RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10322
(261 letters)
>1iru_M 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_L* 3une_L 3unf_L* 3unh_L
Length = 213
Score = 199 bits (507), Expect = 3e-64
Identities = 103/256 (40%), Positives = 152/256 (59%), Gaps = 55/256 (21%)
Query: 17 FSPYSDNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLM---- 72
FSPY NGGT +A+AG D+AI+ASDTRLS G++I+TR+ K + + T ++
Sbjct: 2 FSPYVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCY-----KLTDKTVIGCSG 56
Query: 73 -----IFTITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPE 125
+ I+ ++ +++ +NK M+T ++A M+S ++Y +RFFPYY II GLD E
Sbjct: 57 FHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEE 116
Query: 126 GKGCVYSYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLA 185
GKG VYS+DP+G +R +F+AGGS+ A+LQ LLDNQV
Sbjct: 117 GKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQV----------------------- 153
Query: 186 LTREINALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCA 245
GF+N +NV+ P+ L++A+ +VKD F +AAERD+YTGD + +C
Sbjct: 154 ----------------GFKNMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICI 197
Query: 246 ITKDGIKEYNFPLRKD 261
+TK+GI+E LRKD
Sbjct: 198 VTKEGIREETVSLRKD 213
>1ryp_M 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_M*
1jd2_L* 1g65_L 1vsy_M 1z7q_M 2f16_L* 2fak_L* 2fny_L*
2gpl_L* 3d29_L* 3dy3_L* 3dy4_L* 3e47_L* 3gpj_L* 3gpt_L*
3gpw_L* 3hye_L* 3l5q_Q 3mg0_L* 3mg4_L* ...
Length = 222
Score = 197 bits (503), Expect = 1e-63
Identities = 86/258 (33%), Positives = 130/258 (50%), Gaps = 48/258 (18%)
Query: 16 HFSPYSDNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLM--- 72
F+PY DNGGT + +AG D+A++A DTR Y+I +R + K+F N +M
Sbjct: 1 QFNPYGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVF-----DCGDNIVMSAN 55
Query: 73 ------IFTITILPFQMYLHEHN---KVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLD 123
+ + + + K +S S A+ I ++YGKRFFPYY TIIAGLD
Sbjct: 56 GFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLD 115
Query: 124 PEGKGCVYSYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHD 183
+GKG VYS+DP+G ER RAGG++ +L+ LDNQV
Sbjct: 116 EDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQV--------------------- 154
Query: 184 LALTREINALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHL 243
+ K G + + +E+ I +V+D+FT+A ER I GDG+ +
Sbjct: 155 ----------NFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEI 204
Query: 244 CAITKDGIKEYNFPLRKD 261
+TKDG+++ + L++D
Sbjct: 205 LIVTKDGVRKEFYELKRD 222
>1ryp_J 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_I*
1g65_I 1vsy_J 2f16_I* 2fak_I* 2fny_I* 2gpl_I* 3d29_I*
3dy3_I* 3dy4_I* 3e47_I* 3gpj_I* 3gpt_I* 3gpw_I* 3hye_I*
3l5q_N 3mg0_I* 3mg4_I* 3oeu_I* 3oev_I* ...
Length = 204
Score = 182 bits (463), Expect = 8e-58
Identities = 49/253 (19%), Positives = 90/253 (35%), Gaps = 61/253 (24%)
Query: 19 PYSDNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLF--DHYY------YRPTYNF 70
P S NGG VA+ G D IA D RL + + + K+F H +
Sbjct: 3 PSSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLGITGLATDVTTL 62
Query: 71 LMIFTITILPFQMYLHEHNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPE-GKGC 129
+F +Y + + + + +++S +Y +RF PY+ ++AG++ + GK
Sbjct: 63 NEMFRYKT---NLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPF 119
Query: 130 VYSYDPIGHT-ERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTR 188
+ +D IG E +F G++ L + ++
Sbjct: 120 IAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLY-------------------------- 153
Query: 189 EINALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITK 248
+ + E + A AA+RD +G G + I K
Sbjct: 154 ----------------------EPNLEPEDLFETISQALLNAADRDALSGWGAVVYIIKK 191
Query: 249 DGIKEYNFPLRKD 261
D + + +R+D
Sbjct: 192 DEVVKRYLKMRQD 204
>1iru_J 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_I* 3une_I 3unf_I* 3unh_I
Length = 205
Score = 176 bits (448), Expect = 2e-55
Identities = 54/257 (21%), Positives = 88/257 (34%), Gaps = 66/257 (25%)
Query: 18 SPYSDNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLM----- 72
S S NGG +A+ G + IA+D R + T + K+F +
Sbjct: 2 SIMSYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIF-----PMGDRLYIGLAGL 56
Query: 73 ----IFTITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEG 126
L F++ L+E + + +L M++ ++Y KRF PYYT +IAGLDP+
Sbjct: 57 ATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKT 116
Query: 127 -KGCVYSYDPIG-HTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDL 184
K + S D IG +F G+ + + ++
Sbjct: 117 FKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLW---------------------- 154
Query: 185 ALTREINALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLC 244
+ + + + A A +RD +G GV +
Sbjct: 155 --------------------------EPNMDPDHLFETISQAMLNAVDRDAVSGMGVIVH 188
Query: 245 AITKDGIKEYNFPLRKD 261
I KD I R D
Sbjct: 189 IIEKDKITTRTLKARMD 205
>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease,
NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP:
d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M*
3nzj_M* 3nzw_M* 3nzx_M*
Length = 266
Score = 154 bits (392), Expect = 2e-46
Identities = 36/269 (13%), Positives = 79/269 (29%), Gaps = 69/269 (25%)
Query: 10 ETPIQHHFSPYSDNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYN 69
+P+ + P G + +++ + IIA+D S G + +L P +
Sbjct: 28 ASPMVNTQQPIV-TGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLI------PVGD 80
Query: 70 FLMI----------FTITILPFQMYLHE-------HNKVMSTTSLAKMISIMMYGKR--F 110
++ +L + + + + + + + ++ +MY +R
Sbjct: 81 NTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKM 140
Query: 111 FPYYTSTIIAGLDPEGKGCVYSYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSK 170
P + + I+AG+ G + + +G T + A G + LL V
Sbjct: 141 NPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV-------- 192
Query: 171 QMKSVLGGIRTHDLALTREINALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAA 230
D ++ A + +A
Sbjct: 193 -----------------------------------DRESDIPKTTVQVAEEAIVNAMRVL 217
Query: 231 AERDIYTGDGVHLCAITKDGIKEYNFPLR 259
RD + L I K+ + L+
Sbjct: 218 YYRDARSSRNFSLAIIDKNTGLTFKKNLQ 246
>1ryp_H 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 3nzj_N*
3nzw_N* 3nzx_N* 1vsy_H 3l5q_B 1g65_N* 1fnt_H 1g0u_N*
1jd2_N* 1z7q_H 2f16_N* 2fak_N* 2fny_N* 2gpl_N* 2zcy_N*
3bdm_N* 3d29_N* 3dy3_N* 3dy4_N* 3e47_N* ...
Length = 205
Score = 140 bits (356), Expect = 1e-41
Identities = 38/246 (15%), Positives = 75/246 (30%), Gaps = 66/246 (26%)
Query: 23 NGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI--------- 73
G + +AV D I+ +D+R + G I R KL ++ +
Sbjct: 8 LGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLT------RVHDKIWCCRSGSAADT 61
Query: 74 -FTITILPFQMYLHEH-NKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVY 131
I+ + + L+ ST + A + + Y + I+AG D + KG VY
Sbjct: 62 QAIADIVQYHLELYTSQYGTPSTETAASVFKELCYENKD-NLTAGIIVAGYDDKNKGEVY 120
Query: 132 SYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREIN 191
+ G + + GS + D
Sbjct: 121 TIPLGGSVHKLPYAIAGSGSTFIYGYCDKNF----------------------------- 151
Query: 192 ALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGI 251
+ + E+ + +K + + A + D +G + + +T G+
Sbjct: 152 -------------------RENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGV 192
Query: 252 KEYNFP 257
+ F
Sbjct: 193 ERLIFY 198
>1ryp_N 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_N*
1jd2_M* 1g65_M 1vsy_N 1z7q_N 2f16_M* 2fak_M* 2fny_M*
2gpl_M* 3d29_M* 3dy3_M* 3dy4_M* 3e47_M* 3gpj_M* 3gpt_M*
3gpw_M* 3hye_M* 3l5q_R 3mg0_M* 3mg4_M* ...
