RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780454|ref|YP_003064867.1| DNA polymerase III subunit
beta [Candidatus Liberibacter asiaticus str. psy62]
(385 letters)
>d1ok7a3 d.131.1.1 (A:245-366) DNA polymerase III, beta subunit
{Escherichia coli [TaxId: 562]}
Length = 122
Score = 95.8 bits (238), Expect = 6e-21
Identities = 43/136 (31%), Positives = 74/136 (54%), Gaps = 14/136 (10%)
Query: 250 QNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIE 309
+ V+P + DK L C L+QA R +I+S+ + + V+L +S ++L +T +NP+ +A E
Sbjct: 1 RRVLPKNPDKHLEAGCDLLKQAFARAAILSNEKFRGVRLYVSENQLKITANNPEQEEAEE 60
Query: 310 SMNVYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNN 369
++V Y+ M+I FN Y+L++++ + + V L S SSV I
Sbjct: 61 ILDVTYSGAEMEIGFNVSYVLDVLNALKC-----ENVRMMLTDSVSSVQIEDAASQ---- 111
Query: 370 KDNKVNAFYVLMPMRI 385
+A YV+MPMR+
Sbjct: 112 -----SAAYVVMPMRL 122
>d1ok7a1 d.131.1.1 (A:1-122) DNA polymerase III, beta subunit
{Escherichia coli [TaxId: 562]}
Length = 122
Score = 93.8 bits (233), Expect = 2e-20
Identities = 38/124 (30%), Positives = 63/124 (50%), Gaps = 4/124 (3%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIP-A 59
MK TVER +L+ L + + T+P+ ++LLQ DG L + + E+E+ +
Sbjct: 1 MKFTVEREHLLKPLQQVSGPLGGRPTLPILGNLLLQVADGTLSLTGTDLEMEMVARVALV 60
Query: 60 SVDVCGSITVSAHLLYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFP 119
G+ TV A +DI R L +GA+I+ E E + + G S F L + P ++FP
Sbjct: 61 QPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGE---RMLVRSGRSRFSLSTLPAADFP 117
Query: 120 STKE 123
+ +
Sbjct: 118 NLDD 121
>d1vpka3 d.131.1.1 (A:244-366) DNA polymerase III, beta subunit
{Thermotoga maritima [TaxId: 2336]}
Length = 123
Score = 92.0 bits (228), Expect = 7e-20
Identities = 29/136 (21%), Positives = 65/136 (47%), Gaps = 14/136 (10%)
Query: 250 QNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIE 309
+ VIP + ++ V+ LR+++ RV +++S ++VK + + + + +PD G+ ++
Sbjct: 1 KRVIPETFKTKVVVSRKELRESLKRVMVIASKGSESVKFEIEENVMRLVSKSPDYGEVVD 60
Query: 310 SMNVYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNN 369
+ V + I FN K++ +++ +I + +E+ S S I D
Sbjct: 61 EVEVQKEGEDLVIAFNPKFIEDVLKHIET-----EEIEMNFVDSTSPCQINPLDIS---- 111
Query: 370 KDNKVNAFYVLMPMRI 385
Y++MP+R+
Sbjct: 112 -----GYLYIVMPIRL 122
>d1ok7a2 d.131.1.1 (A:123-244) DNA polymerase III, beta subunit
{Escherichia coli [TaxId: 562]}
Length = 122
Score = 89.4 bits (221), Expect = 5e-19
Identities = 47/121 (38%), Positives = 74/121 (61%), Gaps = 3/121 (2%)
Query: 129 SFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDI 188
F L + +K L+E T F+MA +++RYYLNG+ F E+L+ ATDGHRLAV + I
Sbjct: 5 EFTLPQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTV--ATDGHRLAVCSMPI 62
Query: 189 VAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSVRLIDGEFPN 248
+ S+IVPRK V E++R+L D+ ++V + + I ++ + +L+DG FP+
Sbjct: 63 GQSLPSH-SVIVPRKGVIELMRMLDGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGRFPD 121
Query: 249 Y 249
Y
Sbjct: 122 Y 122
>d1vpka2 d.131.1.1 (A:121-243) DNA polymerase III, beta subunit
{Thermotoga maritima [TaxId: 2336]}
