RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5094
(251 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 = 358 bits (922), Expect = e-127
Identities = 179/241 (74%), Positives = 204/241 (84%), Gaps = 1/241 (0%)
Query: 1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
MFLTRSEYDRGVNTFSPEGRLFQVEY IEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct: 1 MFLTRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60
Query: 61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE NHWFTY+E M +ESV QAVSNLA
Sbjct: 61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120
Query: 121 IQFG-DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
+QFG + + AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180
Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
LQE+YH+SMTLKEAI L ILKQVMEEKLN+TN+EL TV + +H+++KEELEE +
Sbjct: 181 LQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD 240
Query: 240 V 240
+
Sbjct: 241 I 241
>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 = 339 bits (872), Expect = e-119
Identities = 75/237 (31%), Positives = 128/237 (54%), Gaps = 5/237 (2%)
Query: 5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI 64
Y + TFSP G+L Q+EYA+ A+ G+ ++GI + GVVLA EK+ S+L + S+
Sbjct: 2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSV 61
Query: 65 KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
K+ I KHIG SG+ D R+L RAR ++ Y E + + Q V+++ ++
Sbjct: 62 HKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYT 121
Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
+S RPFGV++L G + P LF DPSG Y + A A+G + L++ Y
Sbjct: 122 ----QSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRY 177
Query: 185 HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVS 241
+E + L++AI+ + LK+ E ++ N+E+ + + E+++ L+ ++
Sbjct: 178 NEDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAAIA 233
>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 = 330 bits (848), Expect = e-116
Identities = 91/237 (38%), Positives = 145/237 (61%), Gaps = 4/237 (1%)
Query: 1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
M + Y R + FSP+GRLFQVEYA EA+K GSTA+G+ + GV+L ++K++ S L+E
Sbjct: 1 MQQGQMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIE 60
Query: 61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
+SI+KI ID ++ SGL+AD+R+L D AR+ TY ++IE++ + V++
Sbjct: 61 QNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQM 120
Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
Q+ + RP+GV+++FAG+D GP+LF DP+GT ++ A AIGSG + L
Sbjct: 121 QQYT----QYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFL 176
Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEEL 237
+ Y E++ KEA+ + LK +EE E+ ++T Y +Y +EE+++ L
Sbjct: 177 EREYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233
>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 = 328 bits (842), Expect = e-115
Identities = 137/236 (58%), Positives = 173/236 (73%), Gaps = 3/236 (1%)
Query: 9 DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIV 68
DRGV+TFSPEGRLFQVEY++EAIKLGSTAIGI+T EGVVL EKR TS L+E SI+KIV
Sbjct: 1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60
Query: 69 EIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG--DS 126
EID+HIGCA SGL AD+R + + AR H YDE +++ES+ Q+V +LA++FG S
Sbjct: 61 EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120
Query: 127 DEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
EE MSRPFGVA+L AG D+ G QLFH +PSGT+ +++AKAIGSGSEGAQ L +H
Sbjct: 121 GEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWH 180
Query: 186 ESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVS 241
S+TLKEA VL ILKQVMEEKL+ N +L +T + +Y E+ E + ++
Sbjct: 181 SSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELK 236
>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 = 326 bits (837), Expect = e-114
Identities = 67/247 (27%), Positives = 133/247 (53%), Gaps = 10/247 (4%)
Query: 1 MFL-TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGISTSEGVVLAAEKRITSVL 58
M + + +DR + FSPEGRL+QVEYA +AI G T++ + + V+ +K++ L
Sbjct: 1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60
Query: 59 MEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSN 118
++ S++ + +I ++IGC +G+ ADSR RAR E AN + Y ++ ++ + + +++
Sbjct: 61 LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120
Query: 119 LAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQ 177
++ + ++A RP G M+ G+D +GPQ++ DP+G Y F A A G +
Sbjct: 121 ISQVYT----QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTEST 176
Query: 178 QSLQEVYHES--MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD-KMYHLYSKEELE 234
L++ + T ++ + +T L V+ + +E+ VT + + + ++ E++
Sbjct: 177 SFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEID 236
Query: 235 EELSKVS 241
L ++
Sbjct: 237 AHLVALA 243
>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A
{Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A*
Length = 246
Score = 323 bits (831), Expect = e-113
Identities = 93/242 (38%), Positives = 148/242 (61%), Gaps = 6/242 (2%)
Query: 1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
M L + YDR + FSP+GRLFQVEYA EA+K G+TAIGI EGV+L A+KR+ S L+E
Sbjct: 1 MHLPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLE 60
Query: 61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
+I+KI +ID+HI A SGL+AD+R+L DRAR+E + TYD + ++ +A+ + +
Sbjct: 61 KDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFK 120
Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
Q+ + RPFGV++L AG++ + P+L+ DPSG ++ A AIG G +
Sbjct: 121 QQYT----QYGGVRPFGVSLLIAGVN-EVPKLYETDPSGALLEYKATAIGMGRMAVTEFF 175
Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD-KMYHLYSKEELEEELSK 239
++ Y + ++ +A+ L + +E +L N+E+ V D + + S EEL+ + +
Sbjct: 176 EKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVER 235
Query: 240 VS 241
+
Sbjct: 236 AN 237
>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 = 323 bits (829), Expect = e-113
Identities = 74/252 (29%), Positives = 130/252 (51%), Gaps = 21/252 (8%)
Query: 6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
Y + TFSP G+L Q++YA+ A+K G T++GI + GVV+A EK+ +S L ++
Sbjct: 3 DRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLS 62
Query: 66 KIVEIDKHIGCAASGLIADSRILTDRARVEC-ANHWFTYDEKMDIESVAQAVSNLAIQFG 124
K+ + IG SG+ D R+L D++R ++ Y E + + V+ + +
Sbjct: 63 KVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEAT 122
