RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2800
(184 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 = 133 bits (336), Expect = 1e-39
Identities = 56/171 (32%), Positives = 99/171 (57%), Gaps = 7/171 (4%)
Query: 9 YVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEV 68
YV +GGT++AIAG DFA++ASDTR S +I + + K ++L ++T +G SG D L +
Sbjct: 5 YVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTL 64
Query: 69 VSRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSY 128
++A + + + ++ A MLS +LY RR FPYYV ++ G+D GKG VYS+
Sbjct: 65 TKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSF 124
Query: 129 DPVGHCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTP 179
DPVG ++ +++ G+++ + L +++ + ++ + L+
Sbjct: 125 DPVGSYQRDSFKAGGSASAML---QPLL----DNQVGFKNMQNVEHVPLSL 168
>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 = 130 bits (330), Expect = 1e-38
Identities = 55/181 (30%), Positives = 94/181 (51%), Gaps = 7/181 (3%)
Query: 9 YVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEV 68
Y +GGT++ IAG DFA++A DTR+ ++ +I S + K+F + + +G AD +
Sbjct: 5 YGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDAL 64
Query: 69 VSRLQAEINR-SAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYS 127
V R + + + + LS+ A + LLY +R FPYYV ++ G+D GKG VYS
Sbjct: 65 VKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYS 124
Query: 128 YDPVGHCEKVAYRLHGTSAKFMLA------SMSYLLSPYESEFDYTDVITMALEELTPVV 181
+DPVG E+ R G +A ++ + P + + +++EE+ +V
Sbjct: 125 FDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLV 184
Query: 182 K 182
+
Sbjct: 185 R 185
>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 = 127 bits (321), Expect = 2e-37
Identities = 44/176 (25%), Positives = 76/176 (43%), Gaps = 14/176 (7%)
Query: 9 YVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEV 68
+GG V+A+ G D IA D R S VSN KIF + +GI+G D +
Sbjct: 4 SSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGH-VFLGITGLATDVTTL 62
Query: 69 VSRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGT-GKGGVYS 127
+ + N + + + +++S LYERR PY+V ++ GI+ GK +
Sbjct: 63 NEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAG 122
Query: 128 YDPVGHCEKV-AYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTPVVK 182
+D +G ++ + + GT++ + S YE + E+L +
Sbjct: 123 FDLIGCIDEAKDFIVSGTASDQL---FGMCESLYEPN--------LEPEDLFETIS 167
>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 = 121 bits (305), Expect = 4e-35
Identities = 44/176 (25%), Positives = 77/176 (43%), Gaps = 13/176 (7%)
Query: 9 YVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEV 68
+GG VMA+ G + IA+D R +V+ + KIF + ++ +G++G D V
Sbjct: 4 MSYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTV 63
Query: 69 VSRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGG-VYS 127
RL+ +N +G+ + M++ LLYE+R PYY + ++ G+D + S
Sbjct: 64 AQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICS 123
Query: 128 YDPVG-HCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTPVVK 182
D +G + + GT A+ M S +E M + L +
Sbjct: 124 LDLIGCPMVTDDFVVSGTCAEQM---YGMCESLWEPN--------MDPDHLFETIS 168
>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 = 122 bits (308), Expect = 7e-35
Identities = 30/181 (16%), Positives = 67/181 (37%), Gaps = 13/181 (7%)
Query: 9 YVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEV 68
+ G +V+++ + +IA+D S + N ++ + + T VGISG+++D +
Sbjct: 37 PIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHI 96
Query: 69 VSRLQAEIN-----RSAEAKGQPLSLPGTAEMLSLLLYERR--IFPYYVQVLLVGIDGTG 121
L+ + + L E L+ ++Y+RR + P + +++ G+ G
Sbjct: 97 ERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNG 156
Query: 122 KGGVYSYDPVGHCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTPVV 181
+ + +G G A L + E D ++ +
Sbjct: 157 DQFLRYVNLLGVTYSSPTLATGFGAHMA---NPLLRKVVDRESDIPK---TTVQVAEEAI 210
Query: 182 K 182
Sbjct: 211 V 211
>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 = 117 bits (295), Expect = 2e-33
Identities = 30/180 (16%), Positives = 67/180 (37%), Gaps = 13/180 (7%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
+ G +V+++ + +IA+D S + N ++ + + T VGISG+++D +
Sbjct: 5 IVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIE 64
Query: 70 SRLQAEIN-----RSAEAKGQPLSLPGTAEMLSLLLYERR--IFPYYVQVLLVGIDGTGK 122
L+ + + L E L+ ++Y+RR + P + +++ G+ G
Sbjct: 65 RLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGD 124
Query: 123 GGVYSYDPVGHCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTPVVK 182
+ + +G G A L + E D ++ +
Sbjct: 125 QFLRYVNLLGVTYSSPTLATGFGAHMA---NPLLRKVVDRESDIPK---TTVQVAEEAIV 178
>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 = 112 bits (283), Expect = 1e-31
Identities = 32/144 (22%), Positives = 64/144 (44%), Gaps = 2/144 (1%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V G ++MA+ D ++ +D+R+++ I + K+ R+ ++ SG+ AD+ +
Sbjct: 6 VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYD 129
+Q + G P + A + L YE + +++ G D KG VY+
Sbjct: 66 DIVQYHLELYTSQYGTPST-ETAASVFKELCYENK-DNLTAGIIVAGYDDKNKGEVYTIP 123
Query: 130 PVGHCEKVAYRLHGTSAKFMLASM 153
G K+ Y + G+ + F+
