RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5205
(113 letters)
>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 = 153 bits (388), Expect = 5e-48
Identities = 60/150 (40%), Positives = 83/150 (55%), Gaps = 43/150 (28%)
Query: 6 INITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------------- 49
+ ++FKDV G+ EAK E++E V++LK+PE+F LG K+PKG LL
Sbjct: 1 MGVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVA 60
Query: 50 ----------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
GA RVR LFK A+ R PC+V+IDEID+VG KR+ + +
Sbjct: 61 TEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTT-MS 119
Query: 88 PYAN----QTINQLLAEMDGFHQNEGVVVL 113
++N QT+NQLL EMDG + V+VL
Sbjct: 120 GFSNTEEEQTLNQLLVEMDGMGTTDHVIVL 149
>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 = 149 bits (379), Expect = 1e-46
Identities = 62/155 (40%), Positives = 86/155 (55%), Gaps = 42/155 (27%)
Query: 1 VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
++ E+ N+ FKD+ G +EAK+E+ EIV+FLK PE+++ LG K+PKGVLL
Sbjct: 1 INAEKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLL 60
Query: 50 ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
GA RVRDLF+ AK + P ++FIDEID++G R
Sbjct: 61 AKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRA 120
Query: 83 NSVL---HPYANQTINQLLAEMDGFH-QNEGVVVL 113
+ + QT+NQLLAEMDGF +N V+VL
Sbjct: 121 AGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVL 155
>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 = 153 bits (389), Expect = 4e-46
Identities = 63/150 (42%), Positives = 80/150 (53%), Gaps = 40/150 (26%)
Query: 4 EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------- 49
+TFKDV G +EA +ELKE+VEFLK+P KF+ +G ++PKG+LL
Sbjct: 9 GNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARA 68
Query: 50 ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
GA RVRDLF AK PC+VFIDEID+VG R +
Sbjct: 69 VAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGL 128
Query: 86 L--HPYANQTINQLLAEMDGFHQNEGVVVL 113
H QT+NQLL EMDGF EG++V+
Sbjct: 129 GGGHDEREQTLNQLLVEMDGFDSKEGIIVM 158
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 153 bits (388), Expect = 7e-46
Identities = 67/150 (44%), Positives = 84/150 (56%), Gaps = 40/150 (26%)
Query: 4 EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------- 49
E +TFKDV G +EAK+ELKEIVEFLKNP +F +G ++PKGVLL
Sbjct: 24 EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 83
Query: 50 ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
GA RVRDLF+ AK PC+VFIDEID+VG KR + V
Sbjct: 84 VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV 143
Query: 86 L--HPYANQTINQLLAEMDGFHQNEGVVVL 113
+ QT+NQLL EMDGF ++ +VV+
Sbjct: 144 GGGNDEREQTLNQLLVEMDGFEKDTAIVVM 173
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 146 bits (371), Expect = 1e-45
Identities = 61/153 (39%), Positives = 84/153 (54%), Gaps = 40/153 (26%)
Query: 1 VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
+ ++I TF DV G DEAK+E+ E+VE+L+ P +F LGGK+PKGVL+
Sbjct: 2 LTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLL 61
Query: 50 ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
GA RVRD+F+ AK PC++FIDEID+VG +R
Sbjct: 62 AKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG 121
Query: 83 NSVL--HPYANQTINQLLAEMDGFHQNEGVVVL 113
+ H QT+NQ+L EMDGF NEG++V+
Sbjct: 122 AGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVI 154
>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 = 145 bits (368), Expect = 4e-45
Identities = 68/153 (44%), Positives = 85/153 (55%), Gaps = 40/153 (26%)
Query: 1 VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
