RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13971
(153 letters)
>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 = 90.3 bits (225), Expect = 4e-23
Identities = 28/105 (26%), Positives = 47/105 (44%), Gaps = 29/105 (27%)
Query: 1 MSSSRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIK 60
++ S YDR + FSP+G L QVEY EA++ GSTA+ G++
Sbjct: 3 LTRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAI---------------GIQT----- 42
Query: 61 ITLNNYLVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
+ + + K SPL+ + K+ ++ H+ A +G
Sbjct: 43 ---SEGVC----LAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSG 80
>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 = 90.4 bits (225), Expect = 4e-23
Identities = 29/105 (27%), Positives = 50/105 (47%), Gaps = 31/105 (29%)
Query: 1 MSSSRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIK 60
M ++YD +TV+SP G + Q+EYA EAV++GS V GL+
Sbjct: 1 MFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATV---------------GLKS----- 40
Query: 61 ITLNNYLVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
+ V +++LK S L + K+ +++H+ ++ AG
Sbjct: 41 ---KTHAV----LVALKRAQSELAA--HQKKILHVDNHIGISIAG 76
>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 = 89.2 bits (222), Expect = 7e-23
Identities = 24/102 (23%), Positives = 43/102 (42%), Gaps = 25/102 (24%)
Query: 2 SSSRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKI 61
+ Y ++T FSP G L+Q+EYA AV G+ +V G++
Sbjct: 1 AERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSV---------------GIKA------ 39
Query: 62 TLNNYLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
N +V+ E + S L + K+ + H+ + ++G
Sbjct: 40 --ANGVVLATE--KKQKSILYDERSVHKVEPITKHIGLVYSG 77
>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 = 89.7 bits (223), Expect = 1e-22
Identities = 31/105 (29%), Positives = 51/105 (48%), Gaps = 27/105 (25%)
Query: 1 MSS--SRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQST 58
M+S + YD + +VFSPDG QVEYA +AV G+T++ G++
Sbjct: 1 MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSI---------------GIKC--- 42
Query: 59 IKITLNNYLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
N+ +V E L S LL +N K+ +++ H+ ++G
Sbjct: 43 -----NDGVVFAVE--KLITSKLLVPQKNVKIQVVDRHIGCVYSG 80
>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 = 86.9 bits (216), Expect = 8e-22
Identities = 28/103 (27%), Positives = 46/103 (44%), Gaps = 29/103 (28%)
Query: 3 SSRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKIT 62
+ RY ++T FSP G L Q++YA AV++G T++ G++
Sbjct: 2 TDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSL---------------GIKA------- 39
Query: 63 LNNYLVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
N +V I + K SPL SK+S+L + ++G
Sbjct: 40 -TNGVV----IATEKKSSSPLAMSETLSKVSLLTPDIGAVYSG 77
>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 = 85.4 bits (212), Expect = 3e-21
Identities = 44/100 (44%), Positives = 54/100 (54%), Gaps = 29/100 (29%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNN 65
YDRAITVFSPDGHL QVEYAQEAV+KGSTAV G+R +
Sbjct: 3 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAV---------------GVRG--------RD 39
Query: 66 YLVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
+V + K V+ L + K+ L+D+V MAFAG
Sbjct: 40 IVV----LGVEKKSVAKLQDERTVRKICALDDNVCMAFAG 75
>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 = 84.6 bits (210), Expect = 4e-21
Identities = 29/100 (29%), Positives = 48/100 (48%), Gaps = 25/100 (25%)
Query: 4 SRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITL 63
+ YD + +VFSPDG QVEYA +AV G+T++ G++
Sbjct: 2 TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSI---------------GIKC-------- 38
Query: 64 NNYLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
N+ +V E L S LL +N K+ +++ H+ ++G
Sbjct: 39 NDGVVFAVE--KLITSKLLVPQKNVKIQVVDRHIGCVYSG 76
>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 = 82.2 bits (204), Expect = 4e-20
Identities = 28/105 (26%), Positives = 46/105 (43%), Gaps = 30/105 (28%)
Query: 2 SSSRYDRAITVFSPDGHLLQVEYAQEAVRKGS-TAVSFQVEVYLVSSFRKTGLRVQSTIK 60
SS+ +DR IT+FSP+G L QVEYA +A+ +G T+V +R
Sbjct: 5 SSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSV---------------AVRG----- 44
Query: 61 ITLNNYLVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
+ V I++ K LL + + L + +++ G
Sbjct: 45 ---KDCAV----IVTQKKVPDKLLDSSTVTHLFKITENIGCVMTG 82
>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 = 79.6 bits (197), Expect = 4e-19
Identities = 26/103 (25%), Positives = 40/103 (38%), Gaps = 30/103 (29%)
