RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4165
(242 letters)
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 66.2 bits (162), Expect = 5e-13
Identities = 34/132 (25%), Positives = 52/132 (39%), Gaps = 20/132 (15%)
Query: 48 VLFIDEADAFLRKRSSETISESLRATLNAFL-----YRTGEQSDKFMLVLASNTPQQFDW 102
++FIDE D+ L +RSS E+ R FL D+ +++ A+N PQ+ D
Sbjct: 116 IIFIDEVDSLLSERSSSE-HEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDE 174
Query: 103 AVNDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKIAHV 162
A R + V LP RE L+ K+ + L
Sbjct: 175 AALRRFTKRVYVSLPDEQTRELLLNRLL----------QKQGSPLDTEALRRLAKI---- 220
Query: 163 TEGLSGREIAKL 174
T+G SG ++ L
Sbjct: 221 TDGYSGSDLTAL 232
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 62.5 bits (152), Expect = 1e-11
Identities = 32/131 (24%), Positives = 52/131 (39%), Gaps = 19/131 (14%)
Query: 48 VLFIDEADAFLRKRSSETISESLRATLNAFLYR---TGEQSDKFMLVL-ASNTPQQFDWA 103
++FID+ D+ L +R ++ R FL D +LV+ A+N PQ+ D A
Sbjct: 210 IIFIDQVDSLLCERREGE-HDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEA 268
Query: 104 VNDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKIAHVT 163
V R + V LP R L++ K+ + + L T
Sbjct: 269 VLRRFIKRVYVSLPNEETRLLLLKNLL----------CKQGSPLTQKELAQLARM----T 314
Query: 164 EGLSGREIAKL 174
+G SG ++ L
Sbjct: 315 DGYSGSDLTAL 325
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 61.6 bits (150), Expect = 2e-11
Identities = 34/130 (26%), Positives = 59/130 (45%), Gaps = 18/130 (13%)
Query: 48 VLFIDEADAFLRKRSSETISESLRATLNAFLYR---TGEQSDKFMLVLASNTPQQFDWAV 104
++FIDE D+ RS E SE+ R FL + G +D +++ A+N P D A+
Sbjct: 108 IIFIDEIDSLCGSRS-ENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAI 166
Query: 105 NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKIAHVTE 164
R ++ + PLP + R + +L+ G + + D+ L T+
Sbjct: 167 RRRFEKRIYIPLPEPHARAAMFKLHL----------GTTQNSLTEADFREL----GRKTD 212
Query: 165 GLSGREIAKL 174
G SG +I+ +
Sbjct: 213 GYSGADISII 222
>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 = 61.3 bits (149), Expect = 3e-11
Identities = 33/131 (25%), Positives = 59/131 (45%), Gaps = 19/131 (14%)
Query: 48 VLFIDEADAFLRKRSSETISESLRATLNAFLYR---TGEQSDKFMLVL-ASNTPQQFDWA 103
V+FIDE D+ L +R ES R FL + S+ +LV+ A+N PQ+ D A
Sbjct: 179 VIFIDEIDSLLSQRGDGE-HESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEA 237
Query: 104 VNDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKIAHVT 163
RL + + PLP + R+++V K + ++ + + + +
Sbjct: 238 ARRRLVKRLYIPLPEASARKQIVINLM----------SKEQCCLSEEEIEQIVQQ----S 283
Query: 164 EGLSGREIAKL 174
+ SG ++ +L
Sbjct: 284 DAFSGADMTQL 294
>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 = 61.5 bits (149), Expect = 3e-11
Identities = 35/130 (26%), Positives = 59/130 (45%), Gaps = 18/130 (13%)
Query: 48 VLFIDEADAFLRKRSSETISESLRATLNAFLYR---TGEQSDKFMLVLASNTPQQFDWAV 104