V E +TFKDV G +EAK+ELKEIVEFLKNP +F +G ++PKGVLL
Sbjct: 6 VLTEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHL 65
Query: 50 ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
GA RVRDLF+ AK PC+VFIDEID+VG KR
Sbjct: 66 ARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG 125
Query: 83 NSVL--HPYANQTINQLLAEMDGFHQNEGVVVL 113
+ V + QT+NQLL EMDGF ++ +VV+
Sbjct: 126 SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVM 158
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 144 bits (366), Expect = 2e-44
Identities = 67/150 (44%), Positives = 84/150 (56%), Gaps = 40/150 (26%)
Query: 4 EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------- 49
E +TFKDV G +EAK+ELKEIVEFLKNP +F +G ++PKGVLL
Sbjct: 33 EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 92
Query: 50 ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
GA RVRDLF+ AK PC+VFIDEID+VG KR + V
Sbjct: 93 VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV 152
Query: 86 --LHPYANQTINQLLAEMDGFHQNEGVVVL 113
+ QT+NQLL EMDGF ++ +VV+
Sbjct: 153 GGGNDEREQTLNQLLVEMDGFEKDTAIVVM 182
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 114 bits (287), Expect = 1e-32
Identities = 49/148 (33%), Positives = 78/148 (52%), Gaps = 41/148 (27%)
Query: 7 NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
N+ ++D+ G+++ QE++E+VE LK+PE F +G + PKG+LL
Sbjct: 13 NVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVA 72
Query: 50 ----------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
GA V+D+FK AK++ P ++FIDEID++ AKRT+++
Sbjct: 73 TETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTG 132
Query: 88 --PYANQTINQLLAEMDGFHQNEGVVVL 113
+T+ QLLAEMDGF V ++
Sbjct: 133 GDREVQRTLMQLLAEMDGFDARGDVKII 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 = 104 bits (261), Expect = 1e-28
Identities = 40/148 (27%), Positives = 70/148 (47%), Gaps = 41/148 (27%)
Query: 7 NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
+T++D+ G+++ K+EL+E+V++ +++P+KF G KGVL
Sbjct: 11 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIA 70
Query: 50 ---GA-------------------RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
A VR++F A+ PCV+F DE+DS+ R ++
Sbjct: 71 NECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGD 130
Query: 88 P--YANQTINQLLAEMDGFHQNEGVVVL 113
A++ INQ+L EMDG + V ++
Sbjct: 131 GGGAADRVINQILTEMDGMSTKKNVFII 158
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 102 bits (257), Expect = 2e-28
Identities = 39/146 (26%), Positives = 68/146 (46%), Gaps = 40/146 (27%)
Query: 7 NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
N+T+ D+ +++ ++EL + ++NP++F LG P GVLL
Sbjct: 6 NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVA 65
Query: 50 ---GA-------------------RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
G R VR +F+ AK+ PCV+F DE+D++ +R++
Sbjct: 66 NESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDR-ET 124
Query: 88 PYANQTINQLLAEMDGFHQNEGVVVL 113
+ + +NQLL EMDG + V ++
Sbjct: 125 GASVRVVNQLLTEMDGLEARQQVFIM 150
>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 = 103 bits (258), Expect = 3e-27
Identities = 40/148 (27%), Positives = 70/148 (47%), Gaps = 41/148 (27%)
Query: 7 NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
+T++D+ G+++ K+EL+E+V++ +++P+KF G KGVL
Sbjct: 473 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIA 532
Query: 50 -----------GA-----------RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV-- 85
G VR++F A+ PCV+F DE+DS+ R ++
Sbjct: 533 NECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGD 592
Query: 86 LHPYANQTINQLLAEMDGFHQNEGVVVL 113
