RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy9877
(1447 letters)
>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency
virus type 1, different isolates [TaxId: 11676]}
Length = 42
Score = 35.2 bits (81), Expect = 0.002
Identities = 13/36 (36%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 269 CYACLKFGHRVSRCRTKSRLKCEKCGSR-HLTILCP 303
C+ C K GH CR + C KCG H C
Sbjct: 4 CFNCGKEGHTARNCRAPRKKGCWKCGKEGHQMKDCT 39
Score = 29.1 bits (65), Expect = 0.32
Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 12/49 (24%)
Query: 238 CIFC-SQGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTK 285
C C +GH + +C+ K+ C+ C K GH++ C +
Sbjct: 4 CFNCGKEGHTARNCRA-----------PRKKGCWKCGKEGHQMKDCTER 41
>d2cona1 g.41.15.1 (A:8-73) RNA-binding protein NOB1 (Nin one
binding) {Mouse (Mus musculus) [TaxId: 10090]}
Length = 66
Score = 28.5 bits (64), Expect = 0.95
Identities = 8/31 (25%), Positives = 13/31 (41%), Gaps = 6/31 (19%)
Query: 269 CYACLKFGHRVSRCRTKSRLKCEKCGSRHLT 299
C+ C K +R+ C CG++ L
Sbjct: 11 CHGCFKT------TSDMNRVFCGHCGNKTLK 35
>d1s7ja_ d.21.1.2 (A:) Hypothetical protein EF0119 {Enterococcus
faecalis [TaxId: 1351]}
Length = 260
Score = 30.3 bits (67), Expect = 1.6
Identities = 16/131 (12%), Positives = 30/131 (22%), Gaps = 4/131 (3%)
Query: 1008 DYKLQDVRTTFWTDATTVLAWIRRNEPWNVFVMNRITEIRNLSQEHEWRHVPGEMNPADL 1067
+ + AT A++ N T + P L
Sbjct: 60 RWFTPEREIDLCGHATLATAFVLFNYYSVAEETLHFTSQSGPLAVTKKEEYYYLDFPYIL 119
Query: 1068 PSRGCTMKKLVQCRWWEGPEWLKGSPEQWPHHEEIEDE----DEVCREKKKTVVSSVTLS 1123
P R + + + E G + +E D + V + +
Sbjct: 120 PERIPILPEYEAALGTKIYEAYLGRDLFFVLKDEETVAKITPDFSALKALDLGVGVIVTA 179
Query: 1124 QPMDVDWHKYF 1134
VD+
Sbjct: 180 SGDSVDFVSRT 190
>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain
{Human (Homo sapiens) [TaxId: 9606]}
Length = 59
Score = 27.5 bits (61), Expect = 1.9
Identities = 5/26 (19%), Positives = 7/26 (26%), Gaps = 6/26 (23%)
Query: 269 CYACLKFGHRVSRCRTKSRLKCEKCG 294
CY C + + C C
Sbjct: 18 CYGCQG------ELKDQHVYVCAVCQ 37
>d2vk9a1 c.68.1.22 (A:2-541) Alpha-toxin {Clostridium novyi [TaxId:
1542]}
Length = 540
Score = 29.9 bits (67), Expect = 2.6
Identities = 17/103 (16%), Positives = 34/103 (33%), Gaps = 12/103 (11%)
Query: 797 IQVASSIMKEKGFDLRGWELTGDKDDKPTNVLG---LLWDKSSDTLAINIDRLTSMHIEK 853
+ + + I K G D WE + L+ + ++++ S E+
Sbjct: 292 LSLFNDISKPNGMDSNYWE-----AAIFEAIANEKKLMNNYPYK----YMEQVPSEIKER 342
Query: 854 ITKKVMLSAAHRIFDPIGVICAFALIPKLLIQKTWETGLAWND 896
I V + + P+G I L L K +++
Sbjct: 343 ILSFVRNHDINDLILPLGDIKISQLEILLSRLKAATGKKTFSN 385
>d1rzna_ c.52.1.28 (A:) Recombination protein U (RecU)/PBP related
factor A (PrfA) {Bacillus subtilis [TaxId: 1423]}
Length = 165
Score = 28.5 bits (64), Expect = 3.3
Identities = 6/36 (16%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 590 YYADYKRVLDTWEMDKIIER--VPQEELDNPGYYMP 623
Y+ + ++ W+ + R + ++EL+ Y +
Sbjct: 112 YFLEADKLFYFWDRKEKNGRKSIRKDELEETAYPIS 147
>d1ib8a2 d.52.4.1 (A:1-90) Hypothetical protein SP14.3 (SP0552)
{Streptococcus pneumoniae [TaxId: 1313]}
Length = 90
Score = 27.4 bits (61), Expect = 3.9
Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 9/56 (16%)
Query: 603 MDKIIERVPQEELDNP----GYYMPHHHVVKPGSTTPVRPVFDASAKDNGVSLNDC 654
+ I+E V E+ P + + K GS + D K G++LND
Sbjct: 7 IATIVELV--REVVEPVIEAPFELVDIEYGKIGSDMILSIFVD---KPEGITLNDT 57
