RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5642
(237 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 = 271 bits (694), Expect = 9e-92
Identities = 90/246 (36%), Positives = 128/246 (52%), Gaps = 51/246 (20%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
GPEL + GESE VR++F +ARQ +P V+FFDELDS+A RG G G G +RV+
Sbjct: 82 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG-GNIGDGGGAADRVIN 140
Query: 75 QMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLA 134
Q+LTEMDG+ NV I+ ATNRPD ID A+LRPGRLD+LIY+PLPD+ +R AILK L
Sbjct: 141 QILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLR 200
Query: 135 RSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEAA 194
+SP+ +DV +E L ++T G+SGA+ + +C A
Sbjct: 201 KSPVAKDVDLEFLAKMTNGFSGAD---------------------------LTEICQRAC 233
Query: 195 LSALENNLEA-----------------------AYVSHQDFLTALQLVKPRTPPQLIKLY 231
A+ ++E+ + F A++ + I+ Y
Sbjct: 234 KLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIRKY 293
Query: 232 ENYIKK 237
E + +
Sbjct: 294 EMFAQT 299
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 252 bits (647), Expect = 6e-85
Identities = 84/226 (37%), Positives = 112/226 (49%), Gaps = 45/226 (19%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
GPEL YVGESER VR VF+RA+ +P VIFFDE+D+L R D G RV+
Sbjct: 77 GPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETG----ASVRVVN 132
Query: 75 QMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL- 133
Q+LTEMDG+ V I+AATNRPD ID A+LRPGRLD+ ++V LP R AILK
Sbjct: 133 QLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITK 192
Query: 134 --ARSPLGEDVCVEELVR--LTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAV 189
+ PL DV +E + + Y+GA+ + A+
Sbjct: 193 NGTKPPLDADVNLEAIAGDLRCDCYTGAD---------------------------LSAL 225
Query: 190 CDEAALSALENNLEAA---------YVSHQDFLTALQLVKPRTPPQ 226
EA++ AL + VSH+ F A + V+ +
Sbjct: 226 VREASICALRQEMARQKSGNEKGELKVSHKHFEEAFKKVRSSISKK 271
>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 = 260 bits (667), Expect = 2e-82
Identities = 90/246 (36%), Positives = 128/246 (52%), Gaps = 51/246 (20%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
GPEL + GESE VR++F +ARQ +P V+FFDELDS+A RG G G G +RV+
Sbjct: 544 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG-GNIGDGGGAADRVIN 602
Query: 75 QMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLA 134
Q+LTEMDG+ NV I+ ATNRPD ID A+LRPGRLD+LIY+PLPD+ +R AILK L
Sbjct: 603 QILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLR 662
Query: 135 RSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEAA 194
+SP+ +DV +E L ++T G+SGA+ + +C A
Sbjct: 663 KSPVAKDVDLEFLAKMTNGFSGAD---------------------------LTEICQRAC 695
Query: 195 LSALENNLEA-----------------------AYVSHQDFLTALQLVKPRTPPQLIKLY 231
A+ ++E+ + F A++ + I+ Y
Sbjct: 696 KLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIRKY 755
Query: 232 ENYIKK 237
E + +
Sbjct: 756 EMFAQT 761
Score = 168 bits (427), Expect = 3e-48
Identities = 72/222 (32%), Positives = 108/222 (48%), Gaps = 46/222 (20%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
GPE+ K GESE +R F+ A + +P++IF DELD++A +R G V+ R+++
Sbjct: 271 GPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGE----VERRIVS 326
Query: 75 QMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLA 134
Q+LT MDG+ +V ++AATNRP+ ID AL R GR DR + + +PD R IL+I
Sbjct: 327 QLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTK 386
Query: 135 RSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEAA 194
L +DV +E++ T G+ GA+ + A+C EAA
Sbjct: 387 NMKLADDVDLEQVANETHGHVGAD---------------------------LAALCSEAA 419
Query: 195 LSAL---------------ENNLEAAYVSHQDFLTALQLVKP 221
L A+ + + V+ DF AL P
Sbjct: 420 LQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNP 461
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 211 bits (539), Expect = 1e-68
Identities = 82/209 (39%), Positives = 119/209 (56%), Gaps = 30/209 (14%)
Query: 14 IGPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVL 73
+G EL +K++GE V+D+FK A++ +PS+IF DE+D++A +R D GG VQ R L
Sbjct: 83 VGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQ-RTL 141
Query: 74 AQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL 133
Q+L EMDG +V I+ ATNRPD +D A+LRPGR DR+I VP PD+ R ILKI
Sbjct: 142 MQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHT 201
Query: 134 ARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEA 193
+ L EDV +EE+ ++TEG GAE + A+C EA
Sbjct: 202 RKMNLAEDVNLEEIAKMTEGCVGAE---------------------------LKAICTEA 234
Query: 194 ALSALENNLEAAYVSHQDFLTALQLVKPR 222