A++ INQ+L EMDG + V ++
Sbjct: 593 GGGAADRVINQILTEMDGMSTKKNVFII 620
Score = 87.9 bits (218), Expect = 6e-22
Identities = 36/152 (23%), Positives = 62/152 (40%), Gaps = 40/152 (26%)
Query: 1 VDPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------- 49
+ + + DV G + ++KE+VE L++P F +G K P+G+LL
Sbjct: 194 EEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTL 253
Query: 50 ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
+R F+ A+ P ++FIDE+D++ KR
Sbjct: 254 IARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR 313
Query: 82 TNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
+ + ++QLL MDG Q V+V+
Sbjct: 314 EKTH-GEVERRIVSQLLTLMDGLKQRAHVIVM 344
Score = 30.5 bits (69), Expect = 0.10
Identities = 7/40 (17%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 8 ITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKG 46
++ D+R + Q L++ F + G +G
Sbjct: 747 VSDNDIRKYEMFAQTLQQSRGFGSFRFPSGNQGGAGPSQG 786
>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 = 97.6 bits (243), Expect = 3e-25
Identities = 35/146 (23%), Positives = 61/146 (41%), Gaps = 40/146 (27%)
Query: 7 NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
+ + D+ G + ++KE+VE L++P F +G K P+G+LL
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA 259
Query: 50 ----------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
+R F+ A+ P ++FIDE+D++ KR +
Sbjct: 260 NETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGE 319
Query: 88 PYANQTINQLLAEMDGFHQNEGVVVL 113
+ ++QLL MDG Q V+V+
Sbjct: 320 V-ERRIVSQLLTLMDGLKQRAHVIVM 344
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 90.8 bits (226), Expect = 1e-23
Identities = 40/155 (25%), Positives = 63/155 (40%), Gaps = 44/155 (28%)
Query: 1 VDPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------- 49
+ + + D+ G D AKQ L+E+V PE F+ L KG+LL
Sbjct: 11 IVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTL 69
Query: 50 ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
G + VR LF A+ P ++FIDE+DS+ ++R
Sbjct: 70 LARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSER 129
Query: 82 TNSVLHPYANQTINQLLAEMDGF---HQNEGVVVL 113
++S H + + + L E DG + +VVL
Sbjct: 130 SSSE-HEASRRLKTEFLVEFDGLPGNPDGDRIVVL 163
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 91.0 bits (226), Expect = 3e-23
Identities = 38/154 (24%), Positives = 61/154 (39%), Gaps = 43/154 (27%)
Query: 1 VDPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------- 49
+ + F D+ G D AKQ L+EIV PE F+ L +G+LL
Sbjct: 105 IVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTM 163
Query: 50 ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
G + VR LF A++ P ++FID++DS+ +R
Sbjct: 164 LAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCER 223
Query: 82 TNSVLHPYANQTINQLLAEMDGFH--QNEGVVVL 113
H + + + L E DG ++ V+V+
Sbjct: 224 REGE-HDASRRLKTEFLIEFDGVQSAGDDRVLVM 256
>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 = 89.3 bits (222), Expect = 6e-23
Identities = 36/150 (24%), Positives = 64/150 (42%), Gaps = 42/150 (28%)
Query: 4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------- 49
E+ N+ ++DV G++ AK+ LKE V +K P F K G+LL
Sbjct: 11 EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAK 69
Query: 50 -------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
+ V+ LF A++ P ++FID++D++ R
Sbjct: 70 AVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG 129
Query: 85 VLHPYANQTINQLLAEMDGF-HQNEGVVVL 113
+ + +LL +M+G + ++GV+VL
Sbjct: 130 E-SEASRRIKTELLVQMNGVGNDSQGVLVL 158
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 89.0 bits (221), Expect = 8e-23
