RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1918
(251 letters)
>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 = 356 bits (915), Expect = e-125
Identities = 158/241 (65%), Positives = 204/241 (84%)
Query: 7 FRNQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQK 66
FRNQYD+DVTVWSPQGR+HQ+EYAMEAVKQGSATVGLK+KTHAV++ALKRA SELAAHQK
Sbjct: 2 FRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAHQK 61
Query: 67 KIIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQ 126
KI+ +D+H+G+S AGLTADAR+L FMR ECL+ ++ LPV RL+S++G+K Q+ TQ
Sbjct: 62 KILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQ 121
Query: 127 RYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPE 186
RY +RPYGVGLL+AGYDD GPHI+QTCPS+NY+D +AM+IG+RSQSARTYLE+ +++F E
Sbjct: 122 RYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFME 181
Query: 187 ASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYLSLIEGEER 246
+L E+VKHGLRALR+TLP + +LTTKNVSIG+VG++ +F D+ + +L +E +
Sbjct: 182 CNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLEERPQ 241
Query: 247 R 247
R
Sbjct: 242 R 242
>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 = 325 bits (835), Expect = e-114
Identities = 110/234 (47%), Positives = 151/234 (64%), Gaps = 3/234 (1%)
Query: 7 FRNQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQK 66
FRN YD D +SP GRL QVEYA+EA+KQGS TVGL++ THAV++ALKR A EL+++QK
Sbjct: 1 FRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSSYQK 60
Query: 67 KIIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQ 126
KII D+HMGLS AGL DAR+L+ ++R +C L V R ++ +K Q TQ
Sbjct: 61 KIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQ 120
Query: 127 RYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADF-- 184
Y RPYGVGLL+ GYD +G H+ + PS N ++ AIG+RSQ A+TYLE+ L F
Sbjct: 121 SYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIK 180
Query: 185 PEASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYL 238
+ + +E++K G+ A+ +L D LT N+SI +VG++ F D Y+
Sbjct: 181 IDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233
>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 = 320 bits (822), Expect = e-111
Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 11/242 (4%)
Query: 7 FRNQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASEL--AAH 64
R++YD V +SP+GRL QVEY +EA+K GS +G++ + KR S L +
Sbjct: 4 TRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSS 63
Query: 65 QKKIIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVC 124
+KI+ ID H+G + +GL ADA+ L R+E N+ + + +T+ V + V N
Sbjct: 64 IEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQF 123
Query: 125 TQRYDK-----RPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEK 179
+ RP+GV LL G D+ GP ++ PS + A AIGS S+ A++ L++
Sbjct: 124 GEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQE 183
Query: 180 RLADFPEASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYLS 239
+L+E +K L L+ + + +L N+ + V Q F + E +
Sbjct: 184 LY--HKSMTLKEAIKSSLIILKQVM--EEKLNATNIELATVQPGQNFHMFTKEELEEVIK 239
Query: 240 LI 241
I
Sbjct: 240 DI 241
>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 = 316 bits (811), Expect = e-110
Identities = 84/240 (35%), Positives = 140/240 (58%), Gaps = 7/240 (2%)
Query: 11 YDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQ--KKI 68
YD +TV+SP G L QVEYA EAVK+GS VG++ + V+ K++ ++L + +KI
Sbjct: 3 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 62
Query: 69 IVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRY 128
+DD++ ++FAGLTADARI+ R+EC +++ +D + V + + + Q TQ
Sbjct: 63 CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 129 DKRPYGVGLLVAGYD-DAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEA 187
+RP+G+ L+ G+D D P +YQT PS Y+ KA AIG ++S R +LEK D
Sbjct: 123 GRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIE 182
Query: 188 SLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYLSLIEGEERR 247
+ + +K ++AL + + + KN+ + ++ ++Q K L+ E Y++ IE E+
Sbjct: 183 TDDLTIKLVIKALLEVV----QSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKEKEE 238
>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 = 312 bits (803), Expect = e-109
Identities = 72/247 (29%), Positives = 126/247 (51%), Gaps = 10/247 (4%)
Query: 7 FRNQ---YDSDVTVWSPQGRLHQVEYAMEAVKQGSAT-VGLKNKTHAVIIALKRAASEL- 61
R +D +T++SP+GRL+QVEYA +A+ QG T V ++ K AVI+ K+ +L
Sbjct: 2 SRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLL 61
Query: 62 -AAHQKKIIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNK 120
++ + I +++G G+TAD+R + R E N+KY + +PV L + +
Sbjct: 62 DSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADI 121
Query: 121 MQVCTQRYDKRPYGVGLLVAGYD-DAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEK 179
QV TQ + RP G +++ G D + GP +Y+ P+ Y KA A G + + ++LEK
Sbjct: 122 SQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEK 181
Query: 180 RLADFPEASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQ-KFKTLDERETGHYL 238
++ + + E+ V+ + L L + + +G+V KF+ L E E +L
Sbjct: 182 KVKKKFDWTFEQTVETAITCLSTVL--SIDFKPSEIEVGVVTVENPKFRILTEAEIDAHL 239
Query: 239 SLIEGEE 245
+ +
Sbjct: 240 VALAERD 246
>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 = 311 bits (800), Expect = e-108
Identities = 71/236 (30%), Positives = 125/236 (52%), Gaps = 7/236 (2%)
Query: 8 RNQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQ-- 65
Y +T +SP G+L Q+EYA+ AV G+ +VG+K V+ K+ S L +
Sbjct: 2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSV 61
Query: 66 KKIIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCT 125
K+ I H+GL ++G+ D R+L R Y +++ +P +L+ V + MQ T
Sbjct: 62 HKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYT 121
Query: 126 QRYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFP 185
Q RP+GV LL+ G+++ P+++Q+ PS Y+ KA A+G + +T+LEKR
Sbjct: 122 QSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRY--NE 179
Query: 186 EASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYLSLI 241
+ LE+ + + L+++ + ++T N+ +G+ + F+ L E YL+ I
Sbjct: 180 DLELEDAIHTAILTLKESF--EGQMTEDNIEVGICNEA-GFRRLTPTEVKDYLAAI 232
>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 = 305 bits (783), Expect = e-106
Identities = 72/244 (29%), Positives = 114/244 (46%), Gaps = 12/244 (4%)
Query: 11 YDSDVTVWSPQGRLHQVEYAMEAVKQGSAT-VGLKNKTHAVIIALKRAASEL--AAHQKK 67
YD +T++SP+GRL+QVEYA +A Q + + ++ K V+I+ K+ +L
Sbjct: 3 YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 62
Query: 68 IIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQR 127
I I +G+ G DAR A + E ++Y + +P L + N Q+ TQR
Sbjct: 63 IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQR 122
Query: 128 YDKRPYGVGLLVAGYD-DAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRL----- 181
RP GV L D + GP IY+T P+ Y KA A G + Q T LE
Sbjct: 123 AYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKI 182
