RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780948|ref|YP_003065361.1| DNA repair protein RecO
[Candidatus Liberibacter asiaticus str. psy62]
(240 letters)
>1u5k_A Hypothetical protein; OBD-fold, Zn-binding,
recombination,replication; 2.00A {Deinococcus
radiodurans R1} SCOP: b.40.4.13 g.45.1.2 PDB: 1w3s_A
2v1c_C
Length = 244
Score = 86.0 bits (212), Expect = 7e-18
Identities = 34/221 (15%), Positives = 65/221 (29%), Gaps = 10/221 (4%)
Query: 2 YWQDDAIILGVRSYGEKNIILEVMTRQYGRHLGFVRNGQSHRMQPILQAGNLVRVNWRSR 61
I++ R +II+ ++T Q G+ R G + L + V V
Sbjct: 5 TANRSGIVIRRRVTPAGDIIVTLLTPQ-GKLKAIARGGVKGPLSSSLNLFHHVGVQVYQG 63
Query: 62 LAQNLGEFRFEVLESHCAKLLSSSLFLYGLQSIVPLFRFLPEREPCLELYDMLNIFLNCH 121
+L + VLE L + + E E + +D+ L
Sbjct: 64 PHNDLASVKQAVLEGALPTLAEPERYAFAHLMAEFADALFQEGEFSEQAFDLFAASLRGV 123
Query: 122 KIPSVIGKIFVQIELMLLKNIGFGLDLTKCVVTGVTQDLLWVSPKSGGAVCR-------- 173
+ + + LL G +C G D P G +C
Sbjct: 124 AHQPDPEWVALVMSYKLLGLAGVIPQTARCARCG-APDPEHPDPLGGQLLCSKCAALPPY 182
Query: 174 SVGLPYAEKMLVLPSFLWKEEQTIDADSLKSAFQLTDYFLN 214
+ + V + EQ + + + ++ + F+
Sbjct: 183 PPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRALEKFVT 223
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 38.0 bits (88), Expect = 0.002
Identities = 27/260 (10%), Positives = 57/260 (21%), Gaps = 119/260 (45%)
Query: 21 ILEVMTRQYGRHLGFVRNGQSH----RMQPILQAGNLVRVNW-------RSRLAQNLGEF 69
+L + ++ ++ H ++ + R + +
Sbjct: 83 VLNLCLTEFENC--YLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK 140
Query: 70 R----FEVLESHCAKLLSSSLFLYGLQSIVPLFRFLPEREPCL----ELYDMLNIFLNCH 121
F + A+L++ ++G Q + +LY ++ +
Sbjct: 141 SNSALFRAVGEGNAQLVA----IFGGQGNT---------DDYFEELRDLYQTYHVLV--- 184
Query: 122 KIPSVIGKIFVQIELMLLKNI-----------GFGLDLTKCVVTGVTQDLLWVSPKSGGA 170
++ L + GL++ + W
Sbjct: 185 -------GDLIKFSAETLSELIRTTLDAEKVFTQGLNILE-----------W-------- 218
Query: 171 VCRSVGLPYAEKMLVLPSFLWKEEQTIDADSLKSA---------FQLTDYFLNKYALQHN 221
L T D D L S QL Y
Sbjct: 219 -------------------LENPSNTPDKDYLLSIPISCPLIGVIQLAHY---------- 249
Query: 222 IIHCHLL-------RENFLG 234
++ LL R G
Sbjct: 250 VVTAKLLGFTPGELRSYLKG 269
Score = 33.4 bits (76), Expect = 0.052
Identities = 46/230 (20%), Positives = 75/230 (32%), Gaps = 86/230 (37%)
Query: 30 GRHLGFVRN------GQSHRMQPILQAGNLVRV-NWRS--RLAQNLGEFRFEV-LESHCA 79
G G +R+ G S Q ++ A + +W S + F + + + A
Sbjct: 257 GFTPGELRSYLKGATGHS---QGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEA 313
Query: 80 ---KLLSSSLFLYGLQ-SI-----VP---L-FRFLPEREPCLELYDMLNIFLNCHKIPSV 126
L S+ L+ S+ VP L L +E + + N L K
Sbjct: 314 YPNTSLPPSI----LEDSLENNEGVPSPMLSISNLT-QEQVQDYVNKTNSHLPAGK---- 364
Query: 127 IGKIFVQIELMLL---KNIGFGLDLTKCVVTGVTQDL----LW---VSPKSGGAVCRSVG 176
Q+E+ L+ KN+ VV+G Q L L SG R
Sbjct: 365 ------QVEISLVNGAKNL---------VVSGPPQSLYGLNLTLRKAKAPSGLDQSR--- 406
Query: 177 LPYAEKMLV-----LP---SF---------------LWKEEQTIDADSLK 203
+P++E+ L LP F L K + +A ++
Sbjct: 407 IPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQ 456
Score = 27.6 bits (61), Expect = 2.3
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 15/50 (30%)
Query: 197 IDADSLKSAFQLTDYFLNKYA-LQHNI-------IHCHLLRENFLGKLLE 238