Identities = 39/152 (25%), Positives = 64/152 (42%), Gaps = 43/152 (28%)
Query: 3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------ 49
E N+ + DV G++ AK+ LKE V +K P F T +G+LL
Sbjct: 4 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLF-TGKRTPWRGILLFGPPGTGKSYLA 62
Query: 50 ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
+ V++LF+ A++ P ++FIDEIDS+ R+
Sbjct: 63 KAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRS 122
Query: 83 NSVLHPYANQTINQLLAEMDGF-HQNEGVVVL 113
+ A + + L +M G N+G++VL
Sbjct: 123 ENE-SEAARRIKTEFLVQMQGVGVDNDGILVL 153
>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 = 89.4 bits (222), Expect = 9e-23
Identities = 38/154 (24%), Positives = 67/154 (43%), Gaps = 43/154 (27%)
Query: 1 VDPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------- 49
+ + ++D+ GV+ AK +KEIV + + P+ F+ L PKG+LL
Sbjct: 74 IMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTL 132
Query: 50 ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
G + VR LF A+ + P V+FIDEIDS+ ++R
Sbjct: 133 IGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQR 192
Query: 82 TNSVLHPYANQTINQLLAEMDGFH--QNEGVVVL 113
+ H + + + L ++DG + ++V+
Sbjct: 193 GDGE-HESSRRIKTEFLVQLDGATTSSEDRILVV 225
>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 = 84.9 bits (210), Expect = 4e-21
Identities = 36/150 (24%), Positives = 64/150 (42%), Gaps = 42/150 (28%)
Query: 4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------- 49
E+ N+ ++DV G++ AK+ LKE V +K P F K G+LL
Sbjct: 44 EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAK 102
Query: 50 -------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
+ V+ LF A++ P ++FID++D++ R
Sbjct: 103 AVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG 162
Query: 85 VLHPYANQTINQLLAEMDGF-HQNEGVVVL 113
+ + +LL +M+G + ++GV+VL
Sbjct: 163 E-SEASRRIKTELLVQMNGVGNDSQGVLVL 191
>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 = 83.5 bits (206), Expect = 2e-20
Identities = 39/152 (25%), Positives = 64/152 (42%), Gaps = 43/152 (28%)
Query: 3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------ 49
E N+ + DV G++ AK+ LKE V +K P F T +G+LL
Sbjct: 126 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLF-TGKRTPWRGILLFGPPGTGKSYLA 184
Query: 50 ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
+ V++LF+ A++ P ++FIDEIDS+ R+
Sbjct: 185 KAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRS 244
Query: 83 NSVLHPYANQTINQLLAEMDGF-HQNEGVVVL 113
+ A + + L +M G N+G++VL
Sbjct: 245 ENE-SEAARRIKTEFLVQMQGVGVDNDGILVL 275
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 61.4 bits (149), Expect = 1e-12
Identities = 20/157 (12%), Positives = 49/157 (31%), Gaps = 57/157 (36%)
Query: 12 DVRGVDEAKQELKEIVEFLKNPEKFSTLGG-KLPKGVLL--------------------- 49
+ G A + ++V + + F L K+P + +
Sbjct: 5 KLDGFYIAPAFMDKLV--VHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGI 62
Query: 50 -----------------GARRVRDLFKAA----KDRTPCVVFIDEIDSVGAKRTNSVLHP 88
A+ +R ++ A + C +FI+++D+ + + +
Sbjct: 63 NPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYT 122
Query: 89 YANQTINQLL---------AEMDGFHQNE---GVVVL 113
NQ +N L ++ G + + V ++
Sbjct: 123 VNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPII 159
>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 = 59.4 bits (144), Expect = 5e-12
Identities = 14/155 (9%), Positives = 40/155 (25%), Gaps = 47/155 (30%)
Query: 1 VDPEEI-NITFKDVRGVDEAKQELKEIVE-FLKNPEKFSTLGGKLPKGVLLG-------- 50
+ E+ + + + + + E ++ + VLL
Sbjct: 22 TNQEDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTP---LVSVLLEGPPHSGKT 78