Length = 233
Score = 141 bits (357), Expect = 2e-41
Identities = 35/261 (13%), Positives = 75/261 (28%), Gaps = 69/261 (26%)
Query: 18 SPYSDNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI---- 73
P G + +++ + IIA+D S G + +L P + ++
Sbjct: 3 QPIV-TGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLI------PVGDNTVVGISG 55
Query: 74 ------FTITILPFQMYLHE-------HNKVMSTTSLAKMISIMMYGKR--FFPYYTSTI 118
+L + + + + + + + ++ +MY +R P + + I
Sbjct: 56 DISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAII 115
Query: 119 IAGLDPEGKGCVYSYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGG 178
+AG+ G + + +G T + A G + LL V
Sbjct: 116 VAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV---------------- 159
Query: 179 IRTHDLALTREINALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTG 238
D ++ A + +A RD +
Sbjct: 160 ---------------------------DRESDIPKTTVQVAEEAIVNAMRVLYYRDARSS 192
Query: 239 DGVHLCAITKDGIKEYNFPLR 259
L I K+ + L+
Sbjct: 193 RNFSLAIIDKNTGLTFKKNLQ 213
>1iru_H 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_N* 3une_N
Length = 205
Score = 137 bits (347), Expect = 2e-40
Identities = 46/244 (18%), Positives = 76/244 (31%), Gaps = 67/244 (27%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI----------FT 75
T +AV ++ +D+R + G I R KL P ++ +
Sbjct: 2 TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLT------PIHDRIFCCRSGSAADTQAV 55
Query: 76 ITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVYSY 133
+ +Q+ H N+ + A + M Y R IIAG DP+ G VYS
Sbjct: 56 ADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYRE-DLMAGIIIAGWDPQEGGQVYSV 114
Query: 134 DPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREINAL 193
G R +F GGS + + +D
Sbjct: 115 PMGGMMVRQSFAIGGSGSSYIYGYVDATY------------------------------- 143
Query: 194 SSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGIKE 253
+ + E+ + +A A ERD +G + L AI + G++
Sbjct: 144 -----------------REGMTKEECLQFTANALALAMERDGSSGGVIRLAAIAESGVER 186
Query: 254 YNFP 257
Sbjct: 187 QVLL 190
>1iru_K 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_J* 3une_J 3unf_J* 3unh_J
Length = 201
Score = 135 bits (343), Expect = 1e-39
Identities = 38/239 (15%), Positives = 73/239 (30%), Gaps = 62/239 (25%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLF---DHYY------YRPTYNFLMIFTI 76
+ + GPDY ++ASD ++ + K+F + T F
Sbjct: 3 YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62
Query: 77 TILPFQMYLHEHNKVMSTTSLAKMISIMMYG--KRFFPYYTSTIIAGLDPEGKGCVYSYD 134
+ Q+Y + +S T+ A + + PY+ + ++AG D +Y D
Sbjct: 63 NV---QLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMD 119
Query: 135 PIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREINALS 194
+ +A F A G L ++LD
Sbjct: 120 YLAALAKAPFAAHGYGAFLTLSILDRYY-------------------------------- 147
Query: 195 SKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGIKE 253
+ E+A+ +++ +R I + I K+GI +
Sbjct: 148 ----------------TPTISRERAVELLRKCLEELQKRFILNLPTFSVRIIDKNGIHD 190
>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase,
protease, threonine protease; 4.10A {Methanocaldococcus
jannaschii}
Length = 264
Score = 132 bits (335), Expect = 2e-38
Identities = 12/242 (4%), Positives = 30/242 (12%), Gaps = 67/242 (27%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI----------FT 75
V Y + + + + I
Sbjct: 3 HMQMVPPSAYDRAITVFSPEGRLYQVEYAREAVR------RGTTAIGIACKDGVVLAVDR 56
Query: 76 ITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVYSY 133
++ + A + I L + +
Sbjct: 57 RITSKLVKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEML 116
Query: 134 DPIG-HTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREINA 192
++A + GG + L+
Sbjct: 117 AKKICDIKQAYTQHGGVRPFGVSLLIAG-------------------------------- 144
Query: 193 LSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGIK 252
+ + A + L
Sbjct: 145 ---------IDK--NEARL-----FETDPSGALIEYKATAIGSGRPVVMELLEKEYRDDI 188
Query: 253 EY 254
Sbjct: 189 TL 190
>1iru_L 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_K* 3une_K 3unf_K* 3unh_K
Length = 204
Score = 126 bits (319), Expect = 4e-36
Identities = 45/241 (18%), Positives = 85/241 (35%), Gaps = 67/241 (27%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI----------FT 75
TT+A I+A+D+R +AG I ++ K+ +L+ F
Sbjct: 2 TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVI------EINPYLLGTMAGGAADCSFW 55
Query: 76 ITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVYSY 133
+L Q ++E + + +S + +K+++ M+Y + T+I G D G G +Y
Sbjct: 56 ERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPG-LYYV 114
Query: 134 DPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREINAL 193
D G+ + GS ++D
Sbjct: 115 DSEGNRISGATFSVGSGSVYAYGVMDR--------------------------------- 141
Query: 194 SSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGIKE 253
G+ +++ E+A + + A A RD Y+G V+L + +DG
Sbjct: 142 --------GYS--YDLEV-----EQAYDLARRAIYQATYRDAYSGGAVNLYHVREDGWIR 186
Query: 254 Y 254
Sbjct: 187 V 187
>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A
{Archaeoglobus fulgidus} SCOP: d.153.1.4
Length = 202
Score = 123 bits (311), Expect = 6e-35
Identities = 48/242 (19%), Positives = 91/242 (37%), Gaps = 68/242 (28%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI----------FT 75
TTV + D ++A++ R + G I ++ K++ + + + F
Sbjct: 2 TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIY------QIADRMAMTTAGSVGDAQFL 55
Query: 76 ITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVYSY 133
I+ + L+E + + ++A + S ++ R+FPY +I G+D EG +YS
Sbjct: 56 ARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEG-KSIYSI 114
Query: 134 DPIG-HTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREINA 192
DPIG E + A GS +L++
Sbjct: 115 DPIGGAIEEKDIVATGSGSLTAYGVLED-------------------------------- 142
Query: 193 LSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGIK 252
F + ++A+ + A +A +RD +GDG+ + IT+D
Sbjct: 143 ---------RFT--PEIGV-----DEAVELAVRAIYSAMKRDSASGDGIDVVKITEDEFY 186
Query: 253 EY 254
+Y
Sbjct: 187 QY 188
>3nzj_K Proteasome component PRE2; ubiquitin, protein degradation,
N-terminal nucleophilic HYDR 19S regulatory particle;
HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB:
3nzw_K* 3nzx_K*
Length = 287
Score = 118 bits (298), Expect = 3e-32
Identities = 49/245 (20%), Positives = 87/245 (35%), Gaps = 66/245 (26%)
Query: 22 DNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI-------- 73
+G TT+A I+A D+R +AG + ++ K+ FL+
Sbjct: 73 AHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVI------EINPFLLGTMAGGAAD 126
Query: 74 --FTITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGC 129
F T L Q LHE + +S + +K++S ++Y + T+I G +
Sbjct: 127 CQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPT 186
Query: 130 VYSYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTRE 189
+Y D G + + GS +LD+
Sbjct: 187 IYYVDSDGTRLKGDIFCVGSGQTFAYGVLDS----------------------------- 217
Query: 190 INALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKD 249
++ ++ E A+ + K + AAA RD Y+G V+L +T+D
Sbjct: 218 ------------NYK--WDLSV-----EDALYLGKRSILAAAHRDAYSGGSVNLYHVTED 258
Query: 250 GIKEY 254
G +
Sbjct: 259 GWIYH 263
>1ryp_L 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_L
1vsy_L 1z7q_L 3l5q_P 1g65_K* 1g0u_K* 1jd2_K* 2f16_K*
2fak_K* 2fny_K* 2gpl_K* 2zcy_K* 3bdm_K* 3d29_K* 3dy3_K*
3dy4_K* 3e47_K* 3gpj_K* 3gpt_K* 3gpw_K* ...
