RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy5919
(387 letters)
>d1tgoa1 c.55.3.5 (A:1-347) Exonuclease domain of family B DNA
polymerases {Archaeon Thermococcus gorgonarius [TaxId:
71997]}
Length = 347
Score = 66.4 bits (161), Expect = 9e-13
Identities = 26/140 (18%), Positives = 43/140 (30%), Gaps = 19/140 (13%)
Query: 87 VPVIRVFGNNVEGKKTCVFVHGVFPYLYIPFHHEPITETMLQQLAASIDKALNIALGYKD 146
PVIR+F G+ + PY+Y + ++I+ I
Sbjct: 13 KPVIRIFKKE-NGEFKIDYDRNFEPYIYALLKDD-----------SAIEDVKKITAERHG 60
Query: 147 SVQHVFHISICKKFPMYGYHADERTFLKILLYEPYHMSKLEDLLLNGAVFNERFQPYESH 206
+ V KK + K+ P + + D + YE
Sbjct: 61 TTVRVVRAEKVKKK----FLGRPIEVWKLYFTHPQDVPAIRDKIKEH---PAVVDIYEYD 113
Query: 207 IPYILQFCIDYNLYGMSNIE 226
IP+ ++ ID L M E
Sbjct: 114 IPFAKRYLIDKGLIPMEGDE 133
Score = 41.3 bits (96), Expect = 1e-04
Identities = 21/138 (15%), Positives = 38/138 (27%), Gaps = 12/138 (8%)
Query: 35 VPVIRVFGNNIEGKKTCVFVHGVFPYLYIPFHHEPITETIVHSELRNLVIQKVPVIRVFG 94
PVIR+F G+ + PY+Y + E + V V+R
Sbjct: 13 KPVIRIFKKE-NGEFKIDYDRNFEPYIYALLKDDSAIEDVK-KITAERHGTTVRVVR--- 67
Query: 95 NNVEGKKTCVFVHGVFPYLYIPFHHEPITETMLQQLAASIDKALNIALGYKDSVQHVFHI 154
E K + + F H + + I + + Y+ +
Sbjct: 68 --AEKVKKKFLGRPI-EVWKLYFTH----PQDVPAIRDKIKEHPAVVDIYEYDIPFAKRY 120
Query: 155 SICKKFPMYGYHADERTF 172
I K + +
Sbjct: 121 LIDKGLIPMEGDEELKML 138
>d1s5ja1 c.55.3.5 (A:40-449) Exonuclease domain of family B DNA
polymerases {Sulfolobus solfataricus [TaxId: 2287]}
Length = 410
Score = 62.1 bits (150), Expect = 3e-11
Identities = 26/178 (14%), Positives = 53/178 (29%), Gaps = 29/178 (16%)
Query: 88 PVIRVFGNNVEGKKTCVFVHGVFPYLYIPFHHEPITETMLQQLAASIDKALNIALGYKDS 147
V ++F + G PY + + + ++ +
Sbjct: 26 AVCKLFDKETQKIYALYDNTGHKPYFLVD-----LEPDKVGKIPKIVRD----------- 69
Query: 148 VQHVFHISICKKFPMYGYHADERTFLKILLYEPYHMSKLEDLLLNGAVFNERFQPYESHI 207
HI K Y + ++ KI++ +P + +L + + + YE+HI
Sbjct: 70 -PSFDHIETVSKIDPYTW--NKFKLTKIVVRDPLAVRRLRNDV---------PKAYEAHI 117
Query: 208 PYILQFCIDYNLYGMSNIEFNMVKFRSDSETSLPKLSHCQLEADVKAESIVVDMAAND 265
Y + D L K S SL + +++ + A D
Sbjct: 118 KYFNNYMYDIGLIPGMPYVVKNGKLES-VYLSLDEKDVEEIKKAFADSDEMTRQMAVD 174
Score = 32.4 bits (73), Expect = 0.075
Identities = 7/73 (9%), Positives = 17/73 (23%), Gaps = 12/73 (16%)
Query: 36 PVIRVFGNNIEGKKTCVFVHGVFPYLYIP------------FHHEPITETIVHSELRNLV 83
V ++F + G PY + S++
Sbjct: 26 AVCKLFDKETQKIYALYDNTGHKPYFLVDLEPDKVGKIPKIVRDPSFDHIETVSKIDPYT 85
Query: 84 IQKVPVIRVFGNN 96
K + ++ +
Sbjct: 86 WNKFKLTKIVVRD 98
>d1q8ia1 c.55.3.5 (A:2-389) Exonuclease domain of family B DNA
polymerases {Escherichia coli [TaxId: 562]}
Length = 388
Score = 36.5 bits (84), Expect = 0.005
Identities = 16/146 (10%), Positives = 36/146 (24%), Gaps = 30/146 (20%)
Query: 88 PVIRVFGNNVEGKKTCVFVHGVFPYLYIPFHHEPITETMLQQLAASIDKALNIALGYKDS 147
+ + G V + +IP P + +LQ L
Sbjct: 18 TEVSFWLATDNGP-LQVTLAPQESVAFIPADQVPRAQHILQGEQGFRLTPL--------- 67
Query: 148 VQHVFHISICKKFPMYGYHADERTFLKILLYEPYHMSKLEDLLLNGAVFNERFQPYESHI 207
+ +H + + + E L G YE+ +
Sbjct: 68 -------------ALKDFH--RQPVYGLYCRAHRQLMNYEKRLREGG-----VTVYEADV 107
Query: 208 PYILQFCIDYNLYGMSNIEFNMVKFR 233
++ ++ + +E +M
Sbjct: 108 RPPERYLMERFITSPVWVEGDMHNGT 133