Query: 182 ADFPEASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYLSLI 241
E S E++V+ + + D L +E + ++ +G+ ++ KF TL L I
Sbjct: 183 DHINEESWEKVVEFAITHMIDAL--GTEFSKNDLEVGVATKD-KFFTLSAENIEERLVAI 239
Query: 242 EGEE 245
++
Sbjct: 240 AEQD 243
>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 = 301 bits (774), Expect = e-104
Identities = 87/243 (35%), Positives = 132/243 (54%), Gaps = 10/243 (4%)
Query: 11 YDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQ---KK 67
YD ++++SP G + QVEYA+EAVK+G+ VG+K K V+ +R+ +L + K
Sbjct: 2 YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61
Query: 68 IIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQR 127
+ ID H+ LSF+GL AD+RIL R+E +++ +D + V L V Q TQ
Sbjct: 62 VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQS 121
Query: 128 YDKRPYGVGLLVAGYD--DAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRL-ADF 184
RP+GV L+AG+D D P +YQT PS Y A IG S++ R +LEK
Sbjct: 122 GGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKE 181
Query: 185 PEASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYLSLIEGE 244
P A++EE VK +R+L + + + KN+ I +V + L E Y++ IE E
Sbjct: 182 PPATVEECVKLTVRSLLEVV----QTGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQE 237
Query: 245 ERR 247
++
Sbjct: 238 KQE 240
>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 = 298 bits (766), Expect = e-103
Identities = 76/252 (30%), Positives = 128/252 (50%), Gaps = 23/252 (9%)
Query: 9 NQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASEL--AAHQK 66
++Y +T +SP G+L Q++YA+ AVKQG ++G+K VI K+++S L +
Sbjct: 3 DRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLS 62
Query: 67 KIIVIDDHMGLSFAGLTADARILARFMRMEC-LNYKYAHKDTLPVFRLISIVGNKMQVCT 125
K+ ++ +G ++G+ D R+L R +YK + + P L+S V MQ T
Sbjct: 63 KVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEAT 122
Query: 126 QRYDKRPYGVGLLVAGYDDA-GPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADF 184
Q RP+GV LL+AG+D+ G +YQ PS +Y+ KA AIG S +A+T+LEKR
Sbjct: 123 QSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRW--N 180
Query: 185 PEASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQ---------------KFKTL 229
E LE+ + L L++++ + E + + ++G +F+ L
Sbjct: 181 DELELEDAIHIALLTLKESV--EGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKL 238
Query: 230 DERETGHYLSLI 241
+E L +
Sbjct: 239 TSQEINDRLEAL 250
>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 = 296 bits (759), Expect = e-102
Identities = 78/233 (33%), Positives = 121/233 (51%), Gaps = 6/233 (2%)
Query: 8 RNQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQ-- 65
+ Y +TV+SP GRL QVEYA EAVK+GS +G+K ++I+ K+ S L
Sbjct: 5 QMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSI 64
Query: 66 KKIIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCT 125
+KI +IDD++ +GL ADAR+L F R+ K + + + L+ V ++MQ T
Sbjct: 65 EKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYT 124
Query: 126 QRYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFP 185
Q RPYGV L+ AG D GP ++ P+ + KA AIGS + ++LE+
Sbjct: 125 QYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREY--KE 182
Query: 186 EASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYL 238
+E V G++AL+ +L + K I + K++ D+ E +L
Sbjct: 183 NLPEKEAVTLGIKALKSSL--EEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233
>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 = 296 bits (759), Expect = e-102
Identities = 74/246 (30%), Positives = 130/246 (52%), Gaps = 9/246 (3%)
Query: 9 NQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASEL---AAHQ 65
+YDS T++SP+GRL+QVEYAMEA+ +G+ ++ A +R +L
Sbjct: 3 RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62
Query: 66 KKIIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCT 125
+KI +++ M S AG+T+DA +L +R+ Y +++ +P +L++ + + Q T
Sbjct: 63 EKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYT 122
Query: 126 QRYDKRPYGVGLLVAGYD-DAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADF 184
Q KRP+GV LL G+D G +YQ+ PS NY KA IG+ S +A + L++
Sbjct: 123 QFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDY-KE 181
Query: 185 PEASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQK---FKTLDERETGHYLSLI 241
E +L+ + ++ L T+ + S+L+ + V I + + + L ++E +
Sbjct: 182 GEMTLKSALALAIKVLNKTM-DVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKH 240
Query: 242 EGEERR 247
E EE +
Sbjct: 241 EEEEAK 246
>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 = 294 bits (755), Expect = e-101
Identities = 76/241 (31%), Positives = 109/241 (45%), Gaps = 9/241 (3%)
Query: 11 YDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQ--KKI 68
YD +V+SP GR QVEYA++AV+ G+ ++G+K V K S+L Q KI
Sbjct: 4 YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 63
Query: 69 IVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRY 128
V+D H+G ++GL D R L R E ++K +K +P+ +G +Q T
Sbjct: 64 QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN 123
Query: 129 DKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEA- 187
RP+GV + G D G H+Y PS +Y+ K A G QSA+ LEK + PE
Sbjct: 124 SVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGL 183
Query: 188 SLEEIVKHGLRA----LRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYLSLIEG 243
S E VK + D D EL S+ N K + + +
Sbjct: 184 SAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLS--ETNGLHKFVKGDLLQEAIDFAQK 241
Query: 244 E 244
E
Sbjct: 242 E 242
>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase,
protease, threonine protease; 4.10A {Methanocaldococcus
jannaschii}
Length = 264
Score = 295 bits (757), Expect = e-101
Identities = 74/243 (30%), Positives = 127/243 (52%), Gaps = 8/243 (3%)
Query: 7 FRNQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQ- 65
+ YD +TV+SP+GRL+QVEYA EAV++G+ +G+ K V+ +R S+L +
Sbjct: 8 PPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRS 67
Query: 66 -KKIIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVC 124
+KI IDDH+ + +GL ADAR+L R+E Y+ + + + + L + + Q
Sbjct: 68 IEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAY 127
Query: 125 TQRYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADF 184
TQ RP+GV LL+AG D +++T PS + KA AIGS LEK
Sbjct: 128 TQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLEKEY--R 185
Query: 185 PEASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQ-NQKFKTLDERETGHYLSLIEG 243
+ +L+E ++ + AL + ++ +NV + ++ + +FK + E + ++
Sbjct: 186 DDITLDEGLELAITALTKA---NEDIKPENVDVCIITVKDAQFKKIPVEEIKKLIEKVKK 242
Query: 244 EER 246
+
Sbjct: 243 KLN 245
>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 = 293 bits (753), Expect = e-101
Identities = 75/243 (30%), Positives = 121/243 (49%), Gaps = 13/243 (5%)
Query: 12 DSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASEL--AAHQKKII 69
D V+ +SP+GRL QVEY++EA+K GS +G+ K V+ KRA S L + +KI+
Sbjct: 1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60