Length = 212
Score = 113 bits (286), Expect = 3e-31
Identities = 47/241 (19%), Positives = 85/241 (35%), Gaps = 66/241 (27%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI----------FT 75
TT+A I+A D+R +AG + ++ ++ FL+ F
Sbjct: 2 TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVI------EINPFLLGTMAGGAADCQFW 55
Query: 76 ITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVYSY 133
T L Q LHE + +S + +K++S ++Y + T+I G + +Y
Sbjct: 56 ETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYV 115
Query: 134 DPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREINAL 193
D G + + GS +LD+
Sbjct: 116 DSDGTRLKGDIFCVGSGQTFAYGVLDS--------------------------------- 142
Query: 194 SSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGIKE 253
++ ++ E A+ + K + AAA RD Y+G V+L +T+DG
Sbjct: 143 --------NYK--WDLSV-----EDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIY 187
Query: 254 Y 254
+
Sbjct: 188 H 188
>3unf_N Proteasome subunit beta type-9; antigen presentation, drug
development, protein degradation, hydrolase-hydrolase
inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB:
3unh_N
Length = 199
Score = 111 bits (279), Expect = 3e-30
Identities = 43/246 (17%), Positives = 71/246 (28%), Gaps = 66/246 (26%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLM---------IFTI 76
T +AV ++ SD+R+SAG + R KL
Sbjct: 2 TIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLS-----PLHQRIFCALSGSAADAQAIA 56
Query: 77 TILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVYSYD 134
+ +Q+ LH + + A ++ + Y R I+AG D G VY
Sbjct: 57 DMAAYQLELHGLELEEPPLVLAAANVVKNISYKYR-EDLLAHLIVAGWDQREGGQVYG-T 114
Query: 135 PIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREINALS 194
G R F GGS + + +D
Sbjct: 115 MGGMLIRQPFTIGGSGSSYIYGYVDA---------------------------------- 140
Query: 195 SKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGIKEY 254
++ + E+ +A T A RD +G ++L IT G+
Sbjct: 141 -------AYK--PGMTP-----EECRRFTTNAITLAMNRDGSSGGVIYLVTITAAGVDHR 186
Query: 255 NFPLRK 260
+
Sbjct: 187 VILGDE 192
>1iru_N 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_M* 3une_M 3unf_M* 3unh_M
Length = 219
Score = 107 bits (269), Expect = 2e-28
Identities = 36/244 (14%), Positives = 67/244 (27%), Gaps = 68/244 (27%)
Query: 24 GGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI---------- 73
G + + V +IA+D S G R S++ N M+
Sbjct: 8 GTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIM------RVNNSTMLGASGDYADFQ 61
Query: 74 FTITILPFQMYLHE---HNKVMSTTSLAKMISIMMYGKR--FFPYYTSTIIAGLDPEGKG 128
+ +L + E S ++ ++ MY +R P + + +I G
Sbjct: 62 YLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGE-S 120
Query: 129 CVYSYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTR 188
+ D +G A A G L Q LL
Sbjct: 121 FLGYVDMLGVAYEAPSLATGYGAYLAQPLLRE---------------------------- 152
Query: 189 EINALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITK 248
Q + + +A +V+ RD + + +T+
Sbjct: 153 -------------VLEKQPVLSQ-----TEARDLVERCMRVLYYRDARSYNRFQTATVTE 194
Query: 249 DGIK 252
G++
Sbjct: 195 KGVE 198
>1iru_I 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_H* 3une_H
Length = 234
Score = 103 bits (260), Expect = 3e-27
Identities = 37/241 (15%), Positives = 79/241 (32%), Gaps = 68/241 (28%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI----------FT 75
T V D ++ +DTR + G + + SK+ + T
Sbjct: 2 TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIH------FISPNIYCCGAGTAADTDMT 55
Query: 76 ITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVYSY 133
++ + LH ++ + +M+ M++ R + + ++ G+D G +YS
Sbjct: 56 TQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGY-IGAALVLGGVDVTG-PHLYSI 113
Query: 134 DPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREINAL 193
P G T++ + GS A+ +++ + E
Sbjct: 114 YPHGSTDKLPYVTMGSGSLAAMAVFEDK--------------------FRPDMEEE---- 149
Query: 194 SSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGIKE 253
+A ++V +A A D+ +G + LC I+K+ +
Sbjct: 150 ------------------------EAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDF 185
Query: 254 Y 254
Sbjct: 186 L 186
>1ryp_K 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_K
1g0u_J* 1jd2_J* 1g65_J 1vsy_K 1z7q_K 2f16_J* 2fak_J*
2fny_J* 2gpl_J* 2zcy_J* 3bdm_J* 3d29_J* 3dy3_J* 3dy4_J*
3e47_J* 3gpj_J* 3gpt_J* 3gpw_J* 3hye_J* ...
Length = 198
Score = 100 bits (252), Expect = 2e-26
Identities = 34/244 (13%), Positives = 74/244 (30%), Gaps = 71/244 (29%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLF---DHYYYRPTYNFL--------MIF 74
+ + D I+AS ++ G ++ K H + +
Sbjct: 3 IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTL-------MSFAGEAGDTVQ 55
Query: 75 TITILPFQMYLHE--HNKVMSTTSLAKMISIMMYG--KRFFPYYTSTIIAGLDPEGKGC- 129
+ + L+ + +S +++ + + + PY + +I G D +
Sbjct: 56 FAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPE 115
Query: 130 VYSYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTRE 189
+Y D +G + A G SG +LLD+
Sbjct: 116 LYQIDYLGTKVELPYGAHGYSGFYTFSLLDH----------------------------- 146
Query: 190 INALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKD 249
+R ++ E+ + ++K +R GV + + KD
Sbjct: 147 ------------HYR--PDMTT-----EEGLDLLKLCVQELEKRMPMDFKGVIVKIVDKD 187
Query: 250 GIKE 253
GI++
Sbjct: 188 GIRQ 191
>1ryp_I 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1g0u_H*
1jd2_H* 1g65_H 1vsy_I 1z7q_I 2f16_H* 2fak_H* 2fny_H*
2gpl_H* 3d29_H* 3dy3_H* 3dy4_H* 3e47_H* 3gpj_H* 3gpt_H*
3gpw_H* 3hye_H* 3l5q_M 3mg0_H* 3mg4_H* ...
