RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780817|ref|YP_003065230.1| preprotein translocase subunit
SecB [Candidatus Liberibacter asiaticus str. psy62]
(152 letters)
>gnl|CDD|180234 PRK05751, PRK05751, preprotein translocase subunit SecB; Validated.
Length = 156
Score = 173 bits (440), Expect = 2e-44
Identities = 52/138 (37%), Positives = 84/138 (60%), Gaps = 2/138 (1%)
Query: 5 QKQAFTILNQYIKDFSFESPNAPHCFFDIQNQQPTIKINVQVNANTISGADFDVILSFDI 64
+ F I Y KD SFE+PNAP F + QP + +N+ NAN ++ ++V+L+ +
Sbjct: 9 AQPQFQIQRIYTKDLSFENPNAPAIF--QEEWQPEVNLNLDTNANKLAEDVYEVVLTVTV 66
Query: 65 EAKNNDKVIFRLELAYSGILRILDCPQEHISQILFVECPQLLFPFVRQIISNTIRDGGFP 124
AK +K F E+ +GI I + P+E ++ +L +ECP +LFP+ R+II++ +R GGFP
Sbjct: 67 TAKLGEKTAFLCEVQQAGIFTIRNIPEEQLAPLLGIECPNILFPYAREIIADLVRRGGFP 126
Query: 125 PLVIDTIDFLKLFQQEKS 142
PL + I+F L++Q
Sbjct: 127 PLNLAPINFDALYEQRLQ 144
>gnl|CDD|129891 TIGR00809, secB, protein-export chaperone SecB. The archaeal
Methanococcus jannaschii homolog MJ0357 has been shown
(PubMed:14985117) to share many properties, including
chaperone-like activity, and scores between trusted and
noise.
Length = 140
Score = 116 bits (291), Expect = 4e-27
Identities = 44/133 (33%), Positives = 79/133 (59%), Gaps = 2/133 (1%)
Query: 9 FTILNQYIKDFSFESPNAPHCFFDIQNQQPTIKINVQVNANTISGADFDVILSFDIEAKN 68
F I Y+KD SFE+PNAPH F + +P + +++ N+ +S ++V+L+ + A+
Sbjct: 7 FQIQRIYVKDLSFEAPNAPHIF--QLDWRPEVDLDLDTNSTQLSDDFYEVVLNITVTARL 64
Query: 69 NDKVIFRLELAYSGILRILDCPQEHISQILFVECPQLLFPFVRQIISNTIRDGGFPPLVI 128
+ F E+ +G+ I+ E ++ L V CP +LFP+ R+IIS+ ++ G FPPL +
Sbjct: 65 EEYTAFLCEVKQAGVFNIIGIESEQMAHCLGVHCPNMLFPYAREIISSCVQRGTFPPLNL 124
Query: 129 DTIDFLKLFQQEK 141
++F L+ Q++
Sbjct: 125 APVNFDALYMQQQ 137
>gnl|CDD|106068 PRK13031, PRK13031, preprotein translocase subunit SecB;
Provisional.
Length = 149
Score = 64.4 bits (156), Expect = 1e-11
Identities = 35/139 (25%), Positives = 72/139 (51%), Gaps = 3/139 (2%)
Query: 1 MEKKQKQAFTILNQYIKDFSFESPNAPHCFFDIQNQQPTIKINVQVNA-NTISGADFDVI 59
M+++ + F I Y+KD SF PN+ + N +P + +++V A ++ +
Sbjct: 1 MDQQAQPQFQIQKVYVKDLSFSIPNSDKIW--TTNWKPELHTDLKVEATKLPEENTYETV 58
Query: 60 LSFDIEAKNNDKVIFRLELAYSGILRILDCPQEHISQILFVECPQLLFPFVRQIISNTIR 119
L+ +++ +N+ V F E+ +GI + + + I CP +L+ + R+ IS+ +
Sbjct: 59 LTLEVKVENDGMVAFEAEVKQAGIFTVANMQEAQIEHAKKAFCPNILYHYAREAISDLVI 118
Query: 120 DGGFPPLVIDTIDFLKLFQ 138
GGFP L + ++F ++Q
Sbjct: 119 SGGFPQLCLSAVNFDAMYQ 137
>gnl|CDD|184804 PRK14720, PRK14720, transcript cleavage factor/unknown domain
fusion protein; Provisional.