++FIDE D+ RS E SE+ R FL + G +D +++ A+N P D A+
Sbjct: 230 IIFIDEIDSLCGSRS-ENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAI 288
Query: 105 NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKIAHVTE 164
R ++ + PLP + R + RL+ G + + D+ L T+
Sbjct: 289 RRRFEKRIYIPLPEAHARAAMFRLHL----------GSTQNSLTEADFQEL----GRKTD 334
Query: 165 GLSGREIAKL 174
G SG +I+ +
Sbjct: 335 GYSGADISII 344
>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 = 59.7 bits (145), Expect = 1e-10
Identities = 34/130 (26%), Positives = 53/130 (40%), Gaps = 18/130 (13%)
Query: 48 VLFIDEADAFLRKRSSETISESLRATLNAFLYR---TGEQSDKFMLVLASNTPQQFDWAV 104
++FID+ DA R SE+ R L + G S +++ A+N P Q D A+
Sbjct: 113 IIFIDQVDALTGTRGEGE-SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAI 171
Query: 105 NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKIAHVTE 164
R + + PLP L R + + G + DY + +TE
Sbjct: 172 RRRFERRIYIPLPDLAARTTMFEINV----------GDTPCVLTKEDY----RTLGAMTE 217
Query: 165 GLSGREIAKL 174
G SG +IA +
Sbjct: 218 GYSGSDIAVV 227
>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 = 59.5 bits (144), Expect = 1e-10
Identities = 34/130 (26%), Positives = 53/130 (40%), Gaps = 18/130 (13%)
Query: 48 VLFIDEADAFLRKRSSETISESLRATLNAFLYR---TGEQSDKFMLVLASNTPQQFDWAV 104
++FID+ DA R SE+ R L + G S +++ A+N P Q D A+
Sbjct: 146 IIFIDQVDALTGTRGEGE-SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAI 204
Query: 105 NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKIAHVTE 164
R + + PLP L R + + G + DY + +TE
Sbjct: 205 RRRFERRIYIPLPDLAARTTMFEINV----------GDTPSVLTKEDY----RTLGAMTE 250
Query: 165 GLSGREIAKL 174
G SG +IA +
Sbjct: 251 GYSGSDIAVV 260
>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 = 54.8 bits (132), Expect = 7e-09
Identities = 42/185 (22%), Positives = 76/185 (41%), Gaps = 31/185 (16%)
Query: 1 MFAKKLAHHSGMDYAIMTGGDVAPM--GSSGVTAIHKVFDWASSSRKGLVLFIDEADAFL 58
+ AK +A+ ++ + G ++ M G S + ++FD A + VLF DE D+
Sbjct: 526 LLAKAIANECQANFISIKGPELLTMWFGESE-ANVREIFDKARQAAP-CVLFFDELDSIA 583
Query: 59 RKRSSETISESLRAT---LNAFLYRT---GEQSDKFMLVL-ASNTPQQFDWAV--NDRLD 109
+ R + A +N L T G + K + ++ A+N P D A+ RLD
Sbjct: 584 KARGGNI-GDGGGAADRVINQIL--TEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLD 640
Query: 110 EMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKIAHVTEGLSGR 169
+++ PLP R +++ K P +A +T G SG
Sbjct: 641 QLIYIPLPDEKSRVAILKANLRKS---------------PVAKDVDLEFLAKMTNGFSGA 685
Query: 170 EIAKL 174
++ ++
Sbjct: 686 DLTEI 690
Score = 49.8 bits (119), Expect = 3e-07
Identities = 37/180 (20%), Positives = 78/180 (43%), Gaps = 24/180 (13%)
Query: 1 MFAKKLAHHSGMDYAIMTGGDV-APMGSSGVTAIHKVFDWASSSRKGLVLFIDEADAFLR 59
+ A+ +A+ +G + ++ G ++ + + + + K F+ A + ++FIDE DA
Sbjct: 253 LIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA-IIFIDELDAIAP 311