Query: 51 -------------------------------ARRVRDLFKAAKDRTPCVVFIDEIDSVGA 79
+ ++ +F A V +D+I+ +
Sbjct: 79 ALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLD 138
Query: 80 KRTNSVLHPYANQTINQLLAEMDGFH-QNEGVVVL 113
++N + LL + Q ++++
Sbjct: 139 YVPIG--PRFSNLVLQALLVLLKKAPPQGRKLLII 171
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 35.1 bits (80), Expect = 0.002
Identities = 23/151 (15%), Positives = 42/151 (27%), Gaps = 54/151 (35%)
Query: 10 FKDVRGVDEAKQELKEIVEFLKNPEKFSTLG----------------------------- 40
+++ G+ K ++E L LG
Sbjct: 30 DRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAG 89
Query: 41 -----GKLPKG--------------VLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
G + KG + A + +++ K A V+FIDE +
Sbjct: 90 LLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAM---GGVLFIDEAYYLYRPD 146
Query: 82 TNSVLHPYANQTINQLLAEMDGFHQNEGVVV 112
Y + I LL M+ + V++
Sbjct: 147 NE---RDYGQEAIEILLQVMENNRDDLVVIL 174
>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 = 35.0 bits (80), Expect = 0.002
Identities = 13/123 (10%), Positives = 35/123 (28%), Gaps = 35/123 (28%)
Query: 2 DPEEINITFKDVRGVDEAKQELKEIVEFLKNPEK-------------------------- 35
+ + G + A++ IVE +K+ +
Sbjct: 28 ESGLAKQAASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL 87
Query: 36 ------FSTLGGKLPKGVLLGARRVRDLFKAA---KDRTPCVVFIDEIDSVGAKRTNSVL 86
+G ++ + + + F+ A + + V+ E+ + T + +
Sbjct: 88 GSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIKETKEVYEGEVTELTPCETENPM 147
Query: 87 HPY 89
Y
Sbjct: 148 GGY 150
>3hzr_A Tryptophanyl-tRNA synthetase; APO tRNA-ligase, structural genomics,
medical structural GEN pathogenic protozoa, MSGPP,
ligase; 3.00A {Entamoeba histolytica}
Length = 386
Score = 28.9 bits (64), Expect = 0.36
Identities = 12/63 (19%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 14 RGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVL-LGARRVRDLFKAAKDRTPCVVFID 72
RGV A++ L + ++ ++ + K P+ + L + + +D V I
Sbjct: 61 RGVFLAEKSLDKFLDDVEAKKPTFIFIQKYPQKEVALEEYITLEFARYLQDAFNIQVIIQ 120
Query: 73 EID 75
+D
Sbjct: 121 ILD 123
>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 = 28.0 bits (61), Expect = 0.51
Identities = 7/23 (30%), Positives = 10/23 (43%), Gaps = 2/23 (8%)
Query: 20 KQELKEIVEFLK--NPEKFSTLG 40
KQ LK++ LK + L
Sbjct: 19 KQALKKLQASLKLYADDSAPALA 41
Score = 26.8 bits (58), Expect = 1.5
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 10/35 (28%)
Query: 73 EIDSVGAKRTNSVLHPYANQT-----INQLLAEMD 102
E ++ K+ + L YA+ + I A M+
Sbjct: 18 EKQAL--KKLQASLKLYADDSAPALAIK---ATME 47
>3hv0_A Tryptophanyl-tRNA synthetase; tRNA-ligase, ATP-binding,
aminoacyl-tRNA synthetase, ligase, nucleotide-binding;
HET: TRP; 2.42A {Cryptosporidium parvum iowa II}
Length = 393
Score = 28.0 bits (62), Expect = 0.58
Identities = 11/68 (16%), Positives = 25/68 (36%), Gaps = 10/68 (14%)
Query: 14 RGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGV------LLGARRVRDLFKAAKDRTPC 67
R + + ++ ++I++ + E F G+ P L+ + L +D
Sbjct: 53 RNIFLSHRDFEKILDVYEKGELFYLYTGRGPSSESLHVGHLVPFLFTKYL----QDTFKV 108
Query: 68 VVFIDEID 75
+ I D
Sbjct: 109 PLVIQLTD 116
>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 = 27.7 bits (61), Expect = 1.1
Identities = 6/31 (19%), Positives = 13/31 (41%), Gaps = 4/31 (12%)
Query: 12 DVRGVDEAKQELKEI----VEFLKNPEKFST 38
D+R +D L I ++ ++ + S
Sbjct: 1858 DLRALDTVTNVLNFIKLQKIDIIELQKSLSL 1888
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 27.1 bits (61), Expect = 1.1
Identities = 7/32 (21%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 47 VLLGARRVRDLFKAAKDR----TPCVVFIDEI 74