Length = 906
Score = 26.7 bits (59), Expect = 2.5
Identities = 13/74 (17%), Positives = 31/74 (41%), Gaps = 4/74 (5%)
Query: 31 FDIQNQQPTIKINVQVNANTISGADFDVILSFDIEAKNNDKVIFRLELAYSGILRILDCP 90
+++ +P ++V DF D + ++ DK+ E+ + R L+
Sbjct: 705 PYVKDLEPKDLYELKVEIKP----DFAWFEFEDEKEQDGDKLTRVPEIGFLVTRRALNKK 760
Query: 91 QEHISQILFVECPQ 104
++ + + VE P+
Sbjct: 761 KKELEHLKDVEMPE 774
>gnl|CDD|182501 PRK10503, PRK10503, multidrug efflux system subunit MdtB;
Provisional.
Length = 1040
Score = 25.8 bits (57), Expect = 4.8
Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 2/23 (8%)
Query: 35 NQQPTIKINVQVN--ANTISGAD 55
N+Q I +NVQ AN I+ AD
Sbjct: 285 NKQQAIVMNVQRQPGANIIATAD 307
>gnl|CDD|179074 PRK00591, prfA, peptide chain release factor 1; Validated.
Length = 359
Score = 25.4 bits (57), Expect = 6.3
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 138 QQEKSLIKNKEGLMK 152
Q E+S KNK MK
Sbjct: 259 QDERSQHKNKAKAMK 273
>gnl|CDD|163567 TIGR03855, NAD_NadX, aspartate dehydrogenase. Members of this
protein family are L-aspartate dehydrogenase, as shown
for the NADP-dependent enzyme TM_1643 of Thermotoga
maritima. Members lack homology to NadB, the aspartate
oxidase (EC 1.4.3.16) of most mesophilic bacteria
(described by TIGR00551), which this enzyme replaces in
the generation of oxaloacetate from aspartate for the
NAD biosynthetic pathway. All members of the seed
alignment are found adjacent to other genes of NAD
biosynthesis, although other uses of L-aspartate
dehydrogenase may occur.
Length = 229
Score = 25.4 bits (56), Expect = 6.8
Identities = 12/33 (36%), Positives = 15/33 (45%)
Query: 42 INVQVNANTISGADFDVILSFDIEAKNNDKVIF 74
INV + +G D V + D EA N IF
Sbjct: 153 INVAATLSLAAGFDAKVEIVADPEADRNIHEIF 185
>gnl|CDD|148448 pfam06841, Phage_T4_gp19, T4-like virus tail tube protein gp19.
This family consists of several tail tube protein gp19
sequences from the T4-like viruses. This famiyl also
contains bacterial members which suggest lateral
transfer of genes.
Length = 133
Score = 24.9 bits (55), Expect = 8.3
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 8/32 (25%)
Query: 52 SGADFDVILSFDIEAKNNDKVIFRLELAYSGI 83
SG D D A +N+ I LELAY G+
Sbjct: 109 SGPDLD--------ADSNEVAIETLELAYEGL 132
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.325 0.142 0.411
Gapped
Lambda K H
0.267 0.0681 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,447,511
Number of extensions: 148713
Number of successful extensions: 344
Number of sequences better than 10.0: 1
Number of HSP's gapped: 341
Number of HSP's successfully gapped: 21
Length of query: 152
Length of database: 5,994,473
Length adjustment: 85
Effective length of query: 67
Effective length of database: 4,157,793
Effective search space: 278572131
Effective search space used: 278572131
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: 53 (24.3 bits)