RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy5205
(113 letters)
>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH
{Escherichia coli [TaxId: 562]}
Length = 256
Score = 130 bits (329), Expect = 8e-40
Identities = 61/153 (39%), Positives = 83/153 (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 ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR- 81
GA RVRD+F+ AK PC++FIDEID+VG +R
Sbjct: 62 AKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG 121
Query: 82 -TNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
H QT+NQ+L EMDGF NEG++V+
Sbjct: 122 AGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVI 154
>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH
{Thermus thermophilus [TaxId: 274]}
Length = 247
Score = 125 bits (315), Expect = 9e-38
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: 2 EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 61
Query: 50 ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
GA RVRDLF+ AK PC+VFIDEID+VG KR + V
Sbjct: 62 VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV 121
Query: 86 --LHPYANQTINQLLAEMDGFHQNEGVVVL 113
+ QT+NQLL EMDGF ++ +VV+
Sbjct: 122 GGGNDEREQTLNQLLVEMDGFEKDTAIVVM 151
>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse
(Mus musculus) [TaxId: 10090]}
Length = 265
Score = 97.6 bits (242), Expect = 7e-27
Identities = 39/148 (26%), Positives = 69/148 (46%), Gaps = 41/148 (27%)
Query: 7 NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
+T++D+ G+++ K+EL+E+V++ +++P+KF G KGVL
Sbjct: 3 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIA 62
Query: 50 ----------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV-- 85
VR++F A+ PCV+F DE+DS+ R ++
Sbjct: 63 NECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGD 122
Query: 86 LHPYANQTINQLLAEMDGFHQNEGVVVL 113
A++ INQ+L EMDG + V ++
Sbjct: 123 GGGAADRVINQILTEMDGMSTKKNVFII 150
>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId:
161736]}
Length = 321
Score = 76.2 bits (187), Expect = 2e-18
Identities = 18/163 (11%), Positives = 40/163 (24%), Gaps = 53/163 (32%)
Query: 2 DPEEINITFKDVRGVDEAKQELKEIVEFLK----------NPEKFSTLGGKLPKGVLL-- 49
+ + V V +K+ +P G + G+++
Sbjct: 70 KEKSVKAEDGSVSVVQVENGFMKQGHRGWLVDLTGELVGCSPVVAEFGGHRYASGMVIVT 129
Query: 50 ---------------------------------------GARRVRDLFKAAKDRTPCVVF 70
V D+ +A V+
Sbjct: 130 GKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ--HRVIV 187
Query: 71 IDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
ID + +V + ++ LL+++ + G VV+
Sbjct: 188 IDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVI 230
>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse
(Mus musculus) [TaxId: 10090]}
Length = 258
Score = 75.4 bits (184), Expect = 2e-18
Identities = 36/145 (24%), Positives = 61/145 (42%), Gaps = 40/145 (27%)
Query: 8 ITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL----------------- 49
+ + DV G + ++KE+VE L++P F +G K P+G+LL
Sbjct: 1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 60
Query: 50 ---------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHP 88
+R F+ A+ P ++FIDE+D++ KR +
Sbjct: 61 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-GE 119
Query: 89 YANQTINQLLAEMDGFHQNEGVVVL 113
+ ++QLL MDG Q V+V+
Sbjct: 120 VERRIVSQLLTLMDGLKQRAHVIVM 144
>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}
Length = 309
Score = 37.9 bits (87), Expect = 9e-05
Identities = 12/48 (25%), Positives = 19/48 (39%)
Query: 66 PCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
+VFIDEID + K S LL ++G + ++
Sbjct: 116 NGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMV 163
>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase
domain {Simian virus 40 [TaxId: 10633]}
Length = 362
Score = 36.6 bits (84), Expect = 2e-04
Identities = 8/67 (11%), Positives = 18/67 (26%), Gaps = 8/67 (11%)
Query: 50 GARRVRDLFKAAK------DRTPCVVFIDEIDSVGAKR--TNSVLHPYANQTINQLLAEM 101
+ +F+ K P I+ +D++ + V + +
Sbjct: 199 AIDQFLVVFEDVKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPP 258
Query: 102 DGFHQNE 108
NE
Sbjct: 259 GIVTMNE 265
>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB
{Thermus thermophilus [TaxId: 274]}
Length = 239
Score = 36.1 bits (82), Expect = 4e-04
Identities = 19/132 (14%), Positives = 37/132 (28%), Gaps = 28/132 (21%)
Query: 9 TFKDVRGVDEAKQELKEIVEFLKNPEKF--------------STLGGKLPK--------- 45
T + G + KQ+L+ +E K ++ +TL +