Query: 4 SRYDRAITVFSPDGHLLQVEYAQEAVRK-GSTAVSFQVEVYLVSSFRKTGLRVQSTIKIT 62
+ YDR IT+FSP+G L QVEYA +A + ++ +R
Sbjct: 1 AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSL---------------AVRG------- 38
Query: 63 LNNYLVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
+ V +IS K LL S + ++ + M G
Sbjct: 39 -KDCTV----VISQKKVPDKLLDPTTVSYIFCISRTIGMVVNG 76
>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 = 76.2 bits (188), Expect = 1e-17
Identities = 31/101 (30%), Positives = 44/101 (43%), Gaps = 25/101 (24%)
Query: 3 SSRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKIT 62
+ YD + + FSPDG + QVEYA +AV STA+ I
Sbjct: 4 GTGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIG-----------------------IR 40
Query: 63 LNNYLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
+ +V E L +S L + N +L ++ HV MA AG
Sbjct: 41 CKDGVVFGVE--KLVLSKLYEEGSNKRLFNVDRHVGMAVAG 79
>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase,
protease, threonine protease; 4.10A {Methanocaldococcus
jannaschii}
Length = 264
Score = 75.8 bits (187), Expect = 1e-17
Identities = 35/105 (33%), Positives = 50/105 (47%), Gaps = 29/105 (27%)
Query: 1 MSSSRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIK 60
+ S YDRAITVFSP+G L QVEYA+EAVR+G+TA+
Sbjct: 7 VPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIG----------------------- 43
Query: 61 ITLNNYLVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
I + +V + + S L+ K+ ++DHV A +G
Sbjct: 44 IACKDGVV----LAVDRRITSKLVKIRSIEKIFQIDDHVAAATSG 84
>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A
{Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A*
Length = 246
Score = 73.9 bits (182), Expect = 5e-17
Identities = 32/103 (31%), Positives = 49/103 (47%), Gaps = 25/103 (24%)
Query: 1 MSSSRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIK 60
+ YDRAITVFSPDG L QVEYA+EAV++G+TA+
Sbjct: 3 LPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIG----------------------- 39
Query: 61 ITLNNYLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
I +++ + S LL + K+ +++H+ A +G
Sbjct: 40 IKCKEGVILIAD--KRVGSKLLEKDTIEKIYKIDEHICAATSG 80
>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 = 73.1 bits (180), Expect = 8e-17
Identities = 37/107 (34%), Positives = 51/107 (47%), Gaps = 31/107 (28%)
Query: 1 MSS--SRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQST 58
M Y RAITVFSPDG L QVEYA+EAV+KGSTA+
Sbjct: 1 MQQGQMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALG--------------------- 39
Query: 59 IKITLNNYLVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
+ N ++ +IS K S L+ Q K+ +++D+V +G
Sbjct: 40 --MKFANGVL----LISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSG 80
>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 = 72.7 bits (179), Expect = 1e-16
Identities = 32/99 (32%), Positives = 50/99 (50%), Gaps = 26/99 (26%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNN 65
YDRA+++FSPDGH+ QVEYA EAV++G+ AV + + +V
Sbjct: 2 YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVV-------------------- 41
Query: 66 YLVMTKEIISLKVSPLLS-QAQNSKLSMLNDHVVMAFAG 103
L + L + SK+S ++ HVV++F+G
Sbjct: 42 -LGCERRS----TLKLQDTRITPSKVSKIDSHVVLSFSG 75
>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 = 71.5 bits (176), Expect = 4e-16
Identities = 30/102 (29%), Positives = 44/102 (43%), Gaps = 31/102 (30%)
Query: 4 SRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITL 63
+ YD FSP G L QVEYA EA+++GS V GLR
Sbjct: 3 NNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTV---------------GLRS-------- 39
Query: 64 NNYLVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
N + V +++LK L S K+ ++H+ ++ AG
Sbjct: 40 NTHAV----LVALKRNADELSS--YQKKIIKCDEHMGLSLAG 75
>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 = 70.8 bits (174), Expect = 1e-15
Identities = 27/104 (25%), Positives = 45/104 (43%), Gaps = 30/104 (28%)
Query: 3 SSRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKIT 62
S RYD T+FSP+G L QVEYA EA+ T + G+
Sbjct: 2 SRRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCL---------------GILA------- 39
Query: 63 LNNYLVMTKEIISLK--VSPLLSQAQ-NSKLSMLNDHVVMAFAG 103
N+ ++ + + + + LL + + K+ LN+ + + AG
Sbjct: 40 -NDGVL----LAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAG 78
>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 = 68.8 bits (169), Expect = 3e-15
Identities = 28/99 (28%), Positives = 43/99 (43%), Gaps = 29/99 (29%)
Query: 7 DRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNNY 66
DR ++ FSP+G L QVEY+ EA++ GSTA+ G+