Sbjct: 124 LGGSVHKLPYAIAGSGSTFIYGYC 147
>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 = 109 bits (275), Expect = 1e-30
Identities = 35/139 (25%), Positives = 61/139 (43%), Gaps = 2/139 (1%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
++ I GPD+ L+ASD ++SN + ++ K+F++ + + G D+++ +Q
Sbjct: 3 YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYE--RRIFPYYVQVLLVGIDGTGKGGVYSYDPVG 132
+ G LS A L + R PY+V +LL G D +Y D +
Sbjct: 63 NVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYLA 122
Query: 133 HCEKVAYRLHGTSAKFMLA 151
K + HG A L+
Sbjct: 123 ALAKAPFAAHGYGAFLTLS 141
>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 = 105 bits (264), Expect = 6e-29
Identities = 24/139 (17%), Positives = 60/139 (43%), Gaps = 1/139 (0%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T+MA+ ++ +D+R+++ I + K+ + ++ SG+ AD+ V +
Sbjct: 2 TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVGHC 134
++ + +P + A + + Y R +++ G D G VYS G
Sbjct: 62 QLGFHSIELNEPPLVHTAASLFKEMCYRYR-EDLMAGIIIAGWDPQEGGQVYSVPMGGMM 120
Query: 135 EKVAYRLHGTSAKFMLASM 153
+ ++ + G+ + ++ +
Sbjct: 121 VRQSFAIGGSGSSYIYGYV 139
>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase,
protease, threonine protease; 4.10A {Methanocaldococcus
jannaschii}
Length = 264
Score = 103 bits (259), Expect = 5e-28
Identities = 13/169 (7%), Positives = 39/169 (23%), Gaps = 12/169 (7%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
+ + + + V + + R + + +++ +
Sbjct: 3 HMQMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKL 62
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVG-H 133
RS E Q A + I ++ + + + +
Sbjct: 63 VKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICD 122
Query: 134 CEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTPVVK 182
++ + G + + ++E L E P
Sbjct: 123 IKQAYTQHGGVRPFGV---SLLIAGIDKNE--------ARLFETDPSGA 160
>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 = 99.2 bits (248), Expect = 1e-26
Identities = 26/161 (16%), Positives = 62/161 (38%), Gaps = 4/161 (2%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T +A ++A+D+R+++ I S K+ + ++G AD L
Sbjct: 2 TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVGHC 134
+ + +S+ +++L+ ++Y+ + + ++ G D G G+Y D G+
Sbjct: 62 QCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRG-PGLYYVDSEGNR 120
Query: 135 EKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALE 175
A G+ + + + Y + + +A
Sbjct: 121 ISGATFSVGSGSVYA---YGVMDRGYSYDLEVEQAYDLARR 158
>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 = 98.4 bits (246), Expect = 4e-26
Identities = 33/177 (18%), Positives = 60/177 (33%), Gaps = 12/177 (6%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
+ G +V+ + +IA+D S N +I R+ N T +G SG+ AD +
Sbjct: 5 MVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLK 64
Query: 70 SRLQAEINR-SAEAKGQPLSLPGTAEMLSLLLYERR--IFPYYVQVLLVGIDGTGKGGVY 126
L + G S L+ +Y RR + P + +++ G +
Sbjct: 65 QVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGE-SFLG 123
Query: 127 SYDPVGHCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYT-----DVITMALEELT 178
D +G + G A L E + + D++ + L
Sbjct: 124 YVDMLGVAYEAPSLATGYGAYLA---QPLLREVLEKQPVLSQTEARDLVERCMRVLY 177
>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A
{Archaeoglobus fulgidus} SCOP: d.153.1.4
Length = 202
Score = 95.3 bits (238), Expect = 4e-25
Identities = 38/169 (22%), Positives = 76/169 (44%), Gaps = 13/169 (7%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T + + D ++A++ R++ I S KI+++ ++ A+ +G++ D+ + ++
Sbjct: 2 TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVG-H 133
E N + + ++ A + S LL R FPY VQ+L+ GID G +YS DP+G
Sbjct: 62 EANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEG-KSIYSIDPIGGA 120
Query: 134 CEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTPVVK 182
E+ G+ + L + E + ++E +
Sbjct: 121 IEEKDIVATGSGSLTA---YGVLEDRFTPE--------IGVDEAVELAV 158
>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 = 97.1 bits (242), Expect = 5e-25
Identities = 29/166 (17%), Positives = 64/166 (38%), Gaps = 3/166 (1%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
+ HG T +A ++A D+R+++ + S K+ + ++G AD
Sbjct: 72 IAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWE 131
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYD 129
+ L ++ + + +S+ +++LS L+Y+ + + ++ G +Y D
Sbjct: 132 TWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVD 191
Query: 130 PVGHCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALE 175
G K G+ F L S Y+ + D + +
Sbjct: 192 SDGTRLKGDIFCVGSGQTFA---YGVLDSNYKWDLSVEDALYLGKR 234
>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 = 91.9 bits (229), Expect = 1e-23
Identities = 27/168 (16%), Positives = 65/168 (38%), Gaps = 11/168 (6%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T +A ++A D+R+++ + S ++ + ++G AD + L +
Sbjct: 2 TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVGHC 134
+ + + +S+ +++LS L+Y+ + + ++ G +Y D G
Sbjct: 62 QCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTR 121
Query: 135 EKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTPVVK 182
