RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3629
(358 letters)
>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48, ATP-binding, lipid-binding, nucle binding,
nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus
musculus}
Length = 301
Score = 147 bits (372), Expect = 8e-42
Identities = 51/155 (32%), Positives = 78/155 (50%), Gaps = 17/155 (10%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG+ N+ +IG TNR D+ID A+LRPGRL+ + I LP+E RV IL+ + K
Sbjct: 146 MDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS--- 202
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQAL------- 113
+A DV+L+ LA +T FSGA+L + + A A+ I++ + E + Q
Sbjct: 203 -PVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVE 261
Query: 114 ---EKLCITRADFLHALETDIKPAFGSSDESLEHF 145
I R F A+ + + SD + +
Sbjct: 262 EDDPVPEIRRDHFEEAMR-FARRSV--SDNDIRKY 293
Score = 110 bits (277), Expect = 4e-28
Identities = 35/68 (51%), Positives = 50/68 (73%), Gaps = 1/68 (1%)
Query: 288 IIIFDEIDAICKARGTAGGN-TGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEA 346
++ FDE+D+I KARG G+ G D V+NQ+L++MDG+ N+ +IG TNR D+ID A
Sbjct: 111 VLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPA 170
Query: 347 LLRPGRLE 354
+LRPGRL+
Sbjct: 171 ILRPGRLD 178
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 142 bits (361), Expect = 2e-40
Identities = 42/135 (31%), Positives = 68/135 (50%), Gaps = 8/135 (5%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG+E + ++ TNR D+ID A+LRPGRL+ + + LP R+ IL+ T K +
Sbjct: 138 MDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTIT-KNGTK 196
Query: 61 KKLADDVNLKELAA--LTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKLCI 118
L DVNL+ +A ++GA+L LVR A CA+ + + +L +
Sbjct: 197 PPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEMARQKSGNEK----GELKV 252
Query: 119 TRADFLHALETDIKP 133
+ F A + ++
Sbjct: 253 SHKHFEEAFKK-VRS 266
Score = 111 bits (280), Expect = 9e-29
Identities = 33/67 (49%), Positives = 45/67 (67%), Gaps = 2/67 (2%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEAL 347
+I FDE+DA+C R TG VVNQLL++MDG+E + ++ TNR D+ID A+
Sbjct: 106 VIFFDEVDALCPRRS--DRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAI 163
Query: 348 LRPGRLE 354
LRPGRL+
Sbjct: 164 LRPGRLD 170
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 145 bits (368), Expect = 1e-38
Identities = 51/155 (32%), Positives = 78/155 (50%), Gaps = 17/155 (10%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG+ N+ +IG TNR D+ID A+LRPGRL+ + I LP+E RV IL+ + K
Sbjct: 608 MDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS--- 664
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQA-------- 112
+A DV+L+ LA +T FSGA+L + + A A+ I++ + E + Q
Sbjct: 665 -PVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVE 723
Query: 113 --LEKLCITRADFLHALETDIKPAFGSSDESLEHF 145
I R F A+ + + SD + +
Sbjct: 724 EDDPVPEIRRDHFEEAMRF-ARRSV--SDNDIRKY 755
Score = 123 bits (310), Expect = 5e-31
Identities = 48/136 (35%), Positives = 79/136 (58%), Gaps = 7/136 (5%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG+++ +++V+ TNR + ID AL R GR + +++I +P+ GR++ILQIHT M
Sbjct: 332 MDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM--- 388
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVE--VDPQALEKLCI 118
KLADDV+L+++A T GA+L L A A+ + + + + +D + + L +
Sbjct: 389 -KLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAV 447
Query: 119 TRADFLHALETDIKPA 134
T DF AL P+
Sbjct: 448 TMDDFRWALS-QSNPS 462
Score = 107 bits (269), Expect = 1e-25
Identities = 35/68 (51%), Positives = 49/68 (72%), Gaps = 1/68 (1%)
Query: 288 IIIFDEIDAICKARG-TAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEA 346
++ FDE+D+I KARG G G D V+NQ+L++MDG+ N+ +IG TNR D+ID A
Sbjct: 573 VLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPA 632
Query: 347 LLRPGRLE 354
+LRPGRL+
Sbjct: 633 ILRPGRLD 640
Score = 74.1 bits (182), Expect = 1e-14
Identities = 28/67 (41%), Positives = 41/67 (61%), Gaps = 2/67 (2%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEAL 347
II DE+DAI R G V +V+QLL+ MDG+++ +++V+ TNR + ID AL
Sbjct: 300 IIFIDELDAIAPKREKTHG--EVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPAL 357
Query: 348 LRPGRLE 354
R GR +
Sbjct: 358 RRFGRFD 364
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein;
HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A*
1e32_A* 1s3s_A* 2pjh_B
Length = 489
Score = 139 bits (353), Expect = 1e-37