Length = 222
Score = 94.6 bits (236), Expect = 8e-24
Identities = 41/241 (17%), Positives = 80/241 (33%), Gaps = 68/241 (28%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI----------FT 75
T V V + +IA+DTR + G + + +KL +
Sbjct: 2 TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLH------RISPKIWCAGAGTAADTEAV 55
Query: 76 ITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVYSY 133
++ + LH ++ S +M+ ++ + I+AG+DP G ++S
Sbjct: 56 TQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ-GHIGAYLIVAGVDPTG-SHLFSI 113
Query: 134 DPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREINAL 193
G T+ + + GS A+L++
Sbjct: 114 HAHGSTDVGYYLSLGSGSLAAMAVLES--------------------------------- 140
Query: 194 SSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGIKE 253
++ +++ K E+AI + DA A D+ +G V +C + E
Sbjct: 141 --------HWK--QDLTK-----EEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAE 185
Query: 254 Y 254
Y
Sbjct: 186 Y 186
>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator
11S, hydrolase-HYD activator complex; 1.90A
{Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H
1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H
Length = 217
Score = 94.2 bits (235), Expect = 1e-23
Identities = 38/239 (15%), Positives = 83/239 (34%), Gaps = 68/239 (28%)
Query: 24 GGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI---------- 73
G TTV + D I+A++ R++ I + KLF + +
Sbjct: 8 GTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLF------QIDTYTGMTIAGLVGDAQ 61
Query: 74 FTITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVY 131
+ + ++ L+ M ++A ++S M+ ++ PY ++ G+D V+
Sbjct: 62 VLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGIDTAPH--VF 119
Query: 132 SYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREIN 191
S D G + + + GS + +L++
Sbjct: 120 SIDAAGGSVEDIYASTGSGSPFVYGVLES------------------------------- 148
Query: 192 ALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDG 250
+ E + +++ + +V A +AA +RD +G + + IT+
Sbjct: 149 ----------QYS--EKMT-----VDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKD 190
>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation,
N-terminal nucleophilic HYDR 19S regulatory particle;
HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB:
3nzw_H* 3nzx_H*
Length = 261
Score = 93.6 bits (233), Expect = 6e-23
Identities = 42/243 (17%), Positives = 80/243 (32%), Gaps = 68/243 (27%)
Query: 24 GGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI---------- 73
G T V V + +IA+DTR + G + + +KL +
Sbjct: 29 GTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLH------RISPKIWCAGAGTAADTE 82
Query: 74 FTITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVY 131
++ + LH ++ S +M+ ++ K I+AG+DP G ++
Sbjct: 83 AVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLF-KYQGHIGAYLIVAGVDPTG-SHLF 140
Query: 132 SYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREIN 191
S G T+ + + GS A+L++
Sbjct: 141 SIHAHGSTDVGYYLSLGSGSLAAMAVLES------------------------------- 169
Query: 192 ALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDGI 251
++ +++ E+AI + DA A D+ +G V +C +
Sbjct: 170 ----------HWK--QDLT-----KEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKD 212
Query: 252 KEY 254
EY
Sbjct: 213 AEY 215
>2jay_A Proteasome; hydrolase; 1.99A {Mycobacterium tuberculosis} PDB:
3mka_C 3mi0_C* 2fhg_H* 2fhh_H 3krd_C* 3mfe_G 3hfa_H*
3h6i_C 3h6f_C 3hf9_H 3mfe_H
Length = 291
Score = 80.3 bits (198), Expect = 6e-18
Identities = 40/260 (15%), Positives = 76/260 (29%), Gaps = 83/260 (31%)
Query: 24 GGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI---------- 73
G T VA+ P ++A D R + G I R+ K++ T ++
Sbjct: 57 GTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVY------ITDDYTATGIAGTAAVAV 110
Query: 74 FTITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRF---FPYYTSTIIAGLD----- 123
+ ++ +E ++ ++IM+ G ++AG D
Sbjct: 111 EFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAMQGLLALPLLAGYDIHASD 170
Query: 124 PEGKGCVYSYDPIGHT--ERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRT 181
P+ G + S+D G E ++A GS ++ +
Sbjct: 171 PQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKK--------------------- 209
Query: 182 HDLALTREINALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGV 241
+ + D + + V +A AA+ D TG
Sbjct: 210 --------------------LYS--QVTDG-----DSGLRVAVEALYDAADDDSATGGPD 242
Query: 242 HL-------CAITKDGIKEY 254
+ I DG +
Sbjct: 243 LVRGIFPTAVIIDADGAVDV 262
>3unf_H Proteasome subunit beta type-10; antigen presentation, drug
development, protein degradation, hydrolase-hydrolase
inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB:
3unh_H
Length = 234
Score = 75.4 bits (186), Expect = 1e-16
Identities = 40/244 (16%), Positives = 72/244 (29%), Gaps = 74/244 (30%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLF---DHYYYRPTYNFLMI--------- 73
T + D I+ +DTR + + + K+ +
Sbjct: 2 TIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPK---------IYCCGAGVAADT 52
Query: 74 -FTITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCV 130
T + +M LH + ++ +++ ++ + S ++ G+D G +
Sbjct: 53 EMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRYQ-GHVGASLVVGGVDLNG-PQL 110
Query: 131 YSYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREI 190
Y P G R F A GS ALL+++ +T E
Sbjct: 111 YEVHPHGSYSRLPFTALGSGQGAAVALLEDR--------------------FQPNMTLE- 149
Query: 191 NALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDG 250
A ++ +A TA D+ +G V C IT G
Sbjct: 150 ---------------------------AAQELLVEAITAGILSDLGSGGNVDACVITAGG 182
Query: 251 IKEY 254
K
Sbjct: 183 AKLQ 186
>1q5r_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide,
inter-subunit contacts, hydrolase; 3.10A {Rhodococcus
erythropolis} SCOP: d.153.1.4 PDB: 2h6j_H
Length = 294
Score = 75.4 bits (185), Expect = 4e-16
Identities = 41/260 (15%), Positives = 76/260 (29%), Gaps = 83/260 (31%)
Query: 24 GGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFL----------MI 73
G T VA+ ++A D R + G I +R+ ++ T + I
Sbjct: 65 GTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVY------VTDEYSAAGIAGTAGIAI 118
Query: 74 FTITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYY---TSTIIAGLDPEG-- 126
+ + ++ +E ++ A ++ M+ G ++ G D +
Sbjct: 119 ELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADD 178
Query: 127 ---KGCVYSYDPIGH--TERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRT 181
G + SYD +G ERA + A GS ++ L
Sbjct: 179 ESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKK--------------------- 217
Query: 182 HDLALTREINALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTG--- 238
+ + D+ E A+ ++ AA+ D TG
Sbjct: 218 --------------------IYS--PDSDE-----ETALRAAIESLYDAADDDSATGGPD 250
Query: 239 ----DGVHLCAITKDGIKEY 254
IT+ G
Sbjct: 251 LTRGIYPTAVTITQAGAVHV 270
>1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide,
inter-subunit contacts, RH erythropolis, hydrolase;
2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4
Length = 235
Score = 69.5 bits (170), Expect = 2e-14
Identities = 40/258 (15%), Positives = 75/258 (29%), Gaps = 83/258 (32%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMI----------FT 75
T VA+ ++A D R + G I +R+ K++ T +
Sbjct: 2 TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVY------VTDEYSAAGIAGTAGIAIEL 55
Query: 76 ITILPFQMYLHE--HNKVMSTTSLAKMISIMMYGKRFFPYY---TSTIIAGLDPEG---- 126
+ + ++ +E ++ A ++ M+ G ++ G D +
Sbjct: 56 VRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDES 115
Query: 127 -KGCVYSYDPIGH--TERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHD 183
G + SYD +G ERA + A GS ++ L
Sbjct: 116 RAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKK----------------------- 152
Query: 184 LALTREINALSSKLTILLGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGD---- 239
+ + D+ E A+ ++ AA+ D TG
Sbjct: 153 ------------------IYS--PDSDE-----ETALRAAIESLYDAADDDSATGGPDLT 187
Query: 240 ---GVHLCAITKDGIKEY 254