K G+ F L S Y+ + +++E+ + K
Sbjct: 122 LKGDIFCVGSGQTFA---YGVLDSNYKWD--------LSVEDALYLGK 158
>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 = 89.6 bits (223), Expect = 7e-23
Identities = 29/168 (17%), Positives = 64/168 (38%), Gaps = 13/168 (7%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T+MA+ ++ SD+R S+ +V+ K+ L + +SG+ AD+ +
Sbjct: 2 TIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAY 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVGHC 134
++ +P + A ++ + Y+ R +++ G D GG G
Sbjct: 62 QLELHGLELEEPPLVLAAANVVKNISYKYR-EDLLAHLIVAGWDQRE-GGQVYGTMGGML 119
Query: 135 EKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTPVVK 182
+ + + G+ + ++ Y+ + Y+ M EE
Sbjct: 120 IRQPFTIGGSGSSYI---YGYVDAAYKPG--------MTPEECRRFTT 156
>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 = 88.8 bits (221), Expect = 1e-22
Identities = 31/140 (22%), Positives = 60/140 (42%), Gaps = 3/140 (2%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
++ I D ++AS + +++ ++ K +L T + +G D+++ +QA
Sbjct: 3 IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYE--RRIFPYYVQVLLVGID-GTGKGGVYSYDPV 131
I + + LS + + L + R PY V VL+ G D K +Y D +
Sbjct: 63 NIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYL 122
Query: 132 GHCEKVAYRLHGTSAKFMLA 151
G ++ Y HG S + +
Sbjct: 123 GTKVELPYGAHGYSGFYTFS 142
>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 = 87.4 bits (217), Expect = 1e-21
Identities = 36/162 (22%), Positives = 66/162 (40%), Gaps = 13/162 (8%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T+ + D ++ +DTR++ + N KI + +G AD+ + +
Sbjct: 2 TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVGHC 134
+ + + G+ + ML +L+ R ++L G+D TG +YS P G
Sbjct: 62 NLELHSLSTGRLPRVVTANRMLKQMLFRYR-GYIGAALVLGGVDVTG-PHLYSIYPHGST 119
Query: 135 EKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEE 176
+K+ Y G+ LA+M+ E +F M EE
Sbjct: 120 DKLPYVTMGSG---SLAAMAVF----EDKFRP----DMEEEE 150
>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 = 85.7 bits (213), Expect = 2e-21
Identities = 34/130 (26%), Positives = 65/130 (50%), Gaps = 2/130 (1%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
++ G T + I D ++A++ R + I+ N K+F++ T + I+G + D+ +V
Sbjct: 5 LETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLV 64
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYD 129
++AE+ + + + A +LS +L + + PY VQ+L+ GID V+S D
Sbjct: 65 RYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID--TAPHVFSID 122
Query: 130 PVGHCEKVAY 139
G + Y
Sbjct: 123 AAGGSVEDIY 132
>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 = 82.4 bits (204), Expect = 1e-19
Identities = 26/130 (20%), Positives = 55/130 (42%), Gaps = 2/130 (1%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
G T++ + + +IA+DTRS+ + N K+ R+ + +G AD+ V
Sbjct: 26 TSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVT 85
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYD 129
+ + I + + + +ML L++ + +++ G+D TG ++S
Sbjct: 86 QLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ-GHIGAYLIVAGVDPTG-SHLFSIH 143
Query: 130 PVGHCEKVAY 139
G + Y
Sbjct: 144 AHGSTDVGYY 153
>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 = 78.5 bits (194), Expect = 1e-18
Identities = 34/162 (20%), Positives = 68/162 (41%), Gaps = 13/162 (8%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T++ + + +IA+DTRS+ + N K+ R+ + +G AD+ V + +
Sbjct: 2 TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVGHC 134
I + + + +ML L++ + +++ G+D TG ++S G
Sbjct: 62 NIELHSLYTSREPRVVSALQMLKQHLFKYQ-GHIGAYLIVAGVDPTG-SHLFSIHAHGST 119
Query: 135 EKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEE 176
+ Y G+ LA+M+ L ES + + EE
Sbjct: 120 DVGYYLSLGSG---SLAAMAVL----ESHWKQ----DLTKEE 150
>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 = 77.3 bits (190), Expect = 2e-17
Identities = 35/132 (26%), Positives = 57/132 (43%), Gaps = 8/132 (6%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
HG T++A+ L+A D R++ I S + ++ +A GI+G ++E+V
Sbjct: 62 APHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELV 121
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYY---VQVLLVGIDGTG----- 121
E+ + +G PL+ G A L+ ++ V LLVG D
Sbjct: 122 RLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESR 181
Query: 122 KGGVYSYDPVGH 133
G + SYD VG
Sbjct: 182 AGRIVSYDVVGG 193
>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 = 75.0 bits (184), Expect = 1e-16
Identities = 32/133 (24%), Positives = 57/133 (42%), Gaps = 8/133 (6%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
+ HG T++A+ P ++A D RS+ I + K++ + TA GI+G A ++E
Sbjct: 54 LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFA 113
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYE---RRIFPYYVQVLLVGID-----GTG 121
E+ + +G PL+ G L++++ + LL G D
Sbjct: 114 RLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAMQGLLALPLLAGYDIHASDPQS 173
Query: 122 KGGVYSYDPVGHC 134
G + S+D G
Sbjct: 174 AGRIVSFDAAGGW 186
>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 = 72.6 bits (178), Expect = 4e-16