+DA S + L+ + L+H + L+E F L E
Sbjct: 1 MDAYSTRP-LTLS------HGSLEHVLLVPTASFFIASQLQEQFNKILPE 43
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.8 bits (71), Expect = 0.13
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 37 RNGQSHRMQPILQAGNLVRVNWRSRLAQNLGEF 69
R Q R+Q + A ++ WR + ++L E+
Sbjct: 91 REEQRKRLQELDAASKVMEQEWREKAKKDLEEW 123
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.4 bits (67), Expect = 0.38
Identities = 9/22 (40%), Positives = 10/22 (45%), Gaps = 1/22 (4%)
Query: 75 ESHCAKLLSSSLFLYGLQSIVP 96
E K L +SL LY S P
Sbjct: 18 EKQALKKLQASLKLYADDS-AP 38
>1efd_N Ferrichrome-binding periplasmic protein; periplasmic binding
protein-siderophore complex, FHUD complex with
gallichrome; HET: GCR; 1.90A {Escherichia coli} SCOP:
c.92.2.1 PDB: 1k7s_N* 1k2v_N* 1esz_A*
Length = 266
Score = 28.3 bits (62), Expect = 1.5
Identities = 9/64 (14%), Positives = 23/64 (35%), Gaps = 5/64 (7%)
Query: 3 WQDDAIILGVRSYGEKNIILEVMTRQYGRHLGFVRNGQSHRMQPILQAGNLVRVNWRSRL 62
++D ++ + + +M + + FVR G+ R+ + G +
Sbjct: 200 YKDVDVLCF--DHDNSKDMDALMATPLWQAMPFVRAGRFQRVPAVWFYGATLSAM---HF 254
Query: 63 AQNL 66
+ L
Sbjct: 255 VRVL 258
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 28.0 bits (62), Expect = 2.3
Identities = 12/57 (21%), Positives = 17/57 (29%), Gaps = 16/57 (28%)
Query: 145 GLDL---TKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLPSFLWKEEQTID 198
G +L C V + G VC G LVL ++ +D
Sbjct: 15 GPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCG-------LVL------SDKLVD 58
>1mhy_B Methane monooxygenase hydroxylase; oxidoreductase, NADP, one-carbon
metabolism; 2.00A {Methylosinus trichosporium} SCOP:
a.25.1.2 PDB: 1mhz_B
Length = 395
Score = 27.9 bits (62), Expect = 2.4
Identities = 18/110 (16%), Positives = 30/110 (27%), Gaps = 24/110 (21%)
Query: 2 YWQDDAIILGVRSYGEKNII-----LEVMTRQYGRHLGFVRNGQSHRMQPILQAGNLVRV 56
W D I G R+ ++ E++ V G R
Sbjct: 220 IWTTDPIYSGARATVQEIWQGVQDWNEILWAG-----HAV-------YDATF--GQFARR 265
Query: 57 NWRSRLAQNLGEFRFEVLESHCAKLLSSSLFLYGLQSIVPLFRFLPEREP 106
+ RLA G+ + S + F +I LF + +
Sbjct: 266 EFFQRLATVYGDTLTPFFTAQ-----SQTYFQTTRGAIDDLFVYCLANDS 310
>1gnf_A Transcription factor GATA-1; zinc finger, transcription regulation;
NMR {Mus musculus} SCOP: g.39.1.1 PDB: 1y0j_A
Length = 46
Score = 26.2 bits (57), Expect = 7.2
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 145 GLDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGL 177
G + +CV G T LW ++G +C + GL
Sbjct: 1 GSEARECVNCGATATPLWRRDRTGHYLCNACGL 33
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.327 0.143 0.439
Gapped
Lambda K H
0.267 0.0450 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,077,389
Number of extensions: 90888
Number of successful extensions: 398
Number of sequences better than 10.0: 1
Number of HSP's gapped: 394
Number of HSP's successfully gapped: 13
Length of query: 240
Length of database: 5,693,230
Length adjustment: 90
Effective length of query: 150
Effective length of database: 3,511,270
Effective search space: 526690500
Effective search space used: 526690500
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 55 (25.7 bits)