ F Y GVY + D + HAV +G+G
Sbjct: 113 EGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNL-NHAVLAVGYGI-Q 170
Query: 188 DGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 220
G +WI+ N W +WG GY + R +N CGI
Sbjct: 171 KGNKHWIIKNSWGENWGNKGYILMARNKNNACGI 204
>pdb|1SNK|A Chain A, Cathepsin K Complexed With Carbamate Derivatized
Norleucine Aldehyde
Length = 214
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 58/214 (27%), Positives = 84/214 (39%), Gaps = 34/214 (15%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF +V AL + G L+LS Y +A++Y
Sbjct: 18 QGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVDCVSENDGCGGGYMTNAFQYVQ 75
Query: 75 -HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR--I 130
+ G+ +E+ PY C + P KC YR
Sbjct: 76 KNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC-------------------RGYREIP 113
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWGTSD 187
+ + + + + GPV V+ F Y GVY + D + HAV +G+G
Sbjct: 114 EGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNL-NHAVLAVGYGI-Q 171
Query: 188 DGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 220
G +WI+ N W +WG GY + R +N CGI
Sbjct: 172 KGNKHWIIKNSWGENWGNKGYILMARNKNNACGI 205
>pdb|1VSN|A Chain A, Crystal Structure Of A Potent Small Molecule Inhibitor
Bound To Cathepsin K
Length = 215
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 61/216 (28%), Positives = 87/216 (40%), Gaps = 38/216 (17%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF +V AL + G L+L+ Y +A++Y
Sbjct: 19 QGQCGSCWAFSSVGALEGQLKKATGALLNLA--PQNLVDCVSENDGCGGGYMTNAFQYVQ 76
Query: 75 -HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINS 132
+ G+ +E+ PY C + P KC YR
Sbjct: 77 RNRGIDSEDAYPYVGQDESCMY---NPTGKAAKC-------------------RGYR--E 112
Query: 133 DPEDIMAEIYKN----GPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWGT 185
PE A + + GPV V+ F Y +GVY ++ + D + HAV +G+G
Sbjct: 113 IPEGNEAALKRAVAAVGPVSVAIDASLTSFQFYSAGVYYDENCSSDAL-NHAVLAVGYGI 171
Query: 186 SDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 220
G +WI+ N W SWG GY + R +N CGI
Sbjct: 172 -QAGNKHWIIKNSWGESWGNAGYILMARNKNNACGI 206
>pdb|1U9V|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With The Covalent Inhibitor Nvp-Abe854
pdb|1U9W|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With The Covalent Inhibitor Nvp-Abi491
pdb|1U9X|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With The Covalent Inhibitor Nvp-Abj688
pdb|2R6N|A Chain A, Crystal Structure Of A Pyrrolopyrimidine Inhibitor In
Complex With Human Cathepsin K
Length = 217
Score = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 59/226 (26%), Positives = 88/226 (38%), Gaps = 34/226 (15%)
Query: 3 FTNSEHVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 62
+ +V + QG CGSCWAF +V AL + G L+LS
Sbjct: 9 YRKKGYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVDCVSENDGCG 66
Query: 63 XXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNS 120
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 67 GGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC-------------- 109
Query: 121 KHYSISAYR--INSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGG 175
YR + + + + + GPV V+ F Y GVY + D +
Sbjct: 110 -----RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNL-N 163
Query: 176 HAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 220
HAV +G+G G +WI+ N W +WG GY + R +N CGI
Sbjct: 164 HAVLAVGYGI-QKGNKHWIIKNSWGENWGNKGYILMARNKNNACGI 208
>pdb|1MEM|A Chain A, Crystal Structure Of Cathepsin K Complexed With A Potent
Vinyl Sulfone Inhibitor
pdb|1NL6|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Azepanone Inhibitor
pdb|1NL6|B Chain B, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Azepanone Inhibitor
pdb|1NLJ|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Azepanone Inhibitor
pdb|1NLJ|B Chain B, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Azepanone Inhibitor
pdb|1Q6K|A Chain A, Cathepsin K Complexed With T-butyl(1s)-1-cyclohexyl-2-
Oxoethylcarbamate
pdb|1TU6|A Chain A, Cathepsin K Complexed With A Ketoamide Inhibitor
pdb|1TU6|B Chain B, Cathepsin K Complexed With A Ketoamide Inhibitor
pdb|1YK7|A Chain A, Cathepsin K Complexed With A Cyanopyrrolidine Inhibitor
pdb|1YK8|A Chain A, Cathepsin K Complexed With A Cyanamide-Based Inhibitor
pdb|1YT7|A Chain A, Cathepsin K Complexed With A Constrained Ketoamide
Inhibitor
pdb|2BDL|A Chain A, Cathepsin K Complexed With A Pyrrolidine Ketoamide-Based
Inhibitor
pdb|2ATO|A Chain A, Crystal Structure Of Human Cathepsin K In Complex With
Myocrisin
pdb|2AUX|A Chain A, Cathepsin K Complexed With A Semicarbazone Inhibitor
pdb|2AUZ|A Chain A, Cathepsin K Complexed With A Semicarbazone Inhibitor
pdb|2FTD|A Chain A, Crystal Structure Of Cathepsin K Complexed With 7-Methyl-
Substituted Azepan-3-One Compound
pdb|2FTD|B Chain B, Crystal Structure Of Cathepsin K Complexed With 7-Methyl-
Substituted Azepan-3-One Compound
pdb|1ATK|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With The Covalent Inhibitor E-64
pdb|1AU0|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Symmetric Diacylaminomethyl
Ketone Inhibitor
pdb|1AU2|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Propanone Inhibitor
pdb|1AU3|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Pyrrolidinone Inhibitor
pdb|1AU4|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Pyrrolidinone Inhibitor
pdb|1AYU|A Chain A, Crystal Structure Of Cysteine Protease Human Cathepsin K
In Complex With A Covalent Symmetric Biscarbohydrazide
Inhibitor
pdb|1AYV|A Chain A, Crystal Structure Of Cysteine Protease Human Cathepsin K
In Complex With A Covalent Thiazolhydrazide Inhibitor
pdb|1AYW|A Chain A, Crystal Structure Of Cysteine Protease Human Cathepsin K
In Complex With A Covalent
Benzyloxybenzoylcarbohydrazide Inhibitor
pdb|1BGO|A Chain A, Crystal Structure Of Cysteine Protease Human Cathepsin K
In Complex With A Covalent Peptidomimetic Inhibitor
pdb|3C9E|A Chain A, Crystal Structure Of The Cathepsin K : Chondroitin Sulfate
Complex.
pdb|3KW9|A Chain A, X-Ray Structure Of Cathepsin K Covalently Bound To A
Triazine Ligand
pdb|3KWZ|A Chain A, Cathepsin K In Complex With A Non-Selective 2-Cyano-
Pyrimidine Inhibitor
pdb|3KX1|A Chain A, Cathepsin K In Complex With A Selective 2-Cyano-Pyrimidine
Inhibitor
pdb|3KWB|X Chain X, Structure Of Catk Covalently Bound To A Dioxo-Triazine
Inhibitor
pdb|3KWB|Y Chain Y, Structure Of Catk Covalently Bound To A Dioxo-Triazine
Inhibitor
pdb|3O1G|A Chain A, Cathepsin K Covalently Bound To A 2-Cyano Pyrimidine
Inhibitor With A Benzyl P3 Group.
