RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4377
(81 letters)
>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 = 61.2 bits (149), Expect = 3e-13
Identities = 17/58 (29%), Positives = 38/58 (65%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
SV +++D GV++AAD+L S+ L F +R++ V ++ ++G + +D+Q+++ +
Sbjct: 10 SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 67
>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 = 59.9 bits (146), Expect = 7e-13
Identities = 27/58 (46%), Positives = 40/58 (68%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
SV G++F+ GV++AAD L S+ LA F N RI++VN S +LG ++AD QYL+ +
Sbjct: 10 SVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVL 67
>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 = 59.7 bits (145), Expect = 1e-12
Identities = 17/58 (29%), Positives = 38/58 (65%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
SV +++D GV++AAD+L S+ L F +R++ V ++ ++G + +D+Q+++ +
Sbjct: 43 SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 100
>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 = 53.0 bits (128), Expect = 2e-10
Identities = 12/58 (20%), Positives = 27/58 (46%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
+ G+Q VL+A+D + + + + + ++ K++E ILL D + +
Sbjct: 3 YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYI 60
>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 = 52.2 bits (126), Expect = 3e-10
Identities = 8/58 (13%), Positives = 22/58 (37%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
+ G++ V+LA+ V+ L + + +++ L+ D + +
Sbjct: 3 IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYI 60
>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 = 44.9 bits (107), Expect = 2e-07
Identities = 7/58 (12%), Positives = 24/58 (41%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
++ + + ++A+D+ +S ++ + K+ + ++G D L +
Sbjct: 11 TILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68
>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 = 41.5 bits (98), Expect = 4e-06
Identities = 11/55 (20%), Positives = 23/55 (41%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
G+ + G++L AD+ + + N +I ++ +I G AD +
Sbjct: 5 GVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLI 59
>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 = 40.0 bits (94), Expect = 1e-05
Identities = 8/58 (13%), Positives = 21/58 (36%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
++ G+ + +LA D+ + ++ ++I++ AD L
Sbjct: 11 TILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68
>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 = 38.9 bits (91), Expect = 4e-05
Identities = 12/55 (21%), Positives = 28/55 (50%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
G++F+ GV++AAD+ + + N ++ +++ I G AD + + +
Sbjct: 34 GVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLI 88
>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 = 37.6 bits (88), Expect = 8e-05
Identities = 13/58 (22%), Positives = 28/58 (48%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
++ ++FD GV++ +DS VS + ++ +++ I + AD Q + D
Sbjct: 2 TIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMA 59
>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 = 37.5 bits (88), Expect = 9e-05
Identities = 10/58 (17%), Positives = 25/58 (43%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
+V ++ V +AAD + + + Q+I + + + +G D+Q + +
Sbjct: 10 AVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67
>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 = 37.6 bits (87), Expect = 1e-04
Identities = 7/55 (12%), Positives = 19/55 (34%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
L++ GV++A D + + + +++ ++ G A
Sbjct: 62 ALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLY 116
>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB;
2.83A {Archaeoglobus fulgidus} SCOP: d.153.1.4
Length = 202
Score = 36.8 bits (86), Expect = 2e-04
Identities = 10/55 (18%), Positives = 24/55 (43%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
GL GV++A + + A++I ++ + + + + D Q+L +
Sbjct: 5 GLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARII 59
>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase,
protease, threonine protease; 4.10A {Methanocaldococcus
jannaschii}
Length = 264
Score = 36.4 bits (85), Expect = 2e-04
Identities = 1/55 (1%), Positives = 11/55 (20%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
+ + + + + +I + + + +
Sbjct: 6 MVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITS 60
>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 = 36.4 bits (85), Expect = 3e-04
Identities = 14/55 (25%), Positives = 24/55 (43%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
+ F GV+L ADS + ++ +V++ I + AD Q + D V
Sbjct: 14 AVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 68