Query: 70 VIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQ--- 126
ID H+G + +GLTADAR + R + + + + + V L V + +
Sbjct: 61 EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120
Query: 127 ---RYDKRPYGVGLLVAGYD-DAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLA 182
R RP+GV LL+AG+D D G ++ PS +Y A AIGS S+ A+ L
Sbjct: 121 GEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEW- 179
Query: 183 DFPEASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYLSLIE 242
+L+E L+ L+ + + +L N + + + FK D +T + ++
Sbjct: 180 -HSSLTLKEAELLVLKILKQVM--EEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELK 236
Query: 243 GEE 245
+E
Sbjct: 237 EKE 239
>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 = 295 bits (757), Expect = e-101
Identities = 77/241 (31%), Positives = 111/241 (46%), Gaps = 9/241 (3%)
Query: 11 YDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQK--KI 68
YD +V+SP GR QVEYA++AV+ G+ ++G+K V K S+L QK KI
Sbjct: 8 YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 67
Query: 69 IVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRY 128
V+D H+G ++GL D R L R E ++K +K +P+ +G +Q T
Sbjct: 68 QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN 127
Query: 129 DKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEA- 187
RP+GV + G D G H+Y PS +Y+ K A G QSA+ LEK + PE
Sbjct: 128 SVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGL 187
Query: 188 SLEEIVKHGLRAL----RDTLPNDSELTTKNVSIGLVGQNQKFKTLDERETGHYLSLIEG 243
S E VK + + D D EL S+ N K + + +
Sbjct: 188 SAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSET--NGLHKFVKGDLLQEAIDFAQK 245
Query: 244 E 244
E
Sbjct: 246 E 246
>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A
{Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A*
Length = 246
Score = 289 bits (741), Expect = 2e-99
Identities = 82/242 (33%), Positives = 128/242 (52%), Gaps = 8/242 (3%)
Query: 8 RNQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQ-- 65
+ YD +TV+SP GRL QVEYA EAVK+G+ +G+K K ++IA KR S+L
Sbjct: 5 QMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTI 64
Query: 66 KKIIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCT 125
+KI ID+H+ + +GL ADAR+L R+E + + + V L + + Q T
Sbjct: 65 EKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYT 124
Query: 126 QRYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFP 185
Q RP+GV LL+AG ++ P +Y+T PS + KA AIG + + EK
Sbjct: 125 QYGGVRPFGVSLLIAGVNE-VPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEY--RD 181
Query: 186 EASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVG-QNQKFKTLDERETGHYLSLIEGE 244
+ S ++ + GL A+ ++ +SEL +N+ +G V ++ FK + E Y+
Sbjct: 182 DLSFDDAMVLGLVAMGLSI--ESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERANER 239
Query: 245 ER 246
R
Sbjct: 240 IR 241
>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 = 286 bits (733), Expect = 3e-98
Identities = 70/239 (29%), Positives = 121/239 (50%), Gaps = 12/239 (5%)
Query: 9 NQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASEL---AAHQ 65
+YDS T++SP+GRL+QVEYA+E++ +G+ V+ A ++ S L
Sbjct: 3 RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTST 62
Query: 66 KKIIVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCT 125
+K+ ++D + ++ AGLTADA IL R+ NY + + +PV L+ + + Q T
Sbjct: 63 EKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYT 122
Query: 126 QRYDKRPYGVGLLVAGYDD-AGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADF 184
Q RP+GV + AGYDD G +Y + PS NY KA+++G+ + +A+T L+
Sbjct: 123 QHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY--K 180
Query: 185 PEASLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQNQ-----KFKTLDERETGHYL 238
+ +++ ++ L+ L T + S LT + + + K +E L
Sbjct: 181 DDMKVDDAIELALKTLSKTT-DSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDIL 238
>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 = 280 bits (718), Expect = 7e-96
Identities = 64/232 (27%), Positives = 104/232 (44%), Gaps = 7/232 (3%)
Query: 11 YDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASEL--AAHQKKI 68
YD + +SP GR+ QVEYAM+AV+ S +G++ K V K S+L K++
Sbjct: 7 YDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRL 66
Query: 69 IVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRY 128
+D H+G++ AGL ADAR LA R E N++ +P+ L V + T
Sbjct: 67 FNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYS 126
Query: 129 DKRPYGVGLLVAGYD-DAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEA 187
RP+G ++ Y + G +Y PS Y AIG Q+A+T +EK E
Sbjct: 127 AVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQ--MKEM 184
Query: 188 SLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVG-QNQKFKTLDERETGHYL 238
+ +IVK + + ++ + + + VG + ++
Sbjct: 185 TCRDIVKEVAKIIYIVH-DEVKDKAFELELSWVGELTNGRHEIVPKDIREEA 235
>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 = 173 bits (439), Expect = 7e-54
Identities = 45/244 (18%), Positives = 89/244 (36%), Gaps = 21/244 (8%)
Query: 19 SPQGRLHQ-VEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQKKIIVIDDHMGL 77
SP+ + + E A + + + + V L + +A + S +KI + D +G
Sbjct: 8 SPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENPSRS-----LQKISELYDRVGF 62
Query: 78 SFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGL 137
+ AG + L R YA+ R ++ V + +PY V L
Sbjct: 63 AAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVEL 122
Query: 138 LVAGY----DDAGPHIYQTCPSSNYYDV-KAMAIGSRSQSARTYLEKRLADFPEASLEEI 192
VA + P +Y+ + D + +G ++ L++ A ASL +
Sbjct: 123 CVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYA--ENASLTDA 180
Query: 193 VKHGLRALRDTLPNDS-----ELTTKNVSIGLVGQNQ---KFKTLDERETGHYLSLIEGE 244
++ + ALR + S L ++ + ++ N+ F+ + L E
Sbjct: 181 LRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALLVDQESP 240
Query: 245 ERRG 248
+ G
Sbjct: 241 QSDG 244
>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 = 157 bits (398), Expect = 2e-47
Identities = 34/247 (13%), Positives = 86/247 (34%), Gaps = 23/247 (9%)
Query: 19 SPQGRLHQ-VEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQKKIIVIDDHMGL 77
S + + E A + + +G + V L + + +A + + K+ + D +G
Sbjct: 8 SAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENPSTA-----LHKVSELYDRLGF 62
Query: 78 SFAGLTADARILARFMRMECLNYKYAH-KDTLPVFRLISIVGNKM-QVCTQRYDKRPYGV 135
+ G + L R + Y++ + + L + + + T++ +PY V
Sbjct: 63 AAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQP--KPYEV 120
Query: 136 GLLVAG----YDDAGPHIYQTCPSSNYYDVK-AMAIGSRSQSARTYLEKRLADFPEASLE 190
+ VA P +Y+ + D + + +G ++ T + + + LE
Sbjct: 121 EICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYR--ADLDLE 178
Query: 191 EIVKHGLRALRDTLPNDS---ELTTKNVSIGLVGQNQ---KFKTLDERETGHYLSLIEGE 244
V + ALR + + ++ + ++ Q++ F+ + +
Sbjct: 179 AAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVPAEPAA 238
Query: 245 ERRGGGG 251
Sbjct: 239 ASESAPE 245