pdb|3O0U|A Chain A, Cathepsin K Covalently Bound To A Cyano-Pyrimidine
Inhibitor With Improved Selectivity Over Herg
pdb|4DMX|A Chain A, Cathepsin K Inhibitor
pdb|4DMY|A Chain A, Cathepsin K Inhibitor
pdb|4DMY|B Chain B, Cathepsin K Inhibitor
Length = 215
Score = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 58/214 (27%), Positives = 84/214 (39%), Gaps = 34/214 (15%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF +V AL + G L+LS Y +A++Y
Sbjct: 19 QGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVDCVSENDGCGGGYMTNAFQYVQ 76
Query: 75 -HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR--I 130
+ G+ +E+ PY C + P KC YR
Sbjct: 77 KNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC-------------------RGYREIP 114
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWGTSD 187
+ + + + + GPV V+ F Y GVY + D + HAV +G+G
Sbjct: 115 EGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNL-NHAVLAVGYGI-Q 172
Query: 188 DGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 220
G +WI+ N W +WG GY + R +N CGI
Sbjct: 173 KGNKHWIIKNSWGENWGNKGYILMARNKNNACGI 206
>pdb|2NQD|B Chain B, Crystal Structure Of Cysteine Protease Inhibitor,
Chagasin, In Complex With Human Cathepsin L
Length = 221
Score = 58.5 bits (140), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 56/217 (25%), Positives = 82/217 (37%), Gaps = 35/217 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF A AL + G +SLS A++Y
Sbjct: 20 QGQCGSAWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQ 79
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YRI 130
+G + E +YP C + + YS++ I
Sbjct: 80 DNGGLD----------------SEESYPYEATEESC-------KYNPKYSVANDTGFVDI 116
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG--- 184
+ +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 117 PKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLVVGYGFES 175
Query: 185 TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
T D YW++ N W WG GY K+ K N CGI
Sbjct: 176 TESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 212
>pdb|3IV2|A Chain A, Crystal Structure Of Mature Apo-Cathepsin L C25a Mutant
pdb|3IV2|B Chain B, Crystal Structure Of Mature Apo-Cathepsin L C25a Mutant
pdb|3K24|A Chain A, Crystal Structure Of Mature Apo-Cathepsin L C25a Mutant In
Complex With Gln-Leu-Ala Peptide
pdb|3K24|B Chain B, Crystal Structure Of Mature Apo-Cathepsin L C25a Mutant In
Complex With Gln-Leu-Ala Peptide
Length = 220
Score = 58.5 bits (140), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 56/217 (25%), Positives = 82/217 (37%), Gaps = 35/217 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF A AL + G +SLS A++Y
Sbjct: 19 QGQCGSAWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQ 78
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YRI 130
+G + E +YP C + + YS++ I
Sbjct: 79 DNGGLDSE----------------ESYPYEATEESC-------KYNPKYSVANDTGFVDI 115
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG--- 184
+ +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 116 PKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLVVGYGFES 174
Query: 185 TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
T D YW++ N W WG GY K+ K N CGI
Sbjct: 175 TESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 211
>pdb|7PCK|A Chain A, Crystal Structure Of Wild Type Human Procathepsin K
pdb|7PCK|B Chain B, Crystal Structure Of Wild Type Human Procathepsin K
pdb|7PCK|C Chain C, Crystal Structure Of Wild Type Human Procathepsin K
pdb|7PCK|D Chain D, Crystal Structure Of Wild Type Human Procathepsin K
pdb|1BY8|A Chain A, The Crystal Structure Of Human Procathepsin K
Length = 314
Score = 58.5 bits (140), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 58/214 (27%), Positives = 83/214 (38%), Gaps = 34/214 (15%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF +V AL + G L+LS Y +A++Y
Sbjct: 118 QGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVDCVSENDGCGGGYMTNAFQYVQ 175
Query: 75 -HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYR--I 130
+ G+ +E+ PY C + P KC YR
Sbjct: 176 KNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC-------------------RGYREIP 213
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWGTSD 187
+ + + + + GPV V+ F Y GVY + D + HAV +G+G
Sbjct: 214 EGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNL-NHAVLAVGYGI-Q 271
Query: 188 DGEDYWILANQWNRSWGADGYFKIKRGSNE-CGI 220
G +WI+ N W +WG GY + R N CGI
Sbjct: 272 KGNKHWIIKNSWGENWGNKGYILMARNKNNACGI 305
>pdb|3BC3|A Chain A, Exploring Inhibitor Binding At The S Subsites Of Cathepsin
L
pdb|3BC3|B Chain B, Exploring Inhibitor Binding At The S Subsites Of Cathepsin
L
pdb|3H8C|A Chain A, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors (Compound 14)
pdb|3H8C|B Chain B, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors (Compound 14)
Length = 220
Score = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 56/217 (25%), Positives = 82/217 (37%), Gaps = 35/217 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF A AL + G +SLS A++Y
Sbjct: 19 QGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQ 78
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YRI 130
+G + E +YP C + + YS++ I
Sbjct: 79 DNGGLDSE----------------ESYPYEATEESC-------KYNPKYSVANDTGFVDI 115
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG--- 184
+ +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 116 PKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLVVGYGFES 174
Query: 185 TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
T D YW++ N W WG GY K+ K N CGI
Sbjct: 175 TESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 211
>pdb|3KSE|A Chain A, Unreduced Cathepsin L In Complex With Stefin A
pdb|3KSE|B Chain B, Unreduced Cathepsin L In Complex With Stefin A
pdb|3KSE|C Chain C, Unreduced Cathepsin L In Complex With Stefin A
Length = 220
Score = 57.8 bits (138), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 56/217 (25%), Positives = 82/217 (37%), Gaps = 35/217 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF A AL + G +SLS A++Y
Sbjct: 19 QGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQ 78
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YRI 130
+G + E +YP C + + YS++ I
Sbjct: 79 DNGGLDSE----------------ESYPYEATEESC-------KYNPKYSVANDAGFVDI 115
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG--- 184
+ +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 116 PKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLVVGYGFES 174
Query: 185 TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
T D YW++ N W WG GY K+ K N CGI
Sbjct: 175 TESDDNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 211
>pdb|1CS8|A Chain A, Crystal Structure Of Procathepsin L
Length = 316
Score = 57.4 bits (137), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 56/217 (25%), Positives = 82/217 (37%), Gaps = 35/217 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF A AL + G +SLS A++Y
Sbjct: 115 QGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQ 174
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YRI 130
+G + E +YP C + + YS++ I
Sbjct: 175 DNGGLD----------------SEESYPYEATEESC-------KYNPKYSVANDAGFVDI 211
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG--- 184
+ +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 212 PKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLVVGYGFES 270
Query: 185 TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
T D YW++ N W WG GY K+ K N CGI
Sbjct: 271 TESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 307
>pdb|3H6S|A Chain A, Strucure Of Clitocypin - Cathepsin V Complex
pdb|3H6S|B Chain B, Strucure Of Clitocypin - Cathepsin V Complex
pdb|3H6S|C Chain C, Strucure Of Clitocypin - Cathepsin V Complex
pdb|3H6S|D Chain D, Strucure Of Clitocypin - Cathepsin V Complex
pdb|3KFQ|A Chain A, Unreduced Cathepsin V In Complex With Stefin A
pdb|3KFQ|B Chain B, Unreduced Cathepsin V In Complex With Stefin A
Length = 221
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 55/226 (24%), Positives = 92/226 (40%), Gaps = 38/226 (16%)
Query: 8 HVEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPI 67
+V + Q CGS WAF A AL + G +SLS +
Sbjct: 12 YVTPVKNQKQCGSXWAFSATGALEGQMFRKTGKLVSLSEQNLVDCSRPQGNQGCNGGFMA 71
Query: 68 SAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSIS 126
A++Y +G + +EE PY + K +N + +++ ++
Sbjct: 72 RAFQYVKENGGLDSEESYPYV---------------AVDEICKYRPENSVAQDTGFTVVA 116
Query: 127 AYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY-------KHITGDVMGGHAV 178
+ + +M + GP+ V+ + F YKSG+Y K++ H V
Sbjct: 117 PGK----EKALMKAVATVGPISVAMDAGHSSFQFYKSGIYFEPDCSSKNLD------HGV 166
Query: 179 KLIGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 220
++G+G + D YW++ N W WG++GY KI K +N CGI
Sbjct: 167 LVVGYGFEGANSDNSKYWLVKNSWGPEWGSNGYVKIAKDKNNHCGI 212
>pdb|2VHS|A Chain A, Cathsilicatein, A Chimera
pdb|2VHS|B Chain B, Cathsilicatein, A Chimera
pdb|2VHS|C Chain C, Cathsilicatein, A Chimera
pdb|2VHS|D Chain D, Cathsilicatein, A Chimera
Length = 217
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 54/209 (25%), Positives = 81/209 (38%), Gaps = 22/209 (10%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CG+ +AF A AL + G +SLS A++Y
Sbjct: 19 QGQCGASYAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQ 78
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDP 134
+G + DS E +YP C K N + S + I
Sbjct: 79 DNGGL--------DS--------EESYPYEATEESC-KYNPKY--SVANDVGFVDIPKQE 119
Query: 135 EDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY-KHITGDVMGGHAVKLIGWGTSDDGEDY 192
+ +M + GP+ V+ +E F YK G+Y HA+ ++G+G + + Y
Sbjct: 120 KALMKAVATVGPISVAIDAGHESFLFYKEGIYFSSDCSSSSLNHAMLVVGYGFISNNQKY 179
Query: 193 WILANQWNRSWGADGYFKI-KRGSNECGI 220
W++ N W WG GY K+ K N CGI
Sbjct: 180 WLVKNSWGEEWGMGGYVKMAKDRRNHCGI 208
>pdb|3IOQ|A Chain A, Crystal Structure Of The Carica Candamarcensis Cysteine
Protease Cms1ms2 In Complex With E-64
Length = 213
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 60/215 (27%), Positives = 84/215 (39%), Gaps = 30/215 (13%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCW F +V A+ I G LSLS +P+ A +Y
Sbjct: 19 QGGCGSCWTFSSVAAVEGINKIVTGQLLSLSEQELLDCERRSYGCRGG--FPLYALQYVA 76
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDP 134
+ G+ + PY G PK V + + RN++ I RI P
Sbjct: 77 NSGIHLRQYYPY---EGVQRQCRASQAKGPKVKTDGVGR--VPRNNEQALIQ--RIAIQP 129
Query: 135 EDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWI 194
I+ E F +Y+ G++ G + HAV +G+G DY +
Sbjct: 130 VSIVVEAKG-----------RAFQNYRGGIFAGPCGTSID-HAVAAVGYG-----NDYIL 172
Query: 195 LANQWNRSWGADGYFKIKRGSNE----CGIEEDVV 225
+ N W WG GY +IKRGS CG+ D V
Sbjct: 173 IKNSWGTGWGEGGYIRIKRGSGNPQGACGVLSDSV 207
>pdb|1PIP|A Chain A, Crystal Structure Of
Papain-Succinyl-Gln-Val-Val-Ala-Ala-P- Nitroanilide
Complex At 1.7 Angstroms Resolution: Noncovalent Binding
Mode Of A Common Sequence Of Endogenous Thiol Protease
Inhibitors
pdb|1POP|A Chain A, X-Ray Crystallographic Structure Of A Papain-Leupeptin
Complex
pdb|1CVZ|A Chain A, Crystal Structure Analysis Of Papain With
Clik148(Cathepsin L Specific Inhibitor)
pdb|1BP4|A Chain A, Use Of Papain As A Model For The Structure-Based Design Of
Cathepsin K Inhibitors. Crystal Structures Of Two Papain
Inhibitor Complexes Demonstrate Binding To S'-Subsites.
pdb|1BQI|A Chain A, Use Of Papain As A Model For The Structure-Based Design Of
Cathepsin K Inhibitors. Crystal Structures Of Two Papain
Inhibitor Complexes Demonstrate Binding To S'-Subsites.