>d1cs8a_ d.3.1.1 (A:) (Pro)cathepsin L {Human (Homo sapiens) [TaxId:
9606]}
Length = 316
Score = 29.2 bits (64), Expect = 4.0
Identities = 25/186 (13%), Positives = 54/186 (29%), Gaps = 19/186 (10%)
Query: 1119 SVTLSQPMDVDWHKYFSKYNKLVRMVGWMKR---FKTNCEF-KKYNKLVRMVGWMKRFKT 1174
S+T ++ W K+ + +N+L M R ++ N + + +N+ R +
Sbjct: 1 SLTFDHSLEAQWTKWKAMHNRLYGMNEEGWRRAVWEKNMKMIELHNQEYR--------EG 52
Query: 1175 NCEFKKVHGHLPTPQDLTVEELCTAETQVLKWVQEESCKEEDPRFSSLVTFLDEDGLIRV 1234
F D+T EE + ++P F +D R
Sbjct: 53 KHSFTMAMNAF---GDMTSEEFRQVMNGFQNRKPRKGKVFQEPLFYEAPRSVD----WRE 105
Query: 1235 KTKISNRQDLEDSCCPVVLPRHPVVLKLVMFHHLNNCHAGTQILMSILRQKYWILGETGV 1294
K ++ ++ + + Q L+ + G+
Sbjct: 106 KGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGL 165
Query: 1295 PEYEMD 1300
+Y
Sbjct: 166 MDYAFQ 171
>d1n8yc4 g.3.9.1 (C:489-608) Protooncoprotein Her2 extracellular
domain {Rat (Rattus norvegicus) [TaxId: 10116]}
Length = 120
Score = 27.9 bits (61), Expect = 4.1
Identities = 15/98 (15%), Positives = 27/98 (27%), Gaps = 8/98 (8%)
Query: 233 PKGESCIFCSQGHYSGDCQKDMTLSQRQD-IIRNKQVCYAC---LKFGHRVSRCRTKSRL 288
P C+ CS +C ++ + + + + C C + + C
Sbjct: 14 PGPTQCVNCSHFLRGQECVEECRVWKGLPREYVSDKRCLPCHPECQPQNSSETCFGSEAD 73
Query: 289 KCEKCG----SRHLTILCPRDSKSDIVTRTFVNTKSSN 322
+C C S CP K D+
Sbjct: 74 QCAACAHYKDSSSCVARCPSGVKPDLSYMPIWKYPDEE 111
>d1dcta_ c.66.1.26 (A:) DNA methylase HaeIII {Haemophilus aegyptius
[TaxId: 197575]}
Length = 324
Score = 28.8 bits (63), Expect = 4.4
Identities = 27/223 (12%), Positives = 57/223 (25%), Gaps = 14/223 (6%)
Query: 987 IPRLELLAASIATRLCQTVVKDYKLQDVRTTFWTDATTVLAWIR------------RNEP 1034
P+ + + + + D R + + +L + +
Sbjct: 59 FPKCDGIIGGPPCQSWSEGGSLRGIDDPRGKLFYEYIRILKQKKPIFFLAENVKGMMAQR 118
Query: 1035 WNVFVMNRITEIRNLSQEHEWRHV-PGEMNPADLPSRGCTMKKLVQCRWWEGPEWLKGSP 1093
N V I E N + + + A R + + P
Sbjct: 119 HNKAVQEFIQEFDNAGYDVHIILLNANDYGVAQDRKRVFYIGFRKELNINYLPPIPHLIK 178
Query: 1094 EQWPHHEEIEDEDEVCREKKKTVVSSVTLSQPMDVDWHKYFSKYNKLVRMVGWMKRFKTN 1153
+ ++ + K + + + Y + + R+ W + T
Sbjct: 179 PTFKDVIWDLKDNPIPALDKNKTNGNKCIYPNHEYFIGSYSTIFMSRNRVRQWNEPAFTV 238
Query: 1154 CEFKKYNKLVRMVGWMKRFKTNCEFKKVHGHLPTPQDLTVEEL 1196
+ +L M + N K V G + LTV E
Sbjct: 239 QASGRQCQLHPQAPVMLKVSKNLN-KFVEGKEHLYRRLTVREC 280
>d1yhta1 c.1.8.6 (A:16-359) Dispersin B, DspB {Actinobacillus
actinomycetemcomitans [TaxId: 714]}
Length = 344
Score = 28.3 bits (62), Expect = 8.4
Identities = 14/67 (20%), Positives = 22/67 (32%), Gaps = 3/67 (4%)
Query: 780 VDNCLVSTDSQAEAEQFIQVASSIMKEKGFDLRGWE---LTGDKDDKPTNVLGLLWDKSS 836
D S +S E + S +++KG R W + + N+ W
Sbjct: 167 GDEFGYSVESNHEFITYANKLSYFLEKKGLKTRMWNDGLIKNTFEQINPNIEITYWSYDG 226
Query: 837 DTLAINI 843
DT N
Sbjct: 227 DTQDKNE 233
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
0.319 0.133 0.403
Gapped
Lambda K H
0.267 0.0603 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 5,436,807
Number of extensions: 263618
Number of successful extensions: 777
Number of sequences better than 10.0: 1
Number of HSP's gapped: 776
Number of HSP's successfully gapped: 18
Length of query: 1447
Length of database: 2,407,596
Length adjustment: 97
Effective length of query: 1350
Effective length of database: 1,075,786
Effective search space: 1452311100
Effective search space used: 1452311100
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.8 bits)