>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 = 120 bits (304), Expect = 2e-33
Identities = 43/220 (19%), Positives = 84/220 (38%), Gaps = 12/220 (5%)
Query: 19 SPQGRLHQVEYAM-EAVKQGSATVGLKNKTHAVIIALKRA-ASELAAHQ--KKIIVIDDH 74
L + + +A G+ VG+K VI A R+ + A + K+ I
Sbjct: 10 QRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPK 69
Query: 75 MGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYG 134
+ + AG AD + + + + V + ++ + +Y + G
Sbjct: 70 IWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLF----KY-QGHIG 124
Query: 135 VGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVK 194
L+VAG D G H++ + +++GS S +A LE + + EE +K
Sbjct: 125 AYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWK--QDLTKEEAIK 182
Query: 195 HGLRALRDTLPNDSELTTKNVSIGLVGQNQKFKTLDERET 234
A++ + ND + NV + ++ + + L T
Sbjct: 183 LASDAIQAGIWNDL-GSGSNVDVCVMEIGKDAEYLRNYLT 221
>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 = 116 bits (292), Expect = 4e-32
Identities = 50/211 (23%), Positives = 98/211 (46%), Gaps = 13/211 (6%)
Query: 32 EAVKQGSATVGLKNKTHAVIIAL-KRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADAR 87
+ ++ G+ TVG+ K AVI+A +R H+ KK+ ID + G++ AGL DA+
Sbjct: 3 QTLETGTTTVGITLK-DAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQ 61
Query: 88 ILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGP 147
+L R+M+ E Y+ + +P+ + +++ N + + PY V LLV G D P
Sbjct: 62 VLVRYMKAELELYRLQRRVNMPIEAVATLLSNML----NQVKYMPYMVQLLVGGIDT-AP 116
Query: 148 HIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPND 207
H++ + + + GS S LE + + + +++E V +RA+ D
Sbjct: 117 HVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYS--EKMTVDEGVDLVIRAISAAKQRD 174
Query: 208 SELTTKNVSIGLVGQNQKFKTLDERETGHYL 238
S + + + ++ + + L + +
Sbjct: 175 S-ASGGMIDVAVITRKDGYVQLPTDQIESRI 204
>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 = 112 bits (283), Expect = 1e-30
Identities = 41/173 (23%), Positives = 70/173 (40%), Gaps = 12/173 (6%)
Query: 40 TVGLKNKTHAVIIAL-KRAAS-ELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRM 95
GL + VI+ RA + + A + +KI I + AG+ AD + R
Sbjct: 3 IAGLVFR-DGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAAS 61
Query: 96 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTCPS 155
+ + + V + I+ + RY + G L+V G D GP +Y+ P
Sbjct: 62 KMELHALSTGREPRVATVTRILRQTLF----RY-QGHVGASLVVGGVDLNGPQLYEVHPH 116
Query: 156 SNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 208
+Y + A+GS +A LE R P +LE + + A+ + +D
Sbjct: 117 GSYSRLPFTALGSGQGAAVALLEDRFQ--PNMTLEAAQELLVEAITAGILSDL 167
>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 = 108 bits (272), Expect = 5e-29
Identities = 36/172 (20%), Positives = 67/172 (38%), Gaps = 10/172 (5%)
Query: 40 TVGLKNKTHAVIIALKRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRME 96
VG+K VI A R+ + A + K+ I + + AG AD + + +
Sbjct: 3 IVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSN 62
Query: 97 CLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTCPSS 156
+ V + ++ + +Y + G L+VAG D G H++
Sbjct: 63 IELHSLYTSREPRVVSALQMLKQHLF----KY-QGHIGAYLIVAGVDPTGSHLFSIHAHG 117
Query: 157 NYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 208
+ +++GS S +A LE + + EE +K A++ + ND
Sbjct: 118 STDVGYYLSLGSGSLAAMAVLESHWK--QDLTKEEAIKLASDAIQAGIWNDL 167
>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 = 35/173 (20%), Positives = 64/173 (36%), Gaps = 12/173 (6%)
Query: 40 TVGLKNKTHAVIIAL-KRAAS-ELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRM 95
G+ K +++ RA + A + KI I ++ AG AD + + +
Sbjct: 3 IAGVVYK-DGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61
Query: 96 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTCPS 155
+ + V ++ + RY + G L++ G D GPH+Y P
Sbjct: 62 NLELHSLSTGRLPRVVTANRMLKQMLF----RY-RGYIGAALVLGGVDVTGPHLYSIYPH 116
Query: 156 SNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 208
+ + + +GS S +A E + P+ EE A+ + ND
Sbjct: 117 GSTDKLPYVTMGSGSLAAMAVFEDKFR--PDMEEEEAKNLVSEAIAAGIFNDL 167
>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 = 100 bits (249), Expect = 3e-25
Identities = 44/250 (17%), Positives = 86/250 (34%), Gaps = 20/250 (8%)
Query: 19 SPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELA-AHQ--KKIIVIDDHM 75
S R + + G+ V L K ++ +RA A + + + V D++
Sbjct: 47 SHSTRGGDGMESGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYS 106
Query: 76 GLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGV 135
AG A L R +E +Y+ L + + + ++ + V
Sbjct: 107 AAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVR-GNLGAAMQGLAV 165
Query: 136 GLLVAGYDDA------GPHIYQTCPSSNYYDVKA--MAIGSRSQSARTYLEKRLADFPEA 187
L+ GYD I Y+ +A A+GS S A++ L+K + P++
Sbjct: 166 VPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYS--PDS 223
Query: 188 SLEEIVKHGLRALRDTLPNDS------ELTTKNVSIGLVGQNQKFKTLDERETGHYLSLI 241
E ++ + +L D +DS + + Q +E + ++
Sbjct: 224 DEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIV 283
Query: 242 EGEERRGGGG 251
+GG
Sbjct: 284 AERTEQGGSA 293
>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 = 3e-24
Identities = 39/182 (21%), Positives = 74/182 (40%), Gaps = 12/182 (6%)
Query: 32 EAVKQGSATVGLKNKTHAVIIAL-KRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADAR 87
+ G+ T+ + + +I+A+ RA A A Q KK+I I+ + + AG AD +
Sbjct: 70 IKIAHGTTTLAFRFQ-GGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQ 128
Query: 88 ILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDD-AG 146
++ +C ++ K+ + V I+ N + +Y +G ++ GY G
Sbjct: 129 FWETWLGSQCRLHELREKERISVAAASKILSNLV----YQYKGAGLSMGTMICGYTRKEG 184
Query: 147 PHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPN 206
P IY +GS A L+ + S+E+ + G R++
Sbjct: 185 PTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYK--WDLSVEDALYLGKRSILAAAHR 242
Query: 207 DS 208
D+
Sbjct: 243 DA 244
>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 = 94.6 bits (236), Expect = 5e-24
Identities = 38/172 (22%), Positives = 73/172 (42%), Gaps = 9/172 (5%)
Query: 40 TVGLKNKTHAVIIALKRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRME 96
T+ K + ++ A RA A A Q KK+I I+ ++ + AG AD R + +
Sbjct: 3 TLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQ 62
Query: 97 CLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTCPSS 156
C Y+ +K+ + V ++ N + +Y +G ++ G+D GP +Y
Sbjct: 63 CRIYELRNKERISVAAASKLLANMVY----QYKGMGLSMGTMICGWDKRGPGLYYVDSEG 118
Query: 157 NYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 208
N ++GS S A +++ + + +E+ RA+ D+
Sbjct: 119 NRISGATFSVGSGSVYAYGVMDRGYS--YDLEVEQAYDLARRAIYQATYRDA 168
>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A
{Archaeoglobus fulgidus} SCOP: d.153.1.4
Length = 202
Score = 90.3 bits (225), Expect = 2e-22
Identities = 56/174 (32%), Positives = 81/174 (46%), Gaps = 12/174 (6%)
Query: 40 TVGLKNKTHAVIIAL-KRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRM 95