pdb|1PE6|A Chain A, Refined X-Ray Structure Of Papain(Dot)e-64-C Complex At
2.1-Angstroms Resolution
pdb|1PPD|A Chain A, Restrained Least-Squares Refinement Of The Sulfhydryl
Protease Papain To 2.0 Angstroms
pdb|2PAD|A Chain A, Binding Of Chloromethyl Ketone Substrate Analogues To
Crystalline Papain
pdb|4PAD|A Chain A, Binding Of Chloromethyl Ketone Substrate Analogues To
Crystalline Papain
pdb|6PAD|A Chain A, Binding Of Chloromethyl Ketone Substrate Analogues To
Crystalline Papain
pdb|1PAD|A Chain A, Binding Of Chloromethyl Ketone Substrate Analogues To
Crystalline Papain
pdb|5PAD|A Chain A, Binding Of Chloromethyl Ketone Substrate Analogues To
Crystalline Papain
Length = 212
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 58/212 (27%), Positives = 82/212 (38%), Gaps = 34/212 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF AV + I G NL+ + YP SA +
Sbjct: 19 QGSCGSCWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCNGGYPWSALQLVA 76
Query: 75 HHGVVTEECDPYFD-STGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+G+ PY C P VR+ NQ + YSI+
Sbjct: 77 QYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQ---GALLYSIA------- 126
Query: 134 PEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDY 192
N PV V +DF Y+ G++ G+ + HAV +G+G +Y
Sbjct: 127 ----------NQPVSVVLQAAGKDFQLYRGGIFVGPCGNKVD-HAVAAVGYG-----PNY 170
Query: 193 WILANQWNRSWGADGYFKIKRGSNE----CGI 220
++ N W WG +GY +IKRG+ CG+
Sbjct: 171 ILIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 202
>pdb|1PPP|A Chain A, Crystal Structure Of Papain-E64-C Complex. Binding
Diversity Of E64-C To Papain S2 And S3 Subsites
Length = 212
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 58/212 (27%), Positives = 82/212 (38%), Gaps = 34/212 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF AV + I G NL+ + YP SA +
Sbjct: 19 QGSCGSCWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCNGGYPWSALQLVA 76
Query: 75 HHGVVTEECDPYFD-STGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+G+ PY C P VR+ NQ + YSI+
Sbjct: 77 QYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQ---GALLYSIA------- 126
Query: 134 PEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDY 192
N PV V +DF Y+ G++ G+ + HAV +G+G +Y
Sbjct: 127 ----------NQPVSVVLQAAGKDFQLYRGGIFVGPCGNKVD-HAVAAVGYG-----PNY 170
Query: 193 WILANQWNRSWGADGYFKIKRGSNE----CGI 220
++ N W WG +GY +IKRG+ CG+
Sbjct: 171 ILIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 202
>pdb|1KHP|A Chain A, Monoclinic Form Of Papain/zlfg-dam Covalent Complex
pdb|1KHQ|A Chain A, Orthorhombic Form Of PapainZLFG-Dam Covalent Complex
pdb|1PPN|A Chain A, Structure Of Monoclinic Papain At 1.60 Angstroms
Resolution
pdb|3E1Z|B Chain B, Crystal Structure Of The Parasite Protesase Inhibitor
Chagasin In Complex With Papain
Length = 212
Score = 53.9 bits (128), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 54/211 (25%), Positives = 85/211 (40%), Gaps = 32/211 (15%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF AV + I G NL+ + YP SA +
Sbjct: 19 QGSCGSCWAFSAVVTIEGIIKIRTG-NLN-EYSEQELLDCDRRSYGCNGGYPWSALQLVA 76
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDP 134
+G+ ++ +T YP R C + + +K + ++
Sbjct: 77 QYGI-------HYRNT----------YPYEGVQRYCRSREKGPYAAKTDGVR--QVQPYN 117
Query: 135 EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 193
E + N PV V +DF Y+ G++ G+ + HAV +G+G +Y
Sbjct: 118 EGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVD-HAVAAVGYG-----PNYI 171
Query: 194 ILANQWNRSWGADGYFKIKRGSNE----CGI 220
++ N W WG +GY +IKRG+ CG+
Sbjct: 172 LIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 202
>pdb|3U8E|A Chain A, Crystal Structure Of Cysteine Protease From Bulbs Of
Crocus Sativus At 1.3 A Resolution
Length = 222
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 57/204 (27%), Positives = 84/204 (41%), Gaps = 20/204 (9%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CG CWAFGA A+ I G +S+S A+R+ +
Sbjct: 19 QGACGMCWAFGATGAIEGIDAITTGRLISVSEQQIVDCDTXXXXXXGGDAD--DAFRWVI 76
Query: 75 HHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+G + + + PY G C+ P + + N + S SA
Sbjct: 77 TNGGIASDANYPYTGVDGT----CDLNKPIAARIDG-------YTNVPNSS-SALLDAVA 124
Query: 134 PEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 193
+ + IY + SF +Y + V H V ++G+G++ DYW
Sbjct: 125 KQPVSVNIYTS---STSFQLYTGPGIFAGSSCSDDPATV--DHTVLIVGYGSNGTNADYW 179
Query: 194 ILANQWNRSWGADGYFKIKRGSNE 217
I+ N W WG DGY I+R +N
Sbjct: 180 IVKNSWGTEWGIDGYILIRRNTNR 203
>pdb|1M6D|A Chain A, Crystal Structure Of Human Cathepsin F
pdb|1M6D|B Chain B, Crystal Structure Of Human Cathepsin F
Length = 214
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 51/104 (49%), Gaps = 3/104 (2%)
Query: 119 NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY--EDFAHYKSGVYKHITGDVMGGH 176
+K Y + ++ + + + A + K GP+ V+ + + + H S + + + H
Sbjct: 102 KAKVYIQDSVELSQNEQKLAAWLAKRGPISVAINAFGMQFYRHGISRPLRPLCSPWLIDH 161
Query: 177 AVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGI 220
AV L+G+G D +W + N W WG GY+ + RGS CG+
Sbjct: 162 AVLLVGYGQRSD-VPFWAIKNSWGTDWGEKGYYYLHRGSGACGV 204
>pdb|1O0E|A Chain A, 1.9 Angstrom Crystal Structure Of A Plant Cysteine
Protease Ervatamin C
pdb|1O0E|B Chain B, 1.9 Angstrom Crystal Structure Of A Plant Cysteine
Protease Ervatamin C
Length = 208
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 56/215 (26%), Positives = 81/215 (37%), Gaps = 40/215 (18%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF V + I G +SLS + A++Y +
Sbjct: 19 QGSCGSCWAFSTVSTVESINQIRTGNLISLSEQELVDCDKKNHGCLGGAF--VFAYQYII 76
Query: 75 HHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
++G + + + PY G C+ A SK SI Y N
Sbjct: 77 NNGGIDTQANYPYKAVQG----PCQAA-------------------SKVVSIDGY--NGV 111
Query: 134 P---EDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDG 189
P E + + P V+ F Y SG++ G + H V ++G+
Sbjct: 112 PFCNEXALKQAVAVQPSTVAIDASSAQFQQYSSGIFSGPCGTKLN-HGVTIVGYQA---- 166
Query: 190 EDYWILANQWNRSWGADGYFKIKR--GSNECGIEE 222
+YWI+ N W R WG GY ++ R G CGI
Sbjct: 167 -NYWIVRNSWGRYWGEKGYIRMLRVGGCGLCGIAR 200
>pdb|1K3B|B Chain B, Crystal Structure Of Human Dipeptidyl Peptidase I
(Cathepsin C): Exclusion Domain Added To An
Endopeptidase Framework Creates The Machine For
Activation Of Granular Serine Proteases
pdb|2DJG|B Chain B, Re-determination Of The Native Structure Of Human
Dipeptidyl Peptidase I (cathepsin C)
pdb|2DJF|B Chain B, Crystal Structure Of Human Dipeptidyl Peptidase I
(Cathepsin C) In Complex With The Inhibitor Gly-Phe-Chn2
Length = 164
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 40/156 (25%), Positives = 67/156 (42%), Gaps = 20/156 (12%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYP-ISAWRYF 73
Q CGSC++F ++ L R I + + ++ +P + A +Y
Sbjct: 22 QASCGSCYSFASMGMLEARIRILTNNSQTPILSPQEVVSCSQYAQGCEGGFPYLIAGKYA 81
Query: 74 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWR--NSKHYSISAYRIN 131
G+V E C PY TG P C K +R +S+++ + +
Sbjct: 82 QDFGLVEEACFPY---TGTDSP--------------CKMKEDCFRYYSSEYHYVGGFYGG 124
Query: 132 SDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKH 167
+ + E+ +GP+ V+F VY+DF HYK G+Y H
Sbjct: 125 CNEALMKLELVHHGPMAVAFEVYDDFLHYKKGIYHH 160
>pdb|3RVW|A Chain A, Crystal Structure Of Der P 1 Complexed With Fab 4c1
pdb|3RVX|A Chain A, Crystal Structure Of Der P 1 Complexed With Fab 4c1
Length = 222
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 53/221 (23%), Positives = 80/221 (36%), Gaps = 34/221 (15%)
Query: 9 VEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPIS 68
V + +QG CGSCWAF V A + + +L L+ I
Sbjct: 22 VTPIRMQGGCGSCWAFSGVAATESAYLAYRNQSLDLAEQELVDCASQHGCHGDTIPRGIE 81
Query: 69 AWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA 127
Y H+GVV E Y C P N++ + IS
Sbjct: 82 ---YIQHNGVVQESYYRYVAREQSCRRP-----------------------NAQRFGISN 115
Query: 128 YRINSDP-----EDIMAEIYKNGPVEVSFTVYEDFAHYK-SGVYKHITGDVMGGHAVKLI 181
Y P + +A+ + V + + F HY + + G HAV ++
Sbjct: 116 YCQIYPPNVNKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIV 175
Query: 182 GWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEE 222
G+ + G DYWI+ N W+ +WG +GY + IEE
Sbjct: 176 GYSNAQ-GVDYWIVRNSWDTNWGDNGYGYFAANIDLMMIEE 215
>pdb|3TNX|A Chain A, Structure Of The Precursor Of A Thermostable Variant Of