Identities = 48/135 (35%), Positives = 78/135 (57%), Gaps = 7/135 (5%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG+++ +++V+ TNR + ID AL R GR + +++I +P+ GR++ILQIHT M
Sbjct: 332 MDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM--- 388
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVE--VDPQALEKLCI 118
KLADDV+L+++A T GA+L L A A+ + + + + +D + + L +
Sbjct: 389 -KLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAV 447
Query: 119 TRADFLHALETDIKP 133
T DF AL P
Sbjct: 448 TMDDFRWALSQ-SNP 461
Score = 86.4 bits (214), Expect = 9e-19
Identities = 28/65 (43%), Positives = 40/65 (61%), Gaps = 2/65 (3%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEAL 347
II DE+DAI R G V +V+QLL+ MDG+++ +++V+ TNR + ID AL
Sbjct: 300 IIFIDELDAIAPKREKTHG--EVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPAL 357
Query: 348 LRPGR 352
R GR
Sbjct: 358 RRFGR 362
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 119 bits (300), Expect = 2e-31
Identities = 49/128 (38%), Positives = 75/128 (58%), Gaps = 19/128 (14%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG + ++ +IG TNR D++D A+LRPGR + +E+ P+E GR++IL+IHT KM
Sbjct: 148 MDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKM--- 204
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKLCITR 120
LA+DVNL+E+A +T+ GAEL+ + A MN + + + +T
Sbjct: 205 -NLAEDVNLEEIAKMTEGCVGAELKAICTEA---GMNAIRE------------LRDYVTM 248
Query: 121 ADFLHALE 128
DF A+E
Sbjct: 249 DDFRKAVE 256
Score = 81.5 bits (202), Expect = 9e-18
Identities = 32/68 (47%), Positives = 43/68 (63%), Gaps = 3/68 (4%)
Query: 288 IIIFDEIDAICKAR--GTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDE 345
II DEIDAI R GG+ V T+ QLL++MDG + ++ +IG TNR D++D
Sbjct: 113 IIFIDEIDAIAAKRTDALTGGDREVQRTL-MQLLAEMDGFDARGDVKIIGATNRPDILDP 171
Query: 346 ALLRPGRL 353
A+LRPGR
Sbjct: 172 AILRPGRF 179
>1qcs_A N-ethylmaleimide sensitive factor (NSF-N); double-PSI beta barrel
alpha beta roll, fusion protein; 1.90A {Cricetulus
griseus} SCOP: b.52.2.3 d.31.1.1 PDB: 1qdn_A
Length = 211
Score = 99.3 bits (247), Expect = 8e-25
Identities = 39/98 (39%), Positives = 58/98 (59%), Gaps = 3/98 (3%)
Query: 184 LEVDKVPTDELSLSNFAAANKDDFVEDTKHIEVTTGPGRHYIFTLAYSPDVKRGFIGFSL 243
++ + PTDELSLSN A ++ D+ + +H+ V T P YIFTL P V G + FSL
Sbjct: 10 MQAARCPTDELSLSNCAVVSEKDY-QSGQHVIVRTSPNHKYIFTLRTHPSVVPGSVAFSL 68
Query: 244 LQRKWAELSLHQDIDVKPFFFNPKNTSEFLCTIILEAG 281
QRKWA LS+ Q+I+V + F+ + + T+ +E
Sbjct: 69 PQRKWAGLSIGQEIEVALYSFDKAK--QCIGTMTIEID 104
>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural
genomics consortium, ATP- hydrolase, magnesium,
metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo
sapiens}
Length = 357
Score = 99.1 bits (247), Expect = 2e-23
Identities = 39/143 (27%), Positives = 66/143 (46%), Gaps = 15/143 (10%)
Query: 1 MDGV--ERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMR 58
+DG + ILV+G TNR IDEA R RL ++ I LP R QI+ +K
Sbjct: 211 LDGATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIVINLMSK-- 266
Query: 59 SYKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMN--RLIKATNKVEVDPQALEKL 116
+ + ++++ + FSGA++ L R A ++ R ++ + + P +
Sbjct: 267 -EQCCLSEEEIEQIVQQSDAFSGADMTQLCREA---SLGPIRSLQTADIATITPDQVRP- 321
Query: 117 CITRADFLHALETDIKPAFGSSD 139
I DF +A T ++P+ D
Sbjct: 322 -IAYIDFENAFRT-VRPSVSPKD 342
Score = 66.7 bits (163), Expect = 2e-12
Identities = 25/69 (36%), Positives = 34/69 (49%), Gaps = 6/69 (8%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGV--ERLNNILVIGMTNRRDMIDE 345
+I DEID++ RG G + + L ++DG + ILV+G TNR IDE
Sbjct: 179 VIFIDEIDSLLSQRGD--GEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDE 236
Query: 346 ALLRPGRLE 354
A R RL
Sbjct: 237 AARR--RLV 243
>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase,
ATP-binding cassette, ATP-binding, endosome, MEM
nucleotide-binding; 2.70A {Saccharomyces cerevisiae}
PDB: 3eih_A* 2rko_A 3mhv_C
Length = 322
Score = 98.2 bits (245), Expect = 2e-23
Identities = 35/174 (20%), Positives = 74/174 (42%), Gaps = 37/174 (21%)
Query: 1 MDGV-ERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRS 59
M+GV +LV+G TN +D A+ R R E ++ I LP+ R + +I+
Sbjct: 145 MNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDT-- 200
Query: 60 YKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKAT---------------- 103
+ + + L A+T+ +SG+++ +V+ A + ++ AT
Sbjct: 201 -PCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRKLT 259