V G + +R+ + A+ ++F+DE+
Sbjct: 84 VTSGVKEIREAIERARQNRNAGRRTILFVDEV 115
>2ip1_A Tryptophanyl-tRNA synthetase; rossmann fold, structural genomics,
PSI-2, protein structure initiative; HET: PG4; 1.80A
{Saccharomyces cerevisiae} PDB: 3kt0_A* 3kt3_A* 3kt6_A*
3kt8_A*
Length = 432
Score = 27.3 bits (60), Expect = 1.3
Identities = 8/68 (11%), Positives = 27/68 (39%), Gaps = 10/68 (14%)
Query: 14 RGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGV------LLGARRVRDLFKAAKDRTPC 67
+G+ ++++ +I++ + + F G+ P ++ + L ++
Sbjct: 81 KGLFFSERDFTKILDLYEQGKPFFLYTGRGPSSDSMHLGHMIPFVFTKWL----QEVFDV 136
Query: 68 VVFIDEID 75
+ I+ D
Sbjct: 137 PLVIELTD 144
>2bh4_X Cytochrome C-550; C-type cytochrome, heme, electron transfer, axial
ligand, pyrrolidone carboxylic acid; HET: HEC; 1.55A
{Paracoccus versutus} PDB: 2bh5_X* 2bgv_X* 1cot_A*
Length = 134
Score = 26.7 bits (59), Expect = 1.3
Identities = 7/40 (17%), Positives = 20/40 (50%), Gaps = 6/40 (15%)
Query: 25 EIVEFLKNPEKFSTLGGKLPKGVLLGARRVRDLFKAAKDR 64
+++E++ +P+ + L + A + + FK K++
Sbjct: 75 DLIEYVTDPKPW------LVEKTGDSAAKTKKTFKLGKNQ 108
>3tze_A Tryptophanyl-tRNA synthetase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, amino acylation; HET: TRP; 2.60A
{Encephalitozoon cuniculi}
Length = 406
Score = 26.9 bits (59), Expect = 1.7
Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 10/68 (14%)
Query: 14 RGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGV------LLGARRVRDLFKAAKDRTPC 67
RG+ A ++ +++ + N F G+ P + + + A K
Sbjct: 80 RGIVFAHRDFNLLLDEIANNRPFYLYTGRGPSSKTMHIGHTIPFLLCKYMQDAFK----I 135
Query: 68 VVFIDEID 75
+ I D
Sbjct: 136 RLVIQITD 143
>3i05_A Tryptophanyl-tRNA synthetase; APO tRNA-ligase, ATP-binding,
aminoacyl-tRNA synthetase, LIG nucleotide-binding,
protein biosynthesis; 2.80A {Trypanosoma brucei}
Length = 395
Score = 26.9 bits (59), Expect = 1.8
Identities = 11/68 (16%), Positives = 26/68 (38%), Gaps = 10/68 (14%)
Query: 14 RGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGV------LLGARRVRDLFKAAKDRTPC 67
RG+ + ++L +++ ++ + F G+ P L+ + L +D
Sbjct: 57 RGIFFSHRDLNLLLDVYESGQPFYLYTGRGPSSESMHMGHLIPFMFTKWL----QDSFRV 112
Query: 68 VVFIDEID 75
+ I D
Sbjct: 113 PLVIQMTD 120
>2fna_A Conserved hypothetical protein; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus}
SCOP: a.4.5.11 c.37.1.20
Length = 357
Score = 26.2 bits (57), Expect = 2.8
Identities = 11/76 (14%), Positives = 32/76 (42%), Gaps = 3/76 (3%)
Query: 14 RGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLLGARR-VRDLFK--AAKDRTPCVVF 70
+ +++ + L +++ LKN + +G ++ R +L + + ++
Sbjct: 83 KEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIV 142
Query: 71 IDEIDSVGAKRTNSVL 86
+DE + R ++L
Sbjct: 143 LDEAQELVKLRGVNLL 158
>1r6t_A Tryptophanyl-tRNA synthetase; class IC tRNA synthetase, rossmann
fold catalytical domain, recognition domain, bound
Trp-AMP, ligase; HET: TYM; 2.10A {Homo sapiens} SCOP:
a.16.1.3 c.26.1.1 PDB: 2azx_A* 2quh_A* 2qui_A* 2quj_A*
2quk_A
Length = 477
Score = 26.1 bits (57), Expect = 2.9
Identities = 7/50 (14%), Positives = 21/50 (42%), Gaps = 6/50 (12%)
Query: 14 RGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL------GARRVRDL 57
RG+ + +++ ++++ +N + F G+ P + + L
Sbjct: 134 RGIFFSHRDMNQVLDAYENKKPFYLYTGRGPSSEAMHVGHLIPFIFTKWL 183
>3moe_A Phosphoenolpyruvate carboxykinase, cytosolic [GTP; gluconeogenesis,
lyase; HET: GTP SPV 1PE; 1.25A {Rattus norvegicus} PDB:
3mof_A* 3moh_A* 3dtb_A* 2qey_A* 2qf1_A* 2qew_A* 2rk7_A
2rk8_A 2rka_A* 2rkd_A 2rke_A 2qf2_A* 3dt2_A* 3dt7_A*
3dt4_A* 1khb_A* 1khe_A* 1khf_A* 1khg_A 1m51_A* ...