IT+ G
Sbjct: 188 RGIYPTAVTITQAGAVHV 205
>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide,
inter-subunit contacts, RH erythropolis, hydrolase;
2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB:
2h6j_A 1q5r_A
Length = 259
Score = 49.2 bits (117), Expect = 3e-07
Identities = 19/150 (12%), Positives = 51/150 (34%), Gaps = 16/150 (10%)
Query: 23 NGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRP---TYNFLMIFTITIL 79
G + V + D + ++ +A + + +L+D + F + I+
Sbjct: 26 RGRSVVVLTFRDGVLFVAENPSTALHKVS-----ELYDRLGFAAVGKYNEFENLRRAGIV 80
Query: 80 PFQMYLHEHNKV-MSTTSLAKMISIMM---YGKRFFPYYTSTIIAGL---DPEGKGCVYS 132
M + +++ ++ SLA + + + ++ PY +A + +Y
Sbjct: 81 HADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYR 140
Query: 133 YDPIG-HTERANFRAGGSSGALLQALLDNQ 161
G + +F G + + +
Sbjct: 141 ITYDGSIVDEQHFVVMGGTTEPIATAMRES 170
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 47.0 bits (111), Expect = 4e-06
Identities = 34/221 (15%), Positives = 66/221 (29%), Gaps = 61/221 (27%)
Query: 47 GYNIYTREQS--KLFD--HYYYRPTYNFLMIFTITILPFQMYLHEHNKVMSTTSLAKMIS 102
G ++Y ++ +++ +++ TY F ++ + P + +H + + + S
Sbjct: 1632 GMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGE--KGKRIRENYS 1689
Query: 103 IMMY-GKRFFPYYTSTIIAGLDPEGKGCVYSYDPIG------HTERANFRAGGSSGALLQ 155
M++ T I ++ + G T+ A A +
Sbjct: 1690 AMIFETIVDGKLKTEKIFKEINEHSTSYTFR-SEKGLLSATQFTQPALTLM---EKAAFE 1745
Query: 156 ALLDNQVGIIQ-------HSSKQMKSVLGGIRTHDLALTREINALSSKLTILLGFRNQEN 208
L G+I HS LG E AL+S ++
Sbjct: 1746 DLKSK--GLIPADATFAGHS-------LG-----------EYAALASLADVM-------- 1777
Query: 209 VDKTPVPLEKAISVVK---DAFTAAAERDIYTGDGVHLCAI 246
+E + VV A RD + AI
Sbjct: 1778 ------SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAI 1812
Score = 41.6 bits (97), Expect = 2e-04
Identities = 36/206 (17%), Positives = 65/206 (31%), Gaps = 48/206 (23%)
Query: 1 MALV---TKQILETPIQH---HFSPYSD------NGGTTVAVAGPDYAIIASDTRLSAGY 48
M + T++ ++ + H NG + V+GP ++ + L
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397
Query: 49 NIYTREQSKL-FDHYYYRPTYNFLMIFTITILPF-QMYLHEHNKVMSTTSLAKMISIMMY 106
+QS++ F + + FL + + PF L + +++ + +S
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVAS----PFHSHLLVPASDLINKDLVKNNVSF--N 451
Query: 107 GKRF-FP-YYTSTIIAGLDPEGKG---------CVYSYDPIGHTERAN---------FRA 146
K P Y T G D C+ P+ E F
Sbjct: 452 AKDIQIPVYDTFD---GSDLRVLSGSISERIVDCIIR-LPV-KWETTTQFKATHILDFGP 506
Query: 147 GGSSG--ALLQALLDNQ-VGIIQHSS 169
GG+SG L D V +I +
Sbjct: 507 GGASGLGVLTHRNKDGTGVRVIVAGT 532
Score = 33.5 bits (76), Expect = 0.070
Identities = 37/225 (16%), Positives = 70/225 (31%), Gaps = 79/225 (35%)
Query: 36 AIIASDTRLSA-----GYNI-YTREQSKLFDHYYYRPTYNFLMIFTITILPFQMYLHEHN 89
A+ + +L A G Y E L+ Y L+ F
Sbjct: 148 AVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT--YHVLVGDLIKF--------------- 190
Query: 90 KVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLD-------PEGK-------GCVYSYDP 135
S +L+++I + ++ F GL+ P S
Sbjct: 191 ---SAETLSELIRTTLDAEKVFTQ-------GLNILEWLENPSNTPDKDYLLSIPISCPL 240
Query: 136 IGHTERANFRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLAL--------- 186
IG + A++ + +G + +++S L G H L
Sbjct: 241 IGVIQLAHY-----------VVTAKLLGF---TPGELRSYLKGATGHSQGLVTAVAIAET 286
Query: 187 -TRE--INALSSKLTIL--LGFRNQENVDKTPVPLEKAISVVKDA 226
+ E ++ +T+L +G R E T +P S+++D+
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPP----SILEDS 327
Score = 30.0 bits (67), Expect = 0.92
Identities = 8/74 (10%), Positives = 24/74 (32%), Gaps = 7/74 (9%)
Query: 191 NALSSKLTIL---LGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAIT 247
+ ++ ++ LG+ + ++ +++ F E G+ +H A
Sbjct: 52 DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF----ENCYLEGNDIHALAAK 107
Query: 248 KDGIKEYNFPLRKD 261
+ K+
Sbjct: 108 LLQENDTTLVKTKE 121
Score = 30.0 bits (67), Expect = 1.1
Identities = 11/71 (15%), Positives = 22/71 (30%), Gaps = 20/71 (28%)
Query: 117 TIIAGLDPEGKGCV---------YSYDPIGHTERANFRAGGSSGALLQALLDNQVGIIQH 167
+ A L E + Y +R + S AL +A+ + ++
Sbjct: 103 ALAAKLLQENDTTLVKTKELIKNY-ITARIMAKRPFDKKSNS--ALFRAVGEGNAQLV-- 157
Query: 168 SSKQMKSVLGG 178
++ GG
Sbjct: 158 ------AIFGG 162
Score = 27.7 bits (61), Expect = 5.2
Identities = 11/67 (16%), Positives = 24/67 (35%), Gaps = 16/67 (23%)
Query: 190 INALSSK-LTILLGFRNQENVDKT-PVP--LEKAISVVKDAFTAAAER--DIYTGDG--- 240
++A S++ LT+ G +++ VP S +++ F + + D
Sbjct: 1 MDAYSTRPLTLSHG-----SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPT 55
Query: 241 --VHLCA 245
L
Sbjct: 56 TPAELVG 62
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 42.9 bits (100), Expect = 6e-05
Identities = 44/257 (17%), Positives = 78/257 (30%), Gaps = 62/257 (24%)
Query: 37 IIASDTRLSAGYNIYT---REQSKLFDHYY---YRPTYNFLM--IFTITILP---FQMYL 85
II S +S ++ +Q ++ + R Y FLM I T P +MY+
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113
Query: 86 HEHNKVMSTTSLAKMISIMMYGKRFFPYYT-STIIAGLDPE-----------GKGC---- 129
+ +++ + + ++ R PY + L P GK
Sbjct: 114 EQRDRLYNDNQVFAKYNV----SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD 169
Query: 130 -VYSYDPIGHTERA----NFRAGGSSGALLQAL--------------LDNQVGIIQ--HS 168
SY + N + S +L+ L D+ I HS
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 169 SKQMKSVLGGIRTHDLAL--------TREINALSSKLTILLGFRNQENVDKTPVPLEKAI 220
+ L + ++ L + NA + ILL R ++ D I
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
Query: 221 SVVK--DAFTAAAERDI 235
S+ T + +
Sbjct: 290 SLDHHSMTLTPDEVKSL 306
Score = 38.7 bits (89), Expect = 0.001
Identities = 41/242 (16%), Positives = 71/242 (29%), Gaps = 78/242 (32%)
Query: 52 TREQS-KLFDHYYYRPTYNFLMIF---------TITILPFQMYLHEHNKVMS---TTSLA 98
E S + + YR ++ L +F ++++ F + + V++ SL
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417
Query: 99 ----KMISIMMYG----------------KRFFPYYTSTIIAGLDPEGKGCV----YSYD 134
K +I + + +Y I D + Y Y
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY--NIPKTFDSDDLIPPYLDQYFYS 475
Query: 135 PIGH-------TERAN-FRAGGSSGALLQALLDNQVGIIQHSSKQMKSVLGGIRTHDLAL 186
IGH ER FR LD ++ K IR A
Sbjct: 476 HIGHHLKNIEHPERMTLFR---------MVFLD--FRFLE--QK--------IRHDSTAW 514
Query: 187 TREINALSSKLTILLGFRNQEN--VDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLC 244
NA S L L + + D P E+ ++ + D F E ++ +
Sbjct: 515 ----NASGSILNTLQQLKFYKPYICDNDPKY-ERLVNAILD-FLPKIEENLICSK--YTD 566
Query: 245 AI 246
+
Sbjct: 567 LL 568
>1iru_D 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unf_C* 3une_C* 3unh_C 3unb_C*
Length = 248
Score = 41.1 bits (97), Expect = 2e-04
Identities = 25/143 (17%), Positives = 44/143 (30%), Gaps = 45/143 (31%)
Query: 23 NGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT----- 77
G T V V G D ++ + + +KL D R I +
Sbjct: 28 KGSTAVGVRGRDIVVLGVEKKSV----------AKLQDERTVRK------ICALDDNVCM 71
Query: 78 ----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYYT 115
+ Q + ++ + + I+ + G+R P+
Sbjct: 72 AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRR--PFGI 129
Query: 116 STIIAGLDPEGKGCVYSYDPIGH 138
S +I G D +G +Y DP G
Sbjct: 130 SALIVGFDFDGTPRLYQTDPSGT 152
>1iru_C 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_B* 3une_B 3unf_B* 3unh_B
Length = 261
Score = 39.6 bits (93), Expect = 5e-04
Identities = 25/143 (17%), Positives = 46/143 (32%), Gaps = 44/143 (30%)
Query: 23 NGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT----- 77
+ GT + + D ++A++ R KL D ++ I+ +
Sbjct: 30 HAGTCLGILANDGVLLAAERRNI----------HKLLDEVFFSEK-----IYKLNEDMAC 74
Query: 78 ----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYYT 115
I Q YL ++ + + L + + GKR P+
Sbjct: 75 SVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKR--PFGV 132
Query: 116 STIIAGLDPEGKGCVYSYDPIGH 138
S + G D +Y DP G+
Sbjct: 133 SLLYIGWDKHYGFQLYQSDPSGN 155
>1ryp_E 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_D*
1g65_D 2f16_D* 2fak_D* 2fny_D* 2gpl_D* 3d29_D* 3dy3_D*
3dy4_D* 3e47_D* 3gpj_D* 3gpt_D* 3gpw_D* 3hye_D* 3mg0_D*
3mg4_D* 3okj_D* 3shj_D* 3tdd_D* 2z5c_C ...