Query: 60 KRSSETISESLR--ATLNAFLYRTGEQSDKFMLVLASNTPQQFDWAV--NDRLDEMVEFP 115
KR R + L + +Q +++ A+N P D A+ R D V+
Sbjct: 312 KREKTHGEVERRIVSQLLTLM-DGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIG 370
Query: 116 LPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAP-FDYTSLCSKIAHVTEGLSGREIAKL 174
+P R +++++ + +K+A D ++A+ T G G ++A L
Sbjct: 371 IPDATGRLEILQIHT------------KNMKLADDVDL----EQVANETHGHVGADLAAL 414
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 46.7 bits (111), Expect = 2e-06
Identities = 32/241 (13%), Positives = 71/241 (29%), Gaps = 47/241 (19%)
Query: 1 MFAKKLAHHSGMDYAIMTGGDVAPM--GSSGVTAIHKVFDWASS-SRKGL--VLFIDEAD 55
+ + G++ +M+ G++ G I + + A+ RKG LFI++ D
Sbjct: 51 FQCELVFRKMGINPIMMSAGELESGNAGEPA-KLIRQRYREAAEIIRKGNMCCLFINDLD 109
Query: 56 AFLRKRSSETISESLRATLNAFL--------------YRTGEQSDKFMLVLASNTPQQFD 101
A + T +NA L +++ + +++ N
Sbjct: 110 AGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLY 169
Query: 102 WAV--NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKI 159
+ + R+++ P +R + F D +
Sbjct: 170 APLIRDGRMEKFYWAPTR--EDRIGVCTGIFRT------------------DNVPA-EDV 208
Query: 160 AHVTEGLSGREIAKLGVAWQASAYASEDGVLTEAMVMSKVEDSIRAHKMKVRWQSEQESP 219
+ + G+ I G A D + + + + +E E P
Sbjct: 209 VKIVDNFPGQSIDFFG----ALRARVYDDEVRKWVSGTGIEKIGDKLLNSFDGPPTFEQP 264
Query: 220 E 220
+
Sbjct: 265 K 265
>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 = 44.4 bits (105), Expect = 2e-05
Identities = 37/181 (20%), Positives = 80/181 (44%), Gaps = 26/181 (14%)
Query: 1 MFAKKLAHHSGMDYAIMTGGD-VAPMGSSGVTAIHKVFDWASSSRKGLVLFIDEADAFLR 59
+ A+ +A+ +G + ++ G + ++ + + + K F+ A + ++ FIDE DA
Sbjct: 253 LIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAII-FIDELDAIAP 311
Query: 60 KRSSET--ISESLRATLNAFLYRTGEQSDKFMLVL-ASNTPQQFDWAVN--DRLDEMVEF 114
KR + + + L + G + ++V+ A+N P D A+ R D V+
Sbjct: 312 KREKTHGEVERRIVSQLLTLM--DGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 115 PLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAP-FDYTSLCSKIAHVTEGLSGREIAK 173
+P R +++++ + +K+A D ++A+ T G G ++A
Sbjct: 370 GIPDATGRLEILQIHT------------KNMKLADDVDL----EQVANETHGHVGADLAA 413
Query: 174 L 174
L
Sbjct: 414 L 414
>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 = 44.7 bits (105), Expect = 2e-05
Identities = 31/174 (17%), Positives = 56/174 (32%), Gaps = 40/174 (22%)
Query: 52 DEADAFLRKRSSETISESLR-ATLNAFLYRTGEQSDKFMLVLASNTPQQFDWAVNDRLDE 110
+ AD + +I + + +N ++ GE+ + + N +
Sbjct: 1647 NRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR----IRENY-SAMIFETIVDGKL 1701
Query: 111 MVEFPLPTLNERERLVRLYFDKFVL------QPA------AQGKRRLK---VAPFD---- 151
E +NE +K +L QPA A LK + P D
Sbjct: 1702 KTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAF-EDLKSKGLIPADATFA 1760
Query: 152 ------YTSLCSKIAHVTEGLSGREIAKL----GVAWQASAYASEDGVLTEAMV 195
Y +L S +A V +S + ++ G+ Q + E G M+