Length = 624
Score = 25.9 bits (56), Expect = 3.4
Identities = 6/33 (18%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 16 VDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVL 48
+ ++E++EI ++L + LP +
Sbjct: 584 KEFWEKEVEEIDKYL-----EDQVNADLPYEIE 611
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 25.8 bits (56), Expect = 3.8
Identities = 13/78 (16%), Positives = 25/78 (32%), Gaps = 4/78 (5%)
Query: 1 VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLLGARRVRDLF-- 58
+D E+ + + K+ I F K KF + +R++F
Sbjct: 60 IDCRELYAERGHITREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRE 119
Query: 59 --KAAKDRTPCVVFIDEI 74
++ +V DE
Sbjct: 120 LNDLGEELGEFIVAFDEA 137
>1w5c_T Cytochrome C-550; photosynthesis, water oxidation, photosystem,
membrane protein; HET: CL1 CLA PHO HEM HEC BCR; 3.2A
{Thermosynechococcus elongatus} SCOP: i.5.1.1
Length = 163
Score = 25.2 bits (54), Expect = 5.6
Identities = 9/74 (12%), Positives = 32/74 (43%), Gaps = 8/74 (10%)
Query: 6 INITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLLGARRVRDLFKAAKDRT 65
+++ + + + ++ +V+++KNP + G+ + + R D+F ++ T
Sbjct: 78 LDLRTETLALATPPRDNIEGLVDYMKNPTTYD---GEQEIAEVHPSLRSADIFPKMRNLT 134
Query: 66 PCVVFIDEIDSVGA 79
++ ++
Sbjct: 135 E-----KDLVAIAG 143
>1mz4_A Cytochrome C550; PSII associated cytochrome, electron transport;
HET: HEM; 1.80A {Thermosynechococcus elongatus} SCOP:
a.3.1.1 PDB: 1izl_V* 1s5l_V* 2axt_V* 3a0b_V* 3a0h_V*
3arc_V* 3bz1_V* 3bz2_V* 3kzi_V* 3prq_V* 3prr_V*
Length = 137
Score = 25.1 bits (54), Expect = 5.7
Identities = 9/75 (12%), Positives = 32/75 (42%), Gaps = 8/75 (10%)
Query: 5 EINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLLGARRVRDLFKAAKDR 64
+++ + + + ++ +V+++KNP + G+ + + R D+F ++
Sbjct: 51 SLDLRTETLALATPPRDNIEGLVDYMKNPTTYD---GEQEIAEVHPSLRSADIFPKMRNL 107
Query: 65 TPCVVFIDEIDSVGA 79
T ++ ++
Sbjct: 108 TE-----KDLVAIAG 117
>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone,
hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*
Length = 310
Score = 25.3 bits (56), Expect = 5.7
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 68 VVFIDEIDSVGAKRTNS 84
+VFIDEID + K S
Sbjct: 119 IVFIDEIDKICKKGEYS 135
>2rqs_A Parvulin-like peptidyl-prolyl isomerase; CIS/trans isomerisation,
cenarcheaum symbiosum, low temperat NIMA-kinase, PIN1,
cell cycle; NMR {Cenarchaeum symbiosum}
Length = 97
Score = 24.5 bits (54), Expect = 6.6
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 18 EAKQELKEIVEFLKNPEKFSTL 39
+ + E + E LK EKF L
Sbjct: 18 KKQGEALAVQERLKAGEKFGKL 39
>2pbl_A Putative esterase/lipase/thioesterase; alpha/beta-hydrolases
fold, structural genomics, joint cente structural
genomics, JCSG; 1.79A {Silicibacter SP} SCOP: c.69.1.2
Length = 262
Score = 24.9 bits (54), Expect = 6.8
Identities = 7/22 (31%), Positives = 8/22 (36%)