TVGL K V++A KRA A + KKI I D M ++ AG DA+ LAR +++
Sbjct: 3 TVGLVCK-DGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61
Query: 96 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTCPS 155
E Y+ + V + ++ N + Y PY V LL+ G D G IY P
Sbjct: 62 EANLYEIRRERKPTVRAIATLTSNLL----NSYRYFPYLVQLLIGGIDSEGKSIYSIDPI 117
Query: 156 -SNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 208
+ +A GS S +A LE R PE ++E V+ +RA+ + DS
Sbjct: 118 GGAIEEKDIVATGSGSLTAYGVLEDRFT--PEIGVDEAVELAVRAIYSAMKRDS 169
>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 = 90.0 bits (224), Expect = 3e-22
Identities = 37/174 (21%), Positives = 71/174 (40%), Gaps = 12/174 (6%)
Query: 40 TVGLKNKTHAVIIAL-KRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRM 95
T+ + + +I+A+ RA A A Q K++I I+ + + AG AD + ++
Sbjct: 3 TLAFRFQ-GGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61
Query: 96 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDA-GPHIYQTCP 154
+C ++ K+ + V I+ N + +Y +G ++ GY GP IY
Sbjct: 62 QCRLHELREKERISVAAASKILSNLV----YQYKGAGLSMGTMICGYTRKEGPTIYYVDS 117
Query: 155 SSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 208
+GS A L+ + S+E+ + G R++ D+
Sbjct: 118 DGTRLKGDIFCVGSGQTFAYGVLDSNYK--WDLSVEDALYLGKRSILAAAHRDA 169
>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 = 91.5 bits (227), Expect = 4e-22
Identities = 36/188 (19%), Positives = 72/188 (38%), Gaps = 14/188 (7%)
Query: 32 EAVKQGSATVGLKNKTHAVIIALKRAAS-ELAAHQ--KKIIVIDDHMGLSFAGLTADARI 88
+ G+ V LK V+ +R+ + + + +K+ + DD+ AG A A
Sbjct: 52 AQLPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVE 111
Query: 89 LARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYD----- 143
AR +E +Y+ L I+ + ++ + L+AGYD
Sbjct: 112 FARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAA-MQGLLALPLLAGYDIHASD 170
Query: 144 -DAGPHIYQTCPSSNYYDVKAM--AIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRAL 200
+ I + + + A+GS S A++ ++K + + ++ + AL
Sbjct: 171 PQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYS--QVTDGDSGLRVAVEAL 228
Query: 201 RDTLPNDS 208
D +DS
Sbjct: 229 YDAADDDS 236
>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 = 88.7 bits (220), Expect = 2e-21
Identities = 42/229 (18%), Positives = 81/229 (35%), Gaps = 20/229 (8%)
Query: 40 TVGLKNKTHAVIIALKRAASELA-AHQ--KKIIVIDDHMGLSFAGLTADARILARFMRME 96
V L K ++ +RA A + +K+ V D++ AG A L R +E
Sbjct: 3 IVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVE 62
Query: 97 CLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDA------GPHIY 150
+Y+ L + + + ++ + V L+ GYD I
Sbjct: 63 LEHYEKIEGVPLTFDGKANRLASMVR-GNLGAAMQGLAVVPLLVGYDLDADDESRAGRIV 121
Query: 151 QTCPSSNYYDVKA--MAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 208
Y+ +A A+GS S A++ L+K + P++ E ++ + +L D +DS
Sbjct: 122 SYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYS--PDSDEETALRAAIESLYDAADDDS 179
Query: 209 ------ELTTKNVSIGLVGQNQKFKTLDERETGHYLSLIEGEERRGGGG 251
+ + Q +E + ++ +GG
Sbjct: 180 ATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVAERTEQGGSA 228
Score = 84.2 bits (209), Expect = 5e-20
Identities = 12/175 (6%), Positives = 25/175 (14%), Gaps = 13/175 (7%)
Query: 40 TVGLKNKTHAVIIAL-KRAAS-ELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRM 95
+ + + +G++ A ++
Sbjct: 4 MQMVPPS-AYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKL 62
Query: 96 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYD-DAGPHIYQTCP 154
+ + R + + I
Sbjct: 63 VKIRSIEKIFQIDDHVAAATSGLVAD----ARVLIDRARLEAQIYRLTYGEEISIEMLAK 118
Query: 155 SSNYYDVKA-MAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 208
G R + EA L E G S
Sbjct: 119 KICDIKQAYTQHGGVRPFGVSLLIAGIDK--NEARLFETDPSGALIEYKATAIGS 171
>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 = 81.9 bits (203), Expect = 4e-19
Identities = 33/175 (18%), Positives = 69/175 (39%), Gaps = 8/175 (4%)
Query: 32 EAVKQGSATVGLKNKTHAVIIALKRAASE--LAAHQ--KKIIVIDDHMGLSFAGLTADAR 87
+ G++ +G+K + V+IA S LA + +I+ +++ L +G AD +
Sbjct: 3 NPMVTGTSVLGVKFE-GGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQ 61
Query: 88 ILARFMRMECLNYKYA-HKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAG 146
L + + ++ + + + S + M ++R P +++ GY D
Sbjct: 62 YLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMY--SRRSKMNPLWNTMVIGGYADGE 119
Query: 147 PHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALR 201
+ Y+ ++A G + A+ L + L P S E R +R
Sbjct: 120 SFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMR 174
>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 = 79.9 bits (198), Expect = 1e-18
Identities = 28/174 (16%), Positives = 56/174 (32%), Gaps = 14/174 (8%)
Query: 40 TVGLKNKTHAVIIAL-KRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRM 95
+ ++ V++ R A ++ K+ + + + +G ADA+ +A
Sbjct: 3 IMAVEFD-GGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAY 61
Query: 96 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKR-PYGVGLLVAGYDDAGPHIYQTCP 154
+ + ++ V ++V N Y R L+VAG+D
Sbjct: 62 QLELHGLELEEPPLVLAAANVVKNIS------YKYREDLLAHLIVAGWDQREGGQVYGTM 115
Query: 155 SSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 208
GS S Y++ P + EE + A+ + D
Sbjct: 116 GGMLIRQPFTIGGSGSSYIYGYVDAAYK--PGMTPEECRRFTTNAITLAMNRDG 167
>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 = 79.6 bits (197), Expect = 2e-18
Identities = 28/175 (16%), Positives = 57/175 (32%), Gaps = 15/175 (8%)
Query: 40 TVGLKNKTHAVIIALKRAASE--LAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRM 95
+ ++ V++ + A++ K+ I D + +G AD + +A +
Sbjct: 3 IMAVQFD-GGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61
Query: 96 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKR-PYGVGLLVAGYDD-AGPHIYQTC 153
+ + + V S+ Y R G+++AG+D G +Y
Sbjct: 62 QLGFHSIELNEPPLVHTAASLFKEMC------YRYREDLMAGIIIAGWDPQEGGQVYSVP 115
Query: 154 PSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 208
GS S Y++ + EE ++ AL + D
Sbjct: 116 MGGMMVRQSFAIGGSGSSYIYGYVDATYR--EGMTKEECLQFTANALALAMERDG 168
>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 = 78.4 bits (194), Expect = 4e-18
Identities = 33/168 (19%), Positives = 60/168 (35%), Gaps = 11/168 (6%)
Query: 40 TVGLKNKTHAVIIAL-KRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRM 95
+G++ + +VI+A K K + H +SFAG D A +++
Sbjct: 4 ILGIRVQ-DSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62
Query: 96 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDA--GPHIYQTC 153
Y L + S V ++ + PY V +L+ GYD P +YQ
Sbjct: 63 NIQLYSIREDYELSPQAVSSFVRQELAKSIRSRR--PYQVNVLIGGYDKKKNKPELYQID 120
Query: 154 PSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALR 201
++ A G + L+ P+ + EE + ++
Sbjct: 121 YLGTKVELPYGAHGYSGFYTFSLLDHHYR--PDMTTEEGLDLLKLCVQ 166
>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 = 76.5 bits (189), Expect = 3e-17
Identities = 34/181 (18%), Positives = 65/181 (35%), Gaps = 16/181 (8%)
Query: 34 VKQGSATVGLKNKTHAVIIALKRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILA 90
V G++ + + K ++ A R A++ K+ + D + +G AD + +A
Sbjct: 6 VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65
Query: 91 RFMRMECLNYKYAHKDTLPVFRLISIVGNKM--QVCTQRYDKRPYGVGLLVAGYDDA-GP 147
++ Y + + + ++C + K G++VAGYDD
Sbjct: 66 DIVQYHLELYTSQYG------TPSTETAASVFKELCYEN--KDNLTAGIIVAGYDDKNKG 117
Query: 148 HIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPND 207
+Y + + + GS S Y +K S EE V +L + D
Sbjct: 118 EVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFR--ENMSKEETVDFIKHSLSQAIKWD 175
Query: 208 S 208
Sbjct: 176 G 176
>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 = 75.7 bits (187), Expect = 5e-17
Identities = 34/167 (20%), Positives = 62/167 (37%), Gaps = 10/167 (5%)
Query: 40 TVGLKNKTHAVIIALKRAASE--LAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRM 95
+G++ V++A R A+ + K+ + + + L G D A +++
Sbjct: 4 LIGIQGP-DYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62
Query: 96 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDA-GPHIYQTCP 154
YK + L + + C + PY V LL+AGYD+ GP +Y
Sbjct: 63 NVQLYKMRNGYELSPTAAANFTRRNLADCLRSRT--PYHVNLLLAGYDEHEGPALYYMDY 120
Query: 155 SSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALR 201
+ A G + + L++ P S E V+ + L
Sbjct: 121 LAALAKAPFAAHGYGAFLTLSILDRYYT--PTISRERAVELLRKCLE 165
>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 = 74.6 bits (184), Expect = 2e-16
Identities = 29/181 (16%), Positives = 63/181 (34%), Gaps = 19/181 (10%)
Query: 34 VKQGSATVGLKNKTHAVIIALKRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILA 90
V G + + + A++ + R + K + D + +G D L
Sbjct: 6 VFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLT 65
Query: 91 RFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKR--PYGVGLLVAGYDDAG-P 147
+ + YK+++ + + +++ + Y +R PY V ++ G D+ G
Sbjct: 66 KIIEARLKMYKHSNNKAMTTGAIAAMLSTIL------YSRRFFPYYVYNIIGGLDEEGKG 119
Query: 148 HIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADF-------PEASLEEIVKHGLRAL 200
+Y P +Y A GS S + L+ ++ SL+ ++
Sbjct: 120 AVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVF 179
Query: 201 R 201
Sbjct: 180 I 180
>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 = 75.5 bits (186), Expect = 2e-16
Identities = 29/177 (16%), Positives = 64/177 (36%), Gaps = 14/177 (7%)
Query: 37 GSATVGLKNKTHAVIIALKRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFM 93
G++ + +K +I A L +++I + D+ + +G +D + + R +
Sbjct: 41 GTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 100
Query: 94 RMECLNYKY-----AHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPH 148
+ Y ++ L + + M +R P ++VAG G
Sbjct: 101 KDLVTENAYDNPLADAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQ 158
Query: 149 -IYQTCPSSNYYDVKAMAIGSRSQSARTYLE---KRLADFPEASLEEIVKHGLRALR 201
+ Y +A G + A L R +D P+ +++ + + A+R
Sbjct: 159 FLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMR 215
>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 = 74.3 bits (183), Expect = 4e-16
Identities = 30/187 (16%), Positives = 67/187 (35%), Gaps = 22/187 (11%)
Query: 31 MEAVKQGSATVGLKNKTHAVIIALKRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADAR 87
+ + G++ + +K +I A L +++I + D+ + +G +D +
Sbjct: 2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQ 61
Query: 88 ILARFMRMECLNYKY-----AHKDTLPVFRLISIVGNKMQVCTQRYDKR----PYGVGLL 138
+ R ++ Y ++ L + + M Y +R P ++
Sbjct: 62 HIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVM------YQRRSKMNPLWNAII 115
Query: 139 VAGYDDAGPH-IYQTCPSSNYYDVKAMAIGSRSQSARTYLE---KRLADFPEASLEEIVK 194
VAG G + Y +A G + A L R +D P+ +++ +
Sbjct: 116 VAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEE 175
Query: 195 HGLRALR 201
+ A+R
Sbjct: 176 AIVNAMR 182
>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 = 73.1 bits (180), Expect = 8e-16
Identities = 33/150 (22%), Positives = 63/150 (42%), Gaps = 11/150 (7%)
Query: 37 GSATVGLKNKTHAVIIALKRAASE---LAAHQKKIIVIDDHMGLSFAGLTADARILARFM 93
G +G+ + AV+ R ++ + ++ K+ D++ +S G AD L +
Sbjct: 9 GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68
Query: 94 RMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKR--PYGVGLLVAGYDDAG-PHIY 150
+ Y + H D + +SI + Y KR PY V ++AG D+ G +Y
Sbjct: 69 KNSVKWYHFDHND-----KKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVY 123
Query: 151 QTCPSSNYYDVKAMAIGSRSQSARTYLEKR 180
P +Y + A G+ + +L+ +
Sbjct: 124 SFDPVGSYEREQCRAGGAAASLIMPFLDNQ 153
>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 = 72.6 bits (179), Expect = 9e-16
Identities = 36/181 (19%), Positives = 70/181 (38%), Gaps = 18/181 (9%)
Query: 37 GSATVGLKNKTHAVIIALKRAASE----LAAHQKKIIVIDDHMGLSFAGLTADARILARF 92
G A + +K K + V IA R + +KI + D + + AGL D + +A+
Sbjct: 8 GGAVMAMKGK-NCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQR 66
Query: 93 MRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKR--PYGVGLLVAGYDD--AGPH 148
++ Y+ + + L+S+V N + Y+KR PY ++AG D P
Sbjct: 67 LKFRLNLYELKEGRQIKPYTLMSMVANLL------YEKRFGPYYTEPVIAGLDPKTFKPF 120
Query: 149 IYQTCPSSNYYDVKA-MAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPND 207
I + G+ ++ E P + + + +A+ + + D
Sbjct: 121 ICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLW--EPNMDPDHLFETISQAMLNAVDRD 178
Query: 208 S 208
+
Sbjct: 179 A 179
>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 = 71.5 bits (176), Expect = 2e-15
Identities = 38/181 (20%), Positives = 62/181 (34%), Gaps = 19/181 (10%)
Query: 37 GSATVGLKNKTHAVIIALKRAASE----LAAHQKKIIVIDDHMGLSFAGLTADARILARF 92
G V + K V IA ++ +KI H+ L GL D L
Sbjct: 8 GGIVVAMTGK-DCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEM 65
Query: 93 MRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKR--PYGVGLLVAGYDDAG--PH 148
R + YK + + +V + + Y++R PY VG +VAG + P
Sbjct: 66 FRYKTNLYKLKEERAIEPETFTQLVSSSL------YERRFGPYFVGPVVAGINSKSGKPF 119
Query: 149 IYQTCPSSNYYDVKAMAI-GSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPND 207
I + K + G+ S E P E++ + +AL + D
Sbjct: 120 IAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYE--PNLEPEDLFETISQALLNAADRD 177
Query: 208 S 208
+
Sbjct: 178 A 178
>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 = 47.4 bits (112), Expect = 2e-06
Identities = 49/312 (15%), Positives = 87/312 (27%), Gaps = 126/312 (40%)
Query: 7 FRNQYDSDVTVWSPQGRLHQVEYA-MEAVKQGSATV-----G----------LKN--KTH 48
+N + + P + A AV +G+A + G L++ +T+
Sbjct: 123 IKNYITARIMAKRPFDKKS--NSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 49 AVIIA--LKRAA---SELAAHQKKIIVIDDHMGL-----------------------SF- 79
V++ +K +A SEL + GL S
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQ-GLNILEWLENPSNTPDKDYLLSIPISCP 239
Query: 80 -AGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLL 138
G+ LA ++ + + + + +Q GL+
Sbjct: 240 LIGVIQ----LAHYVVT-AKLLGFTPGELRSYLKGAT-------GHSQ---------GLV 278