Sbjct: 1761 GHSLGEYAALAS-LADV---MSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMI 1810
Score = 30.0 bits (67), Expect = 0.82
Identities = 21/133 (15%), Positives = 39/133 (29%), Gaps = 43/133 (32%)
Query: 38 DWASSSRKGLVL-FIDEADAFLRKRSSETISESLRATLNAFLYRTGEQSDKFML-----V 91
D ++ LV F+ + + + L L F E ++
Sbjct: 51 DDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF-----ENC--YLEGNDIHA 103
Query: 92 LASNTPQQFDWAVNDRLDEMVEFPLPTLNERERLVRLYFDKFV--------------LQP 137
LA+ Q+ D TL + + L++ Y + +
Sbjct: 104 LAAKLLQEND---------------TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA 148
Query: 138 AAQGKRRLKVAPF 150
+G +L VA F
Sbjct: 149 VGEGNAQL-VAIF 160
>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 = 43.8 bits (104), Expect = 2e-05
Identities = 35/152 (23%), Positives = 62/152 (40%), Gaps = 28/152 (18%)
Query: 32 AIHKVFDWASSSRKGLVLFIDEADAFLRKRSSETISESLRAT---LNAFLYRT---GEQS 85
+ ++FD A + VLF DE D+ + R + A +N L T G +
Sbjct: 96 NVREIFDKARQAAP-CVLFFDELDSIAKARGGNI-GDGGGAADRVINQIL--TEMDGMST 151
Query: 86 DKFMLVL-ASNTPQQFDWAV--NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGK 142
K + ++ A+N P D A+ RLD+++ PLP R +++ K +
Sbjct: 152 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKD---- 207
Query: 143 RRLKVAPFDYTSLCSKIAHVTEGLSGREIAKL 174
L +A +T G SG ++ ++
Sbjct: 208 ----------VDL-EFLAKMTNGFSGADLTEI 228
>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 = 41.1 bits (97), Expect = 1e-04
Identities = 41/134 (30%), Positives = 59/134 (44%), Gaps = 20/134 (14%)
Query: 48 VLFIDEADAFLRKRSSETISES---LRATLNAFLYRT-GEQSDKFMLVLAS-NTPQQFDW 102
+++IDE DA +KRS+ S TLN L G + ++VLAS N D
Sbjct: 101 IVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDG 160
Query: 103 AV--NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKIA 160
A+ RLD V LPTL ER + + + LK+ T ++A
Sbjct: 161 ALMRPGRLDRHVFIDLPTLQERREIFEQHL------------KSLKLTQ-SSTFYSQRLA 207
Query: 161 HVTEGLSGREIAKL 174
+T G SG +IA +
Sbjct: 208 ELTPGFSGADIANI 221
>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 = 40.1 bits (94), Expect = 3e-04
Identities = 30/175 (17%), Positives = 57/175 (32%), Gaps = 35/175 (20%)
Query: 1 MFAKKLAHHSGMDYAIMTGGDVAPM--GSSGVTAIHKVFDWASSSRKGLVLFIDEADAFL 58
A K+A S + + D ++ A+ K+FD A S+ + +D+ + L
Sbjct: 79 ALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLS-CVVVDDIERLL 137
Query: 59 RKRSS-ETISESLRATLNAFLYRTGEQSDKFMLVLASNTPQQFDWAVNDRLDEM------ 111
S + L L + Q K +++ ++ D L EM
Sbjct: 138 DYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRK--------DVLQEMEMLNAF 189
Query: 112 -VEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKIAHVTEG 165
+P + E+L+ L+ + F + IA +G
Sbjct: 190 STTIHVPNIATGEQLLE------ALE---------LLGNFKDKER-TTIAQQVKG 228
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 38.4 bits (90), Expect = 0.001