Query: 50 GARRVRDLFKAAKDRTPCVVFI 71
G R DLF VF+
Sbjct: 48 GDRHKFDLFLPEGTPVGLFVFV 69
>2kgj_A Peptidyl-prolyl CIS-trans isomerase D; prolyl isomerase,
parvulin, cell inner membrane, cell membrane, membrane,
rotamase, stress response; NMR {Escherichia coli}
Length = 102
Score = 24.5 bits (54), Expect = 6.9
Identities = 5/22 (22%), Positives = 11/22 (50%)
Query: 18 EAKQELKEIVEFLKNPEKFSTL 39
+ + E K +++ L F+ L
Sbjct: 14 KTEDEAKAVLDELNKGGDFAAL 35
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 24.9 bits (54), Expect = 7.1
Identities = 1/9 (11%), Positives = 3/9 (33%)
Query: 104 FHQNEGVVV 112
+H +
Sbjct: 248 YHSASCAIA 256
>1tf5_A Preprotein translocase SECA subunit; ATPase, helicase,
translocation, secretion, protein transport; 2.18A
{Bacillus subtilis} SCOP: a.162.1.1 a.172.1.1 c.37.1.19
c.37.1.19 PDB: 1tf2_A 3iqy_A 1m6n_A 1m74_A* 3iqm_A
3jv2_A* 2ibm_A* 3dl8_A 1sx0_A 1sx1_A 1tm6_A
Length = 844
Score = 24.9 bits (55), Expect = 8.2
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 12/44 (27%)
Query: 71 IDEIDSV------------GAKRTNSVLHPYANQTINQLLAEMD 102
IDE+DS+ G ++ L+ AN + L AE D
Sbjct: 209 IDEVDSILIDEARTPLIISGQAAKSTKLYVQANAFVRTLKAEKD 252
>2pv1_A Chaperone SURA; surviVal protein A, peptidyl-prolyl CIS-trans
isomerase domain, peptide, complex; 1.30A {Escherichia
coli} SCOP: d.26.1.1 PDB: 2pv2_A
Length = 103
Score = 24.2 bits (53), Expect = 8.2
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 16 VDEAKQELKEIVEFLKNPEKFSTL 39
V+EA+ + + IV+ +N F L
Sbjct: 21 VNEAESQARAIVDQARNGADFGKL 44
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 24.9 bits (54), Expect = 9.1
Identities = 1/9 (11%), Positives = 3/9 (33%)
Query: 104 FHQNEGVVV 112
+H +
Sbjct: 248 YHSASCAIA 256
>3jxe_A Tryptophanyl-tRNA synthetase; adenosine triphosphate, rossmann
fold, crystallography, X-RAY, P. horikoshii,
aminoacyl-tRNA synthetase; HET: TYM; 3.00A {Pyrococcus
horikoshii}
Length = 392
Score = 24.7 bits (54), Expect = 9.3
Identities = 8/63 (12%), Positives = 20/63 (31%), Gaps = 7/63 (11%)
Query: 14 RGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVL-----LGARRVRDLFKAAKDRTPCV 68
R + ++ I++ + F G+ P G + + + + K
Sbjct: 52 RKFFFSHRDYDLILKDYEEGRGFFLYTGRGPSGPMHIGHIIPFFATK--WLQEKFGVNLY 109
Query: 69 VFI 71
+ I
Sbjct: 110 IQI 112
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
0.318 0.138 0.389
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,836,416
Number of extensions: 104357
Number of successful extensions: 476
Number of sequences better than 10.0: 1
Number of HSP's gapped: 448
Number of HSP's successfully gapped: 91
Length of query: 113
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 36
Effective length of database: 4,551,876
Effective search space: 163867536
Effective search space used: 163867536
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: 51 (23.3 bits)