Query: 125 DSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
+S RPFGV++L AG D G L+ +DPSG+Y + A AIG GS A+ L++
Sbjct: 123 ----QSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKR 178
Query: 184 YHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD---------------KMYHLY 228
+++ + L++AI+ L LK+ +E + N +EL + + +
Sbjct: 179 WNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKL 238
Query: 229 SKEELEEELSKV 240
+ +E+ + L +
Sbjct: 239 TSQEINDRLEAL 250
>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 = 322 bits (828), Expect = e-112
Identities = 65/245 (26%), Positives = 124/245 (50%), Gaps = 14/245 (5%)
Query: 6 SEYDRGVNTFSPEGRLFQVEYAIEAIK-LGSTAIGISTSEGVVLAAEKRITSVLMEPSSI 64
+ YDR + FSPEGRL+QVEYA +A ++ + + V+ ++K++ L++P+++
Sbjct: 1 AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60
Query: 65 KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
I I + IG +G I D+R RA+ E A + Y M + +A+ ++NL+ +
Sbjct: 61 SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120
Query: 125 DSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
+ A RP GV + F +D + GP ++ DP+G Y + A A G + +L+
Sbjct: 121 ----QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENH 176
Query: 184 YHES-------MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEE 236
+ +S + ++ + +T + + + + ++E+ T DK + S E +EE
Sbjct: 177 FKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDK-FFTLSAENIEER 235
Query: 237 LSKVS 241
L ++
Sbjct: 236 LVAIA 240
>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 = 318 bits (816), Expect = e-110
Identities = 79/244 (32%), Positives = 127/244 (52%), Gaps = 12/244 (4%)
Query: 1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
MF R++YD V +SP+GR+ Q+EYA+EA+K GS +G+ + VL A KR S L
Sbjct: 1 MF--RNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSEL-- 56
Query: 61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
+ KKI+ +D HIG + +GL AD+R+L + R EC + F +D + + + + +
Sbjct: 57 AAHQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKT 116
Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
+ RP+GV +L AG D GP +F PS Y A +IG+ S+ A+ L
Sbjct: 117 QIPT----QRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYL 172
Query: 181 QEVYHESM--TLKEAINHVLTILKQVME--EKLNSTNVELCTVTADKMYHLYSKEELEEE 236
+ E M L E + H L L++ + + L + NV + V D + +Y +++
Sbjct: 173 ERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPF 232
Query: 237 LSKV 240
L +
Sbjct: 233 LEGL 236
>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase,
protease, threonine protease; 4.10A {Methanocaldococcus
jannaschii}
Length = 264
Score = 315 bits (810), Expect = e-109
Identities = 98/241 (40%), Positives = 151/241 (62%), Gaps = 6/241 (2%)
Query: 1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
+ S YDR + FSPEGRL+QVEYA EA++ G+TAIGI+ +GVVLA ++RITS L++
Sbjct: 5 QMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVK 64
Query: 61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
SI+KI +ID H+ A SGL+AD+R+L DRAR+E + TY E++ IE +A+ + ++
Sbjct: 65 IRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIK 124
Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
+ + RPFGV++L AG+D +LF DPSG ++ A AIGSG + L
Sbjct: 125 QAYT----QHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELL 180
Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTA-DKMYHLYSKEELEEELSK 239
++ Y + +TL E + +T L + E+ + NV++C +T D + EE+++ + K
Sbjct: 181 EKEYRDDITLDEGLELAITALTKANED-IKPENVDVCIITVKDAQFKKIPVEEIKKLIEK 239
Query: 240 V 240
V
Sbjct: 240 V 240
>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 = 314 bits (808), Expect = e-109
Identities = 83/236 (35%), Positives = 142/236 (60%), Gaps = 9/236 (3%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
YDR + FSP+G LFQVEYA EA+K GSTA+G+ + VVL EK+ + L + +++KI
Sbjct: 3 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 62
Query: 68 VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
+D ++ A +GL AD+RI+ +RARVEC +H T ++ + +E + + +++L ++
Sbjct: 63 CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYT--- 119
Query: 128 EESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
+S RPFG++ L G D G P+L+ DPSGTY + A AIG G++ ++ L++ Y +
Sbjct: 120 -QSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTD 178
Query: 187 SMTLK--EAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
I V+ L +V++ N+EL + D+ + + EE+E+ ++++
Sbjct: 179 EAIETDDLTIKLVIKALLEVVQ--SGGKNIELAVMRRDQSLKILNPEEIEKYVAEI 232
>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 = 311 bits (798), Expect = e-108
Identities = 77/238 (32%), Positives = 121/238 (50%), Gaps = 11/238 (4%)
Query: 5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI 64
R+ YD TFSP GRLFQVEYA+EAIK GS +G+ ++ VL A KR L S
Sbjct: 2 RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQ 59
Query: 65 KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
KKI++ D+H+G + +GL D+R+L++ R +C ++ K+ +E + + A +
Sbjct: 60 KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNT 119
Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
+S RP+GV +L G D G L PSG T+ AIG+ S+GA+ L+
Sbjct: 120 ----QSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTL 175
Query: 185 HESM----TLKEAINHVLTILKQVM-EEKLNSTNVELCTVTADKMYHLYSKEELEEEL 237
+ E I + + Q + +E L N+ + V D + +Y E + + +
Sbjct: 176 DTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233
>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 = 310 bits (797), Expect = e-108
Identities = 80/242 (33%), Positives = 126/242 (52%), Gaps = 11/242 (4%)
Query: 6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
+ YD + FSP+GR FQVEYA++A++ G+T+IGI ++GVV A EK ITS L+ P
Sbjct: 2 TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61
Query: 66 KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
KI +D+HIGC SGLI D R L +R R E A+ Y + I + A +
Sbjct: 62 KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHT- 120
Query: 126 SDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQ---E 182
RPFGV+ +F G+D G L+ L+PSG+Y + A G G + A+ L+ +
Sbjct: 121 ---LYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVD 177
Query: 183 VYHESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTA---DKMYHLYSKEELEEELS 238
+ E ++ +EA+ I+ E+ K +E+ + + ++ + L+E +
Sbjct: 178 HHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAID 237
Query: 239 KV 240
Sbjct: 238 FA 239
>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 = 308 bits (790), Expect = e-107
Identities = 84/243 (34%), Positives = 138/243 (56%), Gaps = 12/243 (4%)
Query: 6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEP-SSI 64
YD FSPEGRL+QVEYA+E+I TAIGI S+G+VLAAE+++TS L+E +S
Sbjct: 3 RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTST 62
Query: 65 KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
+K+ +++ I A +GL AD+ IL + AR+ N+ TY+E + +E + + +S++ +
Sbjct: 63 EKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYT 122
Query: 125 DSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
+ RPFGV+ ++AG D + G QL+ +PSG YT + A ++G+ + AQ LQ
Sbjct: 123 ----QHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMD 178
Query: 184 YHESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTADK-----MYHLYSKEELEEEL 237
Y + M + +AI L L + + L +E T+ ++ +E+++ L
Sbjct: 179 YKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDIL 238
Query: 238 SKV 240
K
Sbjct: 239 VKT 241
>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 = 309 bits (793), Expect = e-106
Identities = 81/247 (32%), Positives = 126/247 (51%), Gaps = 11/247 (4%)
Query: 1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
M + YD + FSP+GR FQVEYA++A++ G+T+IGI ++GVV A EK ITS L+
Sbjct: 1 MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV 60
Query: 61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
P KI +D+HIGC SGLI D R L +R R E A+ Y + I + A +
Sbjct: 61 PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYV 120
Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
RPFGV+ +F G+D G L+ L+PSG+Y + A G G + A+ L
Sbjct: 121 QAHT----LYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAEL 176
Query: 181 Q---EVYHESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTAD---KMYHLYSKEEL 233
+ + + E ++ +EA+ I+ E+ K +E+ + ++ + L
Sbjct: 177 EKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLL 236
Query: 234 EEELSKV 240
+E +
Sbjct: 237 QEAIDFA 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 = 304 bits (781), Expect = e-105
Identities = 80/239 (33%), Positives = 138/239 (57%), Gaps = 12/239 (5%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKK 66
YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+ VVL E+R T L + + K
Sbjct: 2 YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61
Query: 67 IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
+ +ID H+ + SGL ADSRIL ++ARVE +H T ++ + +E + + V+ + ++
Sbjct: 62 VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYT-- 119
Query: 127 DEESAMSRPFGVAMLFAGLDS--KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
+S RPFGV+ L AG D P+L+ +PSG Y+ + A+ IG S+ ++ L++ Y
Sbjct: 120 --QSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNY 177
Query: 185 HES---MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
T++E + + L +V++ + N+E+ V D S EE+ + ++++
Sbjct: 178 DRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQI 234
>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 = 304 bits (781), Expect = e-105
Identities = 77/238 (32%), Positives = 126/238 (52%), Gaps = 7/238 (2%)
Query: 6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
+ YD +TFSP+GR+FQVEYA++A++ STAIGI +GVV EK + S L E S K
Sbjct: 5 TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64
Query: 66 KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
++ +D+H+G A +GL+AD+R L D AR E +N + + ++ +A V+ +
Sbjct: 65 RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYT- 123
Query: 126 SDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
+ RPFG + + G QL+ +DPSG + AIG + A+ ++++
Sbjct: 124 ---LYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQ 180
Query: 185 HESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTAD-KMYHLYSKEELEEELSKV 240
+ MT ++ + V I+ V +E K + +EL V H +++ EE K
Sbjct: 181 MKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKY 238
>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 = 295 bits (758), Expect = e-102
Identities = 80/242 (33%), Positives = 136/242 (56%), Gaps = 11/242 (4%)
Query: 6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI- 64
YD FSPEGRL+QVEYA+EAI T +GI ++GV+LAAE+R L++
Sbjct: 3 RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62
Query: 65 KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
+KI ++++ + C+ +G+ +D+ +LT+ R+ + Y E + E + A+ ++ +
Sbjct: 63 EKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYT 122
Query: 125 DSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
+ RPFGV++L+ G D G QL+ DPSG Y + A IG+ S A L++
Sbjct: 123 ----QFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQD 178
Query: 184 YHE-SMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTAD---KMYHLYSKEELEEELS 238
Y E MTLK A+ + +L + M+ KL++ VE+ T+T + + + ++E+E+ +
Sbjct: 179 YKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIK 238
Query: 239 KV 240
K
Sbjct: 239 KH 240
>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 = 197 bits (503), Expect = 1e-63
Identities = 53/217 (24%), Positives = 103/217 (47%), Gaps = 11/217 (5%)
Query: 29 EAIKLGSTAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
+ ++ G+T +GI+ + V++A E+R+T + + KK+ +ID + G +GL+ D+++
Sbjct: 3 QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQV 62
Query: 88 LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS 147
L + E + M IE+VA +SN+ Q P+ V +L G+D
Sbjct: 63 LVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQV--------KYMPYMVQLLVGGID- 113
Query: 148 KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEE 207
P +F +D +G + + GSGS L+ Y E MT+ E ++ V+ + +
Sbjct: 114 TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQR 173
Query: 208 KLNS-TNVELCTVTADKMYHLYSKEELEEELSKVSSI 243
S +++ +T Y +++E + K+ I
Sbjct: 174 DSASGGMIDVAVITRKDGYVQLPTDQIESRIRKLGLI 210
>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 = 195 bits (499), Expect = 7e-63
Identities = 48/207 (23%), Positives = 96/207 (46%), Gaps = 11/207 (5%)
Query: 35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
+T G+ +GV+L A+ R T+ ++ S +KI I I C +G+ AD+ + T A
Sbjct: 1 TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60
Query: 94 VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
+ H + + + +V + + ++ G +++ G+D GPQL+
Sbjct: 61 SKMELHALSTGREPRVATVTRILRQTLFRYQG---------HVGASLVVGGVDLNGPQLY 111
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVL-TILKQVMEEKLNST 212
+ P G+Y++ A+GSG A L++ + +MTL+ A ++ I ++ + +
Sbjct: 112 EVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGG 171
Query: 213 NVELCTVTADKMYHLYSKEELEEELSK 239
NV+ C +TA + E + +
Sbjct: 172 NVDACVITAGGAKLQRALSTPTEPVQR 198
>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 = 193 bits (492), Expect = 1e-61
Identities = 48/226 (21%), Positives = 89/226 (39%), Gaps = 12/226 (5%)
Query: 14 TFSPEGRLFQVEYAI-EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEID 71
+ L + + +A G+T +G+ + GVV+AA+ R T ++ + K+ I
Sbjct: 8 NYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRIS 67
Query: 72 KHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESA 131
I CA +G AD+ +T H + + S Q + ++
Sbjct: 68 PKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQG------ 121
Query: 132 MSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLK 191
G ++ AG+D G LF + G+ ++GSGS A L+ + + +T +
Sbjct: 122 ---HIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKE 178
Query: 192 EAINHVLTILKQVMEEKLNS-TNVELCTVTADKMYHLYSKEELEEE 236
EAI ++ + L S +NV++C + K
Sbjct: 179 EAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNV 224
>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 = 192 bits (489), Expect = 3e-61
Identities = 44/244 (18%), Positives = 97/244 (39%), Gaps = 29/244 (11%)
Query: 16 SPEGRLFQ-VEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHI 74
SPE + + E A + I + + ++ + GV+ AE S++KI E+ +
Sbjct: 8 SPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENP-------SRSLQKISELYDRV 60
Query: 75 GCAASGLIADSRILTDRARVECANHWFTYDEK-MDIESVAQAVSNLAIQFGDSDEESAMS 133
G AA+G + L + YD + + +A + + +
Sbjct: 61 GFAAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGT-----IFTEQA 115
Query: 134 RPFGVAMLFAGL----DSKGPQLFHLDPSGTYT-QFDAKAIGSGSEGAQQSLQEVYHESM 188
+P+ V + A + ++K P+L+ + G+ + +G +E +L+E Y E+
Sbjct: 116 KPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENA 175
Query: 189 TLKEAINHVLTILKQVM-------EEKLNSTNVELCTVTAD---KMYHLYSKEELEEELS 238
+L +A+ + L+ + L ++E+ + A+ + + + L+ L
Sbjct: 176 SLTDALRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALLV 235
Query: 239 KVSS 242
S
Sbjct: 236 DQES 239
>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 = 179 bits (455), Expect = 2e-56
Identities = 44/214 (20%), Positives = 90/214 (42%), Gaps = 11/214 (5%)
Query: 35 STAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
+T G+ +G+VL A+ R T ++ + KI I +I C +G AD+ + T
Sbjct: 1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 94 VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
H + + + + + + ++ G A++ G+D GP L+
Sbjct: 61 SNLELHSLSTGRLPRVVTANRMLKQMLFRYRG---------YIGAALVLGGVDVTGPHLY 111
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
+ P G+ + +GSGS A ++ + M +EA N V + + L S +
Sbjct: 112 SIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGS 171
Query: 213 NVELCTVTADKMYHLYSKEELEEELSKVSSIHDP 246
N++LC ++ +K+ L ++ +++
Sbjct: 172 NIDLCVISKNKLDFLRPYTVPNKKGTRLGRYRCE 205
>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 = 175 bits (447), Expect = 3e-55
Identities = 45/204 (22%), Positives = 82/204 (40%), Gaps = 11/204 (5%)
Query: 35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
+T +G+ + GVV+AA+ R T ++ + K+ I I CA +G AD+ +T
Sbjct: 1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 94 VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
H + + S Q + ++ G ++ AG+D G LF
Sbjct: 61 SNIELHSLYTSREPRVVSALQMLKQHLFKYQG---------HIGAYLIVAGVDPTGSHLF 111
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
+ G+ ++GSGS A L+ + + +T +EAI ++ + L S +
Sbjct: 112 SIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGS 171
Query: 213 NVELCTVTADKMYHLYSKEELEEE 236
NV++C + K
Sbjct: 172 NVDVCVMEIGKDAEYLRNYLTPNV 195
>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 = 175 bits (446), Expect = 9e-55
Identities = 42/242 (17%), Positives = 94/242 (38%), Gaps = 27/242 (11%)
Query: 16 SPEGRLFQ-VEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHI 74
S E + E A + I G + + ++ +GV+ AE +++ K+ E+ +
Sbjct: 8 SAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP-------STALHKVSELYDRL 60
Query: 75 GCAASGLIADSRILTDRARVECANHWFTYD-EKMDIESVAQAVSNLAIQFGDSDEESAMS 133
G AA G + L V ++YD + S+A A + +
Sbjct: 61 GFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGT-----IFTEQP 115
Query: 134 RPFGVAMLFAGL----DSKGPQLFHLDPSGTYT-QFDAKAIGSGSEGAQQSLQEVYHESM 188
+P+ V + A + K PQL+ + G+ + +G +E +++E Y +
Sbjct: 116 KPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADL 175
Query: 189 TLKEAINHVLTILKQVM-----EEKLNSTNVELCTVTAD---KMYHLYSKEELEEELSKV 240
L+ A+ + L+Q + ++ ++E+ + + + + LE+ +
Sbjct: 176 DLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVPAE 235
Query: 241 SS 242
+
Sbjct: 236 PA 237
>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 = 149 bits (379), Expect = 2e-44
Identities = 46/239 (19%), Positives = 97/239 (40%), Gaps = 15/239 (6%)
Query: 6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSI 64
+ + + + + R + I G+T + G+++A + R T+ + ++
Sbjct: 50 ASPQQFLRAHTDDSRNPDCK---IKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTV 106
Query: 65 KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
KK++EI+ + +G AD + +C H E++ + + ++ +SNL Q+
Sbjct: 107 KKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQY- 165
Query: 125 DSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
+ + G K GP ++++D GT + D +GSG A L
Sbjct: 166 -------KGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSN 218
Query: 184 YHESMTLKEAINHVLTILKQVMEEKLNS-TNVELCTVTADKMYHLYSKEELEEELSKVS 241
Y +++++A+ + S +V L VT D + + ++ E KV
Sbjct: 219 YKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDG-WIYHGNHDVGELFWKVK 276
>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 = 139 bits (352), Expect = 4e-41
Identities = 42/209 (20%), Positives = 87/209 (41%), Gaps = 12/209 (5%)
Query: 36 TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
T + G+++A + R T+ + ++K+++EI+ + +G AD +
Sbjct: 2 TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61
Query: 95 ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
+C H E++ + + ++ +SNL Q+ + + G K GP ++
Sbjct: 62 QCRLHELREKERISVAAASKILSNLVYQY--------KGAGLSMGTMICGYTRKEGPTIY 113
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
++D GT + D +GSG A L Y +++++A+ + S
Sbjct: 114 YVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGG 173
Query: 213 NVELCTVTADKMYHLYSKEELEEELSKVS 241
+V L VT D + + ++ E KV
Sbjct: 174 SVNLYHVTEDG-WIYHGNHDVGELFWKVK 201
>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 = 140 bits (354), Expect = 1e-40
Identities = 41/252 (16%), Positives = 90/252 (35%), Gaps = 23/252 (9%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKK 66
+ + S R + + G+T + ++ GV+LA ++R T L+ ++
Sbjct: 39 PENRIGHRSHSTRGGDGMESGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEA 98
Query: 67 IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
+ D++ +G + L VE ++ + + A ++++
Sbjct: 99 VYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLG- 157
Query: 127 DEESAMSRPFGVAMLFAGLD------SKGPQLFHLDPSGTYTQFDAK--AIGSGSEGAQQ 178
A + V L G D S+ ++ D G + A A+GSGS A+
Sbjct: 158 ----AAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKS 213
Query: 179 SLQEVYHESMTLKEAINHVLTILKQVMEEKLNS--------TNVELCTVTADKMYHLYSK 230
+L+++Y + A+ + L ++ + T+T S+
Sbjct: 214 ALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAG-AVHVSE 272
Query: 231 EELEEELSKVSS 242
E E ++ +
Sbjct: 273 ETTSELARRIVA 284
>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 = 130 bits (329), Expect = 9e-38
Identities = 41/208 (19%), Positives = 86/208 (41%), Gaps = 11/208 (5%)
Query: 36 TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
T + GV++AA+ R T+ + ++KK++EI+ ++ +G AD
Sbjct: 2 TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61
Query: 95 ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
+C + E++ + + ++ ++N+ Q+ + + G D +GP L++
Sbjct: 62 QCRIYELRNKERISVAAASKLLANMVYQYKG--------MGLSMGTMICGWDKRGPGLYY 113
Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-TN 213
+D G ++GSGS A + Y + +++A + + Q S
Sbjct: 114 VDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGA 173
Query: 214 VELCTVTADKMYHLYSKEELEEELSKVS 241
V L V D + S + + + K S
Sbjct: 174 VNLYHVREDGWIRV-SSDNVADLHEKYS 200
>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A
{Archaeoglobus fulgidus} SCOP: d.153.1.4
Length = 202
Score = 128 bits (324), Expect = 5e-37
Identities = 54/209 (25%), Positives = 100/209 (47%), Gaps = 12/209 (5%)
Query: 35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
+T +G+ +GVV+A EKR T + + KKI +I + +G + D++ L +
Sbjct: 1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60
Query: 94 VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
+E + + K + ++A SNL + P+ V +L G+DS+G ++
Sbjct: 61 IEANLYEIRRERKPTVRAIATLTSNLLNSYRY--------FPYLVQLLIGGIDSEGKSIY 112
Query: 154 HLDPSGT-YTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS- 211
+DP G + D A GSGS A L++ + + + EA+ + + M+ S
Sbjct: 113 SIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASG 172
Query: 212 TNVELCTVTADKMYHLYSKEELEEELSKV 240
+++ +T D+ Y S EE+E+ L+K
Sbjct: 173 DGIDVVKITEDEFYQY-SPEEVEQILAKF 200
>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 = 125 bits (315), Expect = 2e-35
Identities = 39/224 (17%), Positives = 83/224 (37%), Gaps = 23/224 (10%)
Query: 36 TAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
T + ++ GV+LA ++R T + S ++K+ D++ +G + L V
Sbjct: 2 TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61
Query: 95 ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD------SK 148
E ++ + + A ++++ A + V L G D S+
Sbjct: 62 ELEHYEKIEGVPLTFDGKANRLASMVRGNLG-----AAMQGLAVVPLLVGYDLDADDESR 116
Query: 149 GPQLFHLDPSGTYTQFDAK--AIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME 206
++ D G + A A+GSGS A+ +L+++Y + A+ + L +
Sbjct: 117 AGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAAD 176
Query: 207 EKLNS--------TNVELCTVTADKMYHLYSKEELEEELSKVSS 242
+ + T+T S+E E ++ +
Sbjct: 177 DDSATGGPDLTRGIYPTAVTITQAG-AVHVSEETTSELARRIVA 219
Score = 117 bits (296), Expect = 1e-32
Identities = 15/210 (7%), Positives = 39/210 (18%), Gaps = 13/210 (6%)
Query: 36 TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
+ S + + + + IG A + + +++
Sbjct: 3 HMQMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKL 62
Query: 95 ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
+ D + A + + + L +
Sbjct: 63 VKIRSIEKIFQIDDHVAAATSGLVADARVLI--------DRARLEAQIYRLTYGEEISIE 114
Query: 154 HLDPSGTYTQFDA-KAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS- 211
L + + G G + + L E I +
Sbjct: 115 MLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRP 174
Query: 212 TNVELCTVTADKMYHLYSKEELEEELSKVS 241
+EL + +
Sbjct: 175 VVMELLEKEYRD-DITLDEGLELAITALTK 203
>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 = 115 bits (289), Expect = 5e-31
Identities = 33/229 (14%), Positives = 78/229 (34%), Gaps = 23/229 (10%)
Query: 29 EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
+ G+T + + GVV+A ++R T ++ ++K+ D + +G A +
Sbjct: 52 AQLPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVE 111
Query: 88 LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD- 146
VE ++ + ++ + +A + L AG D
Sbjct: 112 FARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGN-----LAAAMQGLLALPLLAGYDI 166
Query: 147 -----SKGPQLFHLDPSGTY--TQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLT 199
++ D +G + + +A+GSGS A+ S++++Y + + +
Sbjct: 167 HASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVE 226
Query: 200 ILKQVMEEKLNSTNV--------ELCTVTADKMYHLYSKEELEEELSKV 240
L ++ + + AD + + E +
Sbjct: 227 ALYDAADDDSATGGPDLVRGIFPTAVIIDADG-AVDVPESRIAELARAI 274
>3unf_N Proteasome subunit beta type-9; antigen presentation, drug
development, protein degradation, hydrolase-hydrolase
inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB:
3unh_N
Length = 199
Score = 111 bits (281), Expect = 1e-30
Identities = 40/203 (19%), Positives = 80/203 (39%), Gaps = 12/203 (5%)
Query: 36 TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
T + + GVV+ ++ R+++ + K+ + + I CA SG AD++ + D A
Sbjct: 2 TIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAY 61
Query: 95 ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
+ H +E + + A V N++ ++ + ++ AG D + +
Sbjct: 62 QLELHGLELEEPPLVLAAANVVKNISYKYRE---------DLLAHLIVAGWDQREGGQVY 112
Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-TN 213
G + GSGS + Y MT +E + M +S
Sbjct: 113 GTMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGV 172
Query: 214 VELCTVTADKM-YHLYSKEELEE 235
+ L T+TA + + + +EL +
Sbjct: 173 IYLVTITAAGVDHRVILGDELPK 195
>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 = 110 bits (278), Expect = 3e-30
Identities = 40/209 (19%), Positives = 87/209 (41%), Gaps = 14/209 (6%)
Query: 31 IKLGSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILT 89
+ LG++ + ++ +GV+L A+ R T+ + K+ + I C SG AD++ +
Sbjct: 6 VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65
Query: 90 DRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK- 148
D + + Y E+ A L + D ++ AG D K
Sbjct: 66 DIVQYHLELYTSQYGTPS-TETAASVFKELCYENKD---------NLTAGIIVAGYDDKN 115
Query: 149 GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEK 208
+++ + G+ + GSGS + + E+M+ +E ++ + L Q ++
Sbjct: 116 KGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWD 175
Query: 209 LNS-TNVELCTVTADKM-YHLYSKEELEE 235
+S + + +TA + ++ +E E+
Sbjct: 176 GSSGGVIRMVVLTAAGVERLIFYPDEYEQ 204
>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 = 109 bits (276), Expect = 7e-30
Identities = 40/196 (20%), Positives = 71/196 (36%), Gaps = 12/196 (6%)
Query: 36 TAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
T + + GVVL A+ R T+ + K+ I I C SG AD++ + D
Sbjct: 2 TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61
Query: 95 ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
+ H +E + + A + ++ + ++ AG D + G Q++
Sbjct: 62 QLGFHSIELNEPPLVHTAASLFKEMCYRYRE---------DLMAGIIIAGWDPQEGGQVY 112
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
+ G + GSGS + Y E MT +E + L ME +S
Sbjct: 113 SVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGG 172
Query: 213 NVELCTVTADKMYHLY 228
+ L + +
Sbjct: 173 VIRLAAIAESGVERQV 188
>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 = 109 bits (274), Expect = 1e-29
Identities = 38/203 (18%), Positives = 77/203 (37%), Gaps = 11/203 (5%)
Query: 36 TAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
+GI + V+LA+ K +T + + S K ++ H + +G D+ + +
Sbjct: 3 IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62
Query: 95 ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK--GPQL 152
+ D ++ ++V+ V + S RP+ V +L G D K P+L
Sbjct: 63 NIQLYSIREDYELSPQAVSSFVRQELAKSIRS------RRPYQVNVLIGGYDKKKNKPEL 116
Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS- 211
+ +D GT + A G L Y MT +E ++ + ++++ +
Sbjct: 117 YQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDF 176
Query: 212 TNVELCTVTADKMYHLYSKEELE 234
V + V D + +
Sbjct: 177 KGVIVKIVDKDG-IRQVDDFQAQ 198
>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 = 104 bits (262), Expect = 8e-28
Identities = 30/206 (14%), Positives = 74/206 (35%), Gaps = 10/206 (4%)
Query: 36 TAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
IGI + V++A+++ +++ K+ ++ + I G D+ + +
Sbjct: 3 YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62
Query: 95 ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
+ ++ + A S P+ V +L AG D GP L+
Sbjct: 63 NVQLYKMRNGYELSPTAAANFTRRNLADCLRSRT------PYHVNLLLAGYDEHEGPALY 116
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
++D + A G G+ L Y +++ + A+ + L+++ + + +
Sbjct: 117 YMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLP 176
Query: 213 NVELCTVTADKMYHLYSKEELEEELS 238
+ + + H ++ S
Sbjct: 177 TFSVRIIDKNG-IHDLDNISFPKQGS 201
>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 = 103 bits (260), Expect = 2e-27
Identities = 41/204 (20%), Positives = 82/204 (40%), Gaps = 24/204 (11%)
Query: 34 GSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
G T + I+ + ++A++ R++ + K ++ SG D LT
Sbjct: 9 GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68
Query: 93 RVECANHWFTYDEKMDIESVAQAVSNL--AIQFGDSDEESAMSRPFGVAMLFAGLDSKG- 149
+ + ++ M ++A +S + + +F P+ V + GLD +G
Sbjct: 69 EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFF----------PYYVYNIIGGLDEEGK 118
Query: 150 PQLFHLDPSGTYTQFDAKAIGSGSEGAQ---------QSLQEVYHESMTLKEAINHVLTI 200
++ DP G+Y + KA GS S Q +++Q V H ++L A+ V +
Sbjct: 119 GAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDV 178
Query: 201 LKQVMEEKLNS-TNVELCTVTADK 223
E + + + +C VT +
Sbjct: 179 FISAAERDVYTGDALRICIVTKEG 202
>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 = 101 bits (253), Expect = 2e-26
Identities = 33/195 (16%), Positives = 72/195 (36%), Gaps = 14/195 (7%)
Query: 34 GSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRA 92
G + ++ + V +A + R+ S + S +KI H+ +GL D L +
Sbjct: 8 GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMF 66
Query: 93 RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG--P 150
R + + + ++ E+ Q VS+ + P+ V + AG++SK P
Sbjct: 67 RYKTNLYKLKEERAIEPETFTQLVSSSLYER--------RFGPYFVGPVVAGINSKSGKP 118
Query: 151 QLFHLDPSGTYTQFDA-KAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL 209
+ D G + G+ S+ + +Y ++ ++ + L +
Sbjct: 119 FIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDA 178
Query: 210 NS-TNVELCTVTADK 223
S + + D+
Sbjct: 179 LSGWGAVVYIIKKDE 193
>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 = 100 bits (252), Expect = 3e-26
Identities = 34/198 (17%), Positives = 70/198 (35%), Gaps = 17/198 (8%)
Query: 34 GSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRA 92
G + + V +AA++R + +KI + + +GL D + + R
Sbjct: 8 GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67
Query: 93 RVECANHWFTYDEKMDIESVAQAVSNLAIQ--FGDSDEESAMSRPFGVAMLFAGLDSK-- 148
+ + ++ ++ V+NL + FG P+ + AGLD K
Sbjct: 68 KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFG----------PYYTEPVIAGLDPKTF 117
Query: 149 GPQLFHLDPSGT-YTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEE 207
P + LD G D G+ +E + ++ +M + + ++
Sbjct: 118 KPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDR 177
Query: 208 KLNS-TNVELCTVTADKM 224
S V + + DK+
Sbjct: 178 DAVSGMGVIVHIIEKDKI 195
>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 = 100 bits (252), Expect = 3e-26
Identities = 43/218 (19%), Positives = 84/218 (38%), Gaps = 29/218 (13%)
Query: 34 GSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
G T +GI+ + VLA + R + + K+ + +I +A+G AD L R
Sbjct: 9 GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68
Query: 93 RVECANHWFTYDEK-MDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-P 150
+ + F +++K + I S A+ + +L P+ V + AGLD G
Sbjct: 69 KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKR--------FFPYYVHTIIAGLDEDGKG 120
Query: 151 QLFHLDPSGTYTQFDAKAIGSGSEGAQ-----------------QSLQEVYHESMTLKEA 193
++ DP G+Y + +A G+ + + + ++++E
Sbjct: 121 AVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEV 180
Query: 194 INHVLTILKQVMEEKLNS-TNVELCTVTADKMYHLYSK 230
I V E + +E+ VT D + + +
Sbjct: 181 IKLVRDSFTSATERHIQVGDGLEILIVTKDGVRKEFYE 218
>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 = 97.8 bits (244), Expect = 7e-25
Identities = 34/221 (15%), Positives = 84/221 (38%), Gaps = 19/221 (8%)
Query: 29 EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
+ I G++ I + GV++AA+ + L+ + +++++ + + SG I+D +
Sbjct: 3 QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 62
Query: 88 LTDRARVECANHWFTYD-----EKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLF 142
+ + + + E ++ + + ++ + Q P A++
Sbjct: 63 IERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRS------KMNPLWNAIIV 116
Query: 143 AGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE-----SMTLKEAINH 196
AG+ S G L +++ G A G G+ A L++V T++ A
Sbjct: 117 AGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEA 176
Query: 197 VLTILKQVMEEKLNS-TNVELCTVTADKMYHLYSKEELEEE 236
++ ++ + S N L + + ++E
Sbjct: 177 IVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM 217
>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 = 96.9 bits (242), Expect = 8e-25
Identities = 38/200 (19%), Positives = 72/200 (36%), Gaps = 13/200 (6%)
Query: 29 EAIKLGSTAIGISTSEGVVLAAEKRIT--SVLMEPSSIKKIVEIDKHIGCAASGLIADSR 86
+ G++ +G+ GVV+AA+ + S+ + I +I+ ++ ASG AD +
Sbjct: 3 NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRN-ISRIMRVNNSTMLGASGDYADFQ 61
Query: 87 ILTDRARVECANHWFTYD-EKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGL 145
L + D ++ ++ P M+ G
Sbjct: 62 YLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMN------PLWNTMVIGGY 115
Query: 146 DSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY--HESMTLKEAINHVLTILKQ 203
L ++D G + + A G G+ AQ L+EV ++ EA + V ++
Sbjct: 116 ADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRV 175
Query: 204 VMEEKLNS-TNVELCTVTAD 222
+ S + TVT
Sbjct: 176 LYYRDARSYNRFQTATVTEK 195
>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 = 97.5 bits (243), Expect = 1e-24
Identities = 35/221 (15%), Positives = 86/221 (38%), Gaps = 19/221 (8%)
Query: 29 EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
+ I G++ I + GV++AA+ + L+ + +++++ + + SG I+D +
Sbjct: 36 QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 95
Query: 88 LTDRARVEC-----ANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLF 142
+ + N +E ++ + + ++ + Q P A++
Sbjct: 96 IERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRS------KMNPLWNAIIV 149
Query: 143 AGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH-----ESMTLKEAINH 196
AG+ S G L +++ G A G G+ A L++V T++ A
Sbjct: 150 AGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEA 209
Query: 197 VLTILKQVME-EKLNSTNVELCTVTADKMYHLYSKEELEEE 236
++ ++ + + +S N L + + ++E
Sbjct: 210 IVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM 250
>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 = 44.1 bits (103), Expect = 3e-05
Identities = 33/213 (15%), Positives = 66/213 (30%), Gaps = 46/213 (21%)
Query: 52 KRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECAN----HWFTYDEKM 107
++ L+E K ++ ID +G + + D + +V+C W
Sbjct: 138 LKLRQALLELRPAKNVL-IDGVLGSGKTWVALD--VCLSY-KVQCKMDFKIFWLNLKNCN 193
Query: 108 DIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAK 167
E+V + + L Q D + S + + + ++ +L P Y
Sbjct: 194 SPETVLEMLQKLLYQI-DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP---Y------ 243
Query: 168 AIGSGSEGAQQSL---QEVYHESMTLKEAINH--------VLTILKQVMEEKLNSTNVEL 216
+ L V + +A N + T KQV + +T
Sbjct: 244 ---------ENCLLVLLNVQN-----AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTH- 288
Query: 217 CTVTADKMYHLYSKEELEEELSKVSSIHDPTRP 249
++ D + +E++ L K P
Sbjct: 289 --ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
>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 = 40.8 bits (95), Expect = 4e-04
Identities = 43/248 (17%), Positives = 73/248 (29%), Gaps = 94/248 (37%)
Query: 14 TF-SPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDK 72
TF S +G L ++ A+ EK L K ++ D
Sbjct: 1718 TFRSEKGLLSATQFTQPAL----------------TLMEKAAFEDLKS----KGLIPADA 1757
Query: 73 ----H-IG--CAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSN--LAIQF 123
H +G A L + A V M IES+ + V + +Q
Sbjct: 1758 TFAGHSLGEYAA---LAS-------LADV------------MSIESLVEVVFYRGMTMQV 1795
Query: 124 GDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
+E S M+ A ++P A E Q ++ V
Sbjct: 1796 AVPRDELGRS---NYGMI-A-----------INPG-------RVAASFSQEALQYVVERV 1833
Query: 184 YHESMTLKEAINH-------V-------LTILKQVMEEKLNSTNVELCTVTADKMYHLYS 229
+ L E +N+ V L + V+ + +++ ++ S
Sbjct: 1834 GKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNF-IKLQKIDII-----ELQKSLS 1887
Query: 230 KEELEEEL 237
EE+E L
Sbjct: 1888 LEEVEGHL 1895
Score = 30.4 bits (68), Expect = 0.75
Identities = 19/90 (21%), Positives = 27/90 (30%), Gaps = 33/90 (36%)
Query: 10 RG--VNTFSPEGRLFQVEYAIEAIKLGSTAIGIST------------------------S 43
RG + P L + Y + AI G A S
Sbjct: 1789 RGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNV 1848
Query: 44 EG--VVLAAEKR----ITSVLMEPSSIKKI 67
E V A + R +T+VL ++KI
Sbjct: 1849 ENQQYVAAGDLRALDTVTNVL-NFIKLQKI 1877
>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 = 39.2 bits (91), Expect = 4e-04
Identities = 21/164 (12%), Positives = 55/164 (33%), Gaps = 18/164 (10%)
Query: 34 GSTAIGISTSEGVVLAAEKRIT--SVLMEPSSIKKIVEIDKHIGCAA-SGLIADSRILTD 90
+T + ++ + ++T ++ + +K+ ++ A +G +AD+ L +
Sbjct: 5 ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64
Query: 91 RARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGP 150
+ + + +++ A ++ SD+ + M L
Sbjct: 65 KFEAKLEEY------NGNLKRAAVELAKE----WRSDKVLRKLEAMLIVMNQDTLLLVSG 114
Query: 151 QLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAI 194
++P AIGSG A + + + + A
Sbjct: 115 TGEVIEPDDGIL-----AIGSGGNYALAAGRALKKHAGESMSAS 153
>1vb5_A Translation initiation factor EIF-2B; 2.20A {Pyrococcus horikoshii}
SCOP: c.124.1.5
Length = 276
Score = 31.8 bits (73), Expect = 0.14
Identities = 13/113 (11%), Positives = 36/113 (31%), Gaps = 27/113 (23%)
Query: 23 QVEYAIEAIKL----GSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAA 78
+V + +K G++ + +E + AE+ S ++ I
Sbjct: 5 RVLEILREMKRERIKGASWLAKKGAEAFLTLAEELDES------------LLEDAIMELR 52
Query: 79 SGLIADSRILTDRARVECAN-HWFTYDEKMDIESVAQAVSNLAIQFGDSDEES 130
++ A+ + + + + + + A++F EE+
Sbjct: 53 EEVVK--------VNPSMASLYNL--ARFIPVTNRRDILKSRALEFLRRMEEA 95
>2a0u_A Initiation factor 2B; SGPP, structural genomics, PSI, protein
structure initiative eukaryotic initiation factor; 2.10A
{Leishmania major} SCOP: c.124.1.5
Length = 383
Score = 31.0 bits (71), Expect = 0.28
Identities = 27/140 (19%), Positives = 49/140 (35%), Gaps = 24/140 (17%)
Query: 24 VEYAIEAIKL----GSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAAS 79
VE AIK G+ AI +S + G+ +A +++ + ++ E+ + +
Sbjct: 48 VEDIWSAIKEMRVRGAPAIAVSAALGIAVATQRKAANGELKSGR-----EVQTFLLTSCD 102
Query: 80 GLIADSR-------ILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEES-- 130
++ SR + D VAQA LA +D
Sbjct: 103 FVMT-SRPTAVNLFNCLRDLK----AQVDKLDPTKAAAEVAQAFVELAEAVYTNDVAFNE 157
Query: 131 AMSRPFGVAMLFAGLDSKGP 150
+ R G A + A ++G
Sbjct: 158 GIMR-HGAAHILAAAKAEGR 176
>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 = 30.0 bits (67), Expect = 0.42
Identities = 10/68 (14%), Positives = 29/68 (42%), Gaps = 6/68 (8%)
Query: 36 TAIGISTSEGVVLAAEKRIT---SVLMEPSSIKKIVEIDKH-IGCAASGLIADSRILTDR 91
T + + + VV+ + +++ +V+ + +K+ + + +G AD+ L +
Sbjct: 2 TIVSVRRNGQVVVGGDGQVSLGNTVMKG--NARKVRRLYNGKVLAGFAGGTADAFTLFEL 59
Query: 92 ARVECANH 99
+ H
Sbjct: 60 FERKLEMH 67
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 29.2 bits (65), Expect = 0.98
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 10/46 (21%)
Query: 62 SSIKKIVEIDKHIG---CAASGLIADSRILTDRARVECANHWFTYD 104
KIVE G CA GL+ +++ D R E W T+
Sbjct: 29 VYPPKIVE-RFSEGDVVCALCGLVLSDKLV-DT-RSE----WRTFS 67
>3so6_A LDL receptor adaptor protein; PTB, endocytic adaptor, autosomal
reces hypercholesterolemia, ARH, cholesterol; 1.37A
{Rattus norvegicus}
Length = 137
Score = 28.7 bits (64), Expect = 1.0
Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 6/53 (11%)
Query: 18 EGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEI 70
EG +F ++Y LG T + E + AA KRI + + V +
Sbjct: 2 EGMVFSLKY------LGMTLVERPKGEELSAAAVKRIVATAKASGKKLQKVTL 48
>3a11_A Translation initiation factor EIF-2B, delta subun; isomerase,
hexamer, rossmann fold; 2.50A {Thermococcus
kodakaraensis} PDB: 3a9c_A* 3vm6_A*
Length = 338
Score = 28.8 bits (65), Expect = 1.7
Identities = 21/117 (17%), Positives = 38/117 (32%), Gaps = 24/117 (20%)
Query: 24 VEYAIEAIKL----GSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAAS 79
V E IK G+ I S + + L AEK + K ++ A+
Sbjct: 23 VLEIAEKIKNMEIRGAGKIARSAAYALQLQAEKSKAT---NVDEFWKEMK-------QAA 72
Query: 80 GLIADSR-------ILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEE 129
++ ++R Y D+E + + N A +F + E+
Sbjct: 73 KILFETRPTAVSLPNALRYVMHRGKIA---YSSGADLEQLRFVIINAAKEFIHNSEK 126
>2qc5_A Streptogramin B lactonase; beta propeller, lyase; 1.80A
{Staphylococcus cohnii}
Length = 300
Score = 27.3 bits (61), Expect = 4.3
Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 4/47 (8%)
Query: 133 SRPFGVAMLFAGL----DSKGPQLFHLDPSGTYTQFDAKAIGSGSEG 175
S P+G+ G K ++ LD SG +F+ +
Sbjct: 20 SGPYGITSSEDGKVWFTQHKANKISSLDQSGRIKEFEVPTPDAKVMC 66
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 26.8 bits (58), Expect = 5.2
Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 10/38 (26%)
Query: 60 EPSSIKKIVEIDKHIGCAASGLIA-DSR-ILTDRARVE 95
E ++KK+ + A+ L A DS L +A +E
Sbjct: 18 EKQALKKL-Q-------ASLKLYADDSAPALAIKATME 47
>1t5o_A EIF2BD, translation initiation factor EIF2B, subunit DELT;
subunit delta, structural GEN PSI, protein structure
initiative; 1.90A {Archaeoglobus fulgidus} SCOP:
c.124.1.5
Length = 351
Score = 26.9 bits (60), Expect = 6.4
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 4/37 (10%)
Query: 24 VEYAIEAIKL----GSTAIGISTSEGVVLAAEKRITS 56
VE +AIK G+ A+ + + G+ LAA +R +
Sbjct: 32 VEELADAIKKLAVRGAPALEAAGAYGIALAAREREFA 68
>2yvk_A Methylthioribose-1-phosphate isomerase; methionine salvage
pathway,; HET: MRU; 2.40A {Bacillus subtilis} PDB:
2yrf_A*
Length = 374
Score = 26.9 bits (60), Expect = 7.3
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 24 VEYAIEAIKL----GSTAIGISTSEGVVLAAEKRITS 56
E +AI G+ AIGI+ + G+ LAA+ T
Sbjct: 59 KEDVFDAIVTLKVRGAPAIGITAAFGLALAAKDIETD 95
>1w2w_A 5-methylthioribose-1-phosphate isomerase; EIF2B, methionine salvage
pathway, translation initiation, oxidoreductase; 1.75A
{Saccharomyces cerevisiae} SCOP: c.124.1.5
Length = 211
Score = 26.5 bits (59), Expect = 8.0
Identities = 21/144 (14%), Positives = 45/144 (31%), Gaps = 25/144 (17%)
Query: 24 VEYAIEAIKL----GSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEID---KHIGC 76
++ IK G+ AI I S V+ + + + +++ +V + +
Sbjct: 38 IDDGYSVIKSMQVRGAPAIAIVGSLSVLTEVQLIKHNPTSDVATLYSLVNWESTKTVLNK 97
Query: 77 AASGLIADSR-------ILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEE 129
L++ SR + D+++ ++ N + D D
Sbjct: 98 RLDFLLS-SRPTAVNLSNSLVEIKN-------ILKSSSDLKAFDGSLYNYVCELIDEDLA 149
Query: 130 S--AMSRPFGVAMLFAGLDSKGPQ 151
+ M G L L G +
Sbjct: 150 NNMKMGD-NGAKYLIDVLQKDGFK 172
>1t9k_A Probable methylthioribose-1-phosphate isomerase; structural
genomics, translation initiation factor, AIF-2B
subunit, PSI; 2.60A {Thermotoga maritima} SCOP:
c.124.1.5
Length = 347
Score = 26.5 bits (59), Expect = 8.3
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 4/31 (12%)
Query: 24 VEYAIEAIKL----GSTAIGISTSEGVVLAA 50
E AIK G+ AIG++ + G VL
Sbjct: 37 HEEVAHAIKEMIVRGAPAIGVAAAFGYVLGL 67
>1tlq_A Hypothetical protein YPJQ; structural genomics, NYSGXRC, T1519
protein structure initiative, NEW YORK SGX research
center structural genomics; 2.40A {Bacillus subtilis}
SCOP: a.195.1.1
Length = 189
Score = 26.0 bits (57), Expect = 9.3
Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 8/61 (13%)
Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
LQE Y+ ++ L + +V +L + + +T + L ++ L E L
Sbjct: 36 LQEKYNPNLPLSVCMENVEKVLNK--------REIIHAVLTGLALDQLAEQKLLPEPLQH 87
Query: 240 V 240
+
Sbjct: 88 L 88
>3hdg_A Uncharacterized protein; two-component sensor activity, response
regulator, PSI-II, 11227F, NYSGXRC, structural genomics;
2.27A {Wolinella succinogenes}
Length = 137
Score = 25.6 bits (57), Expect = 9.8
Identities = 6/12 (50%), Positives = 11/12 (91%)
Query: 23 QVEYAIEAIKLG 34
+++Y I+AI+LG
Sbjct: 90 EMKYFIKAIELG 101
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
0.314 0.130 0.357
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: 3,713,883
Number of extensions: 221533
Number of successful extensions: 552
Number of sequences better than 10.0: 1
Number of HSP's gapped: 423
Number of HSP's successfully gapped: 70
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (25.2 bits)