Papain At 2.6 Angstroem Resolution
pdb|3TNX|C Chain C, Structure Of The Precursor Of A Thermostable Variant Of
Papain At 2.6 Angstroem Resolution
pdb|3USV|A Chain A, Structure Of The Precursor Of A Thermostable Variant Of
Papain At 3.8 A Resolution From A Crystal Soaked At Ph 4
pdb|3USV|C Chain C, Structure Of The Precursor Of A Thermostable Variant Of
Papain At 3.8 A Resolution From A Crystal Soaked At Ph 4
Length = 363
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 56/212 (26%), Positives = 81/212 (38%), Gaps = 34/212 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF AV + I G NL+ + YP SA +
Sbjct: 170 QGSCGSAWAFSAVSTIESIIKIRTG-NLN-EYSEQELLDCDRRSYGCNGGYPWSALQLVA 227
Query: 75 HHGVVTEECDPYFD-STGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+G+ PY C P VR+ N+ + YSI+
Sbjct: 228 QYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNE---GALLYSIA------- 277
Query: 134 PEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDY 192
N PV V +DF Y+ G++ G+ + HAV +G+G +Y
Sbjct: 278 ----------NQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVD-HAVAAVGYGP-----NY 321
Query: 193 WILANQWNRSWGADGYFKIKRGSNE----CGI 220
++ N W WG +GY +IKRG+ CG+
Sbjct: 322 ILIRNSWGTGWGENGYIRIKRGTGNSYGVCGL 353
>pdb|2AS8|A Chain A, Crystal Structure Of Mature And Fully Active Der P 1
Allergen
pdb|2AS8|B Chain B, Crystal Structure Of Mature And Fully Active Der P 1
Allergen
Length = 222
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 53/221 (23%), Positives = 80/221 (36%), Gaps = 34/221 (15%)
Query: 9 VEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPIS 68
V + +QG CGSCWAF V A + + +L L+ I
Sbjct: 22 VTPIRMQGGCGSCWAFSGVAATESAYLAYRQQSLDLAEQELVDCASQHGCHGDTIPRGIE 81
Query: 69 AWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA 127
Y H+GVV E Y C P N++ + IS
Sbjct: 82 ---YIQHNGVVQESYYRYVAREQSCRRP-----------------------NAQRFGISN 115
Query: 128 YRINSDP-----EDIMAEIYKNGPVEVSFTVYEDFAHYK-SGVYKHITGDVMGGHAVKLI 181
Y P + +A+ + V + + F HY + + G HAV ++
Sbjct: 116 YCQIYPPNANKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIV 175
Query: 182 GWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEE 222
G+ + G DYWI+ N W+ +WG +GY + IEE
Sbjct: 176 GYSNAQ-GVDYWIVRNSWDTNWGDNGYGYFAANIDLMMIEE 215
>pdb|1STF|E Chain E, The Refined 2.4 Angstroms X-Ray Crystal Structure Of
Recombinant Human Stefin B In Complex With The Cysteine
Proteinase Papain: A Novel Type Of Proteinase Inhibitor
Interaction
pdb|9PAP|A Chain A, Structure Of Papain Refined At 1.65 Angstroms Resolution
Length = 212
Score = 50.8 bits (120), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 57/212 (26%), Positives = 81/212 (38%), Gaps = 34/212 (16%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF AV + I G NL+ + YP SA +
Sbjct: 19 QGSCGSXWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCNGGYPWSALQLVA 76
Query: 75 HHGVVTEECDPYFD-STGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 133
+G+ PY C P VR+ NQ + YSI+
Sbjct: 77 QYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQ---GALLYSIA------- 126
Query: 134 PEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDY 192
N PV V +DF Y+ G++ G+ + HAV +G+G +Y
Sbjct: 127 ----------NQPVSVVLQAAGKDFQLYRGGIFVGPCGNKVD-HAVAAVGYG-----PNY 170
Query: 193 WILANQWNRSWGADGYFKIKRGSNE----CGI 220
++ N W WG +GY +IKRG+ CG+
Sbjct: 171 ILIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 202
>pdb|2CIO|A Chain A, The High Resolution X-Ray Structure Of Papain Complexed
With Fragments Of The Trypanosoma Brucei Cysteine
Protease Inhibitor Icp
Length = 212
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 53/211 (25%), Positives = 84/211 (39%), Gaps = 32/211 (15%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF AV + I G NL+ + YP SA +
Sbjct: 19 QGSCGSXWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCNGGYPWSALQLVA 76
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDP 134
+G+ ++ +T YP R C + + +K + ++
Sbjct: 77 QYGI-------HYRNT----------YPYEGVQRYCRSREKGPYAAKTDGVR--QVQPYN 117
Query: 135 EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 193
E + N PV V +DF Y+ G++ G+ + HAV +G+G +Y
Sbjct: 118 EGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVD-HAVAAVGYG-----PNYI 171
Query: 194 ILANQWNRSWGADGYFKIKRGSNE----CGI 220
++ N W WG +GY +IKRG+ CG+
Sbjct: 172 LIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 202
>pdb|3IMA|A Chain A, Complex Strcuture Of Tarocystatin And Papain
pdb|3IMA|C Chain C, Complex Strcuture Of Tarocystatin And Papain
pdb|3LFY|A Chain A, Ctd Of Tarocystatin In Complex With Papain
pdb|3LFY|C Chain C, Ctd Of Tarocystatin In Complex With Papain
Length = 212
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 53/211 (25%), Positives = 84/211 (39%), Gaps = 32/211 (15%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF AV + I G NL+ + YP SA +
Sbjct: 19 QGSCGSXWAFSAVVTIEGIIKIRTG-NLN-EYSEQELLDCDRRSYGCNGGYPWSALQLVA 76
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDP 134
+G+ ++ +T YP R C + + +K + ++
Sbjct: 77 QYGI-------HYRNT----------YPYEGVQRYCRSREKGPYAAKTDGVR--QVQPYN 117
Query: 135 EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 193
E + N PV V +DF Y+ G++ G+ + HAV +G+G +Y
Sbjct: 118 EGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVD-HAVAAVGYGP-----NYI 171
Query: 194 ILANQWNRSWGADGYFKIKRGSNE----CGI 220
++ N W WG +GY +IKRG+ CG+
Sbjct: 172 LIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 202
>pdb|1HUC|A Chain A, The Refined 2.15 Angstroms X-Ray Crystal Structure Of
Human Liver Cathepsin B: The Structural Basis For Its
Specificity
pdb|1HUC|C Chain C, The Refined 2.15 Angstroms X-Ray Crystal Structure Of
Human Liver Cathepsin B: The Structural Basis For Its
Specificity
pdb|1CSB|A Chain A, Crystal Structure Of Cathepsin B Inhibited With Ca030 At
2.1 Angstroms Resolution: A Basis For The Design Of
Specific Epoxysuccinyl Inhibitors
pdb|1CSB|D Chain D, Crystal Structure Of Cathepsin B Inhibited With Ca030 At
2.1 Angstroms Resolution: A Basis For The Design Of
Specific Epoxysuccinyl Inhibitors
pdb|2IPP|A Chain A, Crystal Structure Of The Tetragonal Form Of Human Liver
Cathepsin B
Length = 47
Score = 49.7 bits (117), Expect = 1e-06, Method: Composition-based stats.
Identities = 20/23 (86%), Positives = 21/23 (91%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIH 37
QG CGSCWAFGAVEA+SDR CIH
Sbjct: 23 QGSCGSCWAFGAVEAISDRICIH 45
>pdb|1XKG|A Chain A, Crystal Structure Of The Major House Dust Mite Allergen
Der P 1 In Its Pro Form At 1.61 A Resolution
Length = 312
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 48/202 (23%), Positives = 76/202 (37%), Gaps = 24/202 (11%)
Query: 9 VEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPIS 68
V + +QG CGS WAF V A + + +L L+ I
Sbjct: 102 VTPIRMQGGCGSAWAFSGVAATESAYLAYRDQSLDLAEQELVDCASQHGCHGDTIPRGIE 161
Query: 69 AWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA 127
Y H+GVV E Y C P + + C + Y +A
Sbjct: 162 ---YIQHNGVVQESYYRYVAREQSCRRPNAQRFGISNYC--------------QIYPPNA 204
Query: 128 YRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYK-SGVYKHITGDVMGGHAVKLIGWGTS 186
+I + +A+ + V + + F HY + + G HAV ++G+ +
Sbjct: 205 NKI----REALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIVGYSNA 260
Query: 187 DDGEDYWILANQWNRSWGADGY 208
G DYWI+ N W+ +WG +GY
Sbjct: 261 Q-GVDYWIVRNSWDTNWGDNGY 281
>pdb|1SP4|A Chain A, Crystal Structure Of Ns-134 In Complex With Bovine
Cathepsin B: A Two Headed Epoxysuccinyl Inhibitor
Extends Along The Whole Active Site Cleft
Length = 48
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/35 (60%), Positives = 26/35 (74%)
Query: 3 FTNSEHVEILVIQGHCGSCWAFGAVEALSDRFCIH 37
+ N ++ + QG CGSCWAFGAVEA+SDR CIH
Sbjct: 11 WPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIH 45
>pdb|3F5V|A Chain A, C2 Crystal Form Of Mite Allergen Der P 1
pdb|3F5V|B Chain B, C2 Crystal Form Of Mite Allergen Der P 1
Length = 222
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 51/216 (23%), Positives = 80/216 (37%), Gaps = 24/216 (11%)
Query: 9 VEILVIQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPIS 68
V + +QG CGS WAF V A + + +L L+ I
Sbjct: 22 VTPIRMQGGCGSXWAFSGVAATESAYLAYRQQSLDLAEQELVDCASQHGCHGDTIPRGIE 81
Query: 69 AWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA 127
Y H+GVV E Y C P + + C + Y +A
Sbjct: 82 ---YIQHNGVVQESYYRYVAREQSCRRPNAQRFGISNYC--------------QIYPPNA 124
Query: 128 YRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYK-SGVYKHITGDVMGGHAVKLIGWGTS 186
+I + +A+ + V + + F HY + + G HAV ++G+ +
Sbjct: 125 NKI----REALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIVGYSNA 180
Query: 187 DDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEE 222
G DYWI+ N W+ +WG +GY + IEE
Sbjct: 181 Q-GVDYWIVRNSWDTNWGDNGYGYFAANIDLMMIEE 215
>pdb|2WBF|X Chain X, Crystal Structure Analysis Of Sera5e From Plasmodium
Falciparum With Loop 690-700 Ordered
Length = 265
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 4/50 (8%)
Query: 166 KHITGDVMGGHAVKLIGWGT--SDDGE--DYWILANQWNRSWGADGYFKI 211
K++ GD HAV ++G+G + +GE YWI+ N W WG +GYFK+
Sbjct: 190 KNLCGDDTADHAVNIVGYGNYVNSEGEKKSYWIVRNSWGPYWGDEGYFKV 239
>pdb|1GEC|E Chain E, Glycyl Endopeptidase-complex With
Benzyloxycarbonyl-leucine-valine- Glycine-methylene
Covalently Bound To Cysteine 25
Length = 216
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 50/211 (23%), Positives = 81/211 (38%), Gaps = 28/211 (13%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG+C SCWAF V + I G + LS Y ++ +Y
Sbjct: 19 QGYCESCWAFSTVATVEGINKIKTGNLVELS--EQELVDCDLQSYGCNRGYQSTSLQYVA 76
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDP 134
+G+ PY ++ + NQ+ K + R+ S+
Sbjct: 77 QNGIHLRAKYPYIAK------------------QQTCRANQVG-GPKVKTNGVGRVQSNN 117
Query: 135 EDIMAEIYKNGPVEVSF-TVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 193
E + + PV V + DF +YK G+++ G + HAV +G+G S
Sbjct: 118 EGSLLNAIAHQPVSVVVESAGRDFQNYKGGIFEGSCGTKVD-HAVTAVGYGKSGGKGYI- 175
Query: 194 ILANQWNRSWGADGYFKIKRGSNE----CGI 220
++ N W WG +GY +I+R S CG+
Sbjct: 176 LIKNSWGPGWGENGYIRIRRASGNSPGVCGV 206
>pdb|3CH2|X Chain X, Crystal Structure Analysis Of Sera5e From Plasmodium
Falciparum
pdb|3CH3|X Chain X, Crystal Structure Analysis Of Sera5e From Plasmodium
Falciparum
Length = 265
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 43/81 (53%), Gaps = 7/81 (8%)
Query: 137 IMAEIYKNGPVEVSFTVYEDFAHYKSGVYK--HITGDVMGGHAVKLIGWGT--SDDGE-- 190
I E+ G V +++ E+ Y+ K ++ GD HAV ++G+G + +GE
Sbjct: 159 IKTEVMNKGSV-IAYIKAENVMGYEFSGKKVQNLCGDDTADHAVNIVGYGNYVNSEGEKK 217
Query: 191 DYWILANQWNRSWGADGYFKI 211
YWI+ N W WG +GYFK+
Sbjct: 218 SYWIVRNSWGPYWGDEGYFKV 238
>pdb|1PPO|A Chain A, Determination Of The Structure Of Papaya Protease Omega
Length = 216
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 51/200 (25%), Positives = 70/200 (35%), Gaps = 24/200 (12%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF AV + I G + LS YP A Y
Sbjct: 19 QGSCGSCWAFSAVATVEGINKIRTGKLVELS--EQELVDCERRSHGCKGGYPPYALEYVA 76
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDP 134
+G+ PY G C K K + R+ +
Sbjct: 77 KNGIHLRSKYPYKAKQGT-----------------CRAKQVGGPIVKTSGVG--RVQPNN 117
Query: 135 EDIMAEIYKNGPVEVSF-TVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 193
E + PV V + F YK G+++ G + HAV +G+G S
Sbjct: 118 EGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEGPCGTKVD-HAVTAVGYGKSGGKGYI- 175
Query: 194 ILANQWNRSWGADGYFKIKR 213
++ N W +WG GY +IKR
Sbjct: 176 LIKNSWGTAWGEKGYIRIKR 195
>pdb|1MEG|A Chain A, Crystal Structure Of A Caricain D158e Mutant In Complex
With E-64
Length = 216
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 51/200 (25%), Positives = 70/200 (35%), Gaps = 24/200 (12%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF AV + I G + LS YP A Y
Sbjct: 19 QGSCGSCWAFSAVATVEGINKIRTGKLVELS--EQELVDCERRSHGCKGGYPPYALEYVA 76
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDP 134
+G+ PY G C K K + R+ +
Sbjct: 77 KNGIHLRSKYPYKAKQGT-----------------CRAKQVGGPIVKTSGVG--RVQPNN 117
Query: 135 EDIMAEIYKNGPVEVSF-TVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 193
E + PV V + F YK G+++ G + HAV +G+G S
Sbjct: 118 EGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEGPCGTKVE-HAVTAVGYGKSGGKGYI- 175
Query: 194 ILANQWNRSWGADGYFKIKR 213
++ N W +WG GY +IKR
Sbjct: 176 LIKNSWGTAWGEKGYIRIKR 195
>pdb|1PCI|A Chain A, Procaricain
pdb|1PCI|B Chain B, Procaricain
pdb|1PCI|C Chain C, Procaricain
Length = 322
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 49/199 (24%), Positives = 72/199 (36%), Gaps = 22/199 (11%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF AV + I G + LS YP A Y
Sbjct: 125 QGSCGSCWAFSAVATVEGINKIRTGKLVELS--EQELVDCERRSHGCKGGYPPYALEYVA 182
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDP 134
+G+ PY G A + K ++ N++ ++A I P
Sbjct: 183 KNGIHLRSKYPYKAKQGTCR-----AKQVGGPIVKTSGVGRVQPNNEGNLLNA--IAKQP 235
Query: 135 EDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWI 194
++ E K P F YK G+++ G + G + G+ Y +
Sbjct: 236 VSVVVE-SKGRP----------FQLYKGGIFEGPCGTKVDGAVTAVG--YGKSGGKGYIL 282
Query: 195 LANQWNRSWGADGYFKIKR 213
+ N W +WG GY +IKR
Sbjct: 283 IKNSWGTAWGEKGYIRIKR 301
>pdb|3OIS|A Chain A, Crystal Structure Xylellain, A Cysteine Protease From
Xylella Fastidiosa
pdb|3OIS|B Chain B, Crystal Structure Xylellain, A Cysteine Protease From
Xylella Fastidiosa
pdb|3OIS|C Chain C, Crystal Structure Xylellain, A Cysteine Protease From
Xylella Fastidiosa
pdb|3OIS|D Chain D, Crystal Structure Xylellain, A Cysteine Protease From
Xylella Fastidiosa
Length = 291
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 38/138 (27%), Positives = 64/138 (46%), Gaps = 12/138 (8%)
Query: 77 GVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAY-RINSDPE 135
GV E+ PY D+ + P E P +K +Q ++++++Y I+ Y R+ D +
Sbjct: 137 GVCPEKEWPYGDTP--ADPRTEEFPPGAPASKK--PSDQCYKDAQNYKITEYSRVAQDID 192
Query: 136 DIMAEIYKNGPVEVSFTVYEDFAHYKS---GVYKHITGDVM-GGHAVKLIGWGTSDDGED 191
+ A + P F+VY + S + D + GGHAV +G+ DD
Sbjct: 193 HLKACLAVGSPFVFGFSVYNSWVGNNSLPVRIPLPTKNDTLEGGHAVLCVGY---DDEIR 249
Query: 192 YWILANQWNRSWGADGYF 209
++ + N W + G DGYF
Sbjct: 250 HFRIRNSWGNNVGEDGYF 267
>pdb|1ICF|A Chain A, Crystal Structure Of Mhc Class Ii Associated P41 Ii
Fragment In Complex With Cathepsin L
pdb|1ICF|C Chain C, Crystal Structure Of Mhc Class Ii Associated P41 Ii
Fragment In Complex With Cathepsin L
Length = 175
Score = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 43/177 (24%), Positives = 66/177 (37%), Gaps = 31/177 (17%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGSCWAF A AL + G +SLS A++Y
Sbjct: 19 QGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQ 78
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YRI 130
+G + DS E +YP C + + YS++ I
Sbjct: 79 DNGGL--------DS--------EESYPYEATEESC-------KYNPKYSVANDTGFVDI 115
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG 184
+ +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 116 PKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDM-DHGVLVVGYG 171
>pdb|1MHW|A Chain A, Design Of Non-covalent Inhibitors Of Human Cathepsin L.
From The 96- Residue Proregion To Optimized Tripeptides
pdb|1MHW|B Chain B, Design Of Non-covalent Inhibitors Of Human Cathepsin L.
From The 96- Residue Proregion To Optimized Tripeptides
Length = 175
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 42/177 (23%), Positives = 65/177 (36%), Gaps = 31/177 (17%)
Query: 15 QGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFV 74
QG CGS WAF A AL + G +SLS A++Y
Sbjct: 19 QGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQ 78
Query: 75 HHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YRI 130
+G + DS E +YP C + + YS++ I
Sbjct: 79 DNGGL--------DS--------EESYPYEATEESC-------KYNPKYSVANDTGFVDI 115
Query: 131 NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG 184
+ +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 116 PKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDM-DHGVLVVGYG 171
>pdb|1ICF|B Chain B, Crystal Structure Of Mhc Class Ii Associated P41 Ii
Fragment In Complex With Cathepsin L
pdb|1ICF|D Chain D, Crystal Structure Of Mhc Class Ii Associated P41 Ii
Fragment In Complex With Cathepsin L
pdb|1MHW|C Chain C, Design Of Non-covalent Inhibitors Of Human Cathepsin L.
From The 96- Residue Proregion To Optimized Tripeptides
pdb|1MHW|D Chain D, Design Of Non-covalent Inhibitors Of Human Cathepsin L.
From The 96- Residue Proregion To Optimized Tripeptides
Length = 42
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 192 YWILANQWNRSWGADGYFKI-KRGSNECGI 220
YW++ N W WG GY K+ K N CGI
Sbjct: 4 YWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 33
>pdb|3CL4|A Chain A, Crystal Structure Of Bovine Coronavirus
Hemagglutinin-Esterase
Length = 377
Score = 30.4 bits (67), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 41/103 (39%), Gaps = 7/103 (6%)
Query: 107 VRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHY---KSG 163
V C+ + N+K+Y S Y N D IY E T ++ HY SG
Sbjct: 184 VPLCIFNGKFLSNTKYYDDSQYYFNKD----TGVIYGLNSTETITTGFDFNCHYLVLPSG 239
Query: 164 VYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGAD 206
Y I+ +++ K I D ++ ++WN + +D
Sbjct: 240 NYLAISNELLLTVPTKAICLNKRKDFTPVQVVDSRWNNARQSD 282
>pdb|3CL5|A Chain A, Structure Of Coronavirus Hemagglutinin-Esterase In Complex
With 4,9-O- Diacetyl Sialic Acid
Length = 377
Score = 30.4 bits (67), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 41/103 (39%), Gaps = 7/103 (6%)
Query: 107 VRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHY---KSG 163
V C+ + N+K+Y S Y N D IY E T ++ HY SG
Sbjct: 184 VPLCIFNGKFLSNTKYYDDSQYYFNKD----TGVIYGLNSTETITTGFDFNCHYLVLPSG 239
Query: 164 VYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGAD 206
Y I+ +++ K I D ++ ++WN + +D
Sbjct: 240 NYLAISNELLLTVPTKAICLNKRKDFTPVQVVDSRWNNARQSD 282
>pdb|2EKL|A Chain A, Structure Of St1218 Protein From Sulfolobus Tokodaii
Length = 313
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 153 VYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILAN 197
+Y A KSG++K I G + G + ++G+G G I+AN
Sbjct: 120 MYTSMALAKSGIFKKIEGLELAGKTIGIVGFGRI--GTKVGIIAN 162
>pdb|2OPG|A Chain A, The Crystal Structure Of The 10th Pdz Domain Of Mpdz
pdb|2OPG|B Chain B, The Crystal Structure Of The 10th Pdz Domain Of Mpdz
Length = 98
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 21/51 (41%)
Query: 112 KKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKS 162
K +LW + ++ + D + + P V T+Y D A YKS
Sbjct: 45 KDGRLWAGDQILEVNGIDLRKATHDEAINVLRQTPQRVRLTLYRDEAPYKS 95
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|3DMJ|A Chain A, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 560
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4B3P|B Chain B, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
pdb|4B3Q|B Chain B, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 454
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 334 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 373
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2OPS|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 542
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 319 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 358
>pdb|1JKH|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1JLA|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Tnk-651
pdb|1JLB|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1JLC|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Pett-2
Length = 560
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3BGR|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
pdb|4I2Q|A Chain A, Crystal Structure Of K103n/y181c Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Rilpivirine (tmc278)
Analogue
Length = 557
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|2RF2|A Chain A, Hiv Reverse Transcriptase In Complex With Inhibitor 7e
(Nnrti)
pdb|3C6T|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 14
pdb|3C6U|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 22
pdb|3DRP|A Chain A, Hiv Reverse Transcriptase In Complex With Inhibitor R8e
pdb|3I0R|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 3
pdb|3I0S|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 7
pdb|3T19|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Wild
Type) In Complex With Inhibitor M05
pdb|3T19|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Wild
Type) In Complex With Inhibitor M05
pdb|2YNG|A Chain A, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk560
pdb|2YNH|A Chain A, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk500
pdb|2YNI|A Chain A, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk952
Length = 563
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|1IKV|A Chain A, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
Efivarenz
pdb|1IKX|A Chain A, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
The Inhibitor Pnu142721
pdb|1IKY|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc194
Length = 560
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1JLF|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HNI|A Chain A, Structure Of Hiv-1 Reverse Transcriptase In A Complex With
The Nonnucleoside Inhibitor Alpha-Apa R 95845 At 2.8
Angstroms Resolution
pdb|1HNV|A Chain A, Structure Of Hiv-1 Rt(Slash)tibo R 86183 Complex Reveals
Similarity In The Binding Of Diverse Nonnucleoside
Inhibitors
pdb|1TVR|A Chain A, Hiv-1 Rt9-Cl Tibo
pdb|2HMI|A Chain A, Hiv-1 Reverse TranscriptaseFRAGMENT OF FAB 28DNA COMPLEX
Length = 558
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3JSM|A Chain A, K65r Mutant Hiv-1 Reverse Transcriptase Cross-Linked To
Ds-Dna And Complexed With Tenofovir-Diphosphate As The
Incoming Nucleotide Substrate
pdb|3JYT|A Chain A, K65r Mutant Hiv-1 Reverse Transcriptase Cross-Linked To
Ds- Dna And Complexed With Datp As The Incoming
Nucleotide Substrate
Length = 558
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DRS|A Chain A, Hiv Reverse Transcriptase K103n Mutant In Complex With
Inhibitor R8d
pdb|3LP0|A Chain A, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP1|A Chain A, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP2|A Chain A, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3T1A|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M05
pdb|3T1A|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M05
pdb|3TAM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M06
Length = 563
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|2OPP|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw420867x
Length = 542
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>pdb|2IAJ|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Atp
pdb|2IC3|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Nonnucleoside
Inhibitor Hby 097
Length = 560
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1IKW|A Chain A, Wild Type Hiv-1 Reverse Transcriptase In Complex With
Efavirenz
pdb|3ISN|C Chain C, Crystal Structure Of Hiv-1 Rt Bound To A 6-Vinylpyrimidine
Inhibitor
pdb|3ITH|A Chain A, Crystal Structure Of The Hiv-1 Reverse Transcriptase Bound
To A 6-Vinylpyrimidine Inhibitor
pdb|3ITH|C Chain C, Crystal Structure Of The Hiv-1 Reverse Transcriptase Bound
To A 6-Vinylpyrimidine Inhibitor
Length = 560
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HMV|A Chain A, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1TV6|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Cp-94,707
pdb|1HMV|C Chain C, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1HMV|E Chain E, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1HMV|G Chain G, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
Length = 560
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3KJV|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Dna
pdb|3KK1|A Chain A, Hiv-1 Reverse Transcriptase-Dna Complex With Nuceotide
Inhibitor Gs- 9148-Diphosphate Bound In Nucleotide Site
pdb|3KK2|A Chain A, Hiv-1 Reverse Transcriptase-Dna Complex With Datp Bound In
The Nucleotide Binding Site
pdb|3KK3|A Chain A, Hiv-1 Reverse Transcriptase-Dna Complex With Gs-9148
Terminated Primer
Length = 560
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3FFI|A Chain A, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 561
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|2JLE|A Chain A, Novel Indazole Nnrtis Created Using Molecular Template
Hybridization Based On Crystallographic Overlays
pdb|2JLE|B Chain B, Novel Indazole Nnrtis Created Using Molecular Template
Hybridization Based On Crystallographic Overlays
Length = 566
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2OPP|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw420867x
Length = 427
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 316 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 355
>pdb|2RKI|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Triazole Derived Nnrti
pdb|3LAK|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Heterocycle Pyrimidinedione
Non-Nucleoside Inhibitor
pdb|3LAK|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Heterocycle Pyrimidinedione
Non-Nucleoside Inhibitor
pdb|3LAL|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Ethyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAL|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Ethyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Propyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAM|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Propyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAN|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Butyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAN|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Butyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3MEC|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Tmc125
pdb|3MEE|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Tmc278
pdb|2WON|A Chain A, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (Wild-Type).
pdb|3QIP|A Chain A, Structure Of Hiv-1 Reverse Transcriptase In Complex With
An Rnase H Inhibitor And Nevirapine
pdb|4I7F|A Chain A, Hiv-1 Reverse Transcriptase In Complex With A Phosphonate
Analog Of Nevirapine
Length = 560
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4B3P|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 560
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S1W|A Chain A, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3V4I|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V4I|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V6D|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V6D|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V81|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
pdb|3V81|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
Length = 556
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|3KLE|A Chain A, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|E Chain E, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|I Chain I, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|M Chain M, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLG|A Chain A, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLG|E Chain E, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLI|A Chain A, Crystal Structure Of Unliganded Azt-Resistant Hiv-1
Reverse Transcriptase
Length = 562
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|3MED|A Chain A, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc125
pdb|3MEG|A Chain A, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc278
pdb|2WOM|A Chain A, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (K103n)
Length = 560
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3IRX|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With The Non-Nucleoside Rt Inhibitor
(E)-S-Methyl
5-(1-(3,7-Dimethyl-2-Oxo-2,
3-Dihydrobenzo[d]oxazol-5-Yl)-5-
(5-Methyl-1,3,4-Oxadiazol-2-Yl)pent-1-Enyl)-2-Methoxy-3-
Methylbenzothioate.
pdb|3IS9|A Chain A, Crystal Structure Of The Hiv-1 Reverse Transcriptase (Rt)
In Complex With The Alkenyldiarylmethane (Adam)
Non-Nucleoside Rt Inhibitor Dimethyl
3,3'-(6-Methoxy-6-Oxohex-1-Ene-1,1-
Diyl)bis(5-Cyano-6-Methoxybenzoate)
Length = 558
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|3IG1|A Chain A, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
Length = 555
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2ZE2|A Chain A, Crystal Structure Of L100iK103N MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
Length = 557
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|2ZD1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tmc278 (Rilpivirine), A Non-Nucleoside Rt
Inhibitor
pdb|4H4M|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With (E)-
3-(3-Chloro-5-(4-Chloro-2-(2-(2,4-Dioxo-3,4-
Dihydropyrimidin-1(2h)-
Yl)ethoxy)phenoxy)phenyl)acrylonitrile (Jlj494), A
Non-Nucleoside Inhibitor
pdb|4H4O|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With
(E)-3-(3-(2-(2-(2,4-Dioxo-3,
4-Dihydropyrimidin-1(2h)-Yl)ethoxy)- 4-
Fluorophenoxy)-5-Fluorophenyl)acrylonitrile (Jlj506), A
Non- Nucleoside Inhibitor
pdb|4I2P|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Rilpivirine (tmc278) Based Analogue
pdb|4G1Q|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (rt) In
Complex With Rilpivirine (tmc278, Edurant), A
Non-nucleoside Rt-inhibiting Drug
pdb|4I7G|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At Nnrti
Adjacent Site
pdb|4ICL|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Incoming Dntp Binding Site
pdb|4ID5|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Rnase H Primer Grip Site
pdb|4IDK|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The 428
Site
pdb|4IFV|A Chain A, Detecting Allosteric Sites Of Hiv-1 Reverse Transcriptase
By X-ray Crystallographic Fragment Screening
pdb|4IFY|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Knuckles Site
pdb|4IG0|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The 507
Site
pdb|4IG3|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment Near
Knuckles Site
Length = 557
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|2VG5|A Chain A, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
pdb|2VG6|A Chain A, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
pdb|2VG7|A Chain A, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
Length = 557
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4B3Q|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 560
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1T05|B Chain B, Hiv-1 Reverse Transcriptase Crosslinked To Template-Primer
With Tenofovir-Diphosphate Bound As The Incoming
Nucleotide Substrate
Length = 437
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1T03|B Chain B, Hiv-1 Reverse Transcriptase Crosslinked To Tenofovir
Terminated Template-Primer (Complex P)
pdb|3JSM|B Chain B, K65r Mutant Hiv-1 Reverse Transcriptase Cross-Linked To
Ds-Dna And Complexed With Tenofovir-Diphosphate As The
Incoming Nucleotide Substrate
pdb|3JYT|B Chain B, K65r Mutant Hiv-1 Reverse Transcriptase Cross-Linked To
Ds- Dna And Complexed With Datp As The Incoming
Nucleotide Substrate
Length = 437
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1JLE|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase
pdb|1JLG|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DLK|A Chain A, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
Length = 556
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|3DMJ|B Chain B, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 440
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2HNY|B Chain B, Crystal Structure Of E138k Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|2HNZ|B Chain B, Crystal Structure Of E138k Mutant Hiv-1 Reverse
Transcriptase In Complex With Pett-2
Length = 422
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 314 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 353
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1N5Y|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Post-
Translocation Aztmp-Terminated Dna (Complex P)
pdb|1N6Q|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Pre-
Translocation Aztmp-Terminated Dna (Complex N)
pdb|1T03|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Tenofovir
Terminated Template-Primer (Complex P)
pdb|1T05|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Template-Primer
With Tenofovir-Diphosphate Bound As The Incoming
Nucleotide Substrate
pdb|1R0A|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase
Covalently Tethered To Dna Template-primer Solved To 2.8
Angstroms
Length = 558
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2YNF|B Chain B, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
pdb|2YNG|B Chain B, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk560
pdb|2YNH|B Chain B, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk500
pdb|2YNI|B Chain B, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk952
Length = 447
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 339 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 378
>pdb|1RTD|A Chain A, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
pdb|1RTD|C Chain C, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
Length = 554
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1QE1|A Chain A, Crystal Structure Of 3tc-Resistant M184i Mutant Of Hiv-1
Reverse Transcriptase
pdb|1J5O|A Chain A, Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Double Stranded Dna
Template- Primer
Length = 558
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3QLH|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Manicol At The
Rnase H Active Site And Tmc278 (rilpivirine) At The
Nnrti Binding Pocket
Length = 555
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|3QO9|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tsao-T, A Non-Nucleoside Rt Inhibitor
(Nnrti)
Length = 557
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|3KLE|B Chain B, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|F Chain F, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|J Chain J, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|N Chain N, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLG|B Chain B, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLG|F Chain F, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLH|B Chain B, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
pdb|3KLI|B Chain B, Crystal Structure Of Unliganded Azt-Resistant Hiv-1
Reverse Transcriptase
Length = 437
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DI6|A Chain A, Hiv-1 Rt With Pyridazinone Non-Nucleoside Inhibitor
pdb|3DYA|A Chain A, Hiv-1 Rt With Non-Nucleoside Inhibitor Annulated Pyrazole
1
pdb|3E01|A Chain A, Hiv-Rt With Non-Nucleoside Inhibitor Annulated Pyrazole 2
pdb|3M8P|A Chain A, Hiv-1 Rt With Nnrti Tmc-125
pdb|3M8Q|A Chain A, Hiv-1 Rt With Aminopyrimidine Nnrti
pdb|3NBP|A Chain A, Hiv-1 Reverse Transcriptase With Aminopyrimidine Inhibitor
2
Length = 561
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2OPS|B Chain B, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 435
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 315 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 354
>pdb|2OPR|B Chain B, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 426
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 315 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 354
>pdb|2HND|B Chain B, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 422
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 314 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 353
>pdb|1LWF|A Chain A, Crystal Structure Of A Mutant Hiv-1 Reverse Transcriptase
(rtmq+m184v: M41l/d67n/k70r/m184v/t215y) In Complex With
Nevirapine
Length = 560
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HVU|A Chain A, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|D Chain D, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|G Chain G, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|J Chain J, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
Length = 554
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HPZ|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1HQE|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1HQU|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1SV5|A Chain A, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase (Rt) In Complex With Janssen-R165335
Length = 560
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4B3O|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 560
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S1X|A Chain A, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4DG1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 549
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3KLF|B Chain B, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|F Chain F, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|J Chain J, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|N Chain N, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
Length = 444
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 336 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 375
>pdb|3KLF|A Chain A, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|E Chain E, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|I Chain I, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|M Chain M, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
Length = 557
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|2OPQ|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 534
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>pdb|2OPR|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 547
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 319 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 358
>pdb|2HNY|A Chain A, Crystal Structure Of E138k Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|2HNZ|A Chain A, Crystal Structure Of E138k Mutant Hiv-1 Reverse
Transcriptase In Complex With Pett-2
Length = 534
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>pdb|4I7G|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At Nnrti
Adjacent Site
pdb|4ICL|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Incoming Dntp Binding Site
pdb|4ID5|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Rnase H Primer Grip Site
pdb|4IDK|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The 428
Site
pdb|4IFV|B Chain B, Detecting Allosteric Sites Of Hiv-1 Reverse Transcriptase
By X-ray Crystallographic Fragment Screening
pdb|4IFY|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Knuckles Site
pdb|4IG0|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The 507
Site
pdb|4IG3|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment Near
Knuckles Site
Length = 429
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|1S1T|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
pdb|1S1U|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1S1V|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Tnk-651
pdb|3DOL|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw695634
Length = 560
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S6P|A Chain A, Crystal Structure Of Human Immunodeficiency Virus Type 1
Reverse Transcriptase (Rt) In Complex With
Janssen-R100943
pdb|1S6Q|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R147681
pdb|1S9E|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R129385
pdb|1S9G|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R120394.
pdb|1SUQ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R185545
pdb|2B6A|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Thr-50
pdb|2B5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R165481
pdb|2BAN|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R157208
pdb|2BE2|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With R221239
Length = 560
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1UWB|B Chain B, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 427
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1FK9|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Dmp- 266(Efavirenz)
Length = 543
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2YKM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
Length = 562
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3KLH|A Chain A, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
Length = 564
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|3DLK|B Chain B, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
pdb|3QLH|B Chain B, Hiv-1 Reverse Transcriptase In Complex With Manicol At The
Rnase H Active Site And Tmc278 (rilpivirine) At The
Nnrti Binding Pocket
Length = 423
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 315 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 354
>pdb|3DM2|A Chain A, Crystal Structure Of Hiv-1 K103n Mutant Reverse
Transcriptase In Complex With Gw564511.
pdb|3DOK|A Chain A, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw678248
Length = 560
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1REV|A Chain A, Hiv-1 Reverse Transcriptase
pdb|1RT2|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase Complexed
With Tnk-651
pdb|1RT1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase Complexed
With Mkc-442
pdb|1KLM|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Bhap U-90152
pdb|1RT4|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc781
pdb|1RT5|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc10
pdb|1RT6|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc38
pdb|1RT7|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc84
pdb|1DTT|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Pett-2 (Pett130a94)
pdb|1DTQ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Pett-1 (Pett131a94)
pdb|1C1B|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gca-186
pdb|1C1C|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Tnk-6123
pdb|1C0T|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Bm+21.1326
pdb|1C0U|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Bm+50.0934
pdb|1EP4|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With S-1153
pdb|1JLQ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With 739w94
pdb|1TKT|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw426318
pdb|1TKX|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw490745
pdb|1TKZ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw429576
pdb|1TL1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw451211
pdb|1TL3|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw450557
pdb|3DLE|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gf128590.
pdb|3DLG|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw564511.
pdb|1RTJ|A Chain A, Mechanism Of Inhibition Of Hiv-1 Reverse Transcriptase By
Non-Nucleoside Inhibitors
pdb|1RTI|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1VRT|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1RTH|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1VRU|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
Length = 560
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LWC|A Chain A, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LWE|A Chain A, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 560
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1JKH|B Chain B, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1JLA|B Chain B, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Tnk-651
pdb|1JLB|B Chain B, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1JLC|B Chain B, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Pett-2
Length = 440
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1FKO|A Chain A, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1FKP|A Chain A, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Nevirapine
Length = 543
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1BQN|B Chain B, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 430
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2I5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 552
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2HND|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 534
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>pdb|1JLE|B Chain B, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase
pdb|1JLF|B Chain B, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1JLG|B Chain B, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 440
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1IKV|B Chain B, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
Efivarenz
pdb|1IKX|B Chain B, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
The Inhibitor Pnu142721
pdb|1IKY|B Chain B, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc194
Length = 427
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DRR|B Chain B, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 443
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|2IAJ|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Atp
pdb|2IC3|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Nonnucleoside
Inhibitor Hby 097
Length = 447
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HYS|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 425
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1EET|B Chain B, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
pdb|1IKW|B Chain B, Wild Type Hiv-1 Reverse Transcriptase In Complex With
Efavirenz
pdb|3ISN|D Chain D, Crystal Structure Of Hiv-1 Rt Bound To A 6-Vinylpyrimidine
Inhibitor
pdb|3ITH|B Chain B, Crystal Structure Of The Hiv-1 Reverse Transcriptase Bound
To A 6-Vinylpyrimidine Inhibitor
pdb|3ITH|D Chain D, Crystal Structure Of The Hiv-1 Reverse Transcriptase Bound
To A 6-Vinylpyrimidine Inhibitor
Length = 427
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3KJV|B Chain B, Hiv-1 Reverse Transcriptase In Complex With Dna
pdb|3KK1|B Chain B, Hiv-1 Reverse Transcriptase-Dna Complex With Nuceotide
Inhibitor Gs- 9148-Diphosphate Bound In Nucleotide Site
pdb|3KK2|B Chain B, Hiv-1 Reverse Transcriptase-Dna Complex With Datp Bound In
The Nucleotide Binding Site
pdb|3KK3|B Chain B, Hiv-1 Reverse Transcriptase-Dna Complex With Gs-9148
Terminated Primer
Length = 452
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 332 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 371
>pdb|2RF2|B Chain B, Hiv Reverse Transcriptase In Complex With Inhibitor 7e
(Nnrti)
pdb|3C6T|B Chain B, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 14
pdb|3C6U|B Chain B, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 22
pdb|3DRP|B Chain B, Hiv Reverse Transcriptase In Complex With Inhibitor R8e
pdb|3I0R|B Chain B, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 3
pdb|3I0S|B Chain B, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 7
Length = 443
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|2OPQ|B Chain B, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 424
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 316 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 355
>pdb|1J5O|B Chain B, Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Double Stranded Dna
Template- Primer
Length = 430
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2HMI|B Chain B, Hiv-1 Reverse TranscriptaseFRAGMENT OF FAB 28DNA COMPLEX
pdb|1BQM|B Chain B, Hiv-1 RtHBY 097
pdb|1N5Y|B Chain B, Hiv-1 Reverse Transcriptase Crosslinked To Post-
Translocation Aztmp-Terminated Dna (Complex P)
pdb|1N6Q|B Chain B, Hiv-1 Reverse Transcriptase Crosslinked To Pre-
Translocation Aztmp-Terminated Dna (Complex N)
pdb|1S6P|B Chain B, Crystal Structure Of Human Immunodeficiency Virus Type 1
Reverse Transcriptase (Rt) In Complex With
Janssen-R100943
pdb|1S6Q|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R147681
pdb|1S9E|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R129385
pdb|1S9G|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R120394.
pdb|1SUQ|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R185545
pdb|2B6A|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Thr-50
pdb|2B5J|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R165481
pdb|2BAN|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R157208
pdb|2BE2|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With R221239
Length = 430
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LW0|A Chain A, Crystal Structure Of T215y Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1LW2|A Chain A, Crystal Structure Of T215y Mutant Hiv-1 Reverse
Transcriptase In Complex With 1051u91
Length = 560
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1RT3|B Chain B, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 440
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S1W|B Chain B, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 440
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DRS|B Chain B, Hiv Reverse Transcriptase K103n Mutant In Complex With
Inhibitor R8d
pdb|3LP0|B Chain B, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP1|B Chain B, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP2|B Chain B, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3TAM|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M06
Length = 443
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|3HVT|B Chain B, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
pdb|2VG5|B Chain B, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
pdb|2VG6|B Chain B, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
pdb|2VG7|B Chain B, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
Length = 428
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HNV|B Chain B, Structure Of Hiv-1 Rt(Slash)tibo R 86183 Complex Reveals
Similarity In The Binding Of Diverse Nonnucleoside
Inhibitors
pdb|1DLO|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1TVR|B Chain B, Hiv-1 Rt9-Cl Tibo
pdb|4DG1|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 427
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HPZ|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1HQE|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1HQU|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1SV5|B Chain B, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase (Rt) In Complex With Janssen-R165335
Length = 430
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HVU|B Chain B, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|E Chain E, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|H Chain H, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|K Chain K, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
Length = 423
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 316 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 355
>pdb|2YKN|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
Length = 562
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2ZD1|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tmc278 (Rilpivirine), A Non-Nucleoside Rt
Inhibitor
pdb|2ZE2|B Chain B, Crystal Structure Of L100iK103N MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
pdb|3BGR|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
pdb|3IG1|B Chain B, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
pdb|3IRX|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With The Non-Nucleoside Rt Inhibitor
(E)-S-Methyl
5-(1-(3,7-Dimethyl-2-Oxo-2,
3-Dihydrobenzo[d]oxazol-5-Yl)-5-
(5-Methyl-1,3,4-Oxadiazol-2-Yl)pent-1-Enyl)-2-Methoxy-3-
Methylbenzothioate.
pdb|3IS9|B Chain B, Crystal Structure Of The Hiv-1 Reverse Transcriptase (Rt)
In Complex With The Alkenyldiarylmethane (Adam)
Non-Nucleoside Rt Inhibitor Dimethyl
3,3'-(6-Methoxy-6-Oxohex-1-Ene-1,1-
Diyl)bis(5-Cyano-6-Methoxybenzoate).
pdb|3QO9|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tsao-T, A Non-Nucleoside Rt Inhibitor
(Nnrti)
pdb|2YKM|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
pdb|2YKN|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
pdb|3V4I|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V4I|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V6D|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V6D|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V81|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
pdb|3V81|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
pdb|4H4M|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With (E)-
3-(3-Chloro-5-(4-Chloro-2-(2-(2,4-Dioxo-3,4-
Dihydropyrimidin-1(2h)-
Yl)ethoxy)phenoxy)phenyl)acrylonitrile (Jlj494), A
Non-Nucleoside Inhibitor
pdb|4H4O|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With
(E)-3-(3-(2-(2-(2,4-Dioxo-3,
4-Dihydropyrimidin-1(2h)-Yl)ethoxy)- 4-
Fluorophenoxy)-5-Fluorophenyl)acrylonitrile (Jlj506), A
Non- Nucleoside Inhibitor
pdb|4I2P|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Rilpivirine (tmc278) Based Analogue
pdb|4I2Q|B Chain B, Crystal Structure Of K103n/y181c Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Rilpivirine (tmc278)
Analogue
pdb|4G1Q|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (rt) In
Complex With Rilpivirine (tmc278, Edurant), A
Non-nucleoside Rt-inhibiting Drug
Length = 428
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1QE1|B Chain B, Crystal Structure Of 3tc-Resistant M184i Mutant Of Hiv-1
Reverse Transcriptase
Length = 427
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1R0A|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase
Covalently Tethered To Dna Template-primer Solved To 2.8
Angstroms
pdb|2I5J|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 429
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S1X|B Chain B, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 440
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1RTH|B Chain B, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1RTI|B Chain B, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1RTJ|B Chain B, Mechanism Of Inhibition Of Hiv-1 Reverse Transcriptase By
Non-Nucleoside Inhibitors
pdb|1VRT|B Chain B, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1VRU|B Chain B, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1REV|B Chain B, Hiv-1 Reverse Transcriptase
pdb|1RT2|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase Complexed
With Tnk-651
pdb|1RT1|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase Complexed
With Mkc-442
pdb|1KLM|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Bhap U-90152
pdb|1RT4|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Uc781
pdb|1RT5|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Uc10
pdb|1RT6|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Uc38
pdb|1RT7|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Uc84
pdb|1RTD|B Chain B, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
pdb|1RTD|D Chain D, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
pdb|1DTT|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Pett-2 (Pett130a94)
pdb|1DTQ|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Pett-1 (Pett131a94)
pdb|1C1C|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Tnk-6123
pdb|1C0T|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Bm+21.1326
pdb|1C0U|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Bm+50.0934
pdb|1EP4|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With S-1153
pdb|1FK9|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Dmp- 266(Efavirenz)
pdb|1JLQ|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With 739w94
pdb|1TKT|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw426318
pdb|1TKX|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw490745
pdb|1TKZ|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw429576
pdb|1TL1|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw451211
pdb|1TL3|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw450557
pdb|2RKI|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Triazole Derived Nnrti
pdb|3DLE|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gf128590.
pdb|3DLG|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw564511.
pdb|3DOL|B Chain B, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw695634.
pdb|3DI6|B Chain B, Hiv-1 Rt With Pyridazinone Non-Nucleoside Inhibitor
pdb|3DYA|B Chain B, Hiv-1 Rt With Non-Nucleoside Inhibitor Annulated Pyrazole
1
pdb|3E01|B Chain B, Hiv-Rt With Non-Nucleoside Inhibitor Annulated Pyrazole 2
pdb|3MEC|B Chain B, Hiv-1 Reverse Transcriptase In Complex With Tmc125
pdb|3MEE|B Chain B, Hiv-1 Reverse Transcriptase In Complex With Tmc278
pdb|3M8P|B Chain B, Hiv-1 Rt With Nnrti Tmc-125
pdb|3M8Q|B Chain B, Hiv-1 Rt With Aminopyrimidine Nnrti
pdb|2WON|B Chain B, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (Wild-Type).
pdb|3NBP|B Chain B, Hiv-1 Reverse Transcriptase With Aminopyrimidine Inhibitor
2
pdb|3QIP|B Chain B, Structure Of Hiv-1 Reverse Transcriptase In Complex With
An Rnase H Inhibitor And Nevirapine
pdb|4I7F|B Chain B, Hiv-1 Reverse Transcriptase In Complex With A Phosphonate
Analog Of Nevirapine
Length = 440
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1FKO|B Chain B, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1FKP|B Chain B, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Nevirapine
pdb|3DM2|B Chain B, Crystal Structure Of Hiv-1 K103n Mutant Reverse
Transcriptase In Complex With Gw564511.
pdb|3DOK|B Chain B, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw678248.
pdb|3MED|B Chain B, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc125
pdb|3MEG|B Chain B, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc278
pdb|2WOM|B Chain B, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (K103n)
Length = 440
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4B3O|B Chain B, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 441
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|1LWC|B Chain B, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 440
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3FFI|B Chain B, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 441
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|1LWE|B Chain B, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 440
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HMV|B Chain B, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1TV6|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Cp-94,707
pdb|1HMV|D Chain D, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1HMV|F Chain F, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1HMV|H Chain H, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
Length = 440
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LWF|B Chain B, Crystal Structure Of A Mutant Hiv-1 Reverse Transcriptase
(rtmq+m184v: M41l/d67n/k70r/m184v/t215y) In Complex With
Nevirapine
Length = 440
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S1T|B Chain B, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
pdb|1S1U|B Chain B, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1S1V|B Chain B, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Tnk-651
Length = 440
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1C1B|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gca-186
Length = 440
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LW0|B Chain B, Crystal Structure Of T215y Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1LW2|B Chain B, Crystal Structure Of T215y Mutant Hiv-1 Reverse
Transcriptase In Complex With 1051u91
Length = 440
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HNI|B Chain B, Structure Of Hiv-1 Reverse Transcriptase In A Complex With
The Nonnucleoside Inhibitor Alpha-Apa R 95845 At 2.8
Angstroms Resolution
Length = 427
Score = 27.3 bits (59), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 133 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 170
DP +D++AEI K G + ++ +Y E F + K+G Y G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARTRG 359
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 0.447
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,241,277
Number of Sequences: 62578
Number of extensions: 346700
Number of successful extensions: 1132
Number of sequences better than 100.0: 235
Number of HSP's better than 100.0 without gapping: 111
Number of HSP's successfully gapped in prelim test: 124
Number of HSP's that attempted gapping in prelim test: 846
Number of HSP's gapped (non-prelim): 274
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
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: 50 (23.9 bits)