Sbjct: 7 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVT 66
Query: 46 -GVLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYAN----QTINQLLAE 100
G + A ++FIDEI + + + + I Q A
Sbjct: 67 SGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAA 126
Query: 101 MDGFHQNEGVVV 112
+ +
Sbjct: 127 RTIRLELPRFTL 138
>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's
yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 253
Score = 33.2 bits (74), Expect = 0.004
Identities = 9/46 (19%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 9 TFKDVRGVDEAKQELKEIVEFLKNPEKFSTL-----GGKLPKGVLL 49
+ V G + +LK + +N +K S G + + +L
Sbjct: 12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAML 57
>d1ejxc2 c.1.9.2 (C:1130-1422,C:1476-1567) alpha-subunit of urease,
catalytic domain {Klebsiella aerogenes [TaxId: 28451]}
Length = 385
Score = 25.4 bits (56), Expect = 1.5
Identities = 13/64 (20%), Positives = 18/64 (28%), Gaps = 12/64 (18%)
Query: 51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTN-----------SVLHPYANQTINQLLA 99
+ V D A RT F E G S +P T+N +
Sbjct: 124 SGFVEDTLAAIGGRTIH-TFHTEGAGGGHAPDIITACAHPNILPSSTNPTLPYTLNTIDE 182
Query: 100 EMDG 103
+D
Sbjct: 183 HLDM 186
>d1eq3a_ d.26.1.1 (A:) Parvulin {Human (Homo sapiens), hpar14
[TaxId: 9606]}
Length = 96
Score = 24.2 bits (52), Expect = 2.6
Identities = 6/22 (27%), Positives = 13/22 (59%)
Query: 18 EAKQELKEIVEFLKNPEKFSTL 39
E ++ E +E LK+ +F+ +
Sbjct: 11 EKHGKIMEAMEKLKSGMRFNEV 32
>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III,
N-domain {Escherichia coli [TaxId: 562]}
Length = 239
Score = 24.7 bits (53), Expect = 3.0
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 4/37 (10%)
Query: 54 VRDLFKAAKDRTPC----VVFIDEIDSVGAKRTNSVL 86
RDL + V IDE+ + N++L
Sbjct: 100 TRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALL 136
>d2pv2a1 d.26.1.1 (A:172-274) Porin chaperone SurA, PPIase domains
{Escherichia coli [TaxId: 562]}
Length = 103
Score = 23.6 bits (50), Expect = 5.4
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 16 VDEAKQELKEIVEFLKNPEKFSTL 39
V+EA+ + + IV+ +N F L
Sbjct: 21 VNEAESQARAIVDQARNGADFGKL 44
>d2ctfa1 d.51.1.1 (A:7-96) Vigilin {Human (Homo sapiens) [TaxId:
9606]}
Length = 90
Score = 23.3 bits (50), Expect = 5.7
Identities = 6/31 (19%), Positives = 15/31 (48%)
Query: 2 DPEEINITFKDVRGVDEAKQELKEIVEFLKN 32
+ E+ V A+++++ +V+ L N
Sbjct: 59 EGEDKITLEGPTEDVSVAQEQIEGMVKDLIN 89
>d1noya_ c.55.3.5 (A:) Exonuclease domain of family B DNA
polymerases {Bacteriophage T4 [TaxId: 10665]}
Length = 372
Score = 23.7 bits (50), Expect = 7.3
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 7/37 (18%)
Query: 13 VRGVDEAKQELKEIVEF-------LKNPEKFSTLGGK 42
R +DE +E VE+ K K+ + GK
Sbjct: 16 ERYIDENGKERTREVEYLPTMFRHCKEESKYKDIYGK 52
>d2feaa1 c.108.1.20 (A:2-227)
2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate
phosphatase MtnX {Bacillus subtilis [TaxId: 1423]}
Length = 226
Score = 23.4 bits (49), Expect = 7.5
Identities = 6/25 (24%), Positives = 16/25 (64%)
Query: 8 ITFKDVRGVDEAKQELKEIVEFLKN 32
+ ++D + + + +KE+ E+L+N
Sbjct: 201 LPYQDFYEIRKEIENVKEVQEWLQN 225
>d1auia_ d.159.1.3 (A:) Protein phosphatase-2B (PP-2B, calcineurin A
subunit) {Human (Homo sapiens) [TaxId: 9606]}
Length = 473
Score = 23.4 bits (50), Expect = 8.2
Identities = 13/31 (41%), Positives = 14/31 (45%), Gaps = 4/31 (12%)
Query: 22 ELKEIVEFLKNPEKFSTLGGKLPKGVLLGAR 52
E E V LK T G LP GVL G +
Sbjct: 402 EESESVLTLKG----LTPTGMLPSGVLSGGK 428
>d1acfa_ d.110.1.1 (A:) Profilin (actin-binding protein)
{Acanthamoeba castellanii [TaxId: 5755]}
Length = 125
Score = 23.2 bits (50), Expect = 8.3
Identities = 4/29 (13%), Positives = 7/29 (24%)
Query: 15 GVDEAKQELKEIVEFLKNPEKFSTLGGKL 43
G + + N + G L
Sbjct: 34 GFAVTPAQGTTLAGAFNNADAIRAGGFDL 62
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.318 0.138 0.389
Gapped
Lambda K H
0.267 0.0486 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 436,444
Number of extensions: 19509
Number of successful extensions: 131
Number of sequences better than 10.0: 1
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 33
Length of query: 113
Length of database: 2,407,596
Length adjustment: 71
Effective length of query: 42
Effective length of database: 1,432,766
Effective search space: 60176172
Effective search space used: 60176172
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: 47 (22.5 bits)