Query: 139 VAGYDDAGPHIYQTCPSS-----NYYD--VKAMA----IGSRSQSA--RTYLE-KRLADF 184
A + +++ KA+ IG R A T L L D
Sbjct: 279 TA-----------VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDS 327
Query: 185 PEA--------------SLEEIVKHGLRALRDTLPNDSELTTKNVSIGLVGQN--QKFKT 228
E + E++ + + LP K V I LV N +
Sbjct: 328 LENNEGVPSPMLSISNLTQEQVQDY-VNKTNSHLPAG-----KQVEISLV--NGAKNL-V 378
Query: 229 LDERETGHYLSL 240
+ +G SL
Sbjct: 379 V----SGPPQSL 386
Score = 39.6 bits (92), Expect = 7e-04
Identities = 44/274 (16%), Positives = 75/274 (27%), Gaps = 111/274 (40%)
Query: 36 QGSATVG----LKNKTHAVIIALKRAASELAAHQKKIIVIDDHM----GLS--------- 78
QGS G L + A RA D+H G S
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWNRA--------------DNHFKDTYGFSILDIVINNP 1669
Query: 79 ------FAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVG------------NK 120
F G RI + M T +F+ I+ +
Sbjct: 1670 VNLTIHFGGEKG-KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSA 1728
Query: 121 MQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQ--------- 171
Q TQ P L + A ++ D+K+ +
Sbjct: 1729 TQF-TQ-----P---ALTLMEK--A---AFE--------DLKSKGLIPADATFAGHSLGE 1766
Query: 172 -SARTYLEKRLADFPEA-SLE---EIVKH-GLRALRDTLPNDSELTTKNVSIGLVGQNQK 225
+A LA + S+E E+V + G ++ +P D EL N + + +
Sbjct: 1767 YAA-------LASLADVMSIESLVEVVFYRG-MTMQVAVPRD-ELGRSNYGMIAINPGRV 1817
Query: 226 FKTLDE-----------RETGHYLSL----IEGE 244
+ + + TG + + +E +
Sbjct: 1818 AASFSQEALQYVVERVGKRTGWLVEIVNYNVENQ 1851
Score = 38.1 bits (88), Expect = 0.002
Identities = 35/194 (18%), Positives = 60/194 (30%), Gaps = 81/194 (41%)
Query: 9 NQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQ--- 65
N++ + T S +G L ++ Q AL E AA +
Sbjct: 1711 NEHSTSYTFRSEKGLLSATQFT-----Q---------------PAL--TLMEKAAFEDLK 1748
Query: 66 -KKIIVIDDHM-GLS---FAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNK 120
K +I D G S +A L + A +++ + + ++ G
Sbjct: 1749 SKGLIPADATFAGHSLGEYAALASLADVMS-I------------ESLV---EVVFYRGMT 1792
Query: 121 MQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKR 180
MQV R D+ G SNY M + + A
Sbjct: 1793 MQVAVPR---------------DELG--------RSNY----GMIAINPGRVA------- 1818
Query: 181 LADFPEASLEEIVK 194
A F + +L+ +V+
Sbjct: 1819 -ASFSQEALQYVVE 1831
Score = 30.8 bits (69), Expect = 0.49
Identities = 20/116 (17%), Positives = 31/116 (26%), Gaps = 41/116 (35%)
Query: 20 PQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQKKI----------- 68
P+ L + Y M A+ G + AL+ + +
Sbjct: 1798 PRDELGRSNYGMIAINPGRVAASFSQE------ALQYVVERVGKRTGWLVEIVNYNVENQ 1851
Query: 69 -IVIDDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQV 123
V AG D R L LN+ K I I+ ++Q
Sbjct: 1852 QYVA--------AG---DLRALDTV--TNVLNFIKLQK--------IDII--ELQK 1884
Score = 28.9 bits (64), Expect = 1.9
Identities = 26/118 (22%), Positives = 38/118 (32%), Gaps = 25/118 (21%)
Query: 43 LKNKTHAVIIALKRAASELAAHQKKIIVIDDHMGLSFAGLTADARILARFMRMECLNYKY 102
L + + L + A +I V D G L+ I R +
Sbjct: 432 LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGS--ISERIVDCII----- 484
Query: 103 AHKDTLPV-------FRLISIV----GNKMQVC--TQRYDKRPYGVGLLVAGYDDAGP 147
LPV F+ I+ G + T R +K GV ++VAG D P
Sbjct: 485 ----RLPVKWETTTQFKATHILDFGPGGASGLGVLTHR-NKDGTGVRVIVAGTLDINP 537
>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 = 46.8 bits (110), Expect = 4e-06
Identities = 32/276 (11%), Positives = 83/276 (30%), Gaps = 75/276 (27%)
Query: 2 NVYW-KFRNQYDSDVTVWSPQGRLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAASE 60
++W +N + + Q L+Q++ + + + +K + H++ L+R
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTS--RSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 61 LAAHQKKIIVIDDHMGLSFAGLTADARILARF--------------------------MR 94
++ ++V+ + +A+ F +
Sbjct: 241 -KPYENCLLVLLN---------VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290
Query: 95 MECLNYKYAHKDTLPVFRLISIVGNKM-----QVCTQRYDKRPYGVGLLVAGYDDAGPHI 149
++ + + + + + + +V T P + ++ D G
Sbjct: 291 LDHHSMTLTPDEVKSLL--LKYLDCRPQDLPREVLT----TNPRRLSIIAESIRD-GLAT 343
Query: 150 YQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTL---PN 206
+ + + +L E+SL + R + D L P
Sbjct: 344 WD------NW--------------KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 207 DSELTTKNVSIGLVGQNQKFKTLDERETGHYLSLIE 242
+ + T +S+ + K + H SL+E
Sbjct: 384 SAHIPTILLSL-IWFDVIKSDVMVVVNKLHKYSLVE 418
Score = 37.1 bits (85), Expect = 0.004
Identities = 38/281 (13%), Positives = 69/281 (24%), Gaps = 120/281 (42%)
Query: 1 MNVYWKFRNQYDSDVTVWSPQG--RLHQVEYAMEAVKQGSATVGLKNKTHAVIIALKRAA 58
+Y + R++ +D V++ RL L++A
Sbjct: 109 TRMYIEQRDRLYNDNQVFAKYNVSRLQPYL------------------------KLRQAL 144
Query: 59 SELAAHQKKIIVIDDHMGLSFAG---LTADARILARFMRMEC--------LNYKYAHKDT 107
EL K +++ G+ +G + D +++C LN K +
Sbjct: 145 LELR-PAKNVLI---D-GVLGSGKTWVALDV---CLSYKVQCKMDFKIFWLNLKNCNSPE 196
Query: 108 LPVFRLISIVGNKMQVCTQRYD---------------------KRPYGVGLLVAGYDDAG 146
+ L ++ T R D +PY LLV +
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV--LLNV- 253
Query: 147 PHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPN 206
N A + + L
Sbjct: 254 ---------QNAKAWNAFNLSCK---------------------------------IL-- 269
Query: 207 DSELTTKNVSI--GLVGQNQKFKTLDERETGHYLSLIEGEE 245
LTT+ + L +LD L+ E +
Sbjct: 270 ---LTTRFKQVTDFLSAATTTHISLDHHSMT--LTPDEVKS 305
Score = 30.2 bits (67), Expect = 0.71
Identities = 29/242 (11%), Positives = 69/242 (28%), Gaps = 67/242 (27%)
Query: 7 FRNQYDS------DVTVWSPQGRL-----HQVEYAMEAVKQGSATVGLKNKT-------- 47
+R +D + P L ++ + V L K
Sbjct: 371 YRKMFDRLSVFPPSAHI--PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI 428
Query: 48 HAVIIALKRAASELAAHQKKII----VIDDHMGLSFAGLTADARILARFMRMECLNYKYA 103
++ + LK A + I+ + D Y Y+
Sbjct: 429 PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD-------------QYFYS 475
Query: 104 H----------KDTLPVFRLI----SIVGNKMQVCTQRYDKRPYGVGLL--VAGYDDAGP 147
H + + +FR++ + K++ + ++ + L + Y
Sbjct: 476 HIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP--- 532
Query: 148 HIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPND 207
+I C + Y+ AI +L K + + ++++ L A + + +
Sbjct: 533 YI---CDNDPKYERLVNAIL-------DFLPKIEENLICSKYTDLLRIALMAEDEAIFEE 582
Query: 208 SE 209
+
Sbjct: 583 AH 584
>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine
residue, hydrolase; 2.10A {Thermotoga maritima} SCOP:
d.153.1.4
Length = 171
Score = 35.3 bits (81), Expect = 0.007
Identities = 29/139 (20%), Positives = 46/139 (33%), Gaps = 13/139 (9%)
Query: 61 LAAHQKKIIVIDDHMGLS-FAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGN 119
L + +K+ + + L+ FAG ADA L + + + + +
Sbjct: 27 LKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWG------GNLTKAAVELAK 80
Query: 120 KMQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEK 179
T R +R + L+ D I D A AIGS A K
Sbjct: 81 DW--RTDRVLRRLEALLLVA---DKENIFIISGNGEVIQPDDDAAAIGSGGPYALAA-AK 134