Identities = 36/135 (26%), Positives = 59/135 (43%), Gaps = 10/135 (7%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T++A+ L+A D R++ I S + K++ +A GI+G ++E+V
Sbjct: 2 TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYY---VQVLLVGIDGTG-----KGGVY 126
E+ + +G PL+ G A L+ ++ V LLVG D G +
Sbjct: 62 ELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIV 121
Query: 127 SYDPVGH--CEKVAY 139
SYD VG E+ Y
Sbjct: 122 SYDVVGGRYEERAGY 136
>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 = 63.1 bits (154), Expect = 1e-12
Identities = 28/162 (17%), Positives = 64/162 (39%), Gaps = 13/162 (8%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T+ + D ++ +DTR++++ + + KI + + +G AD+ +
Sbjct: 2 TIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAAS 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVGHC 134
++ A + G+ + +L L+ + +++ G+D G +Y P G
Sbjct: 62 KMELHALSTGREPRVATVTRILRQTLFRYQ-GHVGASLVVGGVDLNG-PQLYEVHPHGSY 119
Query: 135 EKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEE 176
++ + G+ A+++ L E F M LE
Sbjct: 120 SRLPFTALGSG---QGAAVALL----EDRFQP----NMTLEA 150
>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 = 56.1 bits (136), Expect = 3e-10
Identities = 30/185 (16%), Positives = 70/185 (37%), Gaps = 20/185 (10%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
++ G T + IA + ++ + R++S + S++ KI + +SG AD+ ++
Sbjct: 23 IKLGSTAIGIATKEGVVLGVEKRATSP-LLESDSIEKIVEIDRHIGCAMSGLTADARSMI 81
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLL------------LYERRIFPYYVQVLLVGI 117
+ + +++ + + L R P+ V +L+ G
Sbjct: 82 EHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSR--PFGVALLIAGH 139
Query: 118 DGTGKGGVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEE 176
D ++ +P G YR + + + + LL+ + S + + L+
Sbjct: 140 DADDGYQLFHAEPSGTF----YRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKI 195
Query: 177 LTPVV 181
L V+
Sbjct: 196 LKQVM 200
>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 = 56.2 bits (136), Expect = 4e-10
Identities = 26/175 (14%), Positives = 60/175 (34%), Gaps = 14/175 (8%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V++ T + I D + + S + ++F + + ++G +AD+ +
Sbjct: 30 VENSSTAIGIRCKDGVVFGVEKLVLSK-LYEEGSNKRLFNVDRHVGMAVAGLLADARSLA 88
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+ E + G + L A+ +++ + R P+ +L
Sbjct: 89 DIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVR--PFGCSFMLGSYSVNDGA 146
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEEL 177
+Y DP G Y G + K A+ + + E D++ + +
Sbjct: 147 QLYMIDPSGVS----YGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKII 197
>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 = 56.0 bits (136), Expect = 4e-10
Identities = 28/179 (15%), Positives = 63/179 (35%), Gaps = 15/179 (8%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V G + I + ++A++ + S + K+ + + SG D +V
Sbjct: 28 VAGGAPSVGIKAANGVVLATEKKQKSI-LYDERSVHKVEPITKHIGLVYSGMGPDYRVLV 86
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
R + + +P+ + ++ ++ R P+ V +L+ G +
Sbjct: 87 HRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVR--PFGVSLLICGWNEGR-P 143
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEELTPVV 181
++ DP G + T+ K + ++L Y + + D I A+ L
Sbjct: 144 YLFQSDPSGAY----FAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESF 198
>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 = 55.4 bits (134), Expect = 7e-10
Identities = 37/179 (20%), Positives = 67/179 (37%), Gaps = 14/179 (7%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
+ H GT + I D L+A++ R+ KI++L A ++G +D+ +
Sbjct: 28 IGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLT 87
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+ L+ R +P+ L + +R P+ V +L +G D
Sbjct: 88 NELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKR--PFGVSLLYIGWDKHYGF 145
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPY-ESEFDYTDVITMALEELTPV 180
+Y DP G+ T A++S L Y E E + +A++ L
Sbjct: 146 QLYQSDPSGNY----GGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKT 200
>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 = 54.6 bits (132), Expect = 1e-09
Identities = 33/179 (18%), Positives = 72/179 (40%), Gaps = 13/179 (7%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
+ H GT + I D ++A++ + +S + K+++L ++ AV ++G AD+ ++
Sbjct: 28 ISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILI 87
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+ + + + + + LS + R P+ V + G D
Sbjct: 88 NTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLR--PFGVSFIYAGYDDRYGY 145
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEELTPVV 181
+Y+ +P G+ S A+ + L Y+ + D I +AL+ L+
Sbjct: 146 QLYTSNPSGNY----TGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTT 200
>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 = 54.6 bits (132), Expect = 2e-09
Identities = 39/180 (21%), Positives = 71/180 (39%), Gaps = 15/180 (8%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V+ G T + I + +IA++ +SSS +S K+ L SG D +V
Sbjct: 28 VKQGVTSLGIKATNGVVIATEKKSSSP-LAMSETLSKVSLLTPDIGAVYSGMGPDYRVLV 86
Query: 70 SRLQAEINRSAEAK-GQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGK 122