Length = 242
Score = 38.8 bits (91), Expect = 8e-04
Identities = 18/150 (12%), Positives = 42/150 (28%), Gaps = 51/150 (34%)
Query: 22 DNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT---- 77
G T + +A + ++ + R S L + I I
Sbjct: 24 KLGSTAIGIATKEGVVLGVEKRA----------TSPLLESDSIEK------IVEIDRHIG 67
Query: 78 -----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------------YGK 108
+ + +++ ++ SL + + +
Sbjct: 68 CAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMS 127
Query: 109 RFFPYYTSTIIAGLDPEGKGCVYSYDPIGH 138
R P+ + +IAG D + ++ +P G
Sbjct: 128 R--PFGVALLIAGHDADDGYQLFHAEPSGT 155
>1ryp_B 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_B
1g0u_A* 1jd2_A* 1g65_A 1z7q_B 2f16_A* 2fak_A* 2fny_A*
2gpl_A* 2zcy_A* 3bdm_A* 3d29_A* 3dy3_A* 3dy4_A* 3e47_A*
3gpj_A* 3gpt_A* 3gpw_A* 3hye_A* 3mg0_A* ...
Length = 250
Score = 38.4 bits (90), Expect = 0.001
Identities = 25/145 (17%), Positives = 45/145 (31%), Gaps = 46/145 (31%)
Query: 22 DNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT---- 77
G T++ + + +IA++ + S S L + +T
Sbjct: 29 KQGVTSLGIKATNGVVIATEKKSS----------SPLAMSETLS------KVSLLTPDIG 72
Query: 78 -----------ILPFQM-------YLHEHNKVMSTTSLAKMISIMM------YGKRFFPY 113
+L + Y + + T L ++ +M G R P+
Sbjct: 73 AVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVR--PF 130
Query: 114 YTSTIIAGLDPEGKGCVYSYDPIGH 138
S +IAG D +Y DP G
Sbjct: 131 GVSLLIAGHDEFNGFSLYQVDPSGS 155
>3mi0_A Proteasome subunit alpha; enzyme inhibitors, lactones, proteasome
endopeptidase comple mycobacterium tuberculosis,
hydrolase; HET: SA6; 2.20A {Mycobacterium tuberculosis}
PDB: 3h6f_A 3krd_A* 3h6i_A* 3mka_A 2fhh_A* 2fhg_A 3hfa_D
3hf9_A 3mfe_D
Length = 248
Score = 38.4 bits (89), Expect = 0.001
Identities = 19/152 (12%), Positives = 50/152 (32%), Gaps = 20/152 (13%)
Query: 23 NGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYY-----RPTYNFLMIFTIT 77
+ VA+A + ++ + I +L+D + ++ L I
Sbjct: 26 RAKSVVALAYAGGVLFVAENPSRSLQKIS-----ELYDRVGFAAAGKFNEFDNLRRGGIQ 80
Query: 78 ILPFQMYLHEHN-KVMSTTSLAKMISIMM---YGKRFFPYYTSTIIAGLDPEG---KGCV 130
+ ++ + ++ LA + + + + ++ PY +A + G + +
Sbjct: 81 FA--DTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKRPEL 138
Query: 131 YSYDPIG-HTERANFRAGGSSGALLQALLDNQ 161
Y G + +F G + + L
Sbjct: 139 YRITYDGSIADEPHFVVMGGTTEPIANALKES 170
>1iru_B 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_A* 3une_A 3unf_A* 3unh_A
Length = 233
Score = 36.0 bits (84), Expect = 0.006
Identities = 23/144 (15%), Positives = 46/144 (31%), Gaps = 46/144 (31%)
Query: 22 DNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT---- 77
G +V + + ++A++ + S L+D + IT
Sbjct: 29 AGGAPSVGIKAANGVVLATEKKQK----------SILYDERSVH------KVEPITKHIG 72
Query: 78 -----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYY 114
+ P Q Y + + + T L + ++ +M G R P+
Sbjct: 73 LVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVR--PFG 130
Query: 115 TSTIIAGLDPEGKGCVYSYDPIGH 138
S +I G + ++ DP G
Sbjct: 131 VSLLICGWNEGR-PYLFQSDPSGA 153
>1iru_F 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_E* 3une_E 3unf_E* 3unh_E
Length = 263
Score = 36.5 bits (85), Expect = 0.006
Identities = 25/144 (17%), Positives = 43/144 (29%), Gaps = 48/144 (33%)
Query: 22 DNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT---- 77
G TV + +A++ + R QS+L H I +
Sbjct: 30 KQGSATVGLKSKTHAVLVALKRA----------QSELAAHQKK--------ILHVDNHIG 71
Query: 78 -----------ILPFQM------YLHEHNKVMSTTSLAKMISIMM------YGKRFFPYY 114
+L M ++ + + L +I YG+R PY
Sbjct: 72 ISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRR--PYG 129
Query: 115 TSTIIAGLDPEGKGCVYSYDPIGH 138
+IAG D G ++ P +
Sbjct: 130 VGLLIAGYDDMGP-HIFQTCPSAN 152
>1iru_G 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_F* 3une_F 3unf_F* 3unh_F
Length = 254
Score = 36.2 bits (84), Expect = 0.007
Identities = 17/143 (11%), Positives = 39/143 (27%), Gaps = 45/143 (31%)
Query: 22 DNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT---- 77
+N T + + D + + + SKL++ + +F +
Sbjct: 31 ENSSTAIGIRCKDGVVFGVEKLVL----------SKLYEEGSNKR------LFNVDRHVG 74
Query: 78 -----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYY 114
+L + + LA +++ + R P+
Sbjct: 75 MAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVR--PFG 132
Query: 115 TSTIIAGLDPEGKGCVYSYDPIG 137
S ++ +Y DP G
Sbjct: 133 CSFMLGSYSVNDGAQLYMIDPSG 155
>1ryp_A 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_G*
1g65_G 1vsy_A 2f16_G* 2fak_G* 2fny_G* 2gpl_G* 3d29_G*
3dy3_G* 3dy4_G* 3e47_G* 3gpj_G* 3gpt_G* 3gpw_G* 3hye_G*
3l5q_A 3mg0_G* 3mg4_G* 3oeu_G* 3oev_G* ...