Query: 104 ------------NKVEVDPQALEKLCITRADFLHALETDIKPAFGSSDESLEHF 145
+ +++ L++ +T DFL A+++ +P +++ L
Sbjct: 260 PCSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKS-TRPTV--NEDDLLKQ 310
Score = 73.9 bits (182), Expect = 5e-15
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 5/68 (7%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGV-ERLNNILVIGMTNRRDMIDEA 346
II D++DA+ RG G + + +LL +M+GV +LV+G TN +D A
Sbjct: 113 IIFIDQVDALTGTRG--EGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSA 170
Query: 347 LLRPGRLE 354
+ R R E
Sbjct: 171 IRR--RFE 176
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 99.1 bits (247), Expect = 2e-23
Identities = 41/141 (29%), Positives = 69/141 (48%), Gaps = 11/141 (7%)
Query: 1 MDGVERLNN--ILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMR 58
DGV+ + +LV+G TNR +DEA+LR R ++ +SLPNE+ R+ +L+ K
Sbjct: 242 FDGVQSAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQ- 298
Query: 59 SYKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKLCI 118
L +LA +T +SG++L L + A A+ + + + + A E I
Sbjct: 299 --GSPLTQKELAQLARMTDGYSGSDLTALAKDA---ALGPIRELKPEQVKNMSASEMRNI 353
Query: 119 TRADFLHALETDIKPAFGSSD 139
+DF +L+ IK +
Sbjct: 354 RLSDFTESLKK-IKRSVSPQT 373
Score = 64.9 bits (158), Expect = 7e-12
Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNN--ILVIGMTNRRDMIDE 345
II D++D++ R G + + L + DGV+ + +LV+G TNR +DE
Sbjct: 210 IIFIDQVDSLLCERRE--GEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDE 267
Query: 346 ALLRPGRLE 354
A+LR R
Sbjct: 268 AVLR--RFI 274
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 97.0 bits (242), Expect = 3e-23
Identities = 40/144 (27%), Positives = 64/144 (44%), Gaps = 16/144 (11%)
Query: 1 MDGVERLNN---ILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKM 57
DG+ + I+V+ TNR +DEA LR R ++ +SLP+E R +L K
Sbjct: 148 FDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQ 205
Query: 58 RSYKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMN--RLIKATNKVEVDPQALEK 115
D L+ LA +T +SG++L L + A A+ R + +D A+
Sbjct: 206 ---GSPLDTEALRRLAKITDGYSGSDLTALAKDA---ALEPIRELNVEQVKCLDISAMRA 259
Query: 116 LCITRADFLHALETDIKPAFGSSD 139
IT DF +L+ I+ +
Sbjct: 260 --ITEQDFHSSLKR-IRRSVAPQS 280
Score = 64.2 bits (157), Expect = 8e-12
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 7/70 (10%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNN---ILVIGMTNRRDMID 344
II DE+D++ R + + + L + DG+ + I+V+ TNR +D
Sbjct: 116 IIFIDEVDSLLSERSS--SEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELD 173
Query: 345 EALLRPGRLE 354
EA LR R
Sbjct: 174 EAALR--RFT 181
>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta
domain, C-terminal helix, ATP-binding, E
nucleotide-binding; 2.90A {Saccharomyces cerevisiae}
PDB: 2qpa_A*
Length = 355
Score = 98.0 bits (244), Expect = 3e-23
Identities = 35/174 (20%), Positives = 74/174 (42%), Gaps = 37/174 (21%)
Query: 1 MDGV-ERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRS 59
M+GV +LV+G TN +D A+ R R E ++ I LP+ R + +I+
Sbjct: 178 MNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDT-- 233
Query: 60 YKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKAT---------------- 103
+ + + L A+T+ +SG+++ +V+ A + ++ AT
Sbjct: 234 -PSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRKLT 292
Query: 104 ------------NKVEVDPQALEKLCITRADFLHALETDIKPAFGSSDESLEHF 145
+ +++ L++ +T DFL A+++ +P +++ L
Sbjct: 293 PSSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKS-TRPTV--NEDDLLKQ 343
Score = 72.6 bits (178), Expect = 2e-14
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 5/68 (7%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGV-ERLNNILVIGMTNRRDMIDEA 346
II D++DA+ RG G + + +LL +M+GV +LV+G TN +D A
Sbjct: 146 IIFIDQVDALTGTRG--EGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSA 203
Query: 347 LLRPGRLE 354
+ R R E
Sbjct: 204 IRR--RFE 209
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 97.1 bits (242), Expect = 4e-23
Identities = 35/144 (24%), Positives = 60/144 (41%), Gaps = 6/144 (4%)
Query: 1 MDGVERLN-NILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRS 59
M GV N ILV+G TN ++D A+ R R E ++ I LP R + ++H
Sbjct: 140 MQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTT-- 195
Query: 60 YKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKLCIT 119
+ + + +EL T +SGA++ +VR A + ++ AT+ +V +
Sbjct: 196 -QNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNHL 254
Query: 120 RADFLHALETDIKPAFGSSDESLE 143