Length = 123
Score = 88.3 bits (218), Expect = 9e-19
Identities = 39/126 (30%), Positives = 72/126 (57%), Gaps = 5/126 (3%)
Query: 125 EYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVA 184
E +FE+ +S+L+ +VE+ FA A +E LNG+F+ +++ L VA+DG RLA+A
Sbjct: 2 ESGITFEVDTSLLEEMVEKVIFAAAKDEFMRNLNGVFWELHKNL--LRLVASDGFRLALA 59
Query: 185 EVDIVAQIAKMPSIIVPRKAVGEILRILSSKDS-SVKVSLSESRIHLNIESLSMSVRLID 243
E I + + S ++ K++ E+ +L + ++ V R+ L+ + +R++D
Sbjct: 60 EEQI--ENEEEASFLLSLKSMKEVQNVLDNTTEPTITVRYDGRRVSLSTNDVETVMRVVD 117
Query: 244 GEFPNY 249
EFP+Y
Sbjct: 118 AEFPDY 123
>d1vpka1 d.131.1.1 (A:1-120) DNA polymerase III, beta subunit
{Thermotoga maritima [TaxId: 2336]}
Length = 120
Score = 78.5 bits (193), Expect = 8e-16
Identities = 27/121 (22%), Positives = 49/121 (40%), Gaps = 5/121 (4%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIE-ITGAIPA 59
MK+TV ++ + + A + + +K+ P+ L + DG I A+ E A
Sbjct: 1 MKVTVTTLELKDKITIASKALAKKSVKPILAGFLFEVKDGNFYICATDLETGVKATVNAA 60
Query: 60 SVDVCGSITVSAHLLYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFP 119
+ V ++ +V+ L D E + + IS G + F + + P EFP
Sbjct: 61 EISGEARFVVPGDVIQKMVKVLPDE-ITELSLEGD---ALVISSGSTVFRITTMPADEFP 116
Query: 120 S 120
Sbjct: 117 E 117
>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human
(Homo sapiens) [TaxId: 9606]}
Length = 90
Score = 25.5 bits (55), Expect = 6.8
Identities = 8/23 (34%), Positives = 16/23 (69%)
Query: 148 MATEEIRYYLNGIFFHINEEDLK 170
MA++E + ++ G+ F NE+ L+
Sbjct: 1 MASDEGKLFVGGLSFDTNEQSLE 23
>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos
taurus), mitochondrial izozyme-3 [TaxId: 9913]}
Length = 189
Score = 25.6 bits (55), Expect = 8.3
Identities = 8/98 (8%), Positives = 28/98 (28%), Gaps = 1/98 (1%)
Query: 248 NYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKA 307
+ + + R ++ + +I V ++
Sbjct: 72 RLVLHELKNLTQYNWLLDGFPRTLPQAEALDRAYQIDTVINLNVPFEVIKQRLTDRPETV 131
Query: 308 IESMNVYYNEC-PMDICFNYKYLLEIIDNISSDEVVDD 344
++ + Y + P+ + K +LE ++++
Sbjct: 132 VKRLKAYEAQTEPVLEYYRKKGVLETFSGTETNKIWPH 169
>d1mvla_ c.34.1.1 (A:) 4'-phosphopantothenoylcysteine
decarboxylase (PPC decarboxylase, halotolerance protein
Hal3a) {Mouse-ear cress (Arabidopsis thaliana) [TaxId:
3702]}
Length = 182
Score = 25.4 bits (55), Expect = 8.6
Identities = 4/25 (16%), Positives = 11/25 (44%), Gaps = 2/25 (8%)
Query: 63 VCGSITVSAHLLYDIVRKLQDGAQI 87
GS+ +A ++ + A++
Sbjct: 8 ASGSV--AAIKFGNLCHCFTEWAEV 30
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 0.134 0.374
Gapped
Lambda K H
0.267 0.0594 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,383,023
Number of extensions: 63776
Number of successful extensions: 166
Number of sequences better than 10.0: 1
Number of HSP's gapped: 156
Number of HSP's successfully gapped: 17
Length of query: 385
Length of database: 2,407,596
Length adjustment: 87
Effective length of query: 298
Effective length of database: 1,213,086
Effective search space: 361499628
Effective search space used: 361499628
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: 54 (24.9 bits)