+ + + S + G+ ++ ++ R P+ V +L+ G D
Sbjct: 87 DKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVR--PFGVSLLIAGHDEFNG 144
Query: 123 GGVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEELTPVV 181
+Y DP G + T+ K +A+ ++L + E + D I +AL L V
Sbjct: 145 FSLYQVDPSGSY----FPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESV 200
>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 = 54.6 bits (132), Expect = 2e-09
Identities = 38/182 (20%), Positives = 72/182 (39%), Gaps = 16/182 (8%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V+ G T + + G D ++ + +S + + KI L + + +G AD+ V+
Sbjct: 26 VKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVR-KICALDDNVCMAFAGLTADARIVI 84
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+R + E P+++ ++ L RR P+ + L+VG D G
Sbjct: 85 NRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRR--PFGISALIVGFDFDGTP 142
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTD--VITMALEELTPV 180
+Y DP G + + + + +L Y E TD I + ++ L V
Sbjct: 143 RLYQTDPSGTY----HAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEV 198
Query: 181 VK 182
V+
Sbjct: 199 VQ 200
>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 = 52.7 bits (126), Expect = 6e-09
Identities = 23/181 (12%), Positives = 63/181 (34%), Gaps = 21/181 (11%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMAD--SLE 67
+ G +V+ + D L ++ S++ K+ L ++ G + +L
Sbjct: 24 IARGRSVVVLTFRDGVLFVAENPSTA--------LHKVSELYDRLGFAAVGKYNEFENLR 75
Query: 68 VVSRLQAEINRSAEAKGQPLSLPGTAEMLSLLL---YERRIFPYYVQVLLVGIDGTGKGG 124
+ A++ + ++ A + L + + PY V++ + + G
Sbjct: 76 RAGIVHADMRG-YSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPK 134
Query: 125 ---VYSYDPVG-HCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTPV 180
+Y G ++ + + G + + + + Y ++ D + +A+ L
Sbjct: 135 APQLYRITYDGSIVDEQHFVVMGGTTE---PIATAMRESYRADLDLEAAVGIAVNALRQG 191
Query: 181 V 181
Sbjct: 192 G 192
>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 = 52.7 bits (127), Expect = 7e-09
Identities = 27/184 (14%), Positives = 62/184 (33%), Gaps = 17/184 (9%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V+ G + + G + ++ + RS+ K+ ++ + + SG ADS ++
Sbjct: 25 VKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILI 84
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+ + E P+++ ++ + R P+ V L+ G D
Sbjct: 85 EKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVR--PFGVSTLIAGFDPRDDE 142
Query: 124 -GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYL---LSPYESEFDYTDVITMALEELT 178
+Y +P G + + +L E + + + + L
Sbjct: 143 PKLYQTEPSGIY----SSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLL 198
Query: 179 PVVK 182
VV+
Sbjct: 199 EVVQ 202
>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A
{Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A*
Length = 246
Score = 52.3 bits (126), Expect = 7e-09
Identities = 32/179 (17%), Positives = 69/179 (38%), Gaps = 16/179 (8%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V+ G T + I + ++ +D R S + + KI+++ SG +AD+ ++
Sbjct: 31 VKRGATAIGIKCKEGVILIADKRVGSK-LLEKDTIEKIYKIDEHICAATSGLVADARVLI 89
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
R + E + P+++ A+ + R P+ V +L+ G++ K
Sbjct: 90 DRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVR--PFGVSLLIAGVNEVPK- 146
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEELTPVV 181
+Y DP G T+ +A + Y + + D + + L + +
Sbjct: 147 -LYETDPSGAL----LEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSI 200
Score = 52.3 bits (126), Expect = 1e-08
Identities = 40/179 (22%), Positives = 73/179 (40%), Gaps = 15/179 (8%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V+ G T + IA D ++A D R +S + + + KIF++ + A SG +AD+ ++
Sbjct: 35 VRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIE-KIFQIDDHVAAATSGLVADARVLI 93
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
R + E G+ +S+ A+ + + R P+ V +L+ GID
Sbjct: 94 DRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVR--PFGVSLLIAGIDKNE-A 150
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEELTPVV 181
++ DP G T+ M L Y + + + +A+ LT
Sbjct: 151 RLFETDPSGAL----IEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKAN 205
>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 = 52.3 bits (126), Expect = 1e-08
Identities = 33/181 (18%), Positives = 69/181 (38%), Gaps = 19/181 (10%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V+ G + + A++ + R+ S ++ +Q KI + N + I+G AD+ +
Sbjct: 29 VKQGSATVGLKSKTHAVLVALKRAQS---ELAAHQKKILHVDNHIGISIAGLTADARLLC 85
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+ ++ E S +PL + ++ Y RR PY V +L+ G D G
Sbjct: 86 NFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRR--PYGVGLLIAGYDDMGP- 142
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYT--DVITMALEELTPV 180
++ P + + S ++ +YL + +++ L L
Sbjct: 143 HIFQTCPSANY----FDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRET 198
Query: 181 V 181
+
Sbjct: 199 L 199
>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 = 51.5 bits (124), Expect = 2e-08