D L A + +
Sbjct: 255 VDDLLTPCSPGDPGAIEMTWMDVP 278
Score = 74.3 bits (183), Expect = 4e-15
Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 5/68 (7%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLN-NILVIGMTNRRDMIDEA 346
II DEID++C +R + + + L +M GV N ILV+G TN ++D A
Sbjct: 108 IIFIDEIDSLCGSRS--ENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSA 165
Query: 347 LLRPGRLE 354
+ R R E
Sbjct: 166 IRR--RFE 171
>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB:
1iy0_A* 1iy1_A*
Length = 254
Score = 95.5 bits (238), Expect = 5e-23
Identities = 47/115 (40%), Positives = 65/115 (56%), Gaps = 9/115 (7%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG E+ I+V+ TNR D++D ALLRPGR + Q+ I P+ GR QIL+IH
Sbjct: 146 MDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG---- 201
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEK 115
K LA+DV+L LA T F GA+LE L+ A A + ++ + LE+
Sbjct: 202 KPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAARE-----GRRKITMKDLEE 251
Score = 72.0 bits (177), Expect = 1e-14
Identities = 33/68 (48%), Positives = 45/68 (66%), Gaps = 5/68 (7%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHD---TVVNQLLSKMDGVERLNNILVIGMTNRRDMID 344
I+ DEIDA+ + RG+ G G +D +NQLL +MDG E+ I+V+ TNR D++D
Sbjct: 111 IVFIDEIDAVGRKRGSGVG--GGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILD 168
Query: 345 EALLRPGR 352
ALLRPGR
Sbjct: 169 PALLRPGR 176
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 95.9 bits (239), Expect = 6e-23
Identities = 47/115 (40%), Positives = 65/115 (56%), Gaps = 9/115 (7%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG E+ I+V+ TNR D++D ALLRPGR + Q+ I P+ GR QIL+IH
Sbjct: 170 MDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG---- 225
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEK 115
K LA+DV+L LA T F GA+LE L+ A A + ++ + LE+
Sbjct: 226 KPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAARE-----GRRKITMKDLEE 275
Score = 72.0 bits (177), Expect = 2e-14
Identities = 33/68 (48%), Positives = 45/68 (66%), Gaps = 5/68 (7%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHD---TVVNQLLSKMDGVERLNNILVIGMTNRRDMID 344
I+ DEIDA+ + RG+ G G +D +NQLL +MDG E+ I+V+ TNR D++D
Sbjct: 135 IVFIDEIDAVGRKRGSGVG--GGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILD 192
Query: 345 EALLRPGR 352
ALLRPGR
Sbjct: 193 PALLRPGR 200
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 95.1 bits (237), Expect = 7e-23
Identities = 47/115 (40%), Positives = 61/115 (53%), Gaps = 9/115 (7%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG E I+VI TNR D++D ALLRPGR + Q+ + LP+ GR QIL++H +
Sbjct: 142 MDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR---- 197
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEK 115
LA D++ +A T FSGA+L LV A A NK V EK
Sbjct: 198 VPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARG-----NKRVVSMVEFEK 247
Score = 72.0 bits (177), Expect = 1e-14
Identities = 35/68 (51%), Positives = 43/68 (63%), Gaps = 5/68 (7%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHD---TVVNQLLSKMDGVERLNNILVIGMTNRRDMID 344
II DEIDA+ + RG G G HD +NQ+L +MDG E I+VI TNR D++D
Sbjct: 107 IIFIDEIDAVGRQRGAGLG--GGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLD 164
Query: 345 EALLRPGR 352
ALLRPGR
Sbjct: 165 PALLRPGR 172
>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding,
cell CELL division, hydrolase, membrane, metal-binding;
3.30A {Helicobacter pylori} PDB: 2r65_A*
Length = 268
Score = 95.4 bits (238), Expect = 7e-23
Identities = 44/116 (37%), Positives = 69/116 (59%), Gaps = 10/116 (8%)
Query: 1 MDGVERLN-NILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRS 59
MDG N ++V+ TNR +++D AL+RPGR + Q+ + P+ +GRV+IL++H
Sbjct: 142 MDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKG--- 198
Query: 60 YKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEK 115
KLA+DVNL+E+A LT +GA+L ++ A A N+ EV Q L++
Sbjct: 199 -VKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRN-----NQKEVRQQHLKE 248
Score = 74.6 bits (184), Expect = 1e-15
Identities = 34/69 (49%), Positives = 46/69 (66%), Gaps = 6/69 (8%)
Query: 289 IIF-DEIDAICKARGTAGGNTGVHD---TVVNQLLSKMDGVERLN-NILVIGMTNRRDMI 343
IIF DEIDAI K+R AGG +D +NQLL++MDG N ++V+ TNR +++
Sbjct: 106 IIFIDEIDAIGKSRA-AGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEIL 164
Query: 344 DEALLRPGR 352
D AL+RPGR
Sbjct: 165 DPALMRPGR 173
>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA
ATPase, ATP-binding, coiled coil, membrane,
nucleotide-binding, phosphorylation; HET: ATP; 3.00A
{Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A
2jq9_A 2k3w_A 1yxr_A
Length = 444
Score = 96.6 bits (240), Expect = 3e-22
Identities = 35/144 (24%), Positives = 60/144 (41%), Gaps = 6/144 (4%)
Query: 1 MDGVERLN-NILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRS 59
M GV N ILV+G TN ++D A+ R R E ++ I LP R + ++H
Sbjct: 262 MQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLGST-- 317
Query: 60 YKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKLCIT 119
+ + + +EL T +SGA++ +VR A + ++ AT+ +V +
Sbjct: 318 -QNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNCI 376
Query: 120 RADFLHALETDIKPAFGSSDESLE 143
D L A + +
Sbjct: 377 VNDLLTPCSPGDPGAIEMTWMDVP 400
Score = 72.7 bits (178), Expect = 3e-14
Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 5/68 (7%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLN-NILVIGMTNRRDMIDEA 346
II DEID++C +R + + + L +M GV N ILV+G TN ++D A
Sbjct: 230 IIFIDEIDSLCGSRS--ENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSA 287
Query: 347 LLRPGRLE 354
+ R R E
Sbjct: 288 IRR--RFE 293
>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A
{Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB:
2cea_A* 3kds_E*
Length = 476
Score = 95.7 bits (239), Expect = 5e-22
Identities = 46/117 (39%), Positives = 68/117 (58%), Gaps = 13/117 (11%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG + I+V+ TNR D++D ALLRPGR + ++ + P+ GR +IL+IHT
Sbjct: 146 MDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRN---- 201
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLV-RAAQSCAMNRLIKA-TNKVEVDPQALEK 115
K LA+DVNL+ +A T F GA+LE LV AA L+ A + ++ + E+
Sbjct: 202 KPLAEDVNLEIIAKRTPGFVGADLENLVNEAA-------LLAAREGRDKITMKDFEE 251
Score = 72.6 bits (179), Expect = 3e-14
Identities = 35/69 (50%), Positives = 45/69 (65%), Gaps = 8/69 (11%)
Query: 289 IIF-DEIDAICKARGTAGGNTGVHD----TVVNQLLSKMDGVERLNNILVIGMTNRRDMI 343
I+F DEIDA+ + RG G G HD T+ NQLL +MDG + I+V+ TNR D++
Sbjct: 111 IVFIDEIDAVGRHRGAGLG--GGHDEREQTL-NQLLVEMDGFDSKEGIIVMAATNRPDIL 167
Query: 344 DEALLRPGR 352
D ALLRPGR
Sbjct: 168 DPALLRPGR 176
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 95.7 bits (239), Expect = 5e-22
Identities = 49/117 (41%), Positives = 68/117 (58%), Gaps = 13/117 (11%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG E+ I+V+ TNR D++D ALLRPGR + Q+ I P+ GR QIL+IH
Sbjct: 161 MDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG---- 216
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLV-RAAQSCAMNRLIKA-TNKVEVDPQALEK 115
K LA+DV+L LA T F GA+LE L+ AA L+ A + ++ + LE+
Sbjct: 217 KPLAEDVDLALLAKRTPGFVGADLENLLNEAA-------LLAAREGRRKITMKDLEE 266
Score = 72.2 bits (178), Expect = 3e-14
Identities = 35/69 (50%), Positives = 47/69 (68%), Gaps = 8/69 (11%)
Query: 289 IIF-DEIDAICKARGTAGGNTGVHD----TVVNQLLSKMDGVERLNNILVIGMTNRRDMI 343
I+F DEIDA+ + RG+ G G +D T+ NQLL +MDG E+ I+V+ TNR D++
Sbjct: 126 IVFIDEIDAVGRKRGSGVG--GGNDEREQTL-NQLLVEMDGFEKDTAIVVMAATNRPDIL 182
Query: 344 DEALLRPGR 352
D ALLRPGR
Sbjct: 183 DPALLRPGR 191
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 92.6 bits (230), Expect = 1e-21
Identities = 22/149 (14%), Positives = 47/149 (31%), Gaps = 20/149 (13%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
M + + +I N + L+R GR+E P + R+ +
Sbjct: 147 MYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWA--PTREDRIGVCTGIF------ 198
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKLCITR 120
D+V +++ + NF G ++ + + K + ++ + +
Sbjct: 199 --RTDNVPAEDVVKIVDNFPGQSIDFFGALRARVYDDEVRKWVSGTGIE--KIGDKLLNS 254
Query: 121 ADFLHALETDIKPAFGSSDESLEHFLSRG 149
D P F ++E L G
Sbjct: 255 FDG--------PPTFEQPKMTIEKLLEYG 275
Score = 76.0 bits (187), Expect = 7e-16
Identities = 16/79 (20%), Positives = 29/79 (36%), Gaps = 13/79 (16%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSK------------MDGVERLNNILVIG 335
+ +++DA G T V++ +VN L M + + +I
Sbjct: 102 CLFINDLDAGAGRMGGTTQYT-VNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIV 160
Query: 336 MTNRRDMIDEALLRPGRLE 354
N + L+R GR+E
Sbjct: 161 TGNDFSTLYAPLIRDGRME 179
>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics,
structural G consortium, SGC, ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo
sapiens}
Length = 262
Score = 90.8 bits (226), Expect = 3e-21