>d1wpia1 c.47.1.18 (A:1-133) Hypothetical protein YKR049C {Baker's
yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 133
Score = 28.0 bits (62), Expect = 0.93
Identities = 12/43 (27%), Positives = 18/43 (41%)
Query: 119 HEPITETMLQQLAASIDKALNIALGYKDSVQHVFHISICKKFP 161
+P T ++ AS K+ K V H F + I +FP
Sbjct: 9 RQPRTISLFTNDIASNIKSQKCLQLLKGDVSHRFDVEIANRFP 51
>d1m5za_ b.36.1.1 (A:) Glutamate receptor interacting protein {Rat
(Rattus norvegicus) [TaxId: 10116]}
Length = 91
Score = 26.1 bits (57), Expect = 3.1
Identities = 9/40 (22%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 22 PVHSELRNLVIQKVPVIRVFGNNIEGKK--TCVFVHGVFP 59
P EL + + K + FG ++ V+V + P
Sbjct: 2 PTPVELHKVTLYKDSGMEDFGFSVADGLLEKGVYVKNIRP 41
>d1ppjc2 f.21.1.2 (C:15-260) Mitochondrial cytochrome b subunit,
N-terminal domain {Cow (Bos taurus) [TaxId: 9913]}
Length = 246
Score = 27.0 bits (60), Expect = 3.7
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 318 YLKLKDLVSACSIFRMRAILLGQEPHLLMDPDVYSM 353
Y +KD++ A + +L+ P LL DPD Y+
Sbjct: 209 YYTIKDILGALLLILALMLLVLFAPDLLGDPDNYTP 244
>d3cx5c2 f.21.1.2 (C:1-261) Mitochondrial cytochrome b subunit,
N-terminal domain {Baker's yeast (Saccharomyces
cerevisiae) [TaxId: 4932]}
Length = 261
Score = 26.7 bits (59), Expect = 5.3
Identities = 11/36 (30%), Positives = 16/36 (44%)
Query: 318 YLKLKDLVSACSIFRMRAILLGQEPHLLMDPDVYSM 353
Y KDLV+ + A+ + P+ L PD Y
Sbjct: 224 YFIFKDLVTVFLFMLILALFVFYSPNTLGHPDNYIP 259
>d1a3xa3 c.49.1.1 (A:367-500) Pyruvate kinase, C-terminal domain
{Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 134
Score = 25.7 bits (56), Expect = 6.9
Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 1/55 (1%)
Query: 85 QKVPVIRVFGNNVEGKKTCVFVHGVFPYLYIPFHHEPITETMLQQLAASIDKALN 139
P+I V + GVFP+++ T+ + ++ I+KA
Sbjct: 50 PNCPIILV-TRCPRAARFSHLYRGVFPFVFEKEPVSDWTDDVEARINFGIEKAKE 103
>d2nn6f2 d.101.1.1 (F:176-270) Exosome complex exonuclease MTR3
{Human (Homo sapiens) [TaxId: 9606]}
Length = 95
Score = 25.0 bits (54), Expect = 7.9
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 321 LKDLVSACSIFRMRAILLGQEPHLLMDPD 349
+ DLV C + ++ G P L+DP
Sbjct: 1 MYDLVVGCGL----SLAPGPAPTWLLDPT 25
>d1k1xa1 a.8.3.2 (A:311-384) 4-alpha-glucanotransferase, domain 2
{Archaeon Thermococcus litoralis [TaxId: 2265]}
Length = 74
Score = 24.3 bits (53), Expect = 8.6
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 51 CVFVHGVFPYLYIPFHHEPITETIVHSE 78
+ HGVF +Y+P + E I+ ++
Sbjct: 44 DAYWHGVFGGIYLPHLRRTVWENIIKAQ 71
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
0.325 0.140 0.418
Gapped
Lambda K H
0.267 0.0659 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,455,058
Number of extensions: 68395
Number of successful extensions: 222
Number of sequences better than 10.0: 1
Number of HSP's gapped: 216
Number of HSP's successfully gapped: 15
Length of query: 387
Length of database: 2,407,596
Length adjustment: 87
Effective length of query: 300
Effective length of database: 1,213,086
Effective search space: 363925800
Effective search space used: 363925800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.7 bits)