Identities = 33/176 (18%), Positives = 66/176 (37%), Gaps = 18/176 (10%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V++G T + I D + A + +S +V +KI + SG + D +V
Sbjct: 27 VENGTTSIGIKCNDGVVFAVEKLITSK-LLVPQKNVKIQVVDRHIGCVYSGLIPDGRHLV 85
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+R + E + P+ +P A+ L + R P+ V + G+D G
Sbjct: 86 NRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVR--PFGVSTIFGGVDKNG-A 142
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYL---LSPYESEFDYTDVITMALE 175
+Y +P G + G + K ++ + L + + + + A +
Sbjct: 143 HLYMLEPSGSY----WGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAK 194
>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 = 51.2 bits (123), Expect = 3e-08
Identities = 33/182 (18%), Positives = 67/182 (36%), Gaps = 18/182 (9%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V++G T + I D + A + +S +V +KI + SG + D +V
Sbjct: 31 VENGTTSIGIKCNDGVVFAVEKLITSK-LLVPQKNVKIQVVDRHIGCVYSGLIPDGRHLV 89
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+R + E + P+ +P A+ L + R P+ V + G+D G
Sbjct: 90 NRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVR--PFGVSTIFGGVDKNGA- 146
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYL---LSPYESEFDYTDVITMALEELTP 179
+Y +P G + G + K ++ + L + + + + A + +
Sbjct: 147 HLYMLEPSGSY----WGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYL 202
Query: 180 VV 181
Sbjct: 203 AH 204
>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 = 50.6 bits (122), Expect = 3e-08
Identities = 31/182 (17%), Positives = 67/182 (36%), Gaps = 16/182 (8%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
++ G T + I + +A + R +S + ++ KI + +SG +AD+ ++
Sbjct: 31 IKLGSTAIGIQTSEGVCLAVEKRITSP-LMEPSSIEKIVEIDAHIGCAMSGLIADAKTLI 89
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLL-----LYERRIF----PYYVQVLLVGIDGT 120
+ + E + +++ + +S L + P+ V +L G+D
Sbjct: 90 DKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEK 149
Query: 121 GKGGVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEELTP 179
G ++ DP G + + + S L Y + I +L L
Sbjct: 150 G-PQLFHMDPSGTF----VQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQ 204
Query: 180 VV 181
V+
Sbjct: 205 VM 206
>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 = 49.9 bits (120), Expect = 5e-08
Identities = 36/179 (20%), Positives = 71/179 (39%), Gaps = 15/179 (8%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V+ G T + + + L+ SD + S I N+ KI + + A SG +AD+ +V
Sbjct: 31 VKKGSTALGMKFANGVLLISDKKVRSR-LIEQNSIEKIQLIDDYVAAVTSGLVADARVLV 89
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+ + G +++ + ++ + R PY V ++ GID G
Sbjct: 90 DFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVR--PYGVSLIFAGIDQIGP- 146
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEELTPVV 181
++ DP G T+ A +S+L Y+ + +T+ ++ L +
Sbjct: 147 RLFDCDPAGTI----NEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSL 201
>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 = 49.9 bits (120), Expect = 6e-08
Identities = 41/182 (22%), Positives = 74/182 (40%), Gaps = 17/182 (9%)
Query: 10 VQHGG-TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEV 68
+ GG T +A+ G D A+I + + + S+ +F++ ++G ADS
Sbjct: 32 INQGGLTSVAVRGKDCAVIVTQKKVPDK-LLDSSTVTHLFKITENIGCVMTGMTADSRSQ 90
Query: 69 VSRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGK 122
V R + E G + + + ++ + E R P ++L+GID
Sbjct: 91 VQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMR--PLGCCMILIGIDEEQG 148
Query: 123 GGVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYT--DVITMALEELTP 179
VY DP G+ T+A S S+L + +FD+T + A+ L+
Sbjct: 149 PQVYKCDPAGYY----CGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLST 204
Query: 180 VV 181
V+
Sbjct: 205 VL 206
>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 = 48.4 bits (116), Expect = 2e-07
Identities = 32/184 (17%), Positives = 79/184 (42%), Gaps = 21/184 (11%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
++ G + + A++ + R++ +S+ Q KI + + ++G D+ +
Sbjct: 28 IKQGSVTVGLRSNTHAVLVALKRNADE---LSSYQKKIIKCDEHMGLSLAGLAPDARVLS 84
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+ L+ + N S+ + L++ +L Y R PY V +L++G D +G
Sbjct: 85 NYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGR--PYGVGLLIIGYDKSGA- 141
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYES----EFDYTDVITMALEELT 178
+ + P G+ L+GT+ + +YL ++ + + ++I +E ++
Sbjct: 142 HLLEFQPSGNV----TELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAIS 197
Query: 179 PVVK 182
++
Sbjct: 198 QSLR 201
>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 = 48.4 bits (115), Expect = 2e-07
Identities = 28/181 (15%), Positives = 64/181 (35%), Gaps = 21/181 (11%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMAD--SLE 67
+ +V+A+A L ++ S S KI L ++ +G + +L
Sbjct: 24 IARAKSVVALAYAGGVLFVAENPSRS--------LQKISELYDRVGFAAAGKFNEFDNLR 75
Query: 68 VVSRLQAEINRSAEAKGQPLSLPGTAEMLSLLL---YERRIFPYYVQVLLVGIDGTGKGG 124
A+ R + ++ A + + L + + PY V++ + + G+
Sbjct: 76 RGGIQFADT-RGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETK 134
Query: 125 ---VYSYDPVG-HCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELTPV 180
+Y G ++ + + G + + + + L Y TD + +A+ L
Sbjct: 135 RPELYRITYDGSIADEPHFVVMGGTTEPI---ANALKESYAENASLTDALRIAVAALRAG 191
Query: 181 V 181
Sbjct: 192 S 192
>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 = 47.2 bits (113), Expect = 4e-07
Identities = 26/176 (14%), Positives = 57/176 (32%), Gaps = 16/176 (9%)
Query: 10 VQHGG-TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEV 68
+A+ G D ++ S + + IF + + ++G + D+
Sbjct: 26 TNQTNINSLAVRGKDCTVVISQKKVPDK-LLDPTTVSYIFCISRTIGMVVNGPIPDARNA 84
Query: 69 VSRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGK 122
R +AE G + A+ ++ L R P V + V +D
Sbjct: 85 ALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMR--PLGVILTFVSVDEELG 142
Query: 123 GGVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEEL 177
+Y DP G+ T+ + L + ++ + + + E++
Sbjct: 143 PSIYKTDPAGYY----VGYKATATGPKQQEITTNLENHFK-KSKIDHINEESWEKV 193
>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 = 45.7 bits (108), Expect = 9e-07
Identities = 17/119 (14%), Positives = 39/119 (32%), Gaps = 2/119 (1%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRL-PNQTAVGISGNMADSLEVVSRLQ 73
T++++ ++ D + S T++ N K+ RL + G +G AD+ + +
Sbjct: 2 TIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFE 61
Query: 74 AEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPY-YVQVLLVGIDGTGKGGVYSYDPV 131
++ + L + + + I G G D +
Sbjct: 62 RKLEMHQGHLLKSAVELAKDWRTDRALRKLEAMLIVADEKESLIITGIGDVVQPEEDQI 120
>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 = 43.8 bits (103), Expect = 6e-06
Identities = 26/169 (15%), Positives = 61/169 (36%), Gaps = 16/169 (9%)
Query: 12 HGGTVMAIAGPDFALIASDTRSSSNGTIVS-NNQLKIFRL-PNQTAVGISGNMADSLEVV 69
H T+ A+ + ++ D + + +V + K+ +L + G +G++AD+ +
Sbjct: 4 HATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLF 63
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVG---IDGTGKGGVY 126
+ +A++ +L A L+ ++ +L+V G
Sbjct: 64 EKFEAKLEE------YNGNLKRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSGTGE 117
Query: 127 SYDPVGHCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALE 175
+P + G+ + LA+ L +++ ALE
Sbjct: 118 VIEPDDGILAI-----GSGGNYALAAGRALKKHAGESMSASEIARAALE 161
>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 = 41.8 bits (97), Expect = 7e-05
Identities = 35/180 (19%), Positives = 57/180 (31%), Gaps = 62/180 (34%)
Query: 22 PDFALIAS----DTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQAEIN 77
++ + S + R S T + Q RL N V N VSRLQ +
Sbjct: 89 INYKFLMSPIKTEQRQPSMMTRMYIEQRD--RLYNDNQVFAKYN-------VSRLQPYLK 139
Query: 78 -RSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGK-------------- 122
R A L E R VL+ G+ G+GK
Sbjct: 140 LRQA-------------------LLELRPAKN---VLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 123 ----GGVYSYDPVGHCEKVAYRLHGTSAKFMLASMSYLLSP-YESEFDYTDVITMALEEL 177
++ + + +C L ML + Y + P + S D++ I + + +
Sbjct: 178 CKMDFKIF-WLNLKNCNSPETVLE------MLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230
>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine
residue, hydrolase; 2.10A {Thermotoga maritima} SCOP:
d.153.1.4
Length = 171
Score = 40.4 bits (94), Expect = 8e-05
Identities = 19/103 (18%), Positives = 44/103 (42%), Gaps = 7/103 (6%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRL-PNQTAVGISGNMADSLEVVSRLQ 73
T++ + ++ D + + T++ N K+ +L + G +G++AD++ + R +
Sbjct: 2 TILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFE 61
Query: 74 AEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVG 116
A++ +L A L+ R+ +LLV
Sbjct: 62 AKLREW------GGNLTKAAVELAKDWRTDRVLRRLEALLLVA 98
>1kvk_A MK, mevalonate kinase; RMK, ATP, GHMP, transferase; HET: ATP; 2.40A
{Rattus norvegicus} SCOP: d.14.1.5 d.58.26.3 PDB:
2r42_A* 2r3v_A
Length = 395
Score = 29.8 bits (66), Expect = 0.55
Identities = 26/171 (15%), Positives = 53/171 (30%), Gaps = 4/171 (2%)
Query: 7 EHYVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSL 66
EH V HG +A+A + +S+ ++ N T + +
Sbjct: 19 EHAVVHGKVALAVALNLRTFLVLRPQSNGKVSLNLPNVGIKQVWDVATLQLLDTGFLEQG 78
Query: 67 EVVSRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVY 126
+V + ++ + + G P G + L + Q L +D V+
Sbjct: 79 DVPAPTLEQLEKLKKVAGLPRDCVGNEGLSLLAFLYLYLAICRKQRTLPSLDIM----VW 134
Query: 127 SYDPVGHCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEEL 177
S P G + A +L + + +P + L+ +
Sbjct: 135 SELPPGAGLGSSAAYSVCVAAALLTACEEVTNPLKDRGSIGSWPEEDLKSI 185
>1r89_A TRNA nucleotidyltransferase; CCA adding enzyme, incoming
nucleotide, nucleotidyltransfera superfamily; HET: CTP;
1.80A {Archaeoglobus fulgidus} SCOP: a.160.1.3 d.218.1.7
d.58.16.2 PDB: 1r8a_A 1r8b_A* 1r8c_A* 1sz1_A* 1tfw_A*
1tfy_A* 1uet_A 1ueu_A* 1uev_A* 2dr5_A 2dr7_A 2dr8_A*
2dr9_A 2dra_A* 2drb_A 2dvi_A* 2zh1_A 2zh2_A 2zh3_A
2zh4_A ...
Length = 437
Score = 29.6 bits (66), Expect = 0.60
Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 1/59 (1%)
Query: 125 VYSYDPVGHCEKVAYRLHGTS-AKFMLASMSYLLSPYESEFDYTDVITMALEELTPVVK 182
+ DPV VA L + A+F+ ++ +P F + + E L +V+
Sbjct: 214 FFVVDPVDEKRNVAANLSLDNLARFVHLCREFMEAPSLGFFKPKHPLEIEPERLRKIVE 272
>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 = 29.6 bits (66), Expect = 0.73
Identities = 29/169 (17%), Positives = 61/169 (36%), Gaps = 49/169 (28%)
Query: 47 IFRLP----NQT-----AVGISGNMADSLEVVSRLQAEINRSAEAK--GQPLSLPG---- 91
FR + T A+ L+++ A+A G SL G
Sbjct: 1718 TFRSEKGLLSATQFTQPAL-----TLMEKAAFEDLKSKGLIPADATFAG--HSL-GEYAA 1769
Query: 92 ---TAEMLSL-----LLYERRIFPYYVQVLL-VGIDGTGKGGVYSYDPVGHCEKVAYRLH 142
A+++S+ +++ R + +QV + G G+ + +P +VA
Sbjct: 1770 LASLADVMSIESLVEVVFYRGMT---MQVAVPRDELGRSNYGMIAINP----GRVAASFS 1822
Query: 143 GTSAKFMLASMS----YLLSP--YESEFDYTDVI---TMALEELTPVVK 182
+ ++++ + +L+ Y E + V AL+ +T V+
Sbjct: 1823 QEALQYVVERVGKRTGWLVEIVNYNVE-NQQYVAAGDLRALDTVTNVLN 1870
>3czp_A Putative polyphosphate kinase 2; PPK2, MCSG, PSI-2, structural
protein structure initiative, midwest center for
structural genomics; HET: MSE; 2.00A {Pseudomonas
aeruginosa PAO1}
Length = 500
Score = 27.6 bits (62), Expect = 2.3
Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 11/68 (16%)
Query: 60 GNMADSLEVVSRLQAEINRSAEAKGQPLSLPGTAEMLSL--LLYERRIFPYYVQVLLVGI 117
G+M +S EV + + A + + +L L ++ FP V +L+ GI
Sbjct: 1 GHMFESAEVGHSIDKDTYEKAVIELR-------EALLEAQFELKQQARFP--VIILINGI 51
Query: 118 DGTGKGGV 125
+G GKG
Sbjct: 52 EGAGKGET 59
>2wqq_A Alpha-2,3-/2,8-sialyltransferase; GTA, cstii, glycosyltransfer;
HET: CSF; 2.25A {Campylobacter jejuni}
Length = 291
Score = 27.5 bits (60), Expect = 2.5
Identities = 13/75 (17%), Positives = 27/75 (36%), Gaps = 1/75 (1%)
Query: 109 YVQVLLVGIDGTGKGGVYSYDPVGHC-EKVAYRLHGTSAKFMLASMSYLLSPYESEFDYT 167
Y ++ L GID G Y++D K+A ++ ++ S + + E
Sbjct: 145 YKEIYLSGIDFYQNGSSYAFDTKQKNLLKLAPNFKNDNSHYIGHSKNTDIKALEFLEKTY 204
Query: 168 DVITMALEELTPVVK 182
+ L + +
Sbjct: 205 KIKLYCLCPNSLLAN 219
>3h6z_A Polycomb protein SFMBT; MBT, MBR repeat, aromatic CAGE, chromatin
regulator, DNA-BIN metal-binding, nucleus, repressor,
transcription; HET: MLZ SUC; 2.80A {Drosophila
melanogaster}
Length = 447
Score = 27.3 bits (60), Expect = 3.6
Identities = 6/40 (15%), Positives = 10/40 (25%), Gaps = 11/40 (27%)
Query: 113 LLVGIDGTGKGGVYSYD-----------PVGHCEKVAYRL 141
+++ ID S P G C +
Sbjct: 299 MMIRIDSYQPDASGSDWFCYHEKSPCIFPAGFCSVNNISV 338
>2oi2_A Mevalonate kinase; enzyme-inhibitor complex, transferase; HET:
DP6; 2.50A {Streptococcus pneumoniae}
Length = 292
Score = 27.0 bits (60), Expect = 3.7
Identities = 6/40 (15%), Positives = 15/40 (37%)
Query: 7 EHYVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLK 46
EH V +G +++ + + + S + + L
Sbjct: 19 EHAVVYGYPAISLPLLEVEVTCKVVPAESPWRLYEEDTLS 58
>1ro7_A Alpha-2,3/8-sialyltransferase; mixed alpha/beta, rossmann fold;
HET: CSF; 1.80A {Campylobacter jejuni} SCOP: c.130.1.1
PDB: 1ro8_A* 2drj_A* 2x62_A* 2x61_A* 2x63_A*
Length = 259
Score = 26.7 bits (58), Expect = 4.8
Identities = 13/75 (17%), Positives = 27/75 (36%), Gaps = 1/75 (1%)
Query: 109 YVQVLLVGIDGTGKGGVYSYDPVGHC-EKVAYRLHGTSAKFMLASMSYLLSPYESEFDYT 167
Y ++ L GID G Y++D K+A ++ ++ S + + E
Sbjct: 145 YKEIYLSGIDFYQNGSSYAFDTKQKNLLKLAPNFKNDNSHYIGHSKNTDIKALEFLEKTY 204
Query: 168 DVITMALEELTPVVK 182
+ L + +
Sbjct: 205 KIKLYCLCPNSLLAN 219
>3rhf_A Putative polyphosphate kinase 2 family protein; PSI-biology, MCSG,
structural genomics, midwest center for S genomics; HET:
PGE FLC PG4; 2.45A {Arthrobacter aurescens}
Length = 289
Score = 26.5 bits (59), Expect = 6.0
Identities = 11/37 (29%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 93 AEMLSL--LLYERRIFPYYVQVLLV--GIDGTGKGGV 125
A + L L+ F ++LL+ +D GKGG+
Sbjct: 55 ARLAELQEKLFAEGKFGNPKRLLLILQAMDTAGKGGI 91
>3tp9_A Beta-lactamase and rhodanese domain protein; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG;
2.70A {Alicyclobacillus acidocaldarius subsp}
Length = 474
Score = 26.5 bits (58), Expect = 6.1
Identities = 18/82 (21%), Positives = 29/82 (35%), Gaps = 7/82 (8%)
Query: 85 QPLSLPG-TAEMLSLLLYERRIFPYYVQVLLVG----IDGTGKG--GVYSYDPVGHCEKV 137
+ PG T E +S LLY+ + P L G + G+ G E +
Sbjct: 116 VVMHTPGHTPEHVSYLLYDGKTSPDVPMALFSGDFVFVGDVGRPDLLERVAGESGSSEAL 175
Query: 138 AYRLHGTSAKFMLASMSYLLSP 159
A ++ + KF + P
Sbjct: 176 ARQMFRSLRKFEALPDHVQVLP 197
>3nlc_A Uncharacterized protein VP0956; FAD-binding protein, NESG,
structural genomics, PSI-2, prote structure initiative;
HET: FAD; 2.15A {Vibrio parahaemolyticus}
Length = 549
Score = 26.5 bits (58), Expect = 6.2
Identities = 13/57 (22%), Positives = 18/57 (31%)
Query: 1 MTEAMLEHYVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVG 57
EA+ E + A D L +TR+SS I + L G
Sbjct: 459 AVEAIREAIPAFDRKIKGFASEDGLLTGVETRTSSPVCIKRGKDFQSVNLKGFYPAG 515
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
0.317 0.133 0.374
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: 2,806,729
Number of extensions: 162734
Number of successful extensions: 496
Number of sequences better than 10.0: 1
Number of HSP's gapped: 453
Number of HSP's successfully gapped: 62
Length of query: 184
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 96
Effective length of database: 4,244,745
Effective search space: 407495520
Effective search space used: 407495520
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.5 bits)