Length = 243
Score = 35.7 bits (83), Expect = 0.009
Identities = 24/141 (17%), Positives = 41/141 (29%), Gaps = 45/141 (31%)
Query: 24 GGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT------ 77
++AV G D ++ S ++ KL D IF I+
Sbjct: 30 NINSLAVRGKDCTVVISQKKVP----------DKLLDPTTVSY------IFCISRTIGMV 73
Query: 78 ---ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYYTS 116
+P + +++ M LAK ++ + R P
Sbjct: 74 VNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMR--PLGVI 131
Query: 117 TIIAGLDPEGKGCVYSYDPIG 137
+D E +Y DP G
Sbjct: 132 LTFVSVDEELGPSIYKTDPAG 152
>1ryp_F 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_E*
1g65_E 2f16_E* 2fak_E* 2fny_E* 2gpl_E* 3d29_E* 3dy3_E*
3dy4_E* 3e47_E* 3gpj_E* 3gpt_E* 3gpw_E* 3hye_E* 3mg0_E*
3mg4_E* 3oeu_E* 3oev_E* 3okj_E* 3shj_E* ...
Length = 233
Score = 35.7 bits (83), Expect = 0.009
Identities = 20/143 (13%), Positives = 38/143 (26%), Gaps = 48/143 (33%)
Query: 23 NGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT----- 77
G TV + +A++ + R + +L + I
Sbjct: 30 QGSVTVGLRSNTHAVLVALKRNA----------DELSSYQKK--------IIKCDEHMGL 71
Query: 78 ----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYYT 115
+ P N+ ++ ++ YG R PY
Sbjct: 72 SLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGR--PYGV 129
Query: 116 STIIAGLDPEGKGCVYSYDPIGH 138
+I G D G + + P G+
Sbjct: 130 GLLIIGYDKSGA-HLLEFQPSGN 151
>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal
nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO
MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G*
3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 3bdm_F* 1fnt_G* 2zcy_F*
Length = 288
Score = 35.4 bits (82), Expect = 0.011
Identities = 22/144 (15%), Positives = 43/144 (29%), Gaps = 46/144 (31%)
Query: 22 DNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT---- 77
+NG T++ + D + A + ++ SKL I +
Sbjct: 32 ENGTTSIGIKCNDGVVFAVEKLIT----------SKLLVPQKNVK------IQVVDRHIG 75
Query: 78 -----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYY 114
++P + + + + A + + R P+
Sbjct: 76 CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVR--PFG 133
Query: 115 TSTIIAGLDPEGKGCVYSYDPIGH 138
STI G+D G +Y +P G
Sbjct: 134 VSTIFGGVDKNGA-HLYMLEPSGS 156
>1ryp_G 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_F*
1g65_F 1vsy_G 2f16_F* 2fak_F* 2fny_F* 2gpl_F* 3d29_F*
3dy3_F* 3dy4_F* 3e47_F* 3gpj_F* 3gpt_F* 3gpw_F* 3hye_F*
3l5q_L 3mg0_F* 3mg4_F* 3okj_F* 3shj_F* ...
Length = 244
Score = 35.3 bits (82), Expect = 0.013
Identities = 22/144 (15%), Positives = 43/144 (29%), Gaps = 46/144 (31%)
Query: 22 DNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT---- 77
+NG T++ + D + A + ++ SKL I +
Sbjct: 28 ENGTTSIGIKCNDGVVFAVEKLIT----------SKLLVPQKNVK------IQVVDRHIG 71
Query: 78 -----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYY 114
++P + + + + A + + R P+
Sbjct: 72 CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVR--PFG 129
Query: 115 TSTIIAGLDPEGKGCVYSYDPIGH 138
STI G+D G +Y +P G
Sbjct: 130 VSTIFGGVDKNG-AHLYMLEPSGS 152
>1iru_A 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_G* 3une_G 3unf_G* 3unh_G
Length = 246
Score = 34.9 bits (81), Expect = 0.018
Identities = 30/144 (20%), Positives = 46/144 (31%), Gaps = 46/144 (31%)
Query: 22 DNGGTT-VAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT--- 77
+ GG T VAV G D A+I + ++ KL D +F IT
Sbjct: 33 NQGGLTSVAVRGKDCAVIVTQKKVP----------DKLLDSSTVTH------LFKITENI 76
Query: 78 ------ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPY 113
+ + +++ + L K I+ + R P
Sbjct: 77 GCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMR--PL 134
Query: 114 YTSTIIAGLDPEGKGCVYSYDPIG 137
I+ G+D E VY DP G
Sbjct: 135 GCCMILIGIDEEQGPQVYKCDPAG 158
>1ryp_D 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_C*
1g65_C 2f16_C* 2fak_C* 2fny_C* 2gpl_C* 3d29_C* 3dy3_C*
3dy4_C* 3e47_C* 3gpj_C* 3gpt_C* 3gpw_C* 3hye_C* 3mg0_C*
3mg4_C* 3oeu_C* 3oev_C* 3okj_C* 3shj_C* ...
Length = 241
Score = 34.6 bits (80), Expect = 0.021
Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 9/64 (14%)
Query: 82 QMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYYTSTIIAGLDPEGKG-CVYSYD 134
Q + ++ L + ++ + G R P+ ST+IAG DP +Y +
Sbjct: 92 QSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVR--PFGVSTLIAGFDPRDDEPKLYQTE 149
Query: 135 PIGH 138
P G
Sbjct: 150 PSGI 153
Score = 34.6 bits (80), Expect = 0.022
Identities = 31/143 (21%), Positives = 49/143 (34%), Gaps = 46/143 (32%)
Query: 22 DNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT---- 77
G T + +A D ++A D R++ SKL IF I
Sbjct: 36 RRGTTAIGIACKDGVVLAVDRRIT----------SKLVKIRSIE------KIFQIDDHVA 79
Query: 78 -----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYY 114
++ Q+Y + + +S LAK I + G R P+
Sbjct: 80 AATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVR--PFG 137
Query: 115 TSTIIAGLDPEGKGCVYSYDPIG 137
S +IAG+D ++ DP G
Sbjct: 138 VSLLIAGIDKNE-ARLFETDPSG 159
>1ryp_C 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_B*
1g65_B 2f16_B* 2fak_B* 2fny_B* 2gpl_B* 3d29_B* 3dy3_B*
3dy4_B* 3e47_B* 3gpj_B* 3gpt_B* 3gpw_B* 3hye_B* 3mg0_B*
3mg4_B* 3okj_B* 3shj_B* 3tdd_B* 3nzj_B* ...