Identities = 36/117 (30%), Positives = 59/117 (50%), Gaps = 7/117 (5%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG+ ++++V+ TNR D++D AL+RPGRL+ + I LP R +I + H
Sbjct: 137 MDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKS---- 192
Query: 61 KKLADDVNL--KELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEK 115
KL + LA LT FSGA++ + A A + + + + A+E+
Sbjct: 193 LKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREGHTSVHTLNFE-YAVER 248
Score = 78.8 bits (195), Expect = 5e-17
Identities = 28/68 (41%), Positives = 43/68 (63%), Gaps = 5/68 (7%)
Query: 289 IIF-DEIDAICKARGTAGGNTGVHD---TVVNQLLSKMDGVERLNNILVIGMTNRRDMID 344
I++ DEIDA+ K R T + +NQLL +MDG+ ++++V+ TNR D++D
Sbjct: 101 IVYIDEIDAVGKKRSTTMSGFS-NTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILD 159
Query: 345 EALLRPGR 352
AL+RPGR
Sbjct: 160 GALMRPGR 167
>1cr5_A SEC18P (residues 22 - 210); double-PSI beta barrel, vesicle fusion,
endocytosis/exocytosis complex; 2.30A {Saccharomyces
cerevisiae} SCOP: b.52.2.3 d.31.1.1
Length = 189
Score = 88.1 bits (218), Expect = 7e-21
Identities = 30/102 (29%), Positives = 51/102 (50%), Gaps = 6/102 (5%)
Query: 181 SVLLEVDKVPTDELSLSNFAAANKDDFVEDTKHIEVTTGPGRHYIFTLAYSPDVKRGFIG 240
+ L+V P + +L+N AA + +DF + +I + ++FT +S D+ G IG
Sbjct: 5 TRHLKVSNCPNNSYALANVAAVSPNDFPNNI-YIII----DNLFVFTTRHSNDIPPGTIG 59
Query: 241 FSLLQRKWAELSLHQDIDVKPF-FFNPKNTSEFLCTIILEAG 281
F+ QR W SL+QD+ K F F +L +I ++
Sbjct: 60 FNGNQRTWGGWSLNQDVQAKAFDLFKYSGKQSYLGSIDIDIS 101
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 74.5 bits (184), Expect = 3e-17
Identities = 25/79 (31%), Positives = 36/79 (45%), Gaps = 13/79 (16%)
Query: 37 EISLPNEDGRVQILQIHTAKMRSYKKLADDVNLKELAALTKNFSGAELEGLVRAA----- 91
S PNE+ R+ IL+IH+ KM L +NL+++A L SGAE++G+ A
Sbjct: 7 HHSHPNEEARLDILKIHSRKM----NLTRGINLRKIAELMPGASGAEVKGVCTEAGMYAL 62
Query: 92 ----QSCAMNRLIKATNKV 106
A KV
Sbjct: 63 RERRVHVTQEDFEMAVAKV 81
>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.10A {Homo sapiens}
Length = 78
Score = 71.0 bits (175), Expect = 6e-16
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 13/76 (17%)
Query: 40 LPNEDGRVQILQIHTAKMRSYKKLADDVNLKELAALTKNFSGAELEGLVRAA-------- 91
PNE+ R+ IL+IH+ KM L +NL+++A L SGAE++G+ A
Sbjct: 2 PPNEEARLDILKIHSRKM----NLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER 57
Query: 92 -QSCAMNRLIKATNKV 106
A KV
Sbjct: 58 RVHVTQEDFEMAVAKV 73
>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain,
ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus}
SCOP: c.37.1.20 PDB: 1nsf_A*
Length = 272
Score = 72.5 bits (178), Expect = 1e-14
Identities = 27/70 (38%), Positives = 42/70 (60%)
Query: 116 LCITRADFLHALETDIKPAFGSSDESLEHFLSRGILNWGTPVQECLEAGRIFIQQSKDTE 175
+ + H DIKPAFG++ E ++ GI+ WG PV L+ G + +QQ+K+++
Sbjct: 1 MRGSHHHHHHGSTMDIKPAFGTNQEDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSD 60
Query: 176 SSGLVSVLLE 185
+ LVSVLLE
Sbjct: 61 RTPLVSVLLE 70
Score = 60.5 bits (147), Expect = 1e-10
Identities = 13/70 (18%), Positives = 29/70 (41%), Gaps = 5/70 (7%)
Query: 284 SGLHIIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVE-RLNNILVIGMTNRRDM 342
S L ++ D+I+ + + V+ LL + + +L+IG T+R+D+
Sbjct: 123 SQLSCVVVDDIERLLDYVPIGPR---FSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDV 179
Query: 343 IDEALLRPGR 352
+ +
Sbjct: 180 LQ-EMEMLNA 188
Score = 60.5 bits (147), Expect = 1e-10
Identities = 19/125 (15%), Positives = 41/125 (32%), Gaps = 13/125 (10%)
Query: 1 MDGVE-RLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRS 59
+ + +L+IG T+R+D++ + I +PN Q+L+
Sbjct: 158 LKKAPPQGRKLLIIGTTSRKDVLQ-EMEMLNAFST--TIHVPNIATGEQLLEALELLG-- 212
Query: 60 YKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCA-MNRLIKATNKVEVDPQALEKLCI 118
D +A G ++ ++ M+ + +V L +
Sbjct: 213 ---NFKDKERTTIAQQV---KGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGA 266
Query: 119 TRADF 123
+ DF
Sbjct: 267 SPLDF 271
>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin,
S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber
suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B*
2dvw_B*
Length = 83
Score = 61.9 bits (151), Expect = 1e-12
Identities = 19/93 (20%), Positives = 37/93 (39%), Gaps = 23/93 (24%)
Query: 42 NEDGRVQILQIHTAKMRSYKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIK 101
+ + I T+KM L+++V+L++ A SGA++ + + + M
Sbjct: 2 DRRQKRLIFSTITSKM----NLSEEVDLEDYVARPDKISGADINSICQES---GM----- 49
Query: 102 ATNKVEVDPQAL--EKLCITRADFLHALETDIK 132
A+ + + DF A +T IK