Identities = 40/183 (21%), Positives = 73/183 (39%), Gaps = 33/183 (18%)
Query: 48 VLFIDEADAFLRKRSSETIS---ESLRATLNAFLYRTG--EQSDKFMLVLASNTPQQFDW 102
++FIDE DA KR+ E R TL L + ++ A+N P D
Sbjct: 113 IIFIDEIDAIAAKRTDALTGGDREVQR-TLMQLLAEMDGFDARGDVKIIGATNRPDILDP 171
Query: 103 AVN--DRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAP-FDYTSLCSKI 159
A+ R D ++E P P R +++++ R++ +A + +I
Sbjct: 172 AILRPGRFDRIIEVPAPDEKGRLEILKIH------------TRKMNLAEDVNL----EEI 215
Query: 160 AHVTEGLSGREIAKLGVAWQASAYASEDGVLTEAMVMSKVEDSIRAHKMKVRWQSEQESP 219
A +TEG G E+ + +A A + E ++D +A + K+ + + +
Sbjct: 216 AKMTEGCVGAELK--AICTEAGMNA-----IRELRDYVTMDDFRKAVE-KIMEKKKVKVK 267
Query: 220 ESF 222
E
Sbjct: 268 EPA 270
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 37.5 bits (88), Expect = 0.002
Identities = 33/150 (22%), Positives = 65/150 (43%), Gaps = 22/150 (14%)
Query: 32 AIHKVFDWASSSRKGLVLFIDEADAFLRKRSSETISESLRATLNAFLYRT---GEQSDKF 88
A+ +VF A +S V+F DE DA +RS S+R +N L T G ++ +
Sbjct: 91 AVRQVFQRAKNS-APCVIFFDEVDALCPRRSDRETGASVRV-VNQLL--TEMDGLEARQQ 146
Query: 89 MLVL-ASNTPQQFDWAV--NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRL 145
+ ++ A+N P D A+ RLD+ + LP +R +L+ + +
Sbjct: 147 VFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLA---------ILKTITKNGTKP 197
Query: 146 KVAP-FDYTSLCSKIAHVTEGLSGREIAKL 174
+ + ++ + + +G +++ L
Sbjct: 198 PLDADVNLEAIAGDLR--CDCYTGADLSAL 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 = 37.5 bits (86), Expect = 0.003
Identities = 30/163 (18%), Positives = 45/163 (27%), Gaps = 44/163 (26%)
Query: 84 QSDKFMLVLASNTPQQFDWAVNDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKR 143
S + +L + Q D R D L + + L RL K +
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK-------PYEN 245
Query: 144 RLKV----------APFDYTSLCSKI------AHVTEGLSGREIAKLGVAWQASAYASED 187
L V F+ + C KI VT+ LS + +
Sbjct: 246 CLLVLLNVQNAKAWNAFNLS--C-KILLTTRFKQVTDFLSAATTTHISL-------DHHS 295
Query: 188 GVLTEAMVMSKVEDSIRAHKMKVRWQSEQESPESFMGVDKSSP 230
LT V S+ K Q+ P V ++P
Sbjct: 296 MTLTPDEVK-----SLLL---KYLDCRPQDLPRE---VLTTNP 327
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 34.7 bits (79), Expect = 0.018
Identities = 25/143 (17%), Positives = 46/143 (32%), Gaps = 13/143 (9%)
Query: 10 SGMDYAIMTGGDVAPMGSSGVTA-IHKVFDWASSSRKGLVLFIDEADAFLRKRSSETISE 68
+T D+ +V A G VLFIDEA R + +
Sbjct: 98 RKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA----MGGVLFIDEAYYLYRPDNERDYGQ 153
Query: 69 SLRATLNAFLYRTGEQSDKFMLVLASNTPQQFDWAVND-----RLDEMVEFPLPTLNERE 123
+ L D +++LA + ++ ++ R+ +EFP + E
Sbjct: 154 ---EAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELF 210
Query: 124 RLVRLYFDKFVLQPAAQGKRRLK 146
+ D Q + + L+
Sbjct: 211 EIAGHMLDDQNYQMTPEAETALR 233
>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 = 31.1 bits (71), Expect = 0.24