Sbjct: 1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAI---------------GIAT--------KEG 37
Query: 67 LVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
+V + K SPLL K+ ++ H+ A +G
Sbjct: 38 VV----LGVEKRATSPLLESDSIEKIVEIDRHIGCAMSG 72
>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 = 68.1 bits (167), Expect = 7e-15
Identities = 31/104 (29%), Positives = 44/104 (42%), Gaps = 30/104 (28%)
Query: 3 SSRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKIT 62
S RYD T+FSP+G L QVEYA E++ TA+ I
Sbjct: 2 SRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIG-----------------------IM 38
Query: 63 LNNYLVMTKEIISLK--VSPLL-SQAQNSKLSMLNDHVVMAFAG 103
++ +V + + + S LL KL LND + +A AG
Sbjct: 39 ASDGIV----LAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAG 78
>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 = 34.9 bits (80), Expect = 0.005
Identities = 16/93 (17%), Positives = 28/93 (30%), Gaps = 37/93 (39%)
Query: 14 SPDGHLLQ-VEYAQEAVRKGSTAVSFQVE--VYLVSSFRKTGLRVQSTIKITLNNYLVMT 70
SP+ + + E A++ + + + V+ V V+ L+
Sbjct: 8 SPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENPSRSLQ---------------- 51
Query: 71 KEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
K+S L D V A AG
Sbjct: 52 ------------------KISELYDRVGFAAAG 66
>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 = 35.0 bits (80), Expect = 0.006
Identities = 24/99 (24%), Positives = 38/99 (38%), Gaps = 18/99 (18%)
Query: 8 RAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEV--YLVSSF-RKTGLRVQSTIKITLN 64
+ V P L + Y A+ G A SF E Y+V ++TG V+ I
Sbjct: 1791 MTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVE----IV-- 1844
Query: 65 NY------LVMTKEIISL-KVSPLLSQ--AQNSKLSMLN 94
NY V ++ +L V+ +L+ Q + L
Sbjct: 1845 NYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQ 1883
Score = 30.8 bits (69), Expect = 0.18
Identities = 23/156 (14%), Positives = 38/156 (24%), Gaps = 86/156 (55%)
Query: 8 RAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNNYL 67
+ T S G L ++ Q A+ T + ++F
Sbjct: 1715 TSYTFRSEKGLLSATQFTQPAL----TLME-------KAAFE------------------ 1745
Query: 68 VMTKE-IISLKVSPLLSQAQNSKLSMLNDHVVMAFAGKSL---CLIALVALWYNEKDKTI 123
+ + +I FAG SL AL +L
Sbjct: 1746 DLKSKGLIPADA---------------------TFAGHSLGEYA--ALASL--------- 1773
Query: 124 SVIYYGGKNSSALATE-----LFLR-------PPRD 147
+ ++ E +F R PRD
Sbjct: 1774 ---------ADVMSIESLVEVVFYRGMTMQVAVPRD 1800
Score = 26.6 bits (58), Expect = 4.5
Identities = 9/61 (14%), Positives = 19/61 (31%), Gaps = 7/61 (11%)
Query: 44 LVSSFRKTGLRVQSTIKITLNNYLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMA-FA 102
L+ T ++ + IK + ++ + S L ++A F
Sbjct: 108 LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQ------LVAIFG 161
Query: 103 G 103
G
Sbjct: 162 G 162
>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 = 29.6 bits (66), Expect = 0.34
Identities = 4/21 (19%), Positives = 10/21 (47%)
Query: 21 QVEYAQEAVRKGSTAVSFQVE 41
+ E A++ + +G + V
Sbjct: 16 RSELARKGIARGRSVVVLTFR 36
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 28.2 bits (62), Expect = 1.1
Identities = 17/119 (14%), Positives = 39/119 (32%), Gaps = 21/119 (17%)
Query: 17 GHLLQVEYAQEAVRKGSTAVSFQVE---VYLVSSFRKTGLRVQSTIKITLNNYLVMTKE- 72
G +QV Y+ E + + +VS S K +LV+ E
Sbjct: 117 GMAIQVNYSSEVKENSVDSDDKAKVPPLIRIVSGLE------LSDTKQKGKKFLVIAYEP 170
Query: 73 --IISLKVSPLLSQAQNSKLSMLNDHVVMAFAGKSLCLIALVALWYNEKDKTISV-IYY 128
I++++ P + +++ M + + +++ K V ++
Sbjct: 171 FENIAIEL-P-------PNEILFSENNDMDNNNDGVDELNKKCTFWDAISKLYYVQFFF 221
>1e8c_A UDP-N-acetylmuramoylalanyl-D-glutamate--2,6- diaminopimelate
ligase; peptidoglycan biosynthesis; HET: KCX UAG API;
2.00A {Escherichia coli} SCOP: c.98.1.1 c.59.1.1
c.72.2.1
Length = 498
Score = 25.6 bits (57), Expect = 9.4
Identities = 7/28 (25%), Positives = 12/28 (42%), Gaps = 4/28 (14%)
Query: 9 AITVFSPDGHLLQVEYAQEAVRKGSTAV 36
A+ DG Y +A+ +G A+
Sbjct: 39 AVVGHQADGR----RYIPQAIAQGVAAI 62
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
0.319 0.132 0.361
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,143,856
Number of extensions: 111365
Number of successful extensions: 458
Number of sequences better than 10.0: 1
Number of HSP's gapped: 442
Number of HSP's successfully gapped: 28
Length of query: 153
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 68
Effective length of database: 4,328,508
Effective search space: 294338544
Effective search space used: 294338544
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: 53 (24.7 bits)