Sbjct: 50 ---------LAVRENRYIVLAKDFEKAYKTVIK 73
>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone,
chaperone-protein binding complex; HET: DNA; 3.80A
{Saccharomyces cerevisiae} PDB: 4a3v_B*
Length = 88
Score = 58.4 bits (142), Expect = 2e-11
Identities = 17/79 (21%), Positives = 32/79 (40%), Gaps = 13/79 (16%)
Query: 42 NEDGRVQILQIHTAKMRSYKKLADDVNLKELAALTKNFSGAELEGLV-----RAA----Q 92
+ +GR I +IH+ M + + + ++ L N +GAEL + A +
Sbjct: 2 DLEGRANIFRIHSKSM----SVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRK 57
Query: 93 SCAMNRLIKATNKVEVDPQ 111
+KA +KV +
Sbjct: 58 VATEKDFLKAVDKVISGYK 76
>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats,
A-helical domain, structural genomics, NPPSFA; 2.20A
{Saccharomyces cerevisiae} PDB: 2dzo_B
Length = 82
Score = 58.1 bits (141), Expect = 3e-11
Identities = 18/90 (20%), Positives = 33/90 (36%), Gaps = 23/90 (25%)
Query: 46 RVQILQIHTAKMRSYKKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNK 105
R I +KM LA + +L L + SGA + +++ A +
Sbjct: 3 RRLIFGTIASKM----SLAPEADLDSLIIRNDSLSGAVIAAIMQEA---GL--------- 46
Query: 106 VEVDPQAL--EKLCITRADFLHALETDIKP 133
+A+ + I ++D A T +K
Sbjct: 47 -----RAVRKNRYVILQSDLEEAYATQVKT 71
>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 = 54.9 bits (131), Expect = 2e-08
Identities = 57/389 (14%), Positives = 112/389 (28%), Gaps = 114/389 (29%)
Query: 4 VERLNNILVI----------GMTNRRDMIDEALLRPGRL--ELQMEISL--------PNE 43
+E L +L +N + I RL E L
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258
Query: 44 ----DGRVQILQIHTAKMRSYKKLADDVNLKE-----LAALTKNFSGAELEGLVRAAQSC 94
+ +IL + T R +K++ D ++ L + + E++ L+ C
Sbjct: 259 WNAFNLSCKIL-LTT---R-FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313
Query: 95 AMNRL---IKATNKVEVDPQAL----EKL--CITRADFLHALETD-IKPAFGSSDESLE- 143
L + TN P+ L E + + D + D + SS LE
Sbjct: 314 RPQDLPREVLTTN-----PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP 368
Query: 144 -----HFLSRGILN-------------WGTPVQECLE------AGRIFIQQSKDTESSGL 179
F + W ++ + +++ + +
Sbjct: 369 AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI 428
Query: 180 VSVLLEVDKVPTDELSL--------SNFAAANKDDFVEDTKHIEVTTGPGRHYIFT-LAY 230
S+ LE+ +E +L + + DD + Y ++ + +
Sbjct: 429 PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPP---------YLDQYFYSHIGH 479
Query: 231 ----------SPDVKRGFIGFSLLQRK-------WAE----LSLHQDIDV-KPFFFNPKN 268
+ F+ F L++K W L+ Q + KP+ +
Sbjct: 480 HLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDP 539
Query: 269 TSEFLCTIILEAGPNSGLHIIIFDEIDAI 297
E L IL+ P ++I D +
Sbjct: 540 KYERLVNAILDFLPKIEENLICSKYTDLL 568
Score = 53.3 bits (127), Expect = 8e-08
Identities = 39/333 (11%), Positives = 92/333 (27%), Gaps = 99/333 (29%)
Query: 19 RDMIDEALLRP--GRLELQMEISLPNEDGRVQIL--QIHTAKMRSYKKLADDVNLKELAA 74
+D+ D + + + E+ I + L + + + +K ++V
Sbjct: 36 KDVQD--MPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEV------- 86
Query: 75 LTKNFSGAELEGLVRAAQ------SCAMNRLIKATNKVEVDPQALEKLCITRADFLHALE 128
L N+ + L+ + S I+ +++ D Q K ++R L
Sbjct: 87 LRINY-----KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR 141
Query: 129 T---DIKPA----------FGSS--------DESLEHFLSRGILNWGTPVQECLEAGRIF 167
+++PA G + ++ + I W ++ C +
Sbjct: 142 QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF-WLN-LKNCNSPETVL 199
Query: 168 IQQSK---------DTESSGLVSVLLEVDKVPTDELSLSNFAAANK--------DDFVED 210
K + S ++ L + + + L + + V++
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI---QAELRRLLKSKPYENCLLVLLN-VQN 255
Query: 211 TKHIE---------VTT---------GPGRHYIFTLAYSPDVKRGFI---GFSLLQRKWA 249
K +TT +L SLL K+
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD---HHSMTLTPDEVKSLL-LKYL 311
Query: 250 ELSL----HQDIDVKPFFFN--PKNTSEFLCTI 276
+ + + P + ++ + L T
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESIRDGLATW 344
Score = 43.3 bits (101), Expect = 1e-04
Identities = 46/343 (13%), Positives = 91/343 (26%), Gaps = 110/343 (32%)
Query: 4 VERLNN---ILVIGMTNRRDMIDEALLRPGRLELQMEI-------------SLPNE---D 44
+RL N + +R + LR LEL+ + +
Sbjct: 116 RDRLYNDNQVFAKYNVSRLQPYLK--LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS 173
Query: 45 GRVQIL---QIHTAKMRSYKKLADDVNLKELAAL----TKNFSGAELEGLVRAAQSC--- 94
+VQ +I +++ + L+ L L N++ + +
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNS--PETVLEMLQKLLYQIDPNWT-SRSDHSSNIKLRIHSI 230
Query: 95 --AMNRLIKATNKVEV--------DPQALEKL---C----ITR----ADFLHALET---- 129
+ RL+K+ + +A C TR DFL A T