Query: 180 RLADFPEASLEEIVKHGLR 198
L + S EIV+ +
Sbjct: 135 ALLRNTDLSAREIVEKAMT 153
>1ixs_A Holliday junction DNA helicase RUVA; heterodimeric protein complex,
AAA-ATPase domain, complex with nucleotide, hydrolase;
HET: ANP; 3.20A {Thermus thermophilus} SCOP: a.5.1.1
Length = 62
Score = 32.3 bits (73), Expect = 0.018
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 164 MAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALR 201
A+G + AR + LA P+A ++++K L+ LR
Sbjct: 25 AALGFKEAQARAVVLDLLAQNPKARAQDLIKEALKRLR 62
>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 = 31.5 bits (71), Expect = 0.15
Identities = 24/134 (17%), Positives = 47/134 (35%), Gaps = 12/134 (8%)
Query: 66 KKIIVIDDHMGLS-FAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVC 124
+K+ + + L+ FAG TADA L + ++ + + +
Sbjct: 32 RKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQ------GHLLKSAVELAK--DWR 83
Query: 125 TQRYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADF 184
T R ++ + ++ + + +AIGS A + + +
Sbjct: 84 TDRALRKLEAMLIVADEKESLIITGIGDVVQPEEDQI--LAIGSGGNYALSAARALV-EN 140
Query: 185 PEASLEEIVKHGLR 198
E S EIV+ LR
Sbjct: 141 TELSAHEIVEKSLR 154
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex,
octameric RUVA, AAA-ATPase domain, complex with
nucleotide, hydrolase; HET: ANP; 3.30A {Thermus
thermophilus} SCOP: a.60.2.1 b.40.4.2
Length = 191
Score = 29.8 bits (68), Expect = 0.50
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 164 MAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALR 201
A+G + AR + LA P+A ++++K L+ LR
Sbjct: 154 AALGFKEAQARAVVLDLLAQNPKARAQDLIKEALKRLR 191
>3zs7_A Pyridoxal kinase; transferase, sleeping sickness; HET: ATP; 2.00A
{Trypanosoma brucei}
Length = 300
Score = 29.4 bits (66), Expect = 1.2
Identities = 5/28 (17%), Positives = 10/28 (35%)
Query: 65 QKKIIVIDDHMGLSFAGLTADARILARF 92
+K ++ I + + G A L
Sbjct: 3 EKTVLSIQSFVTHGYVGNKAATFPLQLH 30
>3ebh_A PFA-M1, M1 family aminopeptidase; hydrolase, metal-binding,
metalloprotease, P hydrolase inhibitor; HET: BES; 1.65A
{Plasmodium falciparum} PDB: 3ebg_A* 3ebi_A* 3q43_A*
3q44_A* 3t8v_A*
Length = 889
Score = 28.3 bits (63), Expect = 2.6
Identities = 5/23 (21%), Positives = 17/23 (73%)
Query: 14 DVTVWSPQGRLHQVEYAMEAVKQ 36
++ V+S + + ++++A+E +K+
Sbjct: 214 ELYVFSEEKYVSKLQWALECLKK 236
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination,
branch migration, DNA BIND oligomerization, acidic PIN;
2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A
2h5x_A 1bvs_A
Length = 212
Score = 27.6 bits (62), Expect = 3.7
Identities = 7/37 (18%), Positives = 16/37 (43%)
Query: 164 MAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRAL 200
+ +G ++ A + LA +A+ ++ L L
Sbjct: 172 VGLGFAAKQAEEATDTVLAANHDATTSSALRSALSLL 208
>3b34_A Aminopeptidase N; protease, hydrolase, thermolysin, phenylal
membrane, metal-binding, metalloprotease; HET: PHE;
1.30A {Escherichia coli K12} PDB: 2hpt_A* 3b2p_A*
2hpo_A* 3b2x_A* 3b37_A* 3b3b_A* 3ked_A* 3qjx_A 3puu_A
2dq6_A 2dqm_A* 2zxg_A*
Length = 891
Score = 27.6 bits (61), Expect = 4.4
Identities = 6/33 (18%), Positives = 17/33 (51%)
Query: 5 WKFRNQYDSDVTVWSPQGRLHQVEYAMEAVKQG 37
+ R+ + + ++ +G L + +AM ++K
Sbjct: 222 FTTRSGREVALELYVDRGNLDRAPWAMTSLKNS 254
>1yad_A Regulatory protein TENI; TIM barrel, transcription; 2.10A
{Bacillus subtilis} PDB: 3qh2_A*
Length = 221
Score = 27.2 bits (61), Expect = 4.4
Identities = 8/57 (14%), Positives = 24/57 (42%), Gaps = 6/57 (10%)
Query: 20 PQGRLHQVEYAMEAVKQGSATVGL--KNKTHAVIIALKRAASELAAHQKKIIVIDDH 74
P L ++ ++ + + ++K+ A I+ L E ++K++ ++
Sbjct: 28 PVEELARII---ITIQNEVDFIHIRERSKSAADILKLLDLIFEGGIDKRKLV-MNGR 80
>2yxt_A Pyridoxal kinase; beta sheet with alpha helix, metal ION,
transferase; 2.00A {Homo sapiens} PDB: 2yxu_A* 3kbi_A*
3keu_A* 4en4_A* 4eoh_A* 2f7k_A 3fhy_A* 3fhx_A* 2ajp_A*
1lhp_A 1lhr_A* 1rft_A* 1rfu_A* 1rfv_A* 1ygj_A* 1ygk_A*
1yhj_A*
Length = 312
Score = 27.5 bits (61), Expect = 4.9
Identities = 5/28 (17%), Positives = 11/28 (39%)
Query: 65 QKKIIVIDDHMGLSFAGLTADARILARF 92
+ +++ I H+ + G A L
Sbjct: 4 ECRVLSIQSHVIRGYVGNRAATFPLQVL 31
>1xah_A Sadhqs, 3-dehydroquinate synthase; shikimate pathway, aromatic
amino acid biosynthesis, open form, form B, domain
movement, cyclase; HET: NAD; 2.20A {Staphylococcus
aureus} PDB: 1xag_A* 1xai_A* 1xaj_A* 1xal_A*
Length = 354
Score = 27.2 bits (61), Expect = 5.1
Identities = 4/38 (10%), Positives = 15/38 (39%), Gaps = 3/38 (7%)
Query: 40 TVGLKNKTHAVIIA---LKRAASELAAHQKKIIVIDDH 74
+ + + + +K + L + ++ID++
Sbjct: 4 QTTYPSNNYPIYVEHGAIKYIGTYLNQFDQSFLLIDEY 41
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 27.2 bits (59), Expect = 5.8
Identities = 11/59 (18%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 23 RLHQVEYAMEAVKQGSATVGLKN---KTH-AVIIALKRAASELAAHQKKIIVIDDHMGL 77
R +Q+E A A+ +A + KT +++I + A + K++ + + +
Sbjct: 250 RSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPV 308
>2iss_D Glutamine amidotransferase subunit PDXT; (beta/alpha)8-barrel,
alpha/beta three layer sandwich, lyase transferase; HET:
5RP; 2.90A {Thermotoga maritima}
Length = 208
Score = 26.7 bits (59), Expect = 6.0
Identities = 12/52 (23%), Positives = 19/52 (36%), Gaps = 4/52 (7%)
Query: 48 HAVIIALKRAASELAAHQKKIIVI---DDHMGLSF-AGLTADARILARFMRM 95
A I E+ A V+ + + +F LT D R+ F+ M
Sbjct: 155 RAPRIVETGKNVEILATYDYDPVLVKEGNILACTFHPELTDDLRLHRYFLEM 206
>2gtq_A Aminopeptidase N; alanine aminopeptidase, M1 family peptidas PSI-2,
structural genomics, protein structure initiative; 2.05A
{Neisseria meningitidis}
Length = 867
Score = 27.2 bits (60), Expect = 6.7
Identities = 5/33 (15%), Positives = 17/33 (51%)
Query: 4 YWKFRNQYDSDVTVWSPQGRLHQVEYAMEAVKQ 36
Y+ + + + ++ + +V +A+E++K
Sbjct: 196 YFTTMSGRNVKIEFYTTEADKPKVGFAVESLKN 228
>3pzs_A PM kinase, pyridoxamine kinase; structural genomics, center for
structural genomics of infec diseases, csgid,
transferase; HET: MSE; 1.89A {Yersinia pestis} PDB:
1td2_A* 1vi9_A*
Length = 289
Score = 27.0 bits (60), Expect = 6.8
Identities = 8/31 (25%), Positives = 13/31 (41%)
Query: 62 AAHQKKIIVIDDHMGLSFAGLTADARILARF 92
+ K I+ I H+ AG +A + R
Sbjct: 1 SNAMKNILSIQSHVVFGHAGNSAAEFPMRRM 31
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 0.134 0.392
Gapped
Lambda K H
0.267 0.0443 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,891,474
Number of extensions: 234600
Number of successful extensions: 713
Number of sequences better than 10.0: 1
Number of HSP's gapped: 604
Number of HSP's successfully gapped: 77
Length of query: 251
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 160
Effective length of database: 4,160,982
Effective search space: 665757120
Effective search space used: 665757120
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 (21.7 bits)
S2: 56 (26.1 bits)