Length = 244
Score = 34.2 bits (79), Expect = 0.028
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 8/63 (12%)
Query: 82 QMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYYTSTIIAGLDPEGKGCVYSYDP 135
Q YL +N+ + L + +S + G R P+ S I AG D +Y+ +P
Sbjct: 95 QNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLR--PFGVSFIYAGYDDRYGYQLYTSNP 152
Query: 136 IGH 138
G+
Sbjct: 153 SGN 155
>1g3k_A ATP-dependent protease HSLV; hydrolase; 1.90A {Haemophilus
influenzae} SCOP: d.153.1.4 PDB: 1g3i_G 1jjw_A 1kyi_G*
1ofh_G* 1ofi_G* 1e94_A* 1g4a_B* 1g4b_M 1hqy_A* 1ht1_C*
1ht2_A* 1ned_A
Length = 174
Score = 33.8 bits (77), Expect = 0.028
Identities = 24/137 (17%), Positives = 38/137 (27%), Gaps = 12/137 (8%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSK---LFDHYYYRPTYNFLMIFTITILPFQ 82
T V+V ++ D ++S G + K L++ F+
Sbjct: 2 TIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFE 61
Query: 83 MYLHEH--NKVMSTTSLAKMISI-MMYGKRFFPYYTSTIIAGLDPEGKGCVYSYDPIGHT 139
L H + + S LAK K + L G G V +
Sbjct: 62 RKLEMHQGHLLKSAVELAKDWRTDRALRKLEAMLIVADEKESLIITGIGDVVQPEEDQ-- 119
Query: 140 ERANFRAGGSSGALLQA 156
A GS G +
Sbjct: 120 ----ILAIGSGGNYALS 132
>1iru_E 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_D* 3une_D 3unf_D* 3unh_D
Length = 241
Score = 31.8 bits (73), Expect = 0.19
Identities = 20/147 (13%), Positives = 45/147 (30%), Gaps = 47/147 (31%)
Query: 22 DNGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT---- 77
G T + + + +A + R++ S L + I I
Sbjct: 32 KLGSTAIGIQTSEGVCLAVEKRIT----------SPLMEPSSIEK------IVEIDAHIG 75
Query: 78 -----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM-----YGKRFF---- 111
++ Q + +N+ M+ S+ + +S +
Sbjct: 76 CAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSR 135
Query: 112 PYYTSTIIAGLDPEGKGCVYSYDPIGH 138
P+ + + G+D +G ++ DP G
Sbjct: 136 PFGVALLFGGVDEKG-PQLFHMDPSGT 161
>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator
11S, hydrolase-HYD activator complex; 1.90A
{Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A
1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A
3jse_A 3jtl_A
Length = 233
Score = 31.1 bits (71), Expect = 0.27
Identities = 25/142 (17%), Positives = 46/142 (32%), Gaps = 46/142 (32%)
Query: 23 NGGTTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTIT----- 77
G T + + + ++ SD ++ S+L + I I
Sbjct: 33 KGSTALGMKFANGVLLISDKKVR----------SRLIEQNSIE------KIQLIDDYVAA 76
Query: 78 ----ILP------------FQMYLHEHNKVMSTTSLAKMISIMM------YGKRFFPYYT 115
++ Q + +++ +L K ++ M G R PY
Sbjct: 77 VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVR--PYGV 134
Query: 116 STIIAGLDPEGKGCVYSYDPIG 137
S I AG+D G ++ DP G
Sbjct: 135 SLIFAGIDQIGP-RLFDCDPAG 155
>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase;
2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A
1yyf_D* 3ty6_A
Length = 180
Score = 29.2 bits (65), Expect = 0.93
Identities = 23/149 (15%), Positives = 46/149 (30%), Gaps = 21/149 (14%)
Query: 25 GTT-VAVAGPDYAIIASDTRLSAGYNIYTREQS----KLFDHYYYR----PTYNFLMIFT 75
TT AV + ++ D +++ G + + + KLF+ + +F
Sbjct: 5 ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLF- 63
Query: 76 ITILPFQMYLHEHNKVMSTTSLAKMISIMMYGKRFFPYYTSTIIAGLDPEGKGCVYSYDP 135
++ + N + LAK + + +I + +
Sbjct: 64 -EKFEAKLEEYNGNLKRAAVELAKEW----RSDKVLRKLEAMLIVMNQDTLLLVSGTGEV 118
Query: 136 IGHTERANFRAGGSSG----ALLQALLDN 160
I A GS G A +AL +
Sbjct: 119 I--EPDDGILAIGSGGNYALAAGRALKKH 145
>3l5l_A Xenobiotic reductase A; TIM barrel, oxidoreductase; HET: BU3 FMN;
1.03A {Pseudomonas putida} PDB: 3l5m_A* 3n19_B* 3n16_A*
3l68_A* 3l67_A* 3l65_A* 3l66_A* 3n14_A* 2h8z_A* 2h90_A*
2h8x_A*
Length = 363
Score = 29.4 bits (67), Expect = 1.0
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 207 ENVDKTPVPLEKA-ISVVKDAFTAAAER 233
++ K P + I+ VK F AA R
Sbjct: 139 AHLPKVPREMTLDDIARVKQDFVDAARR 166
>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine
residue, hydrolase; 2.10A {Thermotoga maritima} SCOP:
d.153.1.4
Length = 171
Score = 28.4 bits (63), Expect = 1.7
Identities = 19/137 (13%), Positives = 36/137 (26%), Gaps = 13/137 (9%)
Query: 26 TTVAVAGPDYAIIASDTRLSAGYNIYTREQSKLFDHYYYRPTYNF-----LMIFTITILP 80
T + V ++ D +++ G + K+ + F +
Sbjct: 2 TILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFE 61
Query: 81 FQMYLHEHNKVMSTTSLAKMISI-MMYGKRFFPYYTSTIIAGLDPEGKGCVYSYDPIGHT 139
++ N + LAK + + + G G V D
Sbjct: 62 AKLREWGGNLTKAAVELAKDWRTDRVLRRLEALLLVADKENIFIISGNGEVIQPD----- 116
Query: 140 ERANFRAGGSSGALLQA 156
+ A GS G A
Sbjct: 117 --DDAAAIGSGGPYALA 131
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.0 bits (61), Expect = 2.0
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 8/35 (22%)
Query: 6 KQILETPIQHHFSPYSDNGGTTVAVAGPDYAIIAS 40
KQ L+ +Q Y+D+ P AI A+
Sbjct: 19 KQALKK-LQASLKLYADDSA-------PALAIKAT 45
>1a12_A RCC1, regulator of chromosome condensation 1; guanine nucleotide
exchange factor, GEF, RAN, RAS-like nuclear GTP binding
protein; 1.70A {Homo sapiens} SCOP: b.69.5.1 PDB: 1i2m_B
Length = 413
Score = 28.1 bits (63), Expect = 3.1
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 11/50 (22%)
Query: 201 LGFRNQENVDKTPVPLEKAISVVKDAFTAAAERDIYTGDGVHLCAITKDG 250
+G PV ++ + VVK + +G+ HL +T DG
Sbjct: 145 IGLLEPMKKSMVPVQVQLDVPVVK----------VASGND-HLVMLTADG 183
>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K,
phosphoinositide-3-kinase, influenza virus, NS1; 2.30A
{Bos taurus} PDB: 2v1y_B
Length = 170
Score = 27.4 bits (60), Expect = 3.2
Identities = 10/52 (19%), Positives = 23/52 (44%)
Query: 155 QALLDNQVGIIQHSSKQMKSVLGGIRTHDLALTREINALSSKLTILLGFRNQ 206
L +++ I S +++ L + + + + +N+L L L R+Q
Sbjct: 98 SERLKSRIAEIHESRTKLEQELRAQASDNREIDKRMNSLKPDLMQLRKIRDQ 149
>1bqu_A Protein (GP130); cytokine receptor, glycoprotein 130,
interleukine 6 R beta subunit, signaling protein; 2.00A
{Homo sapiens} SCOP: b.1.2.1 b.1.2.1 PDB: 1pvh_A 1bj8_A
Length = 215
Score = 27.6 bits (61), Expect = 3.2
Identities = 7/60 (11%), Positives = 17/60 (28%), Gaps = 3/60 (5%)
Query: 40 SDTRLSAGYNIYTREQSKLFDHYYYRPTYNFLMIFTITILPFQMY---LHEHNKVMSTTS 96
+T L + + + + F + + + F + N + TS
Sbjct: 32 RETHLETNFTLKSEWATHKFADCKAKRDTPTSCTVDYSTVYFVNIEVWVEAENALGKVTS 91
>3kru_A NADH:flavin oxidoreductase/NADH oxidase; homotetramer, dimer of
dimers, TIM barrel, thermophilic, OLD enzyme; HET: FMN;
1.60A {Thermoanaerobacter pseudethanolicus AT} PDB:
3krz_A*
Length = 343
Score = 26.3 bits (59), Expect = 9.5
Identities = 9/24 (37%), Positives = 11/24 (45%), Gaps = 1/24 (4%)
Query: 211 KTPVPLEKA-ISVVKDAFTAAAER 233
K P L I + AF AA+R
Sbjct: 128 KLPRELSVEEIKSIVKAFGEAAKR 151
>1z41_A YQJM, probable NADH-dependent flavin oxidoreductase YQJ; FMN,
beta-alpha-barrel; HET: FMN; 1.30A {Bacillus subtilis}
SCOP: c.1.4.1 PDB: 1z42_A* 1z44_A* 1z48_A*
Length = 338
Score = 26.3 bits (59), Expect = 9.7
Identities = 7/25 (28%), Positives = 9/25 (36%), Gaps = 1/25 (4%)
Query: 210 DKTPVPLEKA-ISVVKDAFTAAAER 233
TPV + + F AA R
Sbjct: 128 SATPVEMSAEKVKETVQEFKQAAAR 152
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.136 0.396
Gapped
Lambda K H
0.267 0.0790 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,027,188
Number of extensions: 240431
Number of successful extensions: 670
Number of sequences better than 10.0: 1
Number of HSP's gapped: 614
Number of HSP's successfully gapped: 106
Length of query: 261
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 169
Effective length of database: 4,133,061
Effective search space: 698487309
Effective search space used: 698487309
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.2 bits)