++A+ + YV+ DF A++ + +
Sbjct: 235 GMNAIRELRD--YVTMDDFRKAVEKIMEK 261
>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 = 193 bits (493), Expect = 4e-61
Identities = 62/239 (25%), Positives = 110/239 (46%), Gaps = 22/239 (9%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
+L K++GESE+ V+ +F AR+ PS+IF D++D+L G RG+G R+
Sbjct: 84 SSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEAS----RRIKT 139
Query: 75 QMLTEMDGI-VPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL 133
++L +M+G+ V ++ ATN P ++D A+ R R +R IY+PLPD R + +I +
Sbjct: 140 ELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINV 197
Query: 134 ARSPLG-EDVCVEELVRLTEGYSGAE--------------QSLSKHRAKKIRPRRESNPG 178
+P L +TEGYSG++ + S K + +
Sbjct: 198 GDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRK 257
Query: 179 PPACKPSIVAVCDEAALSALENNLEAAYVSHQDFLTALQLVKPRTPPQLIKLYENYIKK 237
C P + + + L+ ++ +DFL A++ +P + E + +
Sbjct: 258 LTPCSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTRD 316
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 189 bits (482), Expect = 1e-59
Identities = 64/245 (26%), Positives = 104/245 (42%), Gaps = 28/245 (11%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
+L K++GESE+ V+++F+ AR+ PS+IF DE+DSL G R + R+
Sbjct: 79 SSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAA----RRIKT 134
Query: 75 QMLTEMDGIVPLN-NVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL 133
+ L +M G+ N + ++ ATN P +D A+ R R ++ IY+PLP+ RAA+ K+ L
Sbjct: 135 EFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHL 192
Query: 134 ARSPLG-EDVCVEELVRLTEGYSGA--------------------EQSLSKHRAKKIRPR 172
+ + EL R T+GYSGA + P
Sbjct: 193 GTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPN 252
Query: 173 RESNPGPPACKPSIVAVCDEAALSALENNLEAAYVSHQDFLTALQLVKPRTPPQLIKLYE 232
+ C P + + + L VS D L +L KP + +
Sbjct: 253 HLVDDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNTKPTVNEHDLLKLK 312
Query: 233 NYIKK 237
+ +
Sbjct: 313 KFTED 317
>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 = 190 bits (485), Expect = 1e-59
Identities = 61/239 (25%), Positives = 110/239 (46%), Gaps = 22/239 (9%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
+L K++GESE+ V+ +F AR+ PS+IF D++D+L G RG+G R+
Sbjct: 117 SSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEAS----RRIKT 172
Query: 75 QMLTEMDGI-VPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL 133
++L +M+G+ V ++ ATN P ++D A+ R R +R IY+PLPD R + +I +
Sbjct: 173 ELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINV 230
Query: 134 ARSP-LGEDVCVEELVRLTEGYSGAE--------------QSLSKHRAKKIRPRRESNPG 178
+P + L +TEGYSG++ + S K + +
Sbjct: 231 GDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRK 290
Query: 179 PPACKPSIVAVCDEAALSALENNLEAAYVSHQDFLTALQLVKPRTPPQLIKLYENYIKK 237
P + + + L+ ++ +DFL A++ +P + E + +
Sbjct: 291 LTPSSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTRD 349
>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 = 190 bits (485), Expect = 3e-58
Identities = 72/222 (32%), Positives = 108/222 (48%), Gaps = 46/222 (20%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
GPE+ K GESE +R F+ A + +P++IF DELD++A +R G V+ R+++
Sbjct: 271 GPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGE----VERRIVS 326
Query: 75 QMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLA 134
Q+LT MDG+ +V ++AATNRP+ ID AL R GR DR + + +PD R IL+I
Sbjct: 327 QLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTK 386
Query: 135 RSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEAA 194
L +DV +E++ T G+ GA+ + A+C EAA
Sbjct: 387 NMKLADDVDLEQVANETHGHVGAD---------------------------LAALCSEAA 419
Query: 195 LSAL---------------ENNLEAAYVSHQDFLTALQLVKP 221
L A+ + + V+ DF AL P
Sbjct: 420 LQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNP 461
>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 = 187 bits (477), Expect = 1e-57
Identities = 65/245 (26%), Positives = 106/245 (43%), Gaps = 28/245 (11%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
+L K++GESE+ V+++F+ AR+ PS+IF DE+DSL G R + R+
Sbjct: 201 SSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAA----RRIKT 256
Query: 75 QMLTEMDGIVPLN-NVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL 133
+ L +M G+ N + ++ ATN P +D A+ R R ++ IY+PLP+ RAA+ ++ L
Sbjct: 257 EFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHL 314
Query: 134 ARSPLG-EDVCVEELVRLTEGYSGA--------------------EQSLSKHRAKKIRPR 172
+ + +EL R T+GYSGA + P
Sbjct: 315 GSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPN 374
Query: 173 RESNPGPPACKPSIVAVCDEAALSALENNLEAAYVSHQDFLTALQLVKPRTPPQLIKLYE 232
N C P + + + L VS D L +L KP Q + +
Sbjct: 375 CIVNDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMWDMLRSLSSTKPTVNEQDLLKLK 434
Query: 233 NYIKK 237
+ +
Sbjct: 435 KFTED 439
>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 = 178 bits (454), Expect = 5e-55
Identities = 67/236 (28%), Positives = 112/236 (47%), Gaps = 46/236 (19%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
L K+VGE E+ VR +F AR P+VIF DE+DSL +RGD G R+
Sbjct: 150 ASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGD----GEHESSRRIKT 205
Query: 75 QMLTEMDGIV--PLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIR 132
+ L ++DG + + +V ATNRP ID+A R RL + +Y+PLP+ R I+
Sbjct: 206 EFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIVINL 263
Query: 133 LARSP-LGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCD 191
+++ + +E++V+ ++ +SGA+ + +C
Sbjct: 264 MSKEQCCLSEEEIEQIVQQSDAFSGAD---------------------------MTQLCR 296
Query: 192 EAALSALENNLEAAY----------VSHQDFLTALQLVKPRTPPQLIKLYENYIKK 237
EA+L + + A +++ DF A + V+P P+ ++LYEN+ K
Sbjct: 297 EASLGPIRSLQTADIATITPDQVRPIAYIDFENAFRTVRPSVSPKDLELYENWNKT 352
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 172 bits (438), Expect = 4e-53
Identities = 66/237 (27%), Positives = 106/237 (44%), Gaps = 47/237 (19%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
L KYVG+ E+ VR +F AR + PS+IF DE+DSL ER R+
Sbjct: 87 AASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSS----SEHEASRRLKT 142
Query: 75 QMLTEMDGIVPLNN---VTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKI 131
+ L E DG+ + + ++AATNRP +D+A LR R + +YV LPD+ TR +L
Sbjct: 143 EFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNR 200
Query: 132 RLARSPLGEDVC-VEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVC 190
L + D + L ++T+GYSG++ + A+
Sbjct: 201 LLQKQGSPLDTEALRRLAKITDGYSGSD---------------------------LTALA 233
Query: 191 DEAALSALENNLEAAY----------VSHQDFLTALQLVKPRTPPQLIKLYENYIKK 237
+AAL + ++ QDF ++L+ ++ PQ + YE + +
Sbjct: 234 KDAALEPIRELNVEQVKCLDISAMRAITEQDFHSSLKRIRRSVAPQSLNSYEKWSQD 290
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 168 bits (427), Expect = 1e-50
Identities = 67/236 (28%), Positives = 108/236 (45%), Gaps = 46/236 (19%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
L KYVGE E+ VR +F AR++ PS+IF D++DSL ER + G + R+
Sbjct: 181 AASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERRE----GEHDASRRLKT 236
Query: 75 QMLTEMDGIV--PLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIR 132
+ L E DG+ + V ++ ATNRP +D+A+LR R + +YV LP++ TR +LK
Sbjct: 237 EFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNL 294
Query: 133 LARSPLG-EDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCD 191
L + + +L R+T+GYSG++ + A+
Sbjct: 295 LCKQGSPLTQKELAQLARMTDGYSGSD---------------------------LTALAK 327
Query: 192 EAALSALENNLEAAY----------VSHQDFLTALQLVKPRTPPQLIKLYENYIKK 237
+AAL + + DF +L+ +K PQ ++ Y + K
Sbjct: 328 DAALGPIRELKPEQVKNMSASEMRNIRLSDFTESLKKIKRSVSPQTLEAYIRWNKD 383
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 159 bits (403), Expect = 5e-48
Identities = 30/160 (18%), Positives = 60/160 (37%), Gaps = 25/160 (15%)
Query: 15 GPELFRKYVGESERCVRDVFKRA----RQVSPSVIFFDELDSLAGERGDGGGGGGSNVQE 70
EL GE + +R ++ A R+ + +F ++LD+ AG G V
Sbjct: 69 AGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYT---VNN 125
Query: 71 RVLAQMLTE------------MDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVP 118
+++ L M V I+ N + L+R GR+++ + P
Sbjct: 126 QMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWAP 185
Query: 119 LPDDLTRAAILKIRLARSPLGEDVCVEELVRLTEGYSGAE 158
+D R + ++V E++V++ + + G
Sbjct: 186 TRED--RIGVCTGIF----RTDNVPAEDVVKIVDNFPGQS 219
>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 = 157 bits (399), Expect = 1e-47
Identities = 60/195 (30%), Positives = 95/195 (48%), Gaps = 33/195 (16%)
Query: 23 VGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDG 82
+G + VR +FK AR +P +++ DE+D++ +R G + +E+ L Q+L EMDG
Sbjct: 82 LGAAR--VRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDG 139
Query: 83 IVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARSPLGEDV 142
+ ++V ++A+TNR D +D AL+RPGRLDR +++ LP R I + L L +
Sbjct: 140 MGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSS 199
Query: 143 --CVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEAALSALEN 200
+ L LT G+SGA+ I +C+EAAL A
Sbjct: 200 TFYSQRLAELTPGFSGAD---------------------------IANICNEAALHAARE 232
Query: 201 NLEAAYVSHQDFLTA 215
+ V +F A
Sbjct: 233 GHTS--VHTLNFEYA 245
>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 = 147 bits (374), Expect = 6e-44
Identities = 59/137 (43%), Positives = 88/137 (64%), Gaps = 3/137 (2%)
Query: 23 VGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDG 82
+G S VRD+F+ A++ +PS+IF DE+D++ R GG G++ +E+ L Q+L EMDG
Sbjct: 87 LGASR--VRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDG 144
Query: 83 IVPLN-NVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARSPLGED 141
N V ++AATNRP+ +D AL+RPGR DR + V PD R ILK+ + L D
Sbjct: 145 FGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLAND 204
Query: 142 VCVEELVRLTEGYSGAE 158
V ++E+ +LT G +GA+
Sbjct: 205 VNLQEVAKLTAGLAGAD 221
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 142 bits (360), Expect = 5e-42
Identities = 64/136 (47%), Positives = 89/136 (65%), Gaps = 3/136 (2%)
Query: 23 VGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDG 82
VG S VRD+F++A++ +P +IF DE+D++ +RG G GGG + +E+ L QML EMDG
Sbjct: 88 VGASR--VRDMFEQAKKAAPCIIFIDEIDAVGRQRG-AGLGGGHDEREQTLNQMLVEMDG 144
Query: 83 IVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARSPLGEDV 142
+ ++AATNRPD +D ALLRPGR DR + V LPD R ILK+ + R PL D+
Sbjct: 145 FEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI 204
Query: 143 CVEELVRLTEGYSGAE 158
+ R T G+SGA+
Sbjct: 205 DAAIIARGTPGFSGAD 220
>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 = 142 bits (359), Expect = 6e-42
Identities = 60/136 (44%), Positives = 87/136 (63%), Gaps = 3/136 (2%)
Query: 23 VGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDG 82
VG + VRD+F+ A++ +P ++F DE+D++ +RG G GGG++ +E+ L Q+L EMDG
Sbjct: 92 VGAAR--VRDLFETAKRHAPCIVFIDEIDAVGRKRG-SGVGGGNDEREQTLNQLLVEMDG 148
Query: 83 IVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARSPLGEDV 142
+ ++AATNRPD +D ALLRPGR DR I + PD R IL+I PL EDV
Sbjct: 149 FEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV 208
Query: 143 CVEELVRLTEGYSGAE 158
+ L + T G+ GA+
Sbjct: 209 DLALLAKRTPGFVGAD 224
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 142 bits (360), Expect = 9e-42
Identities = 60/136 (44%), Positives = 87/136 (63%), Gaps = 3/136 (2%)
Query: 23 VGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDG 82
VG + VRD+F+ A++ +P ++F DE+D++ +RG G GGG++ +E+ L Q+L EMDG
Sbjct: 116 VGAAR--VRDLFETAKRHAPCIVFIDEIDAVGRKRG-SGVGGGNDEREQTLNQLLVEMDG 172
Query: 83 IVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARSPLGEDV 142
+ ++AATNRPD +D ALLRPGR DR I + PD R IL+I PL EDV
Sbjct: 173 FEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV 232
Query: 143 CVEELVRLTEGYSGAE 158
+ L + T G+ GA+
Sbjct: 233 DLALLAKRTPGFVGAD 248
>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 = 141 bits (359), Expect = 8e-40
Identities = 61/136 (44%), Positives = 86/136 (63%), Gaps = 3/136 (2%)
Query: 23 VGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDG 82
VG + VRD+F +A+ +P ++F DE+D++ RG G GGG + +E+ L Q+L EMDG
Sbjct: 92 VGAAR--VRDLFAQAKAHAPCIVFIDEIDAVGRHRG-AGLGGGHDEREQTLNQLLVEMDG 148
Query: 83 IVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARSPLGEDV 142
+ ++AATNRPD +D ALLRPGR D+ I V PD L R IL+I PL EDV
Sbjct: 149 FDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDV 208
Query: 143 CVEELVRLTEGYSGAE 158
+E + + T G+ GA+
Sbjct: 209 NLEIIAKRTPGFVGAD 224
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 141 bits (357), Expect = 2e-39
Identities = 60/136 (44%), Positives = 87/136 (63%), Gaps = 3/136 (2%)
Query: 23 VGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDG 82
VG + VRD+F+ A++ +P ++F DE+D++ +RG G GGG++ +E+ L Q+L EMDG
Sbjct: 107 VGAAR--VRDLFETAKRHAPCIVFIDEIDAVGRKRG-SGVGGGNDEREQTLNQLLVEMDG 163
Query: 83 IVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARSPLGEDV 142
+ ++AATNRPD +D ALLRPGR DR I + PD R IL+I PL EDV
Sbjct: 164 FEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV 223
Query: 143 CVEELVRLTEGYSGAE 158
+ L + T G+ GA+
Sbjct: 224 DLALLAKRTPGFVGAD 239
>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 = 112 bits (281), Expect = 3e-30
Identities = 23/142 (16%), Positives = 51/142 (35%), Gaps = 11/142 (7%)
Query: 14 IGPELFRKYVGESE-RCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERV 72
P+ + ++ + ++ +F A + S + D+++ L G V
Sbjct: 96 CSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPR-----FSNLV 150
Query: 73 LAQMLTEMDGIVPLN-NVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKI 131
L +L + P + I+ T+R D + + I+V P+ T +L+
Sbjct: 151 LQALLVLLKKAPPQGRKLLIIGTTSRKDVLQ-EMEMLNAFSTTIHV--PNIATGEQLLEA 207
Query: 132 RLARSPLGEDVCVEELVRLTEG 153
L +D + + +G
Sbjct: 208 -LELLGNFKDKERTTIAQQVKG 228
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 72.9 bits (180), Expect = 3e-17
Identities = 24/108 (22%), Positives = 39/108 (36%), Gaps = 29/108 (26%)
Query: 115 IYVPLPDDLTRAAILKIRLARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRE 174
+ P++ R ILKI + L + + ++ L G SGAE
Sbjct: 6 HHHSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAE---------------- 49
Query: 175 SNPGPPACKPSIVAVCDEAALSALENNLEAAYVSHQDFLTALQLVKPR 222
+ VC EA + AL +V+ +DF A+ V +
Sbjct: 50 -----------VKGVCTEAGMYALRER--RVHVTQEDFEMAVAKVMQK 84
>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 = 66.7 bits (164), Expect = 6e-15
Identities = 25/105 (23%), Positives = 39/105 (37%), Gaps = 29/105 (27%)
Query: 118 PLPDDLTRAAILKIRLARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNP 177
P P++ R ILKI + L + + ++ L G SGAE
Sbjct: 1 PPPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAE------------------- 41
Query: 178 GPPACKPSIVAVCDEAALSALENNLEAAYVSHQDFLTALQLVKPR 222
+ VC EA + AL +V+ +DF A+ V +
Sbjct: 42 --------VKGVCTEAGMYALRER--RVHVTQEDFEMAVAKVMQK 76
>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 = 57.3 bits (139), Expect = 2e-11
Identities = 20/102 (19%), Positives = 36/102 (35%), Gaps = 29/102 (28%)
Query: 121 DDLTRAAILKIRLARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPP 180
D + I ++ L E+V +E+ V + SGA+
Sbjct: 2 DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGAD---------------------- 39
Query: 181 ACKPSIVAVCDEAALSALENNLEAAYVSHQDFLTALQLVKPR 222
I ++C E+ + A+ N V +DF A + V +
Sbjct: 40 -----INSICQESGMLAVREN--RYIVLAKDFEKAYKTVIKK 74
>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 = 55.4 bits (133), Expect = 4e-09
Identities = 51/262 (19%), Positives = 82/262 (31%), Gaps = 96/262 (36%)
Query: 15 GPELFRKYVGESERCVRDVFKRA----RQV---SPSVIFFDELDSLAGERGDGGGGGGSN 67
G +L Y ++ + +DV+ RA + S I + +L GG G
Sbjct: 1632 GMDL---Y--KTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHF---GGEKGKR 1683
Query: 68 VQERVLAQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDL---- 123
++E A M+ E TIV + ++I K + + L
Sbjct: 1684 IRENYSA-MIFE----------TIVDGKLKTEKIFKEINE--HSTSYTFRS-EKGLLSAT 1729
Query: 124 --TRAAILKIRLA-----RS-------------PLGE---DVCV------EELVRLTEGY 154
T+ A+ + A +S LGE + E LV +
Sbjct: 1730 QFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVV--- 1786
Query: 155 SGAEQSLSKHRAKKIR---PRRE---SNPGPPACKPS-IVAVCDEAALSALENN------ 201
+R ++ PR E SN G A P + A + AL +
Sbjct: 1787 --------FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTG 1838
Query: 202 --LEAA-Y-VSHQDFLTALQLV 219
+E Y V +Q Q V
Sbjct: 1839 WLVEIVNYNVENQ------QYV 1854
Score = 40.0 bits (93), Expect = 4e-04
Identities = 50/285 (17%), Positives = 83/285 (29%), Gaps = 88/285 (30%)
Query: 16 PELFRKYVGESERCVRD-VFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
EL K++G V + QV + E L G+++ + A
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYL----------EGNDIHA-LAA 106
Query: 75 QMLTEMDGIVPLNNVTI------VAATNRPD--RIDKALLRPGR---------------- 110
++L E D + I RP + + AL R
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNT 166
Query: 111 ---LDRL-----IYVPLPDDL-TRAAILKIRLARSPLGEDVCVEE---LVR-LT------ 151
+ L Y L DL +A L R+ L + + ++ L
Sbjct: 167 DDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP 226
Query: 152 -EGY----------SGAEQSLSKH-----RAKKIRPR--RESNPGPPACKPSIVAVCDEA 193
+ Y G Q L+ H + P R G +V A
Sbjct: 227 DKDYLLSIPISCPLIGVIQ-LA-HYVVTAKLLGFTPGELRSYLKGATGHSQGLVT----A 280
Query: 194 ALSALENNLEAAYVSHQDFLTAL-------QLVKPRT--PPQLIK 229
A ++ E+ +VS + +T L P T PP +++
Sbjct: 281 VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE 325
Score = 32.3 bits (73), Expect = 0.17
Identities = 28/192 (14%), Positives = 53/192 (27%), Gaps = 68/192 (35%)
Query: 4 LGGLTEVVESI-----------GPELFRKYVGESERCVRDVFK---RARQVSPSVIFFDE 49
L G T + + F + + +F R + P+
Sbjct: 267 LKGATGHSQGLVTAVAIAETDSWESFFV----SVRKAITVLFFIGVRCYEAYPNTSLPPS 322
Query: 50 L--DSLAGERGDGGGGGGS------NVQERVLAQMLTEMDGIVPLNNVTIVAATNRPDRI 101
+ DSL + G S N+ + + + + + +P ++ N
Sbjct: 323 ILEDSL-----ENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN- 376
Query: 102 DKALLRPGRLDRLIYV---PLPDDLTRAAILKIRLARSPLGEDVCVEELVRLTEGYSGAE 158
V P P L L +R A++P SG +
Sbjct: 377 --------------LVVSGP-PQSL-YGLNLTLRKAKAP-----------------SGLD 403
Query: 159 QSLSKHRAKKIR 170
QS +K++
Sbjct: 404 QSRIPFSERKLK 415
>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 = 50.4 bits (121), Expect = 6e-09
Identities = 18/111 (16%), Positives = 30/111 (27%), Gaps = 30/111 (27%)
Query: 123 LTRAAILKIRLARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPAC 182
+ R I ++ L + ++ L+ + SGA
Sbjct: 1 MERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAV------------------------ 36
Query: 183 KPSIVAVCDEAALSALENNLEAAYVSHQDFLTALQLV-KPRTPPQLIKLYE 232
I A+ EA L A+ N + D A K Y+
Sbjct: 37 ---IAAIMQEAGLRAVRKN--RYVILQSDLEEAYATQVKTDNTVDKFDFYK 82
>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 = 48.7 bits (117), Expect = 4e-08
Identities = 19/91 (20%), Positives = 31/91 (34%), Gaps = 29/91 (31%)
Query: 125 RAAILKIRLARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKP 184
RA I +I + + E + RL +GAE
Sbjct: 6 RANIFRIHSKSMSVERGIRWELISRLCPNSTGAE-------------------------- 39
Query: 185 SIVAVCDEAALSALENNLEAAYVSHQDFLTA 215
+ +VC EA + A+ + + +DFL A
Sbjct: 40 -LRSVCTEAGMFAIRARRK--VATEKDFLKA 67
>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding,
chromatin regulator, growth regulation, hydrolase,
nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo
sapiens} PDB: 2xsz_A*
Length = 456
Score = 45.0 bits (106), Expect = 1e-05
Identities = 24/140 (17%), Positives = 44/140 (31%), Gaps = 23/140 (16%)
Query: 4 LGGLTEVVESIGPELFRKYVGESERCVRDVFKRA---RQVSPSVIFFDELDSLAGERGDG 60
LG +G E++ + ++E + + F+RA R ++ E+ L +
Sbjct: 87 LGSKVPFCPMVGSEVYSTEIKKTEV-LMENFRRAIGLRIKETKEVYEGEVTELTPCETEN 145
Query: 61 GGGGGSNVQERVLAQMLTEMD-----------------GIVPLNNVTIVAATNRPDRIDK 103
GG V+ + T + + + I A + R +
Sbjct: 146 PMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERVEAGDVIYIEANSGAVKRQGR 205
Query: 104 ALLRPGRLDRLI--YVPLPD 121
D YVPLP
Sbjct: 206 CDTYATEFDLEAEEYVPLPK 225
>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 = 39.8 bits (92), Expect = 6e-04
Identities = 35/276 (12%), Positives = 73/276 (26%), Gaps = 77/276 (27%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPS--VIFFDELDSLAGERGDGGGGGGSNV---- 68
++F KY + + + ++ P+ V+ G G G
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID------------GVLGSGKTWVALD 169
Query: 69 ---QERVLAQM------------LTEMDGIVPLNNVTIVAATN---RPDRIDKALLRP-- 108
+V +M + + L + N R D LR
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 109 --GRLDRLIYV-PLP------DDLTRAAILK--------------IRLARSPLGEDVCVE 145
L RL+ P ++ A ++
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
Query: 146 ELVRLTEGYSGAE-QSLSKHRAKKIRPRRESNPGPPACK--PSIVAVCDEAALSALENNL 202
L + + E +SL K + R + P P +++ A + + L
Sbjct: 290 SLDHHSMTLTPDEVKSLL---LKYLDCRPQDLP-REVLTTNPRRLSII--AES--IRDGL 341
Query: 203 EA----AYVSHQDFLTALQL-VKPRTPPQLIKLYEN 233
+V+ T ++ + P + K+++
Sbjct: 342 ATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR 377
Score = 38.3 bits (88), Expect = 0.002
Identities = 30/247 (12%), Positives = 59/247 (23%), Gaps = 79/247 (31%)
Query: 2 EDLGGLTEVVESIGPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGG 61
LT E L KY+ + + + +P + S+ E
Sbjct: 293 HHSMTLTPD-EVK--SLLLKYLDCRPQDLP---REVLTTNPRRL------SIIAE----- 335
Query: 62 GGGGSNVQERVLAQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPL-- 119
+ + D +L +I L
Sbjct: 336 --------------SIRDG--------------LATWDNWKHVNCD--KLTTIIESSLNV 365
Query: 120 --PDDLTRA----AILKIRLARSPLGEDVCVEE--LVRL--TEGYSGAEQSLSKHRAKKI 169
P + + ++ P + L + S ++K +
Sbjct: 366 LEPAEYRKMFDRLSVF-------P--PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416
Query: 170 RPRRESNPGPPACKPSIVAVCDEAALSALENNLEAAYVSHQDFLTALQLVKPRTPPQLIK 229
++ K S +++ L+ LE Y H+ + + K LI
Sbjct: 417 VEKQP--------KESTISIPS--IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP 466
Query: 230 LYE-NYI 235
Y Y
Sbjct: 467 PYLDQYF 473
Score = 30.6 bits (68), Expect = 0.58
Identities = 38/252 (15%), Positives = 77/252 (30%), Gaps = 76/252 (30%)
Query: 7 LTEVVES----IGPELFRKYVGESERCVRDVFKRARQVSPSV--IFFDELD--------- 51
LT ++ES + P +RK +R VF + + + + + ++
Sbjct: 355 LTTIIESSLNVLEPAEYRKMF---DRLS--VFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409
Query: 52 -----SLAGERGDGGGGGGSNVQERVLAQMLTEMDGIVPLNNVTIVAATNRPDRIDKALL 106
SL ++ ++ + ++ E L+ +IV N P D L
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA----LHR-SIVDHYNIPKTFDSDDL 464
Query: 107 RPGRLDRLIYVPLP-----------DDLTRAAIL-------KIRLARSPLGEDVCVEELV 148
P LD+ Y + L R L KIR + + +
Sbjct: 465 IPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTL 524
Query: 149 RLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEAALSALENNLE--AAY 206
Q L ++ I +++P E ++A+ + L
Sbjct: 525 ----------QQLKFYK-PYI---CDNDPKY------------ERLVNAILDFLPKIEEN 558
Query: 207 VSHQDFLTALQL 218
+ + L++
Sbjct: 559 LICSKYTDLLRI 570
>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 = 31.4 bits (71), Expect = 0.25
Identities = 31/209 (14%), Positives = 68/209 (32%), Gaps = 42/209 (20%)
Query: 42 PSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDGIVPLNNVTIVAATNRPDRI 101
VI DE+D ++G GD GG + Q+ + I+ R
Sbjct: 149 HFVIIMDEVDGMSG--GDRGG----------VGQL---AQFCRKTSTPLILICNERNLPK 193
Query: 102 DKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARS---PLGEDVCVEELVRLTEG----- 153
+ R + + + ++ ++ I A L +V ++ L++ T G
Sbjct: 194 MRPFDR--VCLDIQFRRPDANSIKSRLMTI--AIREKFKLDPNV-IDRLIQTTRGDIRQV 248
Query: 154 ------YSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEAALSALENNLEAAYV 207
S ++++ +I S + + + +++ +
Sbjct: 249 INLLSTISTTTKTINHENINEI-----SKAWEKNIALKPFDIAHKMLDGQIYSDIGSRNF 303
Query: 208 SHQDFLTALQLVKPRTPPQLIKLYENYIK 236
+ D + L P +I+ ENY+
Sbjct: 304 TLNDKIA-LYFDDFDFTPLMIQ--ENYLS 329
>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis,
nucleotide binding binding, cytoplasm,
nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium
tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A*
2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A*
2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A*
3avo_A* 3avq_A*
Length = 312
Score = 29.5 bits (66), Expect = 0.78
Identities = 25/114 (21%), Positives = 41/114 (35%), Gaps = 23/114 (20%)
Query: 117 VPLPDDLTRAAILKIRLARSPLGEDVCVEE-------LVRLTEGYSGAEQSLSKHRAKKI 169
PL LT ++ +R LGE + + E L RL A Q L A+ +
Sbjct: 25 TPLA--LTEEELVGLR----GLGEQIDLLEVEEVYLPLARLIHLQVAARQRLFAATAEFL 78
Query: 170 RPRRESNP----------GPPACKPSIVAVCDEAALSALENNLEAAYVSHQDFL 213
+++ G A S A +A L+ +++ V+ FL
Sbjct: 79 GEPQQNPDRPVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDGFL 132
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 29.3 bits (65), Expect = 1.2
Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 4/71 (5%)
Query: 21 KYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERV----LAQM 76
+ G + V DV + + S +E ++ G + V V LAQ
Sbjct: 92 ENQGLFKDHVEDVNFQPVKYSALTSNNEECTAVVARGGTANAIRIAAVDNPVNVNKLAQD 151
Query: 77 LTEMDGIVPLN 87
+ IVP++
Sbjct: 152 SINIAQIVPMD 162
>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 = 27.6 bits (60), Expect = 2.5
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 15/40 (37%)
Query: 191 DEAALSALENNLEAAYVSHQDFLTALQLVKPRTPPQL-IK 229
++ AL L+ +L+L + P L IK
Sbjct: 18 EKQALKKLQA--------------SLKLYADDSAPALAIK 43
>3rqt_A Putative uncharacterized protein; ligand binding component,
ABC-type import system, nickel, SI DI-peptides,
structural genomics; HET: MSE HIS EPE; 1.50A
{Staphylococcus aureus}
Length = 486
Score = 27.6 bits (62), Expect = 3.6
Identities = 5/20 (25%), Positives = 7/20 (35%)
Query: 111 LDRLIYVPLPDDLTRAAILK 130
LD + D R L+
Sbjct: 195 LDHITVTYQEDGNNRVRNLE 214
>2d5w_A Peptide ABC transporter, peptide-binding protein; protein-peptide
complex, peptide binding protein; 1.30A {Thermus
thermophilus}
Length = 603
Score = 27.6 bits (61), Expect = 4.4
Identities = 1/20 (5%), Positives = 9/20 (45%)
Query: 111 LDRLIYVPLPDDLTRAAILK 130
+ +++Y + + + +
Sbjct: 244 VQKVVYRFIQNTNSLLVAVI 263
>1xoc_A Oligopeptide-binding protein APPA; oligopeptide, APPA, transport,
transport protein; 1.55A {Bacillus subtilis} SCOP:
c.94.1.1
Length = 520
Score = 27.3 bits (61), Expect = 4.7
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 111 LDRLIYVPLPDDLTRAAILK 130
LD + Y +PD A L+
Sbjct: 214 LDTVTYKVIPDANAAEAQLQ 233
>1uqw_A Putative binding protein YLIB; Zn binding protein, transport,
lipoprotein, bacterial targets at IGS-CNRS, france,
BIGS, structural genomics; 2.72A {Escherichia coli}
SCOP: c.94.1.1
Length = 509
Score = 27.3 bits (61), Expect = 5.0
Identities = 9/21 (42%), Positives = 16/21 (76%)
Query: 110 RLDRLIYVPLPDDLTRAAILK 130
+LD + + P+ D+ TRAA+L+
Sbjct: 211 KLDSITWRPVADNNTRAAMLQ 231
>2zkz_A Transcriptional repressor PAGR; protein-DNA, HTH motif, dimer, DN
binding, transcription regulation; 2.00A {Bacillus
anthracis}
Length = 99
Score = 25.7 bits (57), Expect = 5.5
Identities = 11/58 (18%), Positives = 25/58 (43%), Gaps = 13/58 (22%)
Query: 124 TRAAILKIRLARSPLGEDVCVEELVRLTEGYSGAEQS-LSKH----RAKKIRPRRESN 176
R I+ L + + + V +++++ QS +S+H R K ++ R+
Sbjct: 28 MRLKIVNE-LYK---HKALNVTQIIQIL----KLPQSTVSQHLCKMRGKVLKRNRQGL 77
>3f1c_A Putative 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
2; structural genomics, PSI-2, protein structure
initiative; 2.30A {Listeria monocytogenes str}
Length = 246
Score = 26.8 bits (60), Expect = 5.6
Identities = 8/24 (33%), Positives = 11/24 (45%), Gaps = 1/24 (4%)
Query: 120 PDDLTRA-AILKIRLARSPLGEDV 142
P DL A AI++ R+A
Sbjct: 222 PYDLKVANAIIQERIANEGHHHHH 245
>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus
dsRNA, molecular motor, packaging ATPase, hexameric
helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB:
2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A*
1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*
Length = 331
Score = 27.2 bits (59), Expect = 5.7
Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 3/60 (5%)
Query: 44 VIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDGIVPLNNVTIVAATNRPDRIDK 103
VI D L ++ G G GG + R +L+++ + ++A+ N DK
Sbjct: 185 VIVIDSLKNVIGAAGGNTTSGGIS---RGAFDLLSDIGAMAASRGCVVIASLNPTSNDDK 241
>2wol_A ORF15, clavulanic acid biosynthesis oligopeptide binding protein 2;
solute-binding protein; 1.45A {Streptomyces
clavuligerus} PDB: 2wok_A 2wop_A*
Length = 562
Score = 27.0 bits (60), Expect = 6.1
Identities = 8/40 (20%), Positives = 11/40 (27%), Gaps = 3/40 (7%)
Query: 106 LRPGRLDRLIYVPLPDDLTRAAILK---IRLARSPLGEDV 142
+RP DR+ D A L + G
Sbjct: 241 IRPALPDRVELTIGLDVDVLDARLIAGEFDINLEGRGLQH 280
>1vr5_A Oligopeptide ABC transporter, periplasmic oligope binding protein;
TM1223, periplasmic oligopepti binding, structural
genomics; HET: EPE; 1.73A {Thermotoga maritima} SCOP:
c.94.1.1
Length = 547
Score = 27.0 bits (60), Expect = 6.7
Identities = 3/29 (10%), Positives = 12/29 (41%)
Query: 102 DKALLRPGRLDRLIYVPLPDDLTRAAILK 130
+ L + +R++ + + + +L
Sbjct: 201 IRELGYDPKPERIVELRVLSNNVAVGMLM 229
>3p2y_A Alanine dehydrogenase/pyridine nucleotide transhy; seattle
structural genomics center for infectious disease, S
tuberculosis; 1.82A {Mycobacterium smegmatis str}
Length = 381
Score = 26.8 bits (60), Expect = 7.2
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 77 LTEMDGIVPLNNVTIVAATNRPDRI 101
LTE + + VTI + N P +
Sbjct: 311 LTEPGRTIVHHGVTITSPLNLPATM 335
>4dio_A NAD(P) transhydrogenase subunit alpha PART 1; structural genomics,
PSI-biology, NEW YORK structural genomi research
consortium, nysgrc; 2.60A {Sinorhizobium meliloti}
Length = 405
Score = 26.9 bits (60), Expect = 7.5
Identities = 7/25 (28%), Positives = 9/25 (36%)
Query: 77 LTEMDGIVPLNNVTIVAATNRPDRI 101
E + + V IV N RI
Sbjct: 321 GAEAGKVTEVGGVRIVGHLNVAGRI 345
>3t66_A Nickel ABC transporter (nickel-binding protein); structural
genomics, PSI-biology, NEW YORK structural genomi
research consortium, nysgrc; 2.80A {Bacillus halodurans}
Length = 496
Score = 26.9 bits (60), Expect = 7.5
Identities = 5/20 (25%), Positives = 9/20 (45%)
Query: 111 LDRLIYVPLPDDLTRAAILK 130
LD + + D R+ L+
Sbjct: 188 LDSVTFSFNEDASARSLALE 207
>2noo_A NIKA, nickel-binding periplasmic protein; nickel-bound, transport,
iodine, hydrolase; HET: TYI; 1.65A {Escherichia coli
K12} PDB: 3mvx_A* 3dp8_A* 3e3k_A* 1zlq_A* 3mvw_A*
3mvy_A* 3mvz_A* 3mw0_A* 3mz9_A* 1uiu_A 1uiv_A 3mzb_A*
3qim_A
Length = 502
Score = 26.6 bits (59), Expect = 7.9
Identities = 5/20 (25%), Positives = 11/20 (55%)
Query: 111 LDRLIYVPLPDDLTRAAILK 130
+ ++ + +PD TRA +
Sbjct: 191 IKKITFNVIPDPTTRAVAFE 210
>1sgj_A Citrate lyase, beta subunit; trimer, TIM barrel, structural
genomics, PSI, protein structure initiative; 1.84A
{Deinococcus radiodurans} SCOP: c.1.12.5
Length = 284
Score = 26.3 bits (59), Expect = 9.1
Identities = 11/60 (18%), Positives = 17/60 (28%), Gaps = 8/60 (13%)
Query: 96 NRPDRIDKALLRPGRLDRLIY------VPLPDDLTRAAILKIRLARSPLGEDVCVEELVR 149
NR D I K D ++ + A + AR + + VR
Sbjct: 17 NRADLIAKLPRSAP--DAVVIDLEDAVPGTAEAKAAARPVAHDAARDLIAAAPHLAVFVR 74
>1l7d_A Nicotinamide nucleotide transhydrogenase, subunit alpha 1;
transhydrogenase domain I, oxidoreductase; 1.81A
{Rhodospirillum rubrum} SCOP: c.2.1.4 c.23.12.2 PDB:
1hzz_A* 1f8g_A 1l7e_A* 1u28_A* 1u2d_A* 1u2g_A* 1xlt_A*
2oo5_A* 2oor_A* 2frd_A* 2fsv_A* 1nm5_A* 2fr8_A* 1ptj_A*
Length = 384
Score = 26.5 bits (59), Expect = 9.3
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 77 LTEMDGIVPLNNVTIVAATNRPDRI 101
L+E IV + V IV TN P R+
Sbjct: 303 LSEPGKIVVKHGVKIVGHTNVPSRV 327
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
0.317 0.137 0.391
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,731,182
Number of extensions: 233145
Number of successful extensions: 627
Number of sequences better than 10.0: 1
Number of HSP's gapped: 545
Number of HSP's successfully gapped: 70
Length of query: 237
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 146
Effective length of database: 4,160,982
Effective search space: 607503372
Effective search space used: 607503372
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: 41 (21.6 bits)
S2: 56 (25.4 bits)