>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 = 36.4 bits (85), Expect = 3e-04
Identities = 11/55 (20%), Positives = 25/55 (45%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
+F G+++A DS + +R++++N +L AD Q+ + +
Sbjct: 5 AFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWL 59
>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 = 36.5 bits (85), Expect = 3e-04
Identities = 13/55 (23%), Positives = 23/55 (41%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
GL F GV+L AD+ + + + + ++I + I G AD +
Sbjct: 5 GLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMA 59
>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 = 36.1 bits (84), Expect = 4e-04
Identities = 12/55 (21%), Positives = 28/55 (50%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
G++F+ GV++AAD+ + + N ++ +++ I G AD + + +
Sbjct: 5 GVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLI 59
>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 = 36.0 bits (83), Expect = 4e-04
Identities = 11/55 (20%), Positives = 18/55 (32%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
L + GVLLA D + L + +++ +E G L
Sbjct: 5 ALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLF 59
>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 = 35.9 bits (83), Expect = 5e-04
Identities = 10/55 (18%), Positives = 25/55 (45%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
+F G+++A DS + ++++++N +L AD Q+ + +
Sbjct: 80 AFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWL 134
>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 = 35.6 bits (83), Expect = 5e-04
Identities = 15/55 (27%), Positives = 26/55 (47%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
+QFD GV+L ADS + ++ +++ I + AD Q + D+V
Sbjct: 5 AVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAV 59
>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 = 35.7 bits (82), Expect = 5e-04
Identities = 11/55 (20%), Positives = 17/55 (30%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
L + GVLLA D + L + + + +E G L
Sbjct: 70 ALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLF 124
>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 = 34.9 bits (81), Expect = 0.001
Identities = 11/55 (20%), Positives = 25/55 (45%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
+F GV++AADS + ++++++N +L AD + + +
Sbjct: 5 AFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 59
>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 = 34.9 bits (81), Expect = 0.001
Identities = 9/53 (16%), Positives = 22/53 (41%)
Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
G+ V++A + V+ E + N +++ +++ + D Q L
Sbjct: 13 GITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVR 65
>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 = 31.8 bits (73), Expect = 0.012
Identities = 10/58 (17%), Positives = 20/58 (34%), Gaps = 1/58 (1%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
V + V +A D + + L + ++I + LG D+ L +
Sbjct: 10 IVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGH-VFLGITGLATDVTTLNEMF 66
>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 = 31.1 bits (70), Expect = 0.018
Identities = 12/58 (20%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 25 VFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKV-NESILLGGGNNFADLQYLQDSV 81
+ ++ + V++ D VS + NA+++ ++ N +L G AD L +
Sbjct: 3 IVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELF 60
>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine
residue, hydrolase; 2.10A {Thermotoga maritima} SCOP:
d.153.1.4
Length = 171
Score = 30.7 bits (69), Expect = 0.029
Identities = 13/56 (23%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 25 VFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKV-NESILLGGGNNFADLQYLQD 79
+ ++ + ++ D V+F L NA+++ K+ +L G + AD L D
Sbjct: 3 ILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFD 58
>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 = 26.5 bits (58), Expect = 0.78
Identities = 13/57 (22%), Positives = 28/57 (49%), Gaps = 2/57 (3%)
Query: 25 VFGLQFDRGVLLAADSLVSF-EGLALFCNAQRIVKV-NESILLGGGNNFADLQYLQD 79
+F +Q ++ D V+F + + + A+++ K+ N +L G + AD L +
Sbjct: 8 IFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64
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
0.322 0.138 0.411
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: 1,124,361
Number of extensions: 51046
Number of successful extensions: 84
Number of sequences better than 10.0: 1
Number of HSP's gapped: 68
Number of HSP's successfully gapped: 28
Length of query: 81
Length of database: 6,701,793
Length adjustment: 50
Effective length of query: 31
Effective length of database: 5,305,743
Effective search space: 164478033
Effective search space used: 164478033
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 (21.9 bits)
S2: 51 (23.3 bits)