Identities = 30/135 (22%), Positives = 58/135 (42%), Gaps = 23/135 (17%)
Query: 48 VLFIDEADAFLRKRSSETIS---ESLRATLNAFLYRT---GEQSDKFMLVLASNTPQQFD 101
++FIDE DA + R++ + + TLN L G ++ +++ A+N P+ D
Sbjct: 106 IIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILD 165
Query: 102 WAV--NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTSLCSKI 159
A+ R D V P N R +++++ L + ++
Sbjct: 166 PALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQ---------------EV 210
Query: 160 AHVTEGLSGREIAKL 174
A +T GL+G ++A +
Sbjct: 211 AKLTAGLAGADLANI 225
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 30.8 bits (70), Expect = 0.33
Identities = 36/140 (25%), Positives = 58/140 (41%), Gaps = 35/140 (25%)
Query: 48 VLFIDEADAFLRKRSS---------ETISESLRATLNAFLYRTG--EQSDKFMLVLASNT 96
++FIDE DA R+R + E TLN L E ++ +++ A+N
Sbjct: 107 IIFIDEIDAVGRQRGAGLGGGHDEREQ-------TLNQMLVEMDGFEGNEGIIVIAATNR 159
Query: 97 PQQFDWAV--NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTS 154
P D A+ R D V LP + RE++++++ + L P +
Sbjct: 160 PDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAI------- 208
Query: 155 LCSKIAHVTEGLSGREIAKL 174
IA T G SG ++A L
Sbjct: 209 ----IARGTPGFSGADLANL 224
>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 = 30.0 bits (68), Expect = 0.57
Identities = 34/140 (24%), Positives = 53/140 (37%), Gaps = 35/140 (25%)
Query: 48 VLFIDEADAFLRKRSS---------ETISESLRATLNAFLYRTG--EQSDKFMLVLASNT 96
++FIDE DA RKR S E TLN L E+ +++ A+N
Sbjct: 111 IVFIDEIDAVGRKRGSGVGGGNDEREQ-------TLNQLLVEMDGFEKDTAIVVMAATNR 163
Query: 97 PQQFDWAV--NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTS 154
P D A+ R D + P + RE+++R++ L L +
Sbjct: 164 PDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LAL------- 212
Query: 155 LCSKIAHVTEGLSGREIAKL 174
+A T G G ++ L
Sbjct: 213 ----LAKRTPGFVGADLENL 228
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 30.0 bits (68), Expect = 0.65
Identities = 33/140 (23%), Positives = 53/140 (37%), Gaps = 35/140 (25%)
Query: 48 VLFIDEADAFLRKRSS---------ETISESLRATLNAFLYRTG--EQSDKFMLVLASNT 96
++FIDE DA RKR S E TLN L E+ +++ A+N
Sbjct: 135 IVFIDEIDAVGRKRGSGVGGGNDEREQ-------TLNQLLVEMDGFEKDTAIVVMAATNR 187
Query: 97 PQQFDWAV--NDRLDEMVEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAPFDYTS 154
P D A+ R D + P + RE+++R++ + P
Sbjct: 188 PDILDPALLRPGRFDRQIAIDAPDVKGREQILRIH---------------ARGKPLAEDV 232
Query: 155 LCSKIAHVTEGLSGREIAKL 174
+ +A T G G ++ L
Sbjct: 233 DLALLAKRTPGFVGADLENL 252
>1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A
{Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1
PDB: 1sc5_A
Length = 239
Score = 29.5 bits (67), Expect = 0.86
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 78 LYRTGEQSDKFMLVLASNTPQQFDWAVNDRLDEMVEFPLPTLNERERLV-RLYF 130
L + L ++ + + L E V+ + L ERE+LV +L F
Sbjct: 147 LEEVFRDFARDYSELIPSSTNVEEEVIKRELTEKVKEAVSKLPEREKLVIQLIF 200
