RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780998|ref|YP_003065411.1| hypothetical protein
CLIBASIA_04495 [Candidatus Liberibacter asiaticus str. psy62]
(146 letters)
>1ni7_A ER75, hypothetical protein YGDK; RD-structural genomics, PSI,
protein structure initiative, northeast structural
genomics consortium, NESG; NMR {Escherichia coli} SCOP:
d.224.1.1
Length = 155
Score = 138 bits (348), Expect = 6e-34
Identities = 37/138 (26%), Positives = 61/138 (44%), Gaps = 4/138 (2%)
Query: 2 IPINDIIEDMEMIEDLHDRYHYLIELGKKLPLFPKEYMTDQNIVAGCMSKLWMVIEWENK 61
+ + + D+Y LI LGK+LP P E +AGC +++W+
Sbjct: 15 VTAETLRNTFAPLTQWEDKYRQLIMLGKQLPALPDELKAQAKEIAGCENRVWLGYTV--- 71
Query: 62 GDQDPIMIFYAVSDSQIVCGLLYIVKSIYAHKKISEILKMDSLTILQHLGLTENLSQKRM 121
++ M F+ S+ +IV GLL ++ + K +E+ L + LGL LS R
Sbjct: 72 -AENGKMHFFGDSEGRIVRGLLAVLLTAVEGKTAAELQAQSPLALFDELGLRAQLSASRS 130
Query: 122 NGLYTIVNKIQDLTQEYL 139
GL + I T++ L
Sbjct: 131 QGLNALSEAIIAATKQVL 148
>3g0m_A Cysteine desulfuration protein SUFE; YNHA, csgid, national
institute of allergy and infectious diseases, niaid,
hydrolase; 1.76A {Salmonella typhimurium LT2} PDB:
1mzg_A
Length = 141
Score = 137 bits (346), Expect = 1e-33
Identities = 31/133 (23%), Positives = 63/133 (47%), Gaps = 4/133 (3%)
Query: 5 NDIIEDMEMIEDLHDRYHYLIELGKKLPLFPKEYMTDQNIVAGCMSKLWMVIEWENKGDQ 64
++ + + ++Y Y+IELG++L + QN + GC S++W+V+ +
Sbjct: 11 EKLLRNFTRCANWEEKYLYIIELGQRLAELNPQDRNPQNTIHGCQSQVWIVMRR----NA 66
Query: 65 DPIMIFYAVSDSQIVCGLLYIVKSIYAHKKISