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= 018707
(351 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 243 bits (621), Expect = 1e-64, Method: Compositional matrix adjust.
Identities = 135/320 (42%), Positives = 182/320 (56%), Gaps = 30/320 (9%)
Query: 33 HILQDSIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGV---KPTPKGLLLGVPVKTH 89
H L D ++ VN+ W+A N F N + K L G P P ++
Sbjct: 8 HPLSDELVNYVNKR-NTTWQAGHN--FYNVDMSYLKRLCGTFLGGPKPPQRVM------F 58
Query: 90 DKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVN 149
+ LKLP SFDAR WPQC TI I DQG CGSCWAFGAVEA+SDR CIH ++S+ V+
Sbjct: 59 TEDLKLPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVS 118
Query: 150 XXXXXX--XXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH---- 196
YP AW ++ G+V+ C PY C H
Sbjct: 119 AEDLLTCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPY-SIPPCEHHVNG 177
Query: 197 --PGCEPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSF 253
P C TPKC + C + ++ KHY ++Y +++ +DIMAEIYKNGPVE +F
Sbjct: 178 SRPPCTGEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAF 237
Query: 254 TVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKI 313
+VY DF YKSGVY+H+TG++MGGHA++++GWG ++G YW++AN WN WG +G+FKI
Sbjct: 238 SVYSDFLLYKSGVYQHVTGEMMGGHAIRILGWGV-ENGTPYWLVANSWNTDWGDNGFFKI 296
Query: 314 KRGSNECGIEEDVVAGLPSS 333
RG + CGIE +VVAG+P +
Sbjct: 297 LRGQDHCGIESEVVAGIPRT 316
>pdb|1MIR|A Chain A, Rat Procathepsin B
pdb|1MIR|B Chain B, Rat Procathepsin B
Length = 322
Score = 234 bits (596), Expect = 7e-62, Method: Compositional matrix adjust.
Identities = 134/320 (41%), Positives = 181/320 (56%), Gaps = 28/320 (8%)
Query: 33 HILQDSIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLG-VKPTPKGLLLGVPVKT-HD 90
H L D +I +N+ W+A RN F N + K L G V PK +P +
Sbjct: 7 HPLSDDMINYINKQ-NTTWQAGRN--FYNVDISYLKKLCGTVLGGPK-----LPERVGFS 58
Query: 91 KSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSV 148
+ + LP+SFDAR W C TI++I DQG CGS WAFGAVEA+SDR CIH +N+ +S
Sbjct: 59 EDINLPESFDAREQWSNCPTIAQIRDQGSCGSSWAFGAVEAMSDRICIHTNGRVNVEVSA 118
Query: 149 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH----- 196
YP AW ++ G+V+ C PY C H
Sbjct: 119 EDLLTCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPP-CEHHVNGA 177
Query: 197 -PGCEPAYPTPKCVRKC-VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFT 254
P C TPKC + C + ++ KHY ++Y ++ ++IMAEIYKNGPVE +FT
Sbjct: 178 RPPCTGEGDTPKCNKMCEAGYSTSYKEDKHYGYTSYSVSDSEKEIMAEIYKNGPVEGAFT 237
Query: 255 VYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIK 314
V+ DF YKSGVYKH GDVMGGHA++++GWG ++G YW++AN WN WG +G+FKI
Sbjct: 238 VFSDFLTYKSGVYKHEAGDVMGGHAIRILGWGI-ENGVPYWLVANSWNADWGDNGFFKIL 296
Query: 315 RGSNECGIEEDVVAGLPSSK 334
RG N CGIE ++VAG+P ++
Sbjct: 297 RGENHCGIESEIVAGIPRTQ 316
>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 = 233 bits (594), Expect = 1e-61, Method: Compositional matrix adjust.
Identities = 119/256 (46%), Positives = 158/256 (61%), Gaps = 16/256 (6%)
Query: 93 LKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXX 152
LKLP SFDAR WPQC TI I DQG CGSCWAFGAVEA+SDR CIH ++S+ V+
Sbjct: 1 LKLPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAED 60
Query: 153 XXX--XXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYF-----DSTGCSHPG 198
YP AW ++ G+V+ C PY S P
Sbjct: 61 LLTCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPP 120
Query: 199 CEPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYE 257
C TPKC + C + ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+VY
Sbjct: 121 CTGEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYS 180
Query: 258 DFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGS 317
DF YKSGVY+H+TG++MGGHA++++GWG ++G YW++AN WN WG +G+FKI RG
Sbjct: 181 DFLLYKSGVYQHVTGEMMGGHAIRILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQ 239
Query: 318 NECGIEEDVVAGLPSS 333
+ CGIE +VVAG+P +
Sbjct: 240 DHCGIESEVVAGIPRT 255
>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 = 232 bits (592), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 119/262 (45%), Positives = 160/262 (61%), Gaps = 16/262 (6%)
Query: 94 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 153
KLP SFDAR WPQC TI I DQG CGSCWAFGAVEA+SDR CIH ++S+ V+
Sbjct: 1 KLPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDL 60
Query: 154 XX--XXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYF-----DSTGCSHPGC 199
YP AW ++ G+V+ C PY S P C
Sbjct: 61 LTCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPC 120
Query: 200 EPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYED 258
TPKC + C + ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+VY D
Sbjct: 121 TGEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSD 180
Query: 259 FAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSN 318
F YKSGVY+H+TG++MGGHA++++GWG ++G YW++AN WN WG +G+FKI RG +
Sbjct: 181 FLLYKSGVYQHVTGEMMGGHAIRILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQD 239
Query: 319 ECGIEEDVVAGLPSSKNLVKEI 340
CGIE +VVAG+P + ++I
Sbjct: 240 HCGIESEVVAGIPRTDQYWEKI 261
>pdb|3CBJ|A Chain A, Chagasin-cathepsin B Complex
pdb|3CBK|A Chain A, Chagasin-Cathepsin B
Length = 266
Score = 231 bits (588), Expect = 7e-61, Method: Compositional matrix adjust.
Identities = 119/265 (44%), Positives = 162/265 (61%), Gaps = 16/265 (6%)
Query: 91 KSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNX 150
+ LKLP SFDAR WPQC TI I DQG CGS WAFGAVEA+SDR CIH ++S+ V+
Sbjct: 3 EDLKLPASFDAREQWPQCPTIKEIRDQGSCGSAWAFGAVEAISDRICIHTNAHVSVEVSA 62
Query: 151 XXXXX--XXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH----- 196
YP AW ++ G+V+ C PY +H
Sbjct: 63 EDLLTCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEAHVNGAR 122
Query: 197 PGCEPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV 255
P C TPKC + C + ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+V
Sbjct: 123 PPCTGEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSV 182
Query: 256 YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR 315
Y DF YKSGVY+H+TG++MGGHA++++GWG ++G YW++AN WN WG +G+FKI R
Sbjct: 183 YSDFLLYKSGVYQHVTGEMMGGHAIRILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILR 241
Query: 316 GSNECGIEEDVVAGLPSSKNLVKEI 340
G + CGIE +VVAG+P + ++I
Sbjct: 242 GQDHCGIESEVVAGIPRTDQYWEKI 266
>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 = 229 bits (584), Expect = 2e-60, Method: Compositional matrix adjust.
Identities = 117/254 (46%), Positives = 156/254 (61%), Gaps = 16/254 (6%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP SFDAR WPQC TI I DQG CGSCWAFGAVEA+SDR CIH ++S+ V+
Sbjct: 1 LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 60
Query: 155 X--XXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYF-----DSTGCSHPGCE 200
YP AW ++ G+V+ C PY S P C
Sbjct: 61 TCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCT 120
Query: 201 PAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDF 259
TPKC + C + ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+VY DF
Sbjct: 121 GEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDF 180
Query: 260 AHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE 319
YKSGVY+H+TG++MGGHA++++GWG ++G YW++AN WN WG +G+FKI RG +
Sbjct: 181 LLYKSGVYQHVTGEMMGGHAIRILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQDH 239
Query: 320 CGIEEDVVAGLPSS 333
CGIE +VVAG+P +
Sbjct: 240 CGIESEVVAGIPRT 253
>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 = 226 bits (577), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 117/260 (45%), Positives = 157/260 (60%), Gaps = 18/260 (6%)
Query: 91 KSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSV 148
+ + LP+SFDAR W C TI++I DQG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 3 EDINLPESFDAREQWSNCPTIAQIRDQGSCGSCWAFGAVEAMSDRICIHTNGRVNVEVSA 62
Query: 149 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH----- 196
YP AW ++ G+V+ C PY C H
Sbjct: 63 EDLLTCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPP-CEHHVNGA 121
Query: 197 -PGCEPAYPTPKCVRKC-VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFT 254
P C TPKC + C + ++ KHY ++Y ++ ++IMAEIYKNGPVE +FT
Sbjct: 122 RPPCTGEGDTPKCNKMCEAGYSTSYKEDKHYGYTSYSVSDSEKEIMAEIYKNGPVEGAFT 181
Query: 255 VYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIK 314
V+ DF YKSGVYKH GDVMGGHA++++GWG ++G YW++AN WN WG +G+FKI
Sbjct: 182 VFSDFLTYKSGVYKHEAGDVMGGHAIRILGWGI-ENGVPYWLVANSWNADWGDNGFFKIL 240
Query: 315 RGSNECGIEEDVVAGLPSSK 334
RG N CGIE ++VAG+P ++
Sbjct: 241 RGENHCGIESEIVAGIPRTQ 260
>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 = 225 bits (573), Expect = 3e-59, Method: Compositional matrix adjust.
Identities = 117/256 (45%), Positives = 155/256 (60%), Gaps = 18/256 (7%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXX 152
LP+SFDAR W C TI++I DQG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 1 LPESFDAREQWSNCPTIAQIRDQGSCGSCWAFGAVEAMSDRICIHTNGRVNVEVSAEDLL 60
Query: 153 XXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGC 199
YP AW ++ G+V+ C PY C H P C
Sbjct: 61 TCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPP-CEHHVNGARPPC 119
Query: 200 EPAYPTPKCVRKC-VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYED 258
TPKC + C + ++ KHY ++Y ++ ++IMAEIYKNGPVE +FTV+ D
Sbjct: 120 TGEGDTPKCNKMCEAGYSTSYKEDKHYGYTSYSVSDSEKEIMAEIYKNGPVEGAFTVFSD 179
Query: 259 FAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSN 318
F YKSGVYKH GDVMGGHA++++GWG ++G YW++AN WN WG +G+FKI RG N
Sbjct: 180 FLTYKSGVYKHEAGDVMGGHAIRILGWGI-ENGVPYWLVANSWNADWGDNGFFKILRGEN 238
Query: 319 ECGIEEDVVAGLPSSK 334
CGIE ++VAG+P ++
Sbjct: 239 HCGIESEIVAGIPRTQ 254
>pdb|1QDQ|A Chain A, X-Ray Crystal Structure Of Bovine Cathepsin B-Ca074
Complex
Length = 253
Score = 223 bits (567), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 112/254 (44%), Positives = 154/254 (60%), Gaps = 16/254 (6%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXX 152
LP+SFDAR WP C TI I DQG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 1 LPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHSNGRVNVEVSAEDML 60
Query: 153 XXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYF-----DSTGCSHPGCE 200
P AW ++ G+V+ C PY S P C
Sbjct: 61 TCCGGECGDGCNGGEPSGAWNFWTKKGLVSGGLYNSHVGCRPYSIPPCEHHVNGSRPPCT 120
Query: 201 PAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDF 259
TPKC + C + ++ KH+ S+Y + ++ ++IMAEIYKNGPVE +F+VY DF
Sbjct: 121 GEGDTPKCSKTCEPGYSPSYKEDKHFGCSSYSVANNEKEIMAEIYKNGPVEGAFSVYSDF 180
Query: 260 AHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE 319
YKSGVY+H++G++MGGHA++++GWG ++G YW++AN WN WG +G+FKI RG +
Sbjct: 181 LLYKSGVYQHVSGEIMGGHAIRILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQDH 239
Query: 320 CGIEEDVVAGLPSS 333
CGIE ++VAG+P +
Sbjct: 240 CGIESEIVAGMPCT 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 = 223 bits (567), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 111/254 (43%), Positives = 154/254 (60%), Gaps = 16/254 (6%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXX 152
LP+SFDAR WP C TI I DQG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 1 LPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHSNGRVNVEVSAEDML 60
Query: 153 XXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYF-----DSTGCSHPGCE 200
+P AW ++ G+V+ C PY S P C
Sbjct: 61 TCCGGECGDGCNGGFPSGAWNFWTKKGLVSGGLYNSHVGCRPYSIPPCEHHVNGSRPPCT 120
Query: 201 PAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDF 259
TPKC + C + ++ KH+ S+Y + ++ ++IMAEIYKNGPVE +F+VY DF
Sbjct: 121 GEGDTPKCSKTCEPGYSPSYKEDKHFGCSSYSVANNEKEIMAEIYKNGPVEGAFSVYSDF 180
Query: 260 AHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE 319
YKSGVY+H++G++MGGHA++++GWG ++G YW++ N WN WG +G+FKI RG +
Sbjct: 181 LLYKSGVYQHVSGEIMGGHAIRILGWGV-ENGTPYWLVGNSWNTDWGDNGFFKILRGQDH 239
Query: 320 CGIEEDVVAGLPSS 333
CGIE ++VAG+P +
Sbjct: 240 CGIESEIVAGMPCT 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 = 209 bits (533), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 114/254 (44%), Positives = 150/254 (59%), Gaps = 20/254 (7%)
Query: 93 LKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLS-VN 149
+++P SFD+R WP+C +I+ I DQ CGSCWAFGAVEA+SDR CI G N+ LS V+
Sbjct: 1 VEIPSSFDSRKKWPRCKSIATIRDQSRCGSCWAFGAVEAMSDRSCIQSGGKQNVELSAVD 60
Query: 150 XXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPY-----FDSTGCSHP 197
P AW Y+V G+VT C+PY T +P
Sbjct: 61 LLSCCESCGLGCEGGILGP--AWDYWVKEGIVTGSSKENHAGCEPYPFPKCEHHTKGKYP 118
Query: 198 GC-EPAYPTPKCVRKCVKKNQL-WRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV 255
C Y TP+C + C KK + + KH S+Y + +D + I EI K GPVE FTV
Sbjct: 119 PCGSKIYKTPRCKQTCQKKYKTPYTQDKHRGKSSYNVKNDEKAIQKEIMKYGPVEAGFTV 178
Query: 256 YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR 315
YEDF +YKSG+YKHITG+ +GGHA+++IGWG + YW++AN WN WG +GYF+I R
Sbjct: 179 YEDFLNYKSGIYKHITGETLGGHAIRIIGWGVENKA-PYWLIANSWNEDWGENGYFRIVR 237
Query: 316 GSNECGIEEDVVAG 329
G +EC IE +V AG
Sbjct: 238 GRDECSIESEVTAG 251
>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 = 206 bits (523), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 121/315 (38%), Positives = 160/315 (50%), Gaps = 14/315 (4%)
Query: 31 DSHILQDSIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGV--KPTPKGLLLGVPVKT 88
D+ +L + + VN + WKA + N T+ + K L GV K +L
Sbjct: 28 DAPVLSKAFVDRVNRLNRGIWKAKYDGVMQNITLREAKRLNGVIKKNNNASILPKRRFTE 87
Query: 89 HDKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV 148
+ LP SFD+ AWP C TI +I DQ CGSCWA A A+SDRFC G+
Sbjct: 88 EEARAPLPSSFDSAEAWPNCPTIPQIADQSACGSCWAVAAASAMSDRFCTMGGVQDVHIS 147
Query: 149 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYP---- 204
P AW YF G+V++ C PY H + YP
Sbjct: 148 AGDLLACCSDCGDGCNGGDPDRAWAYFSSTGLVSDYCQPYPFPHCSHHSKSKNGYPPCSQ 207
Query: 205 ----TPKCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFA 260
TPKC C N + S ++Y + + +D M E++ GP EV+F VYEDF
Sbjct: 208 FNFDTPKCNYTCDDPTIPVVNYR--SWTSYALQGE-DDYMRELFFRGPFEVAFDVYEDFI 264
Query: 261 HYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNEC 320
Y SGVY H++G +GGHAV+L+GWGTS +G YW +AN WN WG DGYF I+RGS+EC
Sbjct: 265 AYNSGVYHHVSGQYLGGHAVRLVGWGTS-NGVPYWKIANSWNTEWGMDGYFLIRRGSSEC 323
Query: 321 GIEEDVVAGLPSSKN 335
GIE+ AG+P + N
Sbjct: 324 GIEDGGSAGIPLAPN 338
>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 = 206 bits (523), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 121/315 (38%), Positives = 160/315 (50%), Gaps = 14/315 (4%)
Query: 31 DSHILQDSIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGV--KPTPKGLLLGVPVKT 88
D+ +L + + VN + WKA + N T+ + K L GV K +L
Sbjct: 5 DAPVLSKAFVDRVNRLNRGIWKAKYDGVMQNITLREAKRLNGVIKKNNNASILPKRRFTE 64
Query: 89 HDKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV 148
+ LP SFD+ AWP C TI +I DQ CGSCWA A A+SDRFC G+
Sbjct: 65 EEARAPLPSSFDSAEAWPNCPTIPQIADQSACGSCWAVAAASAMSDRFCTMGGVQDVHIS 124
Query: 149 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYP---- 204
P AW YF G+V++ C PY H + YP
Sbjct: 125 AGDLLACCSDCGDGCNGGDPDRAWAYFSSTGLVSDYCQPYPFPHCSHHSKSKNGYPPCSQ 184
Query: 205 ----TPKCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFA 260
TPKC C N + S ++Y + + +D M E++ GP EV+F VYEDF
Sbjct: 185 FNFDTPKCNYTCDDPTIPVVNYR--SWTSYALQGE-DDYMRELFFRGPFEVAFDVYEDFI 241
Query: 261 HYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNEC 320
Y SGVY H++G +GGHAV+L+GWGTS +G YW +AN WN WG DGYF I+RGS+EC
Sbjct: 242 AYNSGVYHHVSGQYLGGHAVRLVGWGTS-NGVPYWKIANSWNTEWGMDGYFLIRRGSSEC 300
Query: 321 GIEEDVVAGLPSSKN 335
GIE+ AG+P + N
Sbjct: 301 GIEDGGSAGIPLAPN 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 = 205 bits (522), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 121/315 (38%), Positives = 160/315 (50%), Gaps = 14/315 (4%)
Query: 31 DSHILQDSIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGV--KPTPKGLLLGVPVKT 88
D+ +L + + VN + WKA + N T+ + K L GV K +L
Sbjct: 6 DAPVLSKAFVDRVNRLNRGIWKAKYDGVMQNITLREAKRLNGVIKKNNNASILPKRRFTE 65
Query: 89 HDKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV 148
+ LP SFD+ AWP C TI +I DQ CGSCWA A A+SDRFC G+
Sbjct: 66 EEARAPLPSSFDSAEAWPNCPTIPQIADQSACGSCWAVAAASAMSDRFCTMGGVQDVHIS 125
Query: 149 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYP---- 204
P AW YF G+V++ C PY H + YP
Sbjct: 126 AGDLLACCSDCGDGCNGGDPDRAWAYFSSTGLVSDYCQPYPFPHCSHHSKSKNGYPPCSQ 185
Query: 205 ----TPKCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFA 260
TPKC C N + S ++Y + + +D M E++ GP EV+F VYEDF
Sbjct: 186 FNFDTPKCDYTCDDPTIPVVNYR--SWTSYALQGE-DDYMRELFFRGPFEVAFDVYEDFI 242
Query: 261 HYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNEC 320
Y SGVY H++G +GGHAV+L+GWGTS +G YW +AN WN WG DGYF I+RGS+EC
Sbjct: 243 AYNSGVYHHVSGQYLGGHAVRLVGWGTS-NGVPYWKIANSWNTEWGMDGYFLIRRGSSEC 301
Query: 321 GIEEDVVAGLPSSKN 335
GIE+ AG+P + N
Sbjct: 302 GIEDGGSAGIPLAPN 316
>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 = 161 bits (407), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 80/180 (44%), Positives = 114/180 (63%), Gaps = 14/180 (7%)
Query: 167 YPISAWRYFVHHGVVTEE-------CDPYF-----DSTGCSHPGCEPAYPTPKCVRKCVK 214
YP AW ++ G+V+ C PY S P C TPKC + C
Sbjct: 26 YPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCTGEGDTPKCSKICEP 85
Query: 215 K-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGD 273
+ ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+VY DF YKSGVY+H+TG+
Sbjct: 86 GYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGE 145
Query: 274 VMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSS 333
+MGGHA++++GWG ++G YW++AN WN WG +G+FKI RG + CGIE +VVAG+P +
Sbjct: 146 MMGGHAIRILGWGV-ENGTPYWLVANSWNTDWGDNGFFKILRGQDHCGIESEVVAGIPRT 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 (392), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 75/180 (41%), Positives = 113/180 (62%), Gaps = 14/180 (7%)
Query: 167 YPISAWRYFVHHGVVTEE-------CDPYF-----DSTGCSHPGCEPAYPTPKCVRKCVK 214
+P AW ++ G+V+ C PY S P C TPKC + C
Sbjct: 27 FPSGAWNFWTKKGLVSGGLYNSHVGCRPYSIPPCEHHVNGSRPPCTGEGDTPKCNKTCEP 86
Query: 215 K-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGD 273
+ ++ KH+ S+Y + ++ ++IMAEIYKNGPVE +F+VY DF YKSGVY+H++G+
Sbjct: 87 GYSPSYKEDKHFGCSSYSVANNEKEIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVSGE 146
Query: 274 VMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSS 333
+MGGHA++++GWG ++G YW++ N WN WG +G+FKI RG + CGIE ++VAG+P +
Sbjct: 147 IMGGHAIRILGWGV-ENGTPYWLVGNSWNTDWGDNGFFKILRGQDHCGIESEIVAGMPCT 205
>pdb|3PDF|A Chain A, Discovery Of Novel Cyanamide-Based Inhibitors Of Cathepsin
C
Length = 441
Score = 120 bits (301), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 91/311 (29%), Positives = 142/311 (45%), Gaps = 35/311 (11%)
Query: 38 SIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGVK----PTPKGLLLGVPVKTHDKSL 93
+ +K +N K+ W A ++ T+G G P PK L ++ K L
Sbjct: 149 NFVKAINAIQKS-WTATTYMEYETLTLGDMIRRSGGHSRKIPRPKPAPLTAEIQ--QKIL 205
Query: 94 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 153
LP S+D R+ + +S + +Q CGSC++F ++ L R I + + ++
Sbjct: 206 FLPTSWDWRNV-HGINFVSPVRNQASCGSCYSFASMGMLEARIRILTNNSQTPILSPQEV 264
Query: 154 XXXXXXXXXXXXXYP-ISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKC 212
+P + A +Y G+V E C PY TG P C
Sbjct: 265 VSCSQYAQGCEGGFPYLIAGKYAQDFGLVEEACFPY---TGTDSP--------------C 307
Query: 213 VKKNQLWR--NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKH- 269
K +R +S+++ + + + + E+ +GP+ V+F VY+DF HYK G+Y H
Sbjct: 308 KMKEDCFRYYSSEYHYVGGFYGGCNEALMKLELVHHGPMAVAFEVYDDFLHYKKGIYHHT 367
Query: 270 -----ITGDVMGGHAVKLIGWGT-SDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIE 323
+ HAV L+G+GT S G DYWI+ N W WG +GYF+I+RG++EC IE
Sbjct: 368 GLRDPFNPFELTNHAVLLVGYGTDSASGMDYWIVKNSWGTGWGENGYFRIRRGTDECAIE 427
Query: 324 EDVVAGLPSSK 334
VA P K
Sbjct: 428 SIAVAATPIPK 438
>pdb|1JQP|A Chain A, Dipeptidyl Peptidase I (Cathepsin C), A Tetrameric
Cysteine Protease Of The Papain Family
Length = 438
Score = 113 bits (283), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 88/321 (27%), Positives = 146/321 (45%), Gaps = 40/321 (12%)
Query: 29 KLDSHILQDSIIKEVNENPKAGWKAARNPQFSNYTV-------GQFKHLLGVKPTPKGLL 81
+L SH + +K +N K+ W A ++ ++ G +L KP P
Sbjct: 142 RLYSH--HHNFVKAINSVQKS-WTATTYRRYEKLSIRDLIRRSGHSGRILRPKPAP---- 194
Query: 82 LGVPVKTHDKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG 141
+ + + L LP+S+D R+ + +S + +Q CGSC++F ++ L R I
Sbjct: 195 --ITDEIQQQILSLPESWDWRNV-RGINFVSPVRNQESCGSCYSFASLGMLEARIRILTN 251
Query: 142 MNLSLSVNXXXXXXXXXXXXXXXXXYP-ISAWRYFVHHGVVTEECDPYFDSTGCSHPGCE 200
+ + ++ +P + A +Y GVV E C PY +
Sbjct: 252 NSQTPILSPQEVVSCSPYAQGCDGGFPYLIAGKYAQDFGVVEENCFPYTATDA------- 304
Query: 201 PAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFA 260
P P C+R + +S++Y + + + + E+ K+GP+ V+F V++DF
Sbjct: 305 PCKPKENCLR--------YYSSEYYYVGGFYGGCNEALMKLELVKHGPMAVAFEVHDDFL 356
Query: 261 HYKSGVYKH------ITGDVMGGHAVKLIGWGTSD-DGEDYWILANQWNRSWGADGYFKI 313
HY SG+Y H + HAV L+G+G G DYWI+ N W WG GYF+I
Sbjct: 357 HYHSGIYHHTGLSDPFNPFELTNHAVLLVGYGKDPVTGLDYWIVKNSWGSQWGESGYFRI 416
Query: 314 KRGSNECGIEEDVVAGLPSSK 334
+RG++EC IE +A +P K
Sbjct: 417 RRGTDECAIESIAMAAIPIPK 437
>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 = 97.8 bits (242), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 80/260 (30%), Positives = 119/260 (45%), Gaps = 38/260 (14%)
Query: 83 GVPVKTHD-----KSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFC 137
G+P+KT + S++ P SFD W +S + +QG CGS WAF + A+ +
Sbjct: 99 GIPIKTREDLGLNASVRYPASFD----WRDQGMVSPVKNQGSCGSSWAFSSTGAIESQMK 154
Query: 138 IHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHP 197
I G SV+ + A+ Y +G + DS G
Sbjct: 155 IANGAGYDSSVSEQQLVDCVPNALGCSGGWMNDAFTYVAQNGGI--------DSEG---- 202
Query: 198 GCEPAYPTPKCVRKC-VKKNQLWRNSKHYSISAYRINSDP-EDIMAE-IYKNGPVEVSFT 254
AYP C NQ+ +S Y S P E+++A+ + GPV V+F
Sbjct: 203 ----AYPYEMADGNCHYDPNQVAAR-----LSGYVYLSGPDENMLADMVATKGPVAVAFD 253
Query: 255 VYEDFAHYKSGVYKHITGDVMG-GHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKI 313
+ F Y GVY + T + HAV ++G+G +++G+DYW++ N W WG DGYFKI
Sbjct: 254 ADDPFGSYSGGVYYNPTCETNKFTHAVLIVGYG-NENGQDYWLVKNSWGDGWGLDGYFKI 312
Query: 314 KRGSNE-CGIEEDVVAGLPS 332
R +N CGI VA +P+
Sbjct: 313 ARNANNHCGIAG--VASVPT 330
>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 = 90.5 bits (223), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 65/225 (28%), Positives = 90/225 (40%), Gaps = 17/225 (7%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGH----CGSCWAFGAVEALSDRFCIHFGMNLSLSVNX 150
LPKS+D R+ + I H CGSCWA + A++DR I ++
Sbjct: 1 LPKSWDWRNV--DGVNYASITRNQHIPQYCGSCWAHASTSAMADRINIKRKGAWPSTLLS 58
Query: 151 XXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF--DSTGCSHPGCEPAYPTPKC 208
+S W Y HG+ E C+ Y D C +C
Sbjct: 59 VQNVIDCGNAGSCEGGNDLSVWDYAHQHGIPDETCNNYQAKDQECDKFNQCGTCNEFKEC 118
Query: 209 VRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK 268
++ LWR + S+S E +MAEIY NGP+ E A+Y G+Y
Sbjct: 119 --HAIRNYTLWRVGDYGSLSG------REKMMAEIYANGPISCGIMATERLANYTGGIYA 170
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKI 313
H V + GWG S DG +YWI+ N W WG G+ +I
Sbjct: 171 EYQDTTYINHVVSVAGWGIS-DGTEYWIVRNSWGEPWGERGWLRI 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 = 90.1 bits (222), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 65/225 (28%), Positives = 90/225 (40%), Gaps = 17/225 (7%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGH----CGSCWAFGAVEALSDRFCIHFGMNLSLSVNX 150
LPKS+D R+ + I H CGSCWA + A++DR I ++
Sbjct: 36 LPKSWDWRNV--DGVNYASITRNQHIPQYCGSCWAHASTSAMADRINIKRKGAWPSTLLS 93
Query: 151 XXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF--DSTGCSHPGCEPAYPTPKC 208
+S W Y HG+ E C+ Y D C +C
Sbjct: 94 VQNVIDCGNAGSCEGGNDLSVWDYAHQHGIPDETCNNYQAKDQECDKFNQCGTCNEFKEC 153
Query: 209 VRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK 268
++ LWR + S+S E +MAEIY NGP+ E A+Y G+Y
Sbjct: 154 --HAIRNYTLWRVGDYGSLSG------REKMMAEIYANGPISCGIMATERLANYTGGIYA 205
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKI 313
H V + GWG S DG +YWI+ N W WG G+ +I
Sbjct: 206 EYQDTTYINHVVSVAGWGIS-DGTEYWIVRNSWGEPWGERGWLRI 249
>pdb|2O6X|A Chain A, Crystal Structure Of Procathepsin L1 From Fasciola
Hepatica
Length = 310
Score = 86.7 bits (213), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 75/279 (26%), Positives = 118/279 (42%), Gaps = 34/279 (12%)
Query: 58 QFSNYTVGQFK--HLLGVKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCSTISRIL 115
QF++ T +FK +L + L GVP + +++++ P D W + ++ +
Sbjct: 55 QFTDMTFEEFKAKYLTEMSRASDILSHGVPYEANNRAV--PDKID----WRESGYVTEVK 108
Query: 116 DQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYF 175
DQG+CGS WAF + ++ + ++S S +A++Y
Sbjct: 109 DQGNCGSGWAFSTTGTMEGQYMKNERTSISFSEQQLVDCSRPWGNNGCGGGLMENAYQYL 168
Query: 176 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 235
G+ TE PY G +C QL Y ++S
Sbjct: 169 KQFGLETESSYPYTAVEG-----------------QCRYNKQL---GVAKVTGFYTVHSG 208
Query: 236 PE-DIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHIT-GDVMGGHAVKLIGWGTSDDGED 293
E ++ + GP V+ V DF Y+SG+Y+ T + HAV +G+GT G D
Sbjct: 209 SEVELKNLVGAEGPAAVAVDVESDFMMYRSGIYQSQTCSPLRVNHAVLAVGYGTQG-GTD 267
Query: 294 YWILANQWNRSWGADGYFKIKRG-SNECGIEEDVVAGLP 331
YWI+ N W SWG GY ++ R N CGI +A LP
Sbjct: 268 YWIVKNSWGLSWGERGYIRMVRNRGNMCGIAS--LASLP 304
>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 = 85.1 bits (209), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 65/232 (28%), Positives = 99/232 (42%), Gaps = 29/232 (12%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P S D R + + +S + +QG CGSCW F AL I G LSL+
Sbjct: 2 PPSMDWRK---KGNFVSPVKNQGSCGSCWTFSTTGALESAVAIATGKMLSLAEQQLVDCA 58
Query: 156 XXXXXXXXXXXYPISAWRYFVHH-GVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 214
P A+ Y ++ G++ E+ PY C + K
Sbjct: 59 QNFNNHGCQGGLPSQAFEYIRYNKGIMGEDTYPYKGQDD-------------HCKFQPDK 105
Query: 215 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK----HI 270
++ + +++ D E ++ + PV +F V DF Y+ G+Y H
Sbjct: 106 AIAFVKDVANITMN------DEEAMVEAVALYNPVSFAFEVTNDFLMYRKGIYSSTSCHK 159
Query: 271 TGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGI 322
T D + HAV +G+G ++G YWI+ N W WG +GYF I+RG N CG+
Sbjct: 160 TPDKVN-HAVLAVGYG-EENGIPYWIVKNSWGPQWGMNGYFLIERGKNMCGL 209
>pdb|1AEC|A Chain A, Crystal Structure Of Actinidin-E-64 Complex+
Length = 218
Score = 82.0 bits (201), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 70/236 (29%), Positives = 103/236 (43%), Gaps = 36/236 (15%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP D RSA + I QG CG CWAF A+ + I G+ +SLS
Sbjct: 1 LPSYVDWRSA----GAVVDIKSQGECGGCWAFSAIATVEGINKIVTGVLISLSEQELIDC 56
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
Y +++ +++G + TEE PY G +C
Sbjct: 57 GRTQNTRGCNGGYITDGFQFIINNGGINTEENYPYTAQDG-----------------EC- 98
Query: 214 KKNQLWRNSKHYSISAYR---INSDPEDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKH 269
N +N K+ +I Y N++ A Y+ PV V+ D F Y SG++
Sbjct: 99 --NVDLQNEKYVTIDTYENVPYNNEWALQTAVTYQ--PVSVALDAAGDAFKQYSSGIFTG 154
Query: 270 ITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR---GSNECGI 322
G + HAV ++G+GT + G DYWI+ N W+ +WG +GY +I R G+ CGI
Sbjct: 155 PCGTAID-HAVTIVGYGT-EGGIDYWIVKNSWDTTWGEEGYMRILRNVGGAGTCGI 208
>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 = 82.0 bits (201), Expect = 5e-16, Method: Composition-based stats.
Identities = 35/45 (77%), Positives = 36/45 (80%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIH 139
LP SFDAR WPQC TI I DQG CGSCWAFGAVEA+SDR CIH
Sbjct: 1 LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIH 45
>pdb|3P5W|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi)
Length = 220
Score = 82.0 bits (201), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 65/233 (27%), Positives = 100/233 (42%), Gaps = 30/233 (12%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP D RS+ + I DQG CGSCWAF + A+ I G +SLS
Sbjct: 1 LPDYVDWRSS----GAVVDIKDQGQCGSCWAFSTIAAVEGINKIATGDLISLSEQELVDC 56
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 214
+ +++ +++G + E + YP +C
Sbjct: 57 GRTQNTRGCDGGFMTDGFQFIINNGGINTEAN----------------YPYTAEEGQC-- 98
Query: 215 KNQLWRNSKHYSISAYR-INSDPEDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKHITG 272
N + K+ SI Y + + E + PV V+ +F HY SG++ G
Sbjct: 99 -NLDLQQEKYVSIDTYENVPYNNEWALQTAVAYQPVSVALEAAGYNFQHYSSGIFTGPCG 157
Query: 273 DVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR---GSNECGI 322
+ HAV ++G+GT + G DYWI+ N W +WG +GY +I+R G +CGI
Sbjct: 158 TAVD-HAVTIVGYGT-EGGIDYWIVKNSWGTTWGEEGYMRIQRNVGGVGQCGI 208
>pdb|3QT4|A Chain A, Structure Of Digestive Procathepsin L 3 Of Tenebrio
Molitor Larval Midgut
Length = 329
Score = 80.5 bits (197), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 61/241 (25%), Positives = 101/241 (41%), Gaps = 28/241 (11%)
Query: 89 HDKSLKLP-----KSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMN 143
H ++L++P K A W + + +S + DQG CGS W+F A+ + + G
Sbjct: 101 HPENLRMPYVSSKKPLAASVDW-RSNAVSEVKDQGQCGSSWSFSTTGAVEGQLALQRGRL 159
Query: 144 LSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAY 203
SLS + SA+ Y +G+++E PY G +
Sbjct: 160 TSLSEQNLIDCSSSYGNAGCDGGWMDSAFSYIHDYGIMSESAYPY------EAQGDYCRF 213
Query: 204 PTPKCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYK 263
+ + V S +Y + + D + + + GPV V+ ++ Y
Sbjct: 214 DSSQSVTTL---------SGYYDLPS----GDENSLADAVGQAGPVAVAIDATDELQFYS 260
Query: 264 SGV-YKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFK-IKRGSNECG 321
G+ Y H V ++G+G SD+G+DYWIL N W WG GY++ ++ N CG
Sbjct: 261 GGLFYDQTCNQSDLNHGVLVVGYG-SDNGQDYWILKNSWGSGWGESGYWRQVRNYGNNCG 319
Query: 322 I 322
I
Sbjct: 320 I 320
>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 = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 62/229 (27%), Positives = 95/229 (41%), Gaps = 24/229 (10%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP S D W Q ++ + DQG CGSCWAF V ++ I G +SLS
Sbjct: 4 LPPSVD----WRQKGAVTGVKDQGKCGSCWAFSTVVSVEGINAIRTGSLVSLSEQELIDC 59
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHG-VVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+A+ Y ++G ++TE PY + G T R
Sbjct: 60 DTADNDGCQGGLMD-NAFEYIKNNGGLITEAAYPYRAARG-----------TCNVARAAQ 107
Query: 214 KKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 272
+ H + A + E+ +A N PV V+ + F Y GV+ G
Sbjct: 108 NSPVVVHIDGHQDVPA-----NSEEDLARAVANQPVSVAVEASGKAFMFYSEGVFTGECG 162
Query: 273 DVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECG 321
+ H V ++G+G ++DG+ YW + N W SWG GY ++++ S G
Sbjct: 163 TELD-HGVAVVGYGVAEDGKAYWTVKNSWGPSWGEQGYIRVEKDSGASG 210
>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 = 78.6 bits (192), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 34/45 (75%), Positives = 36/45 (80%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIH 139
LP+SFDAR WP C TI I DQG CGSCWAFGAVEA+SDR CIH
Sbjct: 1 LPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIH 45
>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 = 78.2 bits (191), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 65/235 (27%), Positives = 102/235 (43%), Gaps = 36/235 (15%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP S D W + + + +QG CGSCWAF V A+ I G +SLS
Sbjct: 3 LPDSID----WRENGAVVPVKNQGGCGSCWAFSTVAAVEGINQIVTGDLISLSEQQLVDC 58
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHG-VVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
P A+++ V++G + +EE PY G C P
Sbjct: 59 TTANHGCRGGWMNP--AFQFIVNNGGINSEETYPYRGQDGI----CNSTVNAPVV----- 107
Query: 214 KKNQLWRNSKHYSISAYR-INSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHIT 271
SI +Y + S E + + N PV V+ DF Y+SG++ +
Sbjct: 108 ------------SIDSYENVPSHNEQSLQKAVANQPVSVTMDAAGRDFQLYRSGIFTG-S 154
Query: 272 GDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG----SNECGI 322
++ HA+ ++G+GT +D +D+WI+ N W ++WG GY + +R +CGI
Sbjct: 155 CNISANHALTVVGYGTEND-KDFWIVKNSWGKNWGESGYIRAERNIENPDGKCGI 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 = 78.2 bits (191), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 64/233 (27%), Positives = 99/233 (42%), Gaps = 30/233 (12%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP D RS+ + I DQG CGS WAF + A+ I G +SLS
Sbjct: 1 LPDYVDWRSS----GAVVDIKDQGQCGSXWAFSTIAAVEGINKIATGDLISLSEQELVDC 56
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 214
+ +++ +++G + E + YP +C
Sbjct: 57 GRTQNTRGCDGGFMTDGFQFIINNGGINTEAN----------------YPYTAEEGQC-- 98
Query: 215 KNQLWRNSKHYSISAYR-INSDPEDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKHITG 272
N + K+ SI Y + + E + PV V+ +F HY SG++ G
Sbjct: 99 -NLDLQQEKYVSIDTYENVPYNNEWALQTAVAYQPVSVALEAAGYNFQHYSSGIFTGPCG 157
Query: 273 DVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR---GSNECGI 322
+ HAV ++G+GT + G DYWI+ N W +WG +GY +I+R G +CGI
Sbjct: 158 TAVD-HAVTIVGYGT-EGGIDYWIVKNSWGTTWGEEGYMRIQRNVGGVGQCGI 208
>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 = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 66/240 (27%), Positives = 94/240 (39%), Gaps = 36/240 (15%)
Query: 91 KSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNX 150
S+ +P D RS T++ I QG CGSCWAF V A + + +L LS
Sbjct: 7 NSVNVPSELDLRS----LRTVTPIRMQGGCGSCWAFSGVAATESAYLAYRNTSLDLSEQE 62
Query: 151 XXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVR 210
I Y +GVV E PY +C R
Sbjct: 63 LVDCASQHGCHGDTIPRGIE---YIQQNGVVEERSYPYVARE-------------QRCRR 106
Query: 211 KCVKKNQLWRNSKHYSISAYRINSDPE-----DIMAEIYKNGPVEVSFTVYEDFAHYKS- 264
NS+HY IS Y P+ + + + + V + F HY
Sbjct: 107 P---------NSQHYGISNYCQIYPPDVKQIREALTQTHTAIAVIIGIKDLRAFQHYDGR 157
Query: 265 GVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEE 324
+ +H G HAV ++G+G S G+DYWI+ N W+ +WG GY + G+N IE+
Sbjct: 158 TIIQHDNGYQPNYHAVNIVGYG-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 = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 64/235 (27%), Positives = 104/235 (44%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 2 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 57
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 58 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKC- 100
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 101 -----QYDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 155
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 156 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 209
>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 = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 64/235 (27%), Positives = 104/235 (44%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 4 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 59
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 60 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKC- 102
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 103 -----QYDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 157
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 158 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 211
>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 = 75.1 bits (183), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 64/235 (27%), Positives = 104/235 (44%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKC- 99
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 100 -----QYDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 208
>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 = 75.1 bits (183), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 64/235 (27%), Positives = 104/235 (44%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 2 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 57
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 58 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKC- 100
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 101 -----QYDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 155
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 156 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 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 = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 64/235 (27%), Positives = 104/235 (44%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGID---SDASYPYKAMDQKC- 99
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 100 -----QYDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 208
>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 = 74.7 bits (182), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 65/248 (26%), Positives = 99/248 (39%), Gaps = 33/248 (13%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
+P S D W + ++ + DQG CGSCWAF + A+ I +SLS
Sbjct: 2 VPASVD----WRKKGAVTSVKDQGQCGSCWAFSTIVAVEGINQIKTNKLVSLSEQELVDC 57
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCV 213
A+ + G +T E + PY AY V K
Sbjct: 58 DTDQNQGCNGGLMDY-AFEFIKQRGGITTEANYPY------------EAYDGTCDVSK-- 102
Query: 214 KKNQLWRNSKHYSISAYR-INSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHIT 271
N+ SI + + + E+ + + N PV V+ DF Y GV+
Sbjct: 103 ------ENAPAVSIDGHENVPENDENALLKAVANQPVSVAIDAGGSDFQFYSEGVFTGSC 156
Query: 272 GDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGIEEDVV 327
G + H V ++G+GT+ DG YW + N W WG GY +++RG ++ CGI +
Sbjct: 157 GTELD-HGVAIVGYGTTIDGTKYWTVKNSWGPEWGEKGYIRMERGISDKEGLCGIAMEAS 215
Query: 328 AGLPSSKN 335
+ S N
Sbjct: 216 YPIKKSSN 223
>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 = 74.3 bits (181), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 63/235 (26%), Positives = 104/235 (44%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+CWAF AV AL + + G ++LS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVTLSAQNLVDC 56
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKC- 99
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 100 -----QYDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 208
>pdb|2G6D|A Chain A, Human Cathepsin S Mutant With Vinyl Sulfone Inhibitor Cra-
14009
Length = 217
Score = 74.3 bits (181), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 64/235 (27%), Positives = 103/235 (43%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKC- 99
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 100 -----QYDSKYRAATCRKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G GY ++ R N CGI
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEKGYIRMARNKGNHCGI 208
>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 = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 67/233 (28%), Positives = 96/233 (41%), Gaps = 30/233 (12%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP D RSA + I QG CG WAF A+ + I G +SLS
Sbjct: 1 LPSYVDWRSA----GAVVDIKSQGECGGXWAFSAIATVEGINKITSGSLISLSEQELIDC 56
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
Y +++ ++ G + TEE PY G C+ A K V
Sbjct: 57 GRTQNTRGCDGGYITDGFQFIINDGGINTEENYPYTAQDG----DCDVALQDQKYVTIDT 112
Query: 214 KKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
+N + N A Y+ PV V+ D F Y SG++ G
Sbjct: 113 YENVPYNNEWALQ-------------TAVTYQ--PVSVALDAAGDAFKQYASGIFTGPCG 157
Query: 273 DVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR---GSNECGI 322
+ HA+ ++G+GT + G DYWI+ N W+ +WG +GY +I R G+ CGI
Sbjct: 158 TAVD-HAIVIVGYGT-EGGVDYWIVKNSWDTTWGEEGYMRILRNVGGAGTCGI 208
>pdb|2FYE|A Chain A, Mutant Human Cathepsin S With Irreversible Inhibitor Cra-
14013
Length = 217
Score = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 63/235 (26%), Positives = 102/235 (43%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STKKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKC- 99
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+S + + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 100 -----QYDSAYRAATCRKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G + G++YW++ N W ++G GY ++ R N CGI
Sbjct: 155 EPSCTQNVNHGVLVVGYGDLN-GKEYWLVKNSWGHNFGEKGYIRMARNKGNHCGI 208
>pdb|2C0Y|A Chain A, The Crystal Structure Of A Cys25ala Mutant Of Human
Procathepsin S
Length = 315
Score = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 63/235 (26%), Positives = 103/235 (43%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+ WAF AV AL + + G +SLS N
Sbjct: 99 LPDSVD----WREKGCVTEVKYQGSCGAAWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 154
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 155 STEKYGNKGCNGGFMTTAFQYII-------------DNKGID---SDASYPYKAMDQKCQ 198
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 199 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 252
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGS-NECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 253 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 306
>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 = 72.0 bits (175), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 63/235 (26%), Positives = 103/235 (43%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+ WAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKC- 99
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 100 -----QYDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 208
>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 = 72.0 bits (175), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 63/235 (26%), Positives = 103/235 (43%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+ WAF AV AL + + G +SLS N
Sbjct: 3 LPDSVD----WREKGCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 58
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 59 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKC- 101
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 102 -----QYDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 156
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 157 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 210
>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 = 71.6 bits (174), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 63/235 (26%), Positives = 103/235 (43%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+ WAF AV AL + + G +SLS N
Sbjct: 2 LPDSVD----WREKGCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 57
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP +KC
Sbjct: 58 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKC- 100
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 101 -----QYDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 155
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 156 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 209
>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 = 71.2 bits (173), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 55/224 (24%), Positives = 95/224 (42%), Gaps = 23/224 (10%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W + ++ + DQG CGSCWAF + + ++ + +SLS
Sbjct: 7 WREKGAVTPVKDQGQCGSCWAFSTIGNIEGQWQVAGNPLVSLSEQMLVSCDTIDFGCGGG 66
Query: 165 XXYPISAWRYFVHHG-VVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 223
W + G V TE PY G P+C Q+ +
Sbjct: 67 LMDNAFNWIVNSNGGNVFTEASYPYVSGNG----------EQPQC--------QMNGHEI 108
Query: 224 HYSISAY-RINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKL 282
+I+ + + D + I A + +NGP+ ++ F Y G+ T + + H V L
Sbjct: 109 GAAITDHVDLPQDEDAIAAYLAENGPLAIAVDA-TSFMDYNGGILTSCTSEQLD-HGVLL 166
Query: 283 IGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDV 326
+G+ + + YWI+ N W+ WG DGY +I++G+N+C + + V
Sbjct: 167 VGYNDASN-PPYWIIKNSWSNMWGEDGYIRIEKGTNQCLMNQAV 209
>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 = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 65/258 (25%), Positives = 109/258 (42%), Gaps = 45/258 (17%)
Query: 91 KSLKLPKSFD-ARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVN 149
K + ++FD A W S ++ + DQ +CGSCWAF ++ ++ ++ I ++LS
Sbjct: 9 KKYRGEENFDHAAYDWRLHSGVTPVKDQKNCGSCWAFSSIGSVESQYAIRKNKLITLS-- 66
Query: 150 XXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAY---PTP 206
S Y + G++ + + G G P P
Sbjct: 67 -------------EQELVDCSFKNYGCNGGLINNAFEDMIELGGICPDGDYPYVSDAPNL 113
Query: 207 KCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKN-GPVEVSFTVYEDFAHYKSG 265
+ +C +K Y I Y S P++ + E + GP+ +S V +DFA YK G
Sbjct: 114 CNIDRCTEK---------YGIKNYL--SVPDNKLKEALRFLGPISISVAVSDDFAFYKEG 162
Query: 266 VYKHITGDVMGGHAVKLIGWGTSD-------DGED--YWILANQWNRSWGADGYFKIKRG 316
++ GD + HAV L+G+G + GE Y+I+ N W + WG G+ I+
Sbjct: 163 IFDGECGDQL-NHAVMLVGFGMKEIVNPLTKKGEKHYYYIIKNSWGQQWGERGFINIETD 221
Query: 317 SN----ECGIEEDVVAGL 330
+ +CG+ D L
Sbjct: 222 ESGLMRKCGLGTDAFIPL 239
>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 = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 63/237 (26%), Positives = 100/237 (42%), Gaps = 37/237 (15%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP D RS ++ I +Q CGSCWAF AV A+ I G +SLS
Sbjct: 1 LPSFVDWRSK----GAVNSIKNQKQCGSCWAFSAVAAVESINKIRTGQLISLS--EQELV 54
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + +G + T++ PY G C+P
Sbjct: 55 DCDTASHGCNGGWMNNAFQYIITNGGIDTQQNYPYSAVQG----SCKP------------ 98
Query: 214 KKNQLWRNSKHYSISAY-RINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHIT 271
+ SI+ + R+ + E + + PV V+ F HY SG++
Sbjct: 99 ------YRLRVVSINGFQRVTRNNESALQSAVASQPVSVTVEAAGAPFQHYSSGIFTGPC 152
Query: 272 GDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG----SNECGIEE 324
G H V ++G+GT G++YWI+ N W ++WG GY ++R + CGI +
Sbjct: 153 GTAQN-HGVVIVGYGT-QSGKNYWIVRNSWGQNWGNQGYIWMERNVASSAGLCGIAQ 207
>pdb|1GLO|A Chain A, Crystal Structure Of Cys25ser Mutant Of Human Cathepsin S
Length = 217
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 63/235 (26%), Positives = 102/235 (43%), Gaps = 34/235 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 153
LP S D W + ++ + QG CG+ WAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ +A++Y + D+ G + +YP KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDLKC- 99
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 268
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 100 -----QYDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ H V ++G+G +G++YW++ N W ++G +GY ++ R N CGI
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGI 208
>pdb|1AIM|A Chain A, Cruzain Inhibited By
Benzoyl-Tyrosine-Alanine-Fluoromethylketone
Length = 215
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 57/222 (25%), Positives = 87/222 (39%), Gaps = 21/222 (9%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W ++ + DQG CGSCWAF A+ + ++ + +LS
Sbjct: 7 WRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGG 66
Query: 165 XXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 223
W ++G V TE+ PY G S P + + V+ Q
Sbjct: 67 LMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ------ 120
Query: 224 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLI 283
D I A + NGPV V+ + Y GV + + H V L+
Sbjct: 121 -----------DEAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEALD-HGVLLV 167
Query: 284 GWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEED 325
G+ S YWI+ N W WG +GY +I +GSN+C ++E+
Sbjct: 168 GYNDSA-AVPYWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEE 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 = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 57/222 (25%), Positives = 87/222 (39%), Gaps = 21/222 (9%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W ++ + DQG CGSCWAF A+ + ++ + +LS
Sbjct: 7 WRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGG 66
Query: 165 XXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 223
W ++G V TE+ PY G S P + + V+ Q
Sbjct: 67 LMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ------ 120
Query: 224 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLI 283
D I A + NGPV V+ + Y GV + + H V L+
Sbjct: 121 -----------DEAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEQLD-HGVLLV 167
Query: 284 GWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEED 325
G+ S YWI+ N W WG +GY +I +GSN+C ++E+
Sbjct: 168 GYNDSA-AVPYWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEE 208
>pdb|3IUT|A Chain A, The Crystal Structure Of Cruzain In Complex With A
Tetrafluorophenoxymethyl Ketone Inhibitor
Length = 221
Score = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 89/224 (39%), Gaps = 25/224 (11%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W ++ + DQG CGSCWAF A+ + ++ + +L+
Sbjct: 7 WRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLAEQMLVSCDKTDSGCSGG 66
Query: 165 XXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 223
W ++G V TE+ PY G S P + + V+ Q
Sbjct: 67 LMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ------ 120
Query: 224 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLI 283
D I A + NGPV V+ + Y GV + + H V L+
Sbjct: 121 -----------DEAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEQL-DHGVLLV 167
Query: 284 GWGTSDDGED--YWILANQWNRSWGADGYFKIKRGSNECGIEED 325
G+ +DG YWI+ N W WG +GY +I +GSN+C ++E+
Sbjct: 168 GY---NDGAAVPYWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEE 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 = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 89/224 (39%), Gaps = 25/224 (11%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W ++ + DQG CGSCWAF A+ + ++ + +L+
Sbjct: 7 WRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLAEQMLVSCDKTDSGCSGG 66
Query: 165 XXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 223
W ++G V TE+ PY G S P + + V+ Q
Sbjct: 67 LMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ------ 120
Query: 224 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLI 283
D I A + NGPV V+ + Y GV + + H V L+
Sbjct: 121 -----------DEAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEQL-DHGVLLV 167
Query: 284 GWGTSDDGED--YWILANQWNRSWGADGYFKIKRGSNECGIEED 325
G+ +DG YWI+ N W WG +GY +I +GSN+C ++E+
Sbjct: 168 GY---NDGAAVPYWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEE 208
>pdb|3F75|A Chain A, Activated Toxoplasma Gondii Cathepsin L (Tgcpl) In Complex
With Its Propeptide
Length = 224
Score = 68.6 bits (166), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 62/239 (25%), Positives = 88/239 (36%), Gaps = 29/239 (12%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP A W ++ + DQ CGSCWAF AL C G +SLS
Sbjct: 3 LPSELPAGVDWRSRGCVTPVKDQRDCGSCWAFSTTGALEGAHCAKTGKLVSLSEQELMDC 62
Query: 155 XXXXXXXXXXXXYPISAWRYFVHH-GVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKC 212
A++Y + G+ +E+ PY C CE V K
Sbjct: 63 SRAEGNQSCSGGEMNDAFQYVLDSGGICSEDAYPYLARDEECRAQSCEK-------VVKI 115
Query: 213 VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKHIT 271
+ + R S E M PV ++ + F Y GV+
Sbjct: 116 LGFKDVPRRS--------------EAAMKAALAKSPVSIAIEADQMPFQFYHEGVFDASC 161
Query: 272 GDVMGGHAVKLIGWGTSDDG-EDYWILANQWNRSWGADGYFKI---KRGSNECGIEEDV 326
G + H V L+G+GT + +D+WI+ N W WG DGY + K +CG+ D
Sbjct: 162 GTDL-DHGVLLVGYGTDKESKKDFWIMKNSWGTGWGRDGYMYMAMHKGEEGQCGLLLDA 219
>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 = 68.6 bits (166), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 62/235 (26%), Positives = 95/235 (40%), Gaps = 40/235 (17%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP+ D W + ++ + +QG CGSCWAF V + I G +SLS
Sbjct: 1 LPEQID----WRKKGAVTPVKNQGKCGSCWAFSTVSTVESINQIRTGNLISLSEQQLVDC 56
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ A++Y + +G + E + PY G P K VR
Sbjct: 57 NKKNHGCKGGAF--VYAYQYIIDNGGIDTEANYPYKAVQG-------PCRAAKKVVR--- 104
Query: 214 KKNQLWRNSKHYSISAYR-INSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHIT 271
I Y+ + E+ + + + P V+ + F HYKSG++
Sbjct: 105 -------------IDGYKGVPHCNENALKKAVASQPSVVAIDASSKQFQHYKSGIFSGPC 151
Query: 272 GDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR--GSNECGIEE 324
G + H V ++G+ +DYWI+ N W R WG GY ++KR G CGI
Sbjct: 152 GTKLN-HGVVIVGYW-----KDYWIVRNSWGRYWGEQGYIRMKRVGGCGLCGIAR 200
>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 = 68.2 bits (165), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 71/279 (25%), Positives = 111/279 (39%), Gaps = 49/279 (17%)
Query: 59 FSNYTVGQFKHLLG----VKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCSTISRI 114
F + T +F+ ++ KP KG + P+ + P+S D W + ++ +
Sbjct: 5 FGDMTSEEFRQVMNGFQNRKPR-KGKVFQEPL-----FYEAPRSVD----WREKGYVTPV 54
Query: 115 LDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRY 174
+QG CGSCWAF A AL + G +SLS A++Y
Sbjct: 55 KNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQY 114
Query: 175 FVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----Y 230
+G + DS E +YP C + + YS++
Sbjct: 115 VQDNGGL--------DS--------EESYPYEATEESC-------KYNPKYSVANDAGFV 151
Query: 231 RINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG- 286
I + +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 152 DIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLVVGYGF 210
Query: 287 --TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
T D YW++ N W WG GY K+ K N CGI
Sbjct: 211 ESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 249
>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 = 67.8 bits (164), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 64/225 (28%), Positives = 90/225 (40%), Gaps = 24/225 (10%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S+D W + I+++ QG CGS WAF A A+ I G +SLS
Sbjct: 3 PESWD----WSKKGVITKVKFQGQCGSGWAFSATGAIEAAHAIATGNLVSLSEQELIDCV 58
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCVK 214
Y W V HG + E D PY G KC ++
Sbjct: 59 DESEGCYNGWHYQSFEW--VVKHGGIASEADYPYKARDG-------------KCKANEIQ 103
Query: 215 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK--HITG 272
N +S S+ E + P+ VS +DF Y G+Y + +
Sbjct: 104 DKVTIDNYGVQILSNESTESEAESSLQSFVLEQPISVSIDA-KDFHFYSGGIYDGGNCSS 162
Query: 273 DVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGS 317
H V ++G+G S+DG DYWI N W WG DGY +I+R +
Sbjct: 163 PYGINHFVLIVGYG-SEDGVDYWIAKNSWGEDWGIDGYIRIQRNT 206
>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 = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 31/58 (53%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 278 HAVKLIGWGT-SDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEEDVVAGLPSSK 334
HAV L+G+GT S G DYWI+ N W WG +GYF+I+RG++EC IE VA P K
Sbjct: 11 HAVLLVGYGTDSASGMDYWIVKNSWGTGWGENGYFRIRRGTDECAIESIAVAATPIPK 68
>pdb|3PNR|A Chain A, Structure Of Pbicp-C In Complex With Falcipain-2
Length = 240
Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 64/258 (24%), Positives = 108/258 (41%), Gaps = 45/258 (17%)
Query: 91 KSLKLPKSFD-ARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVN 149
K + ++FD A W S ++ + DQ +CGS WAF ++ ++ ++ I ++LS
Sbjct: 8 KKYRGEENFDHAAYDWRLHSGVTPVKDQKNCGSAWAFSSIGSVESQYAIRKNKLITLS-- 65
Query: 150 XXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAY---PTP 206
S Y + G++ + + G G P P
Sbjct: 66 -------------EQELVDCSFKNYGCNGGLINNAFEDMIELGGICPDGDYPYVSDAPNL 112
Query: 207 KCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKN-GPVEVSFTVYEDFAHYKSG 265
+ +C +K Y I Y S P++ + E + GP+ +S V +DFA YK G
Sbjct: 113 CNIDRCTEK---------YGIKNYL--SVPDNKLKEALRFLGPISISVAVSDDFAFYKEG 161
Query: 266 VYKHITGDVMGGHAVKLIGWGTSD-------DGED--YWILANQWNRSWGADGYFKIKRG 316
++ GD + HAV L+G+G + GE Y+I+ N W + WG G+ I+
Sbjct: 162 IFDGECGDQL-NHAVMLVGFGMKEIVNPLTKKGEKHYYYIIKNSWGQQWGERGFINIETD 220
Query: 317 SN----ECGIEEDVVAGL 330
+ +CG+ D L
Sbjct: 221 ESGLMRKCGLGTDAFIPL 238
>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 = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 61/241 (25%), Positives = 101/241 (41%), Gaps = 42/241 (17%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LPKS D W + ++ + +Q CGSCWAF A AL + G +SLS
Sbjct: 1 LPKSVD----WRKKGYVTPVKNQKQCGSCWAFSATGALEGQMFRKTGKLVSLSEQNLVDC 56
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ A++Y +G + +EE PY + K
Sbjct: 57 SRPQGNQGCNGGFMARAFQYVKENGGLDSEESYPYV---------------AVDEICKYR 101
Query: 214 KKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY----- 267
+N + +++ ++ + + +M + GP+ V+ + F YKSG+Y
Sbjct: 102 PENSVAQDTGFTVVAPGK----EKALMKAVATVGPISVAMDAGHSSFQFYKSGIYFEPDC 157
Query: 268 --KHITGDVMGGHAVKLIGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECG 321
K++ H V ++G+G + D YW++ N W WG++GY KI K +N CG
Sbjct: 158 SSKNLD------HGVLVVGYGFEGANSDNSKYWLVKNSWGPEWGSNGYVKIAKDKNNHCG 211
Query: 322 I 322
I
Sbjct: 212 I 212
>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 = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 61/240 (25%), Positives = 94/240 (39%), Gaps = 39/240 (16%)
Query: 94 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 153
+ P+S D W + ++ + +QG CGSCWAF A AL + G +SLS
Sbjct: 1 EAPRSVD----WREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVD 56
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
A++Y +G + E +YP C
Sbjct: 57 CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSE----------------ESYPYEATEESC- 99
Query: 214 KKNQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY- 267
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 100 ------KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYF 153
Query: 268 -KHITGDVMGGHAVKLIGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
+ + M H V ++G+G T D YW++ N W WG GY K+ K N CGI
Sbjct: 154 EPDCSSEDMD-HGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 212
>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 = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 61/238 (25%), Positives = 93/238 (39%), Gaps = 39/238 (16%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S D W + ++ + +QG CGSCWAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 215
A++Y +G + E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGLDSE----------------ESYPYEATEESC--- 98
Query: 216 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 268
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDAGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 269 HITGDVMGGHAVKLIGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
+ + M H V ++G+G T D YW++ N W WG GY K+ K N CGI
Sbjct: 155 DCSSEDMD-HGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 211
>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 = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 61/238 (25%), Positives = 93/238 (39%), Gaps = 39/238 (16%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S D W + ++ + +QG CGSCWAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 215
A++Y +G + E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGLDSE----------------ESYPYEATEESC--- 98
Query: 216 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 268
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 269 HITGDVMGGHAVKLIGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
+ + M H V ++G+G T D YW++ N W WG GY K+ K N CGI
Sbjct: 155 DCSSEDMD-HGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 211
>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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 62/232 (26%), Positives = 94/232 (40%), Gaps = 36/232 (15%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S D W + ++ + +Q CGSCWAF V + I G +SLS
Sbjct: 2 PESID----WREKGAVTPVKNQNPCGSCWAFSTVATIEGINKIITGQLISLS--EQELLD 55
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 215
Y ++ +Y V +GV TE PY G +C K
Sbjct: 56 CERRSHGCDGGYQTTSLQYVVDNGVHTEREYPYEKKQG-----------------RCRAK 98
Query: 216 NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEV-SFTVYEDFAHYKSGVYKHITGDV 274
++ + K Y + ++ E + + N PV V + + F YK G+Y+ G
Sbjct: 99 DK--KGPKVYITGYKYVPANDEISLIQAIANQPVSVVTDSRGRGFQFYKGGIYEGPCGTN 156
Query: 275 MGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 322
HAV +G+G + Y +L N W +WG GY +IKR S CG+
Sbjct: 157 TD-HAVTAVGYGKT-----YLLLKNSWGPNWGEKGYIRIKRASGRSKGTCGV 202
>pdb|1CJL|A Chain A, Crystal Structure Of A Cysteine Protease Proform
Length = 312
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 68/278 (24%), Positives = 108/278 (38%), Gaps = 47/278 (16%)
Query: 59 FSNYTVGQFKHL---LGVKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCSTISRIL 115
F + T +F+ + L + KG + P+ + P+S D W + ++ +
Sbjct: 59 FGDMTSEEFRQVMNGLQNRKPRKGKVFQEPL-----FYEAPRSVD----WREKGYVTPVK 109
Query: 116 DQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYF 175
+QG CGS WAF A AL + G +SLS A++Y
Sbjct: 110 NQGQCGSSWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPEGNEGCNGGLMDYAFQYV 169
Query: 176 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YR 231
+G + E +YP C + + YS++
Sbjct: 170 QDNGGLD----------------SEESYPYEATEESC-------KYNPKYSVANDAGFVD 206
Query: 232 INSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG-- 286
I + +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 207 IPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLVVGYGFE 265
Query: 287 -TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
T DG YW++ N W WG GY K+ K N CGI
Sbjct: 266 STESDGNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 303
>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 = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 63/235 (26%), Positives = 92/235 (39%), Gaps = 40/235 (17%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP+ D W + + +QG CGSCWAF V + I G +SLS
Sbjct: 1 LPEHVD----WRAKGAVIPLKNQGKCGSCWAFSTVTTVESINQIRTGNLISLS--EQQLV 54
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVR--K 211
Y A++Y + +G + E + PY G P K VR
Sbjct: 55 DCSKKNHGCKGGYFDRAYQYIIANGGIDTEANYPYKAFQG-------PCRAAKKVVRIDG 107
Query: 212 CVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHIT 271
C Q N+ +++ S P + + + F HYK G++
Sbjct: 108 CKGVPQCNENALKNAVA-----SQPSVVAIDASS-----------KQFQHYKGGIFTGPC 151
Query: 272 GDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR--GSNECGIEE 324
G + H V ++G+G +DYWI+ N W R WG GY ++KR G CGI
Sbjct: 152 GTKLN-HGVVIVGYG-----KDYWIVRNSWGRHWGEQGYTRMKRVGGCGLCGIAR 200
>pdb|1YAL|A Chain A, Carica Papaya Chymopapain At 1.7 Angstroms Resolution
Length = 218
Score = 65.5 bits (158), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 65/237 (27%), Positives = 95/237 (40%), Gaps = 42/237 (17%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S D W ++ + +QG CGS WAF + + I G L LS
Sbjct: 2 PQSID----WRAKGAVTPVKNQGACGSXWAFSTIATVEGINKIVTGNLLELS--EQELVD 55
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPY----FDSTGCSHPGCEPAYPTPKCVRK 211
Y ++ +Y ++GV T + PY + PG PK
Sbjct: 56 CDKHSYGCKGGYQTTSLQYVANNGVHTSKVYPYQAKQYKCRATDKPG-------PKV--- 105
Query: 212 CVKKNQLWRNSKHYSISAY-RINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKH 269
I+ Y R+ S+ E N P+ V + F YKSGV+
Sbjct: 106 --------------KITGYKRVPSNXETSFLGALANQPLSVLVEAGGKPFQLYKSGVFDG 151
Query: 270 ITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 322
G + HAV +G+GTSD G++Y I+ N W +WG GY ++KR S CG+
Sbjct: 152 PCGTKLD-HAVTAVGYGTSD-GKNYIIIKNSWGPNWGEKGYMRLKRQSGNSQGTCGV 206
>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 = 65.5 bits (158), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 67/234 (28%), Positives = 96/234 (41%), Gaps = 36/234 (15%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 2 PDSVDYREK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVD 55
Query: 156 XXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCV 213
Y +A++Y + G+ +E+ PY C + PT K KC
Sbjct: 56 CVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMYN------PTGKAA-KCR 108
Query: 214 KKNQLWR-NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KH 269
++ N K + R+ GPV V+ F Y GVY +
Sbjct: 109 GYREIPEGNEKALKRAVARV--------------GPVSVAIDASLTSFQFYSKGVYYDES 154
Query: 270 ITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
D + HAV +G+G S G +WI+ N W +WG GY K+ R +N CGI
Sbjct: 155 CNSDNLN-HAVLAVGYGESK-GNKHWIIKNSWGENWGMGGYIKMARNKNNACGI 206
>pdb|2NQD|B Chain B, Crystal Structure Of Cysteine Protease Inhibitor,
Chagasin, In Complex With Human Cathepsin L
Length = 221
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 60/240 (25%), Positives = 93/240 (38%), Gaps = 39/240 (16%)
Query: 94 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 153
+ P+S D W + ++ + +QG CGS WAF A AL + G +SLS
Sbjct: 1 EAPRSVD----WREKGYVTPVKNQGQCGSAWAFSATGALEGQMFRKTGRLISLSEQNLVD 56
Query: 154 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
A++Y +G + E +YP C
Sbjct: 57 CSGPQGNEGCNGGLMDYAFQYVQDNGGLD----------------SEESYPYEATEESC- 99
Query: 214 KKNQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY- 267
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 100 ------KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYF 153
Query: 268 -KHITGDVMGGHAVKLIGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
+ + M H V ++G+G T D YW++ N W WG GY K+ K N CGI
Sbjct: 154 EPDCSSEDMD-HGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 212
>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 = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 60/241 (24%), Positives = 100/241 (41%), Gaps = 42/241 (17%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LPKS D W + ++ + +Q CGS WAF A AL + G +SLS
Sbjct: 1 LPKSVD----WRKKGYVTPVKNQKQCGSXWAFSATGALEGQMFRKTGKLVSLSEQNLVDC 56
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ A++Y +G + +EE PY + K
Sbjct: 57 SRPQGNQGCNGGFMARAFQYVKENGGLDSEESYPYV---------------AVDEICKYR 101
Query: 214 KKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY----- 267
+N + +++ ++ + + +M + GP+ V+ + F YKSG+Y
Sbjct: 102 PENSVAQDTGFTVVAPGK----EKALMKAVATVGPISVAMDAGHSSFQFYKSGIYFEPDC 157
Query: 268 --KHITGDVMGGHAVKLIGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECG 321
K++ H V ++G+G + D YW++ N W WG++GY KI K +N CG
Sbjct: 158 SSKNLD------HGVLVVGYGFEGANSDNSKYWLVKNSWGPEWGSNGYVKIAKDKNNHCG 211
Query: 322 I 322
I
Sbjct: 212 I 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 = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 60/238 (25%), Positives = 92/238 (38%), Gaps = 39/238 (16%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S D W + ++ + +QG CGS WAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSAWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 215
A++Y +G + E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGLDSE----------------ESYPYEATEESC--- 98
Query: 216 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 268
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 269 HITGDVMGGHAVKLIGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
+ + M H V ++G+G T D YW++ N W WG GY K+ K N CGI
Sbjct: 155 DCSSEDMD-HGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 211
>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 = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 61/225 (27%), Positives = 89/225 (39%), Gaps = 36/225 (16%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W ++ + DQ CGSCWAF +V ++ ++ I S
Sbjct: 26 WRLHGGVTPVKDQALCGSCWAFSSVGSVESQYAIRKKALFLFSEQELV------------ 73
Query: 165 XXYPISAWRYFVHHGVVTEECDPYFDSTG-CSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 223
S + G +T D D G CS + YP V + L R ++
Sbjct: 74 ---DCSVKNNGCYGGYITNAFDDMIDLGGLCS----QDDYPY---VSNLPETCNLKRCNE 123
Query: 224 HYSISAYRINSDPEDIMAEIYKN-GPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKL 282
Y+I +Y S P+D E + GP+ +S +DFA Y+ G Y G HAV L
Sbjct: 124 RYTIKSYV--SIPDDKFKEALRYLGPISISIAASDDFAFYRGGFYDGECG-AAPNHAVIL 180
Query: 283 IGWGTSDD-GED--------YWILANQWNRSWGADGYFKIKRGSN 318
+G+G D ED Y+I+ N W WG GY ++ N
Sbjct: 181 VGYGMKDIYNEDTGRMEKFYYYIIKNSWGSDWGEGGYINLETDEN 225
>pdb|2F7D|A Chain A, A Mutant Rabbit Cathepsin K With A Nitrile Inhibitor
Length = 215
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 63/235 (26%), Positives = 94/235 (40%), Gaps = 38/235 (16%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 2 PDSIDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVD 55
Query: 156 XXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCV 213
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 56 CVSENDGCGGGYMTNAFQYVQRNRGIDSEDAYPYVGQDESCMY---NPTGKAAKC----- 107
Query: 214 KKNQLWRNSKHYSISAYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 268
YR + + + + + GPV V+ F Y GVY +
Sbjct: 108 --------------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDE 153
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ + D + HAV +G+G G +WI+ N W SWG GY + R +N CGI
Sbjct: 154 NCSSDNL-NHAVLAVGYGI-QKGNKHWIIKNSWGESWGNKGYILMARNKNNACGI 206
>pdb|1CS8|A Chain A, Crystal Structure Of Procathepsin L
Length = 316
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 68/279 (24%), Positives = 108/279 (38%), Gaps = 49/279 (17%)
Query: 59 FSNYTVGQFKHLLG----VKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCSTISRI 114
F + T +F+ ++ KP KG + P+ + P+S D W + ++ +
Sbjct: 63 FGDMTSEEFRQVMNGFQNRKPR-KGKVFQEPL-----FYEAPRSVD----WREKGYVTPV 112
Query: 115 LDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRY 174
+QG CGS WAF A AL + G +SLS A++Y
Sbjct: 113 KNQGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQY 172
Query: 175 FVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----Y 230
+G + E +YP C + + YS++
Sbjct: 173 VQDNGGLD----------------SEESYPYEATEESC-------KYNPKYSVANDAGFV 209
Query: 231 RINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG- 286
I + +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 210 DIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMD-HGVLVVGYGF 268
Query: 287 --TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
T D YW++ N W WG GY K+ K N CGI
Sbjct: 269 ESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 307
>pdb|3IOQ|A Chain A, Crystal Structure Of The Carica Candamarcensis Cysteine
Protease Cms1ms2 In Complex With E-64
Length = 213
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 65/237 (27%), Positives = 94/237 (39%), Gaps = 34/237 (14%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
+P S D W Q ++ + +QG CGSCW F +V A+ I G LSLS
Sbjct: 1 IPTSID----WRQKGAVTPVRNQGGCGSCWTFSSVAAVEGINKIVTGQLLSLSEQELLDC 56
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 214
+P+ A +Y + G+ + PY G PK V
Sbjct: 57 ERRSYGCRGG--FPLYALQYVANSGIHLRQYYPY---EGVQRQCRASQAKGPKVKTDGVG 111
Query: 215 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDV 274
+ + RN++ I RI P I+ E F +Y+ G++ G
Sbjct: 112 R--VPRNNEQALIQ--RIAIQPVSIVVEAKG-----------RAFQNYRGGIFAGPCGTS 156
Query: 275 MGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGIEEDVV 327
+ HAV +G+G DY ++ N W WG GY +IKRGS CG+ D V
Sbjct: 157 ID-HAVAAVGYGN-----DYILIKNSWGTGWGEGGYIRIKRGSGNPQGACGVLSDSV 207
>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 = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 60/238 (25%), Positives = 92/238 (38%), Gaps = 39/238 (16%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S D W + ++ + +QG CGS WAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 215
A++Y +G + E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGLDSE----------------ESYPYEATEESC--- 98
Query: 216 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 268
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 269 HITGDVMGGHAVKLIGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
+ + M H V ++G+G T D YW++ N W WG GY K+ K N CGI
Sbjct: 155 DCSSEDMD-HGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 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 = 62.8 bits (151), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 60/238 (25%), Positives = 92/238 (38%), Gaps = 39/238 (16%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S D W + ++ + +QG CGS WAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 215
A++Y +G + E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGLDSE----------------ESYPYEATEESC--- 98
Query: 216 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 268
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDAGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 269 HITGDVMGGHAVKLIGWG---TSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
+ + M H V ++G+G T D YW++ N W WG GY K+ K N CGI
Sbjct: 155 DCSSEDMD-HGVLVVGYGFESTESDDNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 211
>pdb|1VSN|A Chain A, Crystal Structure Of A Potent Small Molecule Inhibitor
Bound To Cathepsin K
Length = 215
Score = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 65/237 (27%), Positives = 97/237 (40%), Gaps = 42/237 (17%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P S D R ++ + +QG CGSCWAF +V AL + G L+L+
Sbjct: 2 PDSIDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKATGALLNLA--PQNLVD 55
Query: 156 XXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCV 213
Y +A++Y + G+ +E+ PY C + PT K KC
Sbjct: 56 CVSENDGCGGGYMTNAFQYVQRNRGIDSEDAYPYVGQDESCMYN------PTGKAA-KCR 108
Query: 214 KKNQLWRNSKHYSISAYRINSDPEDIMAEIYKN----GPVEVSFTV-YEDFAHYKSGVY- 267
++ PE A + + GPV V+ F Y +GVY
Sbjct: 109 GYREI-----------------PEGNEAALKRAVAAVGPVSVAIDASLTSFQFYSAGVYY 151
Query: 268 -KHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
++ + D + HAV +G+G G +WI+ N W SWG GY + R +N CGI
Sbjct: 152 DENCSSDAL-NHAVLAVGYGI-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 = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 62/237 (26%), Positives = 93/237 (39%), Gaps = 38/237 (16%)
Query: 94 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 153
+ P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 2 RAPDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNL 55
Query: 154 XXXXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRK 211
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 56 VDCVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC--- 109
Query: 212 CVKKNQLWRNSKHYSISAYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY- 267
YR + + + + + GPV V+ F Y GVY
Sbjct: 110 ----------------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYY 153
Query: 268 -KHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ D + HAV +G+G G +WI+ N W +WG GY + R +N CGI
Sbjct: 154 DESCNSDNL-NHAVLAVGYGI-QKGNKHWIIKNSWGENWGNKGYILMARNKNNACGI 208
>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 = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 58/230 (25%), Positives = 91/230 (39%), Gaps = 26/230 (11%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S D W + ++ + +QG CG+ +AF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGASYAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 215
A++Y +G + DS E +YP C K
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGL--------DS--------EESYPYEATEESC-KY 100
Query: 216 NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVYKHITGDV 274
N + S + I + +M + GP+ V+ +E F YK G+Y
Sbjct: 101 NPKY--SVANDVGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFSSDCSS 158
Query: 275 MG-GHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKI-KRGSNECGI 322
HA+ ++G+G + + YW++ N W WG GY K+ K N CGI
Sbjct: 159 SSLNHAMLVVGYGFISNNQKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 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 = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 62/235 (26%), Positives = 92/235 (39%), Gaps = 38/235 (16%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 2 PDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVD 55
Query: 156 XXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCV 213
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 56 CVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC----- 107
Query: 214 KKNQLWRNSKHYSISAYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 268
YR + + + + + GPV V+ F Y GVY +
Sbjct: 108 --------------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDE 153
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
D + HAV +G+G G +WI+ N W +WG GY + R +N CGI
Sbjct: 154 SCNSDNL-NHAVLAVGYGI-QKGNKHWIIKNSWGENWGNKGYILMARNKNNACGI 206
>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 = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 62/237 (26%), Positives = 93/237 (39%), Gaps = 38/237 (16%)
Query: 94 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 153
+ P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 99 RAPDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNL 152
Query: 154 XXXXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRK 211
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 153 VDCVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC--- 206
Query: 212 CVKKNQLWRNSKHYSISAYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY- 267
YR + + + + + GPV V+ F Y GVY
Sbjct: 207 ----------------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYY 250
Query: 268 -KHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
+ D + HAV +G+G G +WI+ N W +WG GY + R +N CGI
Sbjct: 251 DESCNSDNL-NHAVLAVGYGI-QKGNKHWIIKNSWGENWGNKGYILMARNKNNACGI 305
>pdb|1SNK|A Chain A, Cathepsin K Complexed With Carbamate Derivatized
Norleucine Aldehyde
Length = 214
Score = 61.6 bits (148), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 62/235 (26%), Positives = 92/235 (39%), Gaps = 38/235 (16%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 1 PDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVD 54
Query: 156 XXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCV 213
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 55 CVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC----- 106
Query: 214 KKNQLWRNSKHYSISAYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 268
YR + + + + + GPV V+ F Y GVY +
Sbjct: 107 --------------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDE 152
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
D + HAV +G+G G +WI+ N W +WG GY + R +N CGI
Sbjct: 153 SCNSDNL-NHAVLAVGYGI-QKGNKHWIIKNSWGENWGNKGYILMARNKNNACGI 205
>pdb|3OVZ|A Chain A, Cathepsin K In Complex With A Covalent Inhibitor With A
Ketoamide Warhead
Length = 213
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 58/220 (26%), Positives = 88/220 (40%), Gaps = 34/220 (15%)
Query: 111 ISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPIS 170
++ + +QG CGSCWAF +V AL + G L+LS Y +
Sbjct: 11 VTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVDCVSENDGCGGGYMTN 68
Query: 171 AWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSIS 228
A++Y + G+ +E+ PY C + P KC
Sbjct: 69 AFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC-------------------R 106
Query: 229 AYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLI 283
YR + + + + + GPV V+ F Y GVY + D + HAV +
Sbjct: 107 GYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNL-NHAVLAV 165
Query: 284 GWGTSDDGEDYWILANQWNRSWGADGYFKIKRG-SNECGI 322
G+G G +WI+ N W +WG GY + R +N CGI
Sbjct: 166 GYGI-QKGNKHWIIKNSWGENWGNKGYILMARNKNNACGI 204
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 61/240 (25%), Positives = 94/240 (39%), Gaps = 38/240 (15%)
Query: 89 HDKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV 148
+D + +P+ D W Q ++ + +QG CGS WAF AV + I G NL+
Sbjct: 146 NDGDVNIPEYVD----WRQKGAVTPVKNQGSCGSAWAFSAVSTIESIIKIRTG-NLN-EY 199
Query: 149 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFD-STGCSHPGCEPAYPTPK 207
+ YP SA + +G+ PY C P
Sbjct: 200 SEQELLDCDRRSYGCNGGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTD 259
Query: 208 CVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGV 266
VR+ N+ + YSI+ N PV V +DF Y+ G+
Sbjct: 260 GVRQVQPYNE---GALLYSIA-----------------NQPVSVVLEAAGKDFQLYRGGI 299
Query: 267 YKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 322
+ G+ + HAV +G+G +Y ++ N W WG +GY +IKRG+ CG+
Sbjct: 300 FVGPCGNKVD-HAVAAVGYGP-----NYILIRNSWGTGWGENGYIRIKRGTGNSYGVCGL 353
>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 = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 60/224 (26%), Positives = 88/224 (39%), Gaps = 34/224 (15%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W Q ++ + +QG CGSCWAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCN 64
Query: 165 XXYPISAWRYFVHHGVVTEECDPYFD-STGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 223
YP SA + +G+ PY C P VR+ NQ +
Sbjct: 65 GGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQ---GAL 121
Query: 224 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKL 282
YSI+ N PV V +DF Y+ G++ G+ + HAV
Sbjct: 122 LYSIA-----------------NQPVSVVLQAAGKDFQLYRGGIFVGPCGNKVD-HAVAA 163
Query: 283 IGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 322
+G+G +Y ++ N W WG +GY +IKRG+ CG+
Sbjct: 164 VGYG-----PNYILIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 202
>pdb|3U8E|A Chain A, Crystal Structure Of Cysteine Protease From Bulbs Of
Crocus Sativus At 1.3 A Resolution
Length = 222
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 61/230 (26%), Positives = 92/230 (40%), Gaps = 34/230 (14%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P S D W + ++ + DQG CG CWAFGA A+ I G +S+S
Sbjct: 2 PASID----WRKKGAVTSVKDQGACGMCWAFGATGAIEGIDAITTGRLISVSEQQIVDCD 57
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCVK 214
A+R+ + +G + + + PY G C+ P
Sbjct: 58 TXXXXXXGGDAD--DAFRWVITNGGIASDANYPYTGVDGT----CDLNKPIAA------- 104
Query: 215 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVS-FTVYEDFAHYKS-GVYKHIT- 271
I Y + + + PV V+ +T F Y G++ +
Sbjct: 105 -----------RIDGYTNVPNSSSALLDAVAKQPVSVNIYTSSTSFQLYTGPGIFAGSSC 153
Query: 272 --GDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE 319
H V ++G+G++ DYWI+ N W WG DGY I+R +N
Sbjct: 154 SDDPATVDHTVLIVGYGSNGTNADYWIVKNSWGTEWGIDGYILIRRNTNR 203
>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 = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 60/224 (26%), Positives = 88/224 (39%), Gaps = 34/224 (15%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W Q ++ + +QG CGSCWAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCN 64
Query: 165 XXYPISAWRYFVHHGVVTEECDPYFD-STGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 223
YP SA + +G+ PY C P VR+ NQ +
Sbjct: 65 GGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQ---GAL 121
Query: 224 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKL 282
YSI+ N PV V +DF Y+ G++ G+ + HAV
Sbjct: 122 LYSIA-----------------NQPVSVVLQAAGKDFQLYRGGIFVGPCGNKVD-HAVAA 163
Query: 283 IGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 322
+G+G +Y ++ N W WG +GY +IKRG+ CG+
Sbjct: 164 VGYG-----PNYILIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 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 = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 56/223 (25%), Positives = 91/223 (40%), Gaps = 32/223 (14%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W Q ++ + +QG CGSCWAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTG-NLN-EYSEQELLDCDRRSYGCN 64
Query: 165 XXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKH 224
YP SA + +G+ ++ +T YP R C + + +K
Sbjct: 65 GGYPWSALQLVAQYGI-------HYRNT----------YPYEGVQRYCRSREKGPYAAKT 107
Query: 225 YSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLI 283
+ ++ E + N PV V +DF Y+ G++ G+ + HAV +
Sbjct: 108 DGVR--QVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVD-HAVAAV 164
Query: 284 GWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 322
G+G +Y ++ N W WG +GY +IKRG+ CG+
Sbjct: 165 GYGP-----NYILIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 202
>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 = 58.5 bits (140), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 54/229 (23%), Positives = 94/229 (41%), Gaps = 28/229 (12%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P +D RS ++++ DQG CGSCWAF + ++ ++ G LSLS
Sbjct: 2 PPEWDWRSK----GAVTKVKDQGMCGSCWAFSVTGNVEGQWFLNQGTLLSLSEQELLDCD 57
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 215
P +A+ + G + E D Y ++ C
Sbjct: 58 KMDKACMGG--LPSNAYSAIKNLGGLETEDD----------------YSYQGHMQSCQFS 99
Query: 216 NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY--EDFAHYKSGVYKHITGD 273
+ +K Y + ++ + + + A + K GP+ V+ + + + H S + +
Sbjct: 100 AE---KAKVYIQDSVELSQNEQKLAAWLAKRGPISVAINAFGMQFYRHGISRPLRPLCSP 156
Query: 274 VMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGI 322
+ HAV L+G+G D +W + N W WG GY+ + RGS CG+
Sbjct: 157 WLIDHAVLLVGYGQRSD-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 = 58.2 bits (139), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 60/237 (25%), Positives = 91/237 (38%), Gaps = 44/237 (18%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP+ D W + ++ + +QG CGSCWAF V + I G +SLS
Sbjct: 1 LPEQID----WRKKGAVTPVKNQGSCGSCWAFSTVSTVESINQIRTGNLISLSEQELVDC 56
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+ A++Y +++G + + + PY G C+ A
Sbjct: 57 DKKNHGCLGGAF--VFAYQYIINNGGIDTQANYPYKAVQG----PCQAA----------- 99
Query: 214 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKH 269
SK SI Y N P E + + P V+ F Y SG++
Sbjct: 100 --------SKVVSIDGY--NGVPFCNEXALKQAVAVQPSTVAIDASSAQFQQYSSGIFSG 149
Query: 270 ITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR--GSNECGIEE 324
G + H V ++G+ +YWI+ N W R WG GY ++ R G CGI
Sbjct: 150 PCGTKLN-HGVTIVGYQA-----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 = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 46/178 (25%), Positives = 79/178 (44%), Gaps = 21/178 (11%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP S+D R+ + +S + +Q CGSC++F ++ L R I + + ++
Sbjct: 1 LPTSWDWRNVH-GINFVSPVRNQASCGSCYSFASMGMLEARIRILTNNSQTPILSPQEVV 59
Query: 155 XXXXXXXXXXXXYP-ISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 213
+P + A +Y G+V E C PY TG P C
Sbjct: 60 SCSQYAQGCEGGFPYLIAGKYAQDFGLVEEACFPY---TGTDSP--------------CK 102
Query: 214 KKNQLWR--NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKH 269
K +R +S+++ + + + + E+ +GP+ V+F VY+DF HYK G+Y H
Sbjct: 103 MKEDCFRYYSSEYHYVGGFYGGCNEALMKLELVHHGPMAVAFEVYDDFLHYKKGIYHH 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 = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 58/236 (24%), Positives = 85/236 (36%), Gaps = 38/236 (16%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P D R Q T++ I QG CGSCWAF V A + + +L L+
Sbjct: 11 PAEIDLR----QMRTVTPIRMQGGCGSCWAFSGVAATESAYLAYRNQSLDLAEQELVDCA 66
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVK 214
I Y H+GVV E Y C P
Sbjct: 67 SQHGCHGDTIPRGIE---YIQHNGVVQESYYRYVAREQSCRRP----------------- 106
Query: 215 KNQLWRNSKHYSISAYRINSDP-----EDIMAEIYKNGPVEVSFTVYEDFAHYKS-GVYK 268
N++ + IS Y P + +A+ + V + + F HY + +
Sbjct: 107 ------NAQRFGISNYCQIYPPNVNKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQ 160
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEE 324
G HAV ++G+ + G DYWI+ N W+ +WG +GY + IEE
Sbjct: 161 RDNGYQPNYHAVNIVGYSNA-QGVDYWIVRNSWDTNWGDNGYGYFAANIDLMMIEE 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 = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 59/224 (26%), Positives = 87/224 (38%), Gaps = 34/224 (15%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W Q ++ + +QG CGS WAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSXWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCN 64
Query: 165 XXYPISAWRYFVHHGVVTEECDPYFD-STGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 223
YP SA + +G+ PY C P VR+ NQ +
Sbjct: 65 GGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQ---GAL 121
Query: 224 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKL 282
YSI+ N PV V +DF Y+ G++ G+ + HAV
Sbjct: 122 LYSIA-----------------NQPVSVVLQAAGKDFQLYRGGIFVGPCGNKVD-HAVAA 163
Query: 283 IGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 322
+G+G +Y ++ N W WG +GY +IKRG+ CG+
Sbjct: 164 VGYG-----PNYILIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 202
>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 = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 55/222 (24%), Positives = 81/222 (36%), Gaps = 38/222 (17%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P D R Q T++ I QG CGSCWAF V A + + +L L+
Sbjct: 11 PAEIDLR----QMRTVTPIRMQGGCGSCWAFSGVAATESAYLAYRQQSLDLAEQELVDCA 66
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVK 214
I Y H+GVV E Y C P
Sbjct: 67 SQHGCHGDTIPRGIE---YIQHNGVVQESYYRYVAREQSCRRP----------------- 106
Query: 215 KNQLWRNSKHYSISAYRINSDP-----EDIMAEIYKNGPVEVSFTVYEDFAHYKS-GVYK 268
N++ + IS Y P + +A+ + V + + F HY + +
Sbjct: 107 ------NAQRFGISNYCQIYPPNANKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQ 160
Query: 269 HITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGY 310
G HAV ++G+ + G DYWI+ N W+ +WG +GY
Sbjct: 161 RDNGYQPNYHAVNIVGYSNA-QGVDYWIVRNSWDTNWGDNGY 201
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 55/223 (24%), Positives = 90/223 (40%), Gaps = 32/223 (14%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W Q ++ + +QG CGS WAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSXWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCN 64
Query: 165 XXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKH 224
YP SA + +G+ ++ +T YP R C + + +K
Sbjct: 65 GGYPWSALQLVAQYGI-------HYRNT----------YPYEGVQRYCRSREKGPYAAKT 107
Query: 225 YSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLI 283
+ ++ E + N PV V +DF Y+ G++ G+ + HAV +
Sbjct: 108 DGVR--QVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVD-HAVAAV 164
Query: 284 GWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 322
G+G +Y ++ N W WG +GY +IKRG+ CG+
Sbjct: 165 GYG-----PNYILIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 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 = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 55/223 (24%), Positives = 90/223 (40%), Gaps = 32/223 (14%)
Query: 105 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 164
W Q ++ + +QG CGS WAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSXWAFSAVVTIEGIIKIRTG-NLN-EYSEQELLDCDRRSYGCN 64
Query: 165 XXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKH 224
YP SA + +G+ ++ +T YP R C + + +K
Sbjct: 65 GGYPWSALQLVAQYGI-------HYRNT----------YPYEGVQRYCRSREKGPYAAKT 107
Query: 225 YSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLI 283
+ ++ E + N PV V +DF Y+ G++ G+ + HAV +
Sbjct: 108 DGVR--QVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVD-HAVAAV 164
Query: 284 GWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 322
G+G +Y ++ N W WG +GY +IKRG+ CG+
Sbjct: 165 GYGP-----NYILIKNSWGTGWGENGYIRIKRGTGNSYGVCGL 202
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 53/217 (24%), Positives = 81/217 (37%), Gaps = 28/217 (12%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P D R Q T++ I QG CGS WAF V A + + +L L+
Sbjct: 91 PAEIDLR----QMRTVTPIRMQGGCGSAWAFSGVAATESAYLAYRDQSLDLAEQELVDCA 146
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVK 214
I Y H+GVV E Y C P + + C
Sbjct: 147 SQHGCHGDTIPRGIE---YIQHNGVVQESYYRYVAREQSCRRPNAQRFGISNYC------ 197
Query: 215 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKS-GVYKHITGD 273
+ Y +A +I + +A+ + V + + F HY + + G
Sbjct: 198 --------QIYPPNANKI----REALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGY 245
Query: 274 VMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGY 310
HAV ++G+ + G DYWI+ N W+ +WG +GY
Sbjct: 246 QPNYHAVNIVGYSNAQ-GVDYWIVRNSWDTNWGDNGY 281
>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 = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 56/231 (24%), Positives = 85/231 (36%), Gaps = 28/231 (12%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P D R Q T++ I QG CGS WAF V A + + +L L+
Sbjct: 11 PAEIDLR----QMRTVTPIRMQGGCGSXWAFSGVAATESAYLAYRQQSLDLAEQELVDCA 66
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVK 214
I Y H+GVV E Y C P + + C
Sbjct: 67 SQHGCHGDTIPRGIE---YIQHNGVVQESYYRYVAREQSCRRPNAQRFGISNYC------ 117
Query: 215 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKS-GVYKHITGD 273
+ Y +A +I + +A+ + V + + F HY + + G
Sbjct: 118 --------QIYPPNANKI----REALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGY 165
Query: 274 VMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNECGIEE 324
HAV ++G+ + G DYWI+ N W+ +WG +GY + IEE
Sbjct: 166 QPNYHAVNIVGYSNAQ-GVDYWIVRNSWDTNWGDNGYGYFAANIDLMMIEE 215
>pdb|1GEC|E Chain E, Glycyl Endopeptidase-complex With
Benzyloxycarbonyl-leucine-valine- Glycine-methylene
Covalently Bound To Cysteine 25
Length = 216
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 55/233 (23%), Positives = 90/233 (38%), Gaps = 32/233 (13%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP+S D W ++ + QG+C SCWAF V + I G + LS
Sbjct: 1 LPESVD----WRAKGAVTPVKHQGYCESCWAFSTVATVEGINKIKTGNLVELS--EQELV 54
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 214
Y ++ +Y +G+ PY ++ +
Sbjct: 55 DCDLQSYGCNRGYQSTSLQYVAQNGIHLRAKYPYIAK------------------QQTCR 96
Query: 215 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSF-TVYEDFAHYKSGVYKHITGD 273
NQ+ K + R+ S+ E + + PV V + DF +YK G+++ G
Sbjct: 97 ANQVG-GPKVKTNGVGRVQSNNEGSLLNAIAHQPVSVVVESAGRDFQNYKGGIFEGSCGT 155
Query: 274 VMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKRGSNE----CGI 322
+ HAV +G+G S ++ N W WG +GY +I+R S CG+
Sbjct: 156 KVD-HAVTAVGYGKSGGKGYI-LIKNSWGPGWGENGYIRIRRASGNSPGVCGV 206
>pdb|1PPO|A Chain A, Determination Of The Structure Of Papaya Protease Omega
Length = 216
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 55/222 (24%), Positives = 80/222 (36%), Gaps = 28/222 (12%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP++ D W + ++ + QG CGSCWAF AV + I G + LS
Sbjct: 1 LPENVD----WRKKGAVTPVRHQGSCGSCWAFSAVATVEGINKIRTGKLVELS--EQELV 54
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 214
YP A Y +G+ PY G C
Sbjct: 55 DCERRSHGCKGGYPPYALEYVAKNGIHLRSKYPYKAKQGT-----------------CRA 97
Query: 215 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSF-TVYEDFAHYKSGVYKHITGD 273
K K + R+ + E + PV V + F YK G+++ G
Sbjct: 98 KQVGGPIVKTSGVG--RVQPNNEGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEGPCGT 155
Query: 274 VMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR 315
+ HAV +G+G S ++ N W +WG GY +IKR
Sbjct: 156 KV-DHAVTAVGYGKSGGKGYI-LIKNSWGTAWGEKGYIRIKR 195
>pdb|1MEG|A Chain A, Crystal Structure Of A Caricain D158e Mutant In Complex
With E-64
Length = 216
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 55/222 (24%), Positives = 80/222 (36%), Gaps = 28/222 (12%)
Query: 95 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 154
LP++ D W + ++ + QG CGSCWAF AV + I G + LS
Sbjct: 1 LPENVD----WRKKGAVTPVRHQGSCGSCWAFSAVATVEGINKIRTGKLVELS--EQELV 54
Query: 155 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 214
YP A Y +G+ PY G C
Sbjct: 55 DCERRSHGCKGGYPPYALEYVAKNGIHLRSKYPYKAKQGT-----------------CRA 97
Query: 215 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSF-TVYEDFAHYKSGVYKHITGD 273
K K + R+ + E + PV V + F YK G+++ G
Sbjct: 98 KQVGGPIVKTSGVG--RVQPNNEGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEGPCGT 155
Query: 274 VMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR 315
+ HAV +G+G S ++ N W +WG GY +IKR
Sbjct: 156 KVE-HAVTAVGYGKSGGKGYI-LIKNSWGTAWGEKGYIRIKR 195
>pdb|2WBF|X Chain X, Crystal Structure Analysis Of Sera5e From Plasmodium
Falciparum With Loop 690-700 Ordered
Length = 265
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 4/50 (8%)
Query: 268 KHITGDVMGGHAVKLIGWGT--SDDGE--DYWILANQWNRSWGADGYFKI 313
K++ GD HAV ++G+G + +GE YWI+ N W WG +GYFK+
Sbjct: 190 KNLCGDDTADHAVNIVGYGNYVNSEGEKKSYWIVRNSWGPYWGDEGYFKV 239
>pdb|1PCI|A Chain A, Procaricain
pdb|1PCI|B Chain B, Procaricain
pdb|1PCI|C Chain C, Procaricain
Length = 322
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 53/223 (23%), Positives = 83/223 (37%), Gaps = 26/223 (11%)
Query: 93 LKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXX 152
+ LP++ D W + ++ + QG CGSCWAF AV + I G + LS
Sbjct: 105 VNLPENVD----WRKKGAVTPVRHQGSCGSCWAFSAVATVEGINKIRTGKLVELS--EQE 158
Query: 153 XXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKC 212
YP A Y +G+ PY G A + K
Sbjct: 159 LVDCERRSHGCKGGYPPYALEYVAKNGIHLRSKYPYKAKQGTCR-----AKQVGGPIVKT 213
Query: 213 VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITG 272
++ N++ ++A I P ++ E K P F YK G+++ G
Sbjct: 214 SGVGRVQPNNEGNLLNA--IAKQPVSVVVE-SKGRP----------FQLYKGGIFEGPCG 260
Query: 273 DVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGADGYFKIKR 315
+ G + G+ Y ++ N W +WG GY +IKR
Sbjct: 261 TKVDGAVTAVG--YGKSGGKGYILIKNSWGTAWGEKGYIRIKR 301
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 31/50 (62%), Gaps = 4/50 (8%)
Query: 268 KHITGDVMGGHAVKLIGWGT--SDDGE--DYWILANQWNRSWGADGYFKI 313
+++ GD HAV ++G+G + +GE YWI+ N W WG +GYFK+
Sbjct: 189 QNLCGDDTADHAVNIVGYGNYVNSEGEKKSYWIVRNSWGPYWGDEGYFKV 238
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 76/198 (38%), Gaps = 35/198 (17%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S D W + ++ + +QG CGSCWAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 215
A++Y +G + DS E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGL--------DS--------EESYPYEATEESC--- 98
Query: 216 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 268
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 269 HITGDVMGGHAVKLIGWG 286
+ + M H V ++G+G
Sbjct: 155 DCSSEDM-DHGVLVVGYG 171
>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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 38/138 (27%), Positives = 64/138 (46%), Gaps = 12/138 (8%)
Query: 179 GVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAY-RINSDPE 237
GV E+ PY D+ + P E P +K +Q ++++++Y I+ Y R+ D +
Sbjct: 137 GVCPEKEWPYGDTP--ADPRTEEFPPGAPASKK--PSDQCYKDAQNYKITEYSRVAQDID 192
Query: 238 DIMAEIYKNGPVEVSFTVYEDFAHYKS---GVYKHITGDVM-GGHAVKLIGWGTSDDGED 293
+ A + P F+VY + S + D + GGHAV +G+ DD
Sbjct: 193 HLKACLAVGSPFVFGFSVYNSWVGNNSLPVRIPLPTKNDTLEGGHAVLCVGY---DDEIR 249
Query: 294 YWILANQWNRSWGADGYF 311
++ + N W + G DGYF
Sbjct: 250 HFRIRNSWGNNVGEDGYF 267
>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 = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 46/198 (23%), Positives = 75/198 (37%), Gaps = 35/198 (17%)
Query: 96 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 155
P+S D W + ++ + +QG CGS WAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 156 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 215
A++Y +G + DS E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGL--------DS--------EESYPYEATEESC--- 98
Query: 216 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 268
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 269 HITGDVMGGHAVKLIGWG 286
+ + M H V ++G+G
Sbjct: 155 DCSSEDM-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 = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 294 YWILANQWNRSWGADGYFKI-KRGSNECGI 322
YW++ N W WG GY K+ K N CGI
Sbjct: 4 YWLVKNSWGEEWGMGGYVKMAKDRRNHCGI 33
>pdb|2EKL|A Chain A, Structure Of St1218 Protein From Sulfolobus Tokodaii
Length = 313
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 255 VYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWILAN 299
+Y A KSG++K I G + G + ++G+G G I+AN
Sbjct: 120 MYTSMALAKSGIFKKIEGLELAGKTIGIVGFGRI--GTKVGIIAN 162
>pdb|3CL5|A Chain A, Structure Of Coronavirus Hemagglutinin-Esterase In Complex
With 4,9-O- Diacetyl Sialic Acid
Length = 377
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 41/103 (39%), Gaps = 7/103 (6%)
Query: 209 VRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHY---KSG 265
V C+ + N+K+Y S Y N D IY E T ++ HY SG
Sbjct: 184 VPLCIFNGKFLSNTKYYDDSQYYFNKD----TGVIYGLNSTETITTGFDFNCHYLVLPSG 239
Query: 266 VYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGAD 308
Y I+ +++ K I D ++ ++WN + +D
Sbjct: 240 NYLAISNELLLTVPTKAICLNKRKDFTPVQVVDSRWNNARQSD 282
>pdb|3CL4|A Chain A, Crystal Structure Of Bovine Coronavirus
Hemagglutinin-Esterase
Length = 377
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 41/103 (39%), Gaps = 7/103 (6%)
Query: 209 VRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHY---KSG 265
V C+ + N+K+Y S Y N D IY E T ++ HY SG
Sbjct: 184 VPLCIFNGKFLSNTKYYDDSQYYFNKD----TGVIYGLNSTETITTGFDFNCHYLVLPSG 239
Query: 266 VYKHITGDVMGGHAVKLIGWGTSDDGEDYWILANQWNRSWGAD 308
Y I+ +++ K I D ++ ++WN + +D
Sbjct: 240 NYLAISNELLLTVPTKAICLNKRKDFTPVQVVDSRWNNARQSD 282
>pdb|1W78|A Chain A, E.Coli Folc In Complex With Dhpp And Adp
pdb|1W7K|A Chain A, E.Coli Folc In Complex With Adp, Without Folate Substrate
Length = 422
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 7/52 (13%)
Query: 43 VNENPKAGWKAARNPQFSNYTVGQFKHLLGVKPTPK-GLLLGVPVKTHDKSL 93
V+E+P+ + A NP + Y G+ K L PK G +L V HDK +
Sbjct: 293 VSESPRVIFDVAHNPHAAEYLTGRMKAL------PKNGRVLAVIGMLHDKDI 338
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>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 = 5.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 5.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 319 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 358
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 315 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 354
>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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 334 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 373
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 314 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 353
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2OPP|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw420867x
Length = 542
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 319 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 358
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>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 = 6.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 316 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 355
>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 = 6.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>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 = 6.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>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 = 6.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>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 = 6.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 339 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 378
>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 = 6.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 336 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 375
>pdb|3DRR|B Chain B, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 443
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>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 = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 316 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 355
>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 = 6.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 314 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 353
>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 = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 332 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 371
>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 = 6.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 315 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 354
>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 = 6.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>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 = 6.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 6.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|1QE1|B Chain B, Crystal Structure Of 3tc-Resistant M184i Mutant Of Hiv-1
Reverse Transcriptase
Length = 427
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 316 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 355
>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 = 6.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>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 = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>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 = 6.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 6.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 7.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 7.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 7.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 7.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 7.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 7.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 7.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>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 = 7.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ 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 = 7.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 235 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 272
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 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 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,424,921
Number of Sequences: 62578
Number of extensions: 488963
Number of successful extensions: 1444
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: 1153
Number of HSP's gapped (non-prelim): 278
length of query: 351
length of database: 14,973,337
effective HSP length: 100
effective length of query: 251
effective length of database: 8,715,537
effective search space: 2187599787
effective search space used: 2187599787
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)