>2r2a_A Uncharacterized protein; zonular occludens toxin, structural
genomics, APC84050.2, PS protein structure initiative;
HET: MSE; 1.82A {Neisseria meningitidis MC58}
Length = 199
Score = 29.3 bits (65), Expect = 0.88
Identities = 16/135 (11%), Positives = 36/135 (26%), Gaps = 14/135 (10%)
Query: 15 AIMTGGDVAPMGSSGVTAIHKVFDWASS-SRKGLVLFIDEADAFLRKRSSETISESLRAT 73
I T P + + H +++W G ++ +DEA RS+ +
Sbjct: 56 YIETDAKKLPKSTDEQLSAHDMYEWIKKPENIGSIVIVDEAQDVWPARSA---GSKIPEN 112
Query: 74 LNAFLYRTGEQSDKF--MLVLASNTPQQFDWAVNDRLDEMVEFPLPTLNERERLVRLYFD 131
+ + + + P+ D + + + + R L +
Sbjct: 113 VQWL-----NTHRHQGIDIFVLTQGPKLLDQNLRTLVRKHYHIASNKMGMRT---LLEWK 164
Query: 132 KFVLQPAAQGKRRLK 146
P
Sbjct: 165 ICADDPVKMASSAFS 179
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 28.7 bits (65), Expect = 1.7
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 11/43 (25%)
Query: 27 SSGVTAIHKVFDWASSSR---KGLVLFIDEA--------DAFL 58
+SGV I + + A +R + +LF+DE DAFL
Sbjct: 85 TSGVKEIREAIERARQNRNAGRRTILFVDEVHRFNKSQQDAFL 127
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 26.3 bits (59), Expect = 3.0
Identities = 10/62 (16%), Positives = 21/62 (33%), Gaps = 17/62 (27%)
Query: 112 VEFPLPTLNERERLVRLYFDKFVLQPAAQGKRRLKVAP-FDYTSLCSKIAHVTEGLSGRE 170
P R +++++ R++ + + KIA + G SG E
Sbjct: 6 HHHSHPNEEARLDILKIH------------SRKMNLTRGINL----RKIAELMPGASGAE 49
Query: 171 IA 172
+
Sbjct: 50 VK 51
>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 = 4.1
Identities = 5/40 (12%), Positives = 15/40 (37%), Gaps = 18/40 (45%)
Query: 192 EAMVMSKVEDSIRAHKMKVRWQSEQESPESFMGVDKSSPS 231
E + K++ S++ + + + S+P+
Sbjct: 18 EKQALKKLQASLKLY-----------ADD-------SAPA 39
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA
complex, two-component response regulator,
helix-turn-helix, DNA bending; 2.12A {Escherichia coli}
SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A
Length = 82
Score = 25.0 bits (55), Expect = 9.8
Identities = 6/52 (11%), Positives = 17/52 (32%), Gaps = 21/52 (40%)
Query: 160 AHVTEGLSGREIA-------------------KLGVA--WQASAYASEDGVL 190
+ +GL + IA K+ + +A+ + ++ +
Sbjct: 31 KLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 82
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 0.129 0.368
Gapped
Lambda K H
0.267 0.0816 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,586,669
Number of extensions: 205298
Number of successful extensions: 473
Number of sequences better than 10.0: 1
Number of HSP's gapped: 443
Number of HSP's successfully gapped: 45
Length of query: 242
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 151
Effective length of database: 4,160,982
Effective search space: 628308282
Effective search space used: 628308282
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 (21.7 bits)
S2: 56 (25.2 bits)