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290
Query: 130 --DIKPAFGSSDESLEHFLSRGILNWGT---PVQEC-------------LEAGRIFIQQS 171
+ DE L L+ P + + G
Sbjct: 291 LDHHSMTL-TPDEVKSLLLK--YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW 347
Query: 172 KDTESSGLVSVL-LEVDKVPTDELS--LSNFAAANKDDFVEDTKHIEVTTGPGRHYIFTL 228
K L +++ ++ + E + F + T L
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV-----FPPSAH---IPTI-------LL 392
Query: 229 AY---------SPDVKRGFIGFSLLQRKWAE--LSLHQDIDVK 260
+ V +SL++++ E +S+ I ++
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP-SIYLE 434
Score = 31.4 bits (70), Expect = 0.50
Identities = 29/175 (16%), Positives = 53/175 (30%), Gaps = 56/175 (32%)
Query: 191 TDELSLSN--FAAANKDDFVED--TKHIEVTTGPGRHYIFT-------LAYSPDVKRGFI 239
T E + +D FV++ K ++ I + + V
Sbjct: 11 TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS----ILSKEEIDHIIMSKDAVSGTLR 66
Query: 240 GFSLLQRKWAELSLHQDIDVKPFFFNPKNTS-EFLCTII-LEAGPNSGLHIIIFDEIDAI 297
F L K E+ V+ F + +FL + I E S + + ++ D +
Sbjct: 67 LFWTLLSKQEEM-------VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119
Query: 298 CKARGTAGGNTGVHDTVVNQLLSKMDGVERL----------------NNILVIGM 336
NQ+ +K + V RL N+L+ G+
Sbjct: 120 YN---------------DNQVFAKYN-VSRLQPYLKLRQALLELRPAKNVLIDGV 158
>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 = 34.3 bits (78), Expect = 0.079
Identities = 39/231 (16%), Positives = 77/231 (33%), Gaps = 82/231 (35%)
Query: 4 VERLNNIL------VIGMTN-RRDMI----DEAL------LR----PGRLELQMEISLPN 42
V + N+ L I + N ++++ ++L LR P L+ Q I P
Sbjct: 353 VNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD-QSRI--PF 409
Query: 43 ED----GRVQILQI----HTAKMRSYKKLADDVNLKELAALTKNFSGAEL--------EG 86
+ + L + H+ A D+ K+L +F+ ++ +G
Sbjct: 410 SERKLKFSNRFLPVASPFHS----HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG 465
Query: 87 L-VRAAQSCAMNRLIKATNKVEVDPQALEKLCITRADFLHALETDIKPAFGSSDESLEHF 145
+R R++ ++ V E +A H L+ FG S
Sbjct: 466 SDLRVLSGSISERIVDCIIRLPVK---WETTTQFKA--THILD------FGPGGAS---- 510
Query: 146 LSRGILNWGTPVQECLEAGRIFIQQSKDTESSGLVSVLL--EVDKVPTDEL 194
G+ G + ++ + +G V V++ +D P D+
Sbjct: 511 ---GL-------------GVLT---HRNKDGTG-VRVIVAGTLDINPDDDY 541
>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 = 28.8 bits (63), Expect = 1.6
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 7/36 (19%)
Query: 109 DPQALEKLCITRADF-LHALETDIKPAFGSSDESLE 143
+ QAL+KL +A L+A D PA + ++E
Sbjct: 18 EKQALKKL---QASLKLYA--DDSAPAL-AIKATME 47
>3kp7_A Transcriptional regulator TCAR; multiple drug resistance, biofilm,
transcription regulation, binding, transcription
regulator; 2.30A {Staphylococcus epidermidis RP62A} PDB:
3kp3_A* 3kp4_A* 3kp5_A* 3kp2_A* 3kp6_A
Length = 151
Score = 26.7 bits (59), Expect = 6.9
Identities = 14/79 (17%), Positives = 37/79 (46%), Gaps = 7/79 (8%)
Query: 31 RLE----LQMEISLPNEDGRVQILQIHTAKMRSYKKLADDVNLKELAALTKNFSGAELEG 86
+L +++E N D R++I+++ + K + Y K + + +T +F E+E
Sbjct: 74 KLLNAELVKLEKPDSNTDQRLKIIKL-SNKGKKYIKERKAIMSHIASDMTSDFDSKEIEK 132
Query: 87 LVRAAQSCAMNRLIKATNK 105
+ + + ++ I++
Sbjct: 133 VRQVLEI--IDYRIQSYTS 149
>3bro_A Transcriptional regulator; helix_TURN_helix, multiple antibiotic
resistance protein (MA structural genomics, PSI-2,
protein structure initiative; HET: MSE; 2.04A
{Oenococcus oeni} SCOP: a.4.5.28
Length = 141
Score = 26.6 bits (59), Expect = 7.0
Identities = 8/47 (17%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 43 EDGRVQILQIHTAKMRSYKKLADDVNLKELAALTKNFSGAELEGLVR 89
+D R + L++ T K + + + + +T + E+ L +
Sbjct: 87 KDSRQKCLKL-TKKANKLETIILSYMDSDQSQMTSGLNKEEVVFLEK 132
>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 516
Score = 27.5 bits (61), Expect = 8.1
Identities = 9/39 (23%), Positives = 14/39 (35%), Gaps = 1/39 (2%)
Query: 259 VKPFFFNPKNTSEFLCTIILEAGPNSGLHIIIFDEIDAI 297
VK N + + N +II DE+D +
Sbjct: 123 VKNALDN-MSVVGYFKHNEEAQNLNGKHFVIIMDEVDGM 160
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 0.137 0.389
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,575,067
Number of extensions: 346868
Number of successful extensions: 832
Number of sequences better than 10.0: 1
Number of HSP's gapped: 760
Number of HSP's successfully gapped: 76
Length of query: 358
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 263
Effective length of database: 4,049,298
Effective search space: 1064965374
Effective search space used: 1064965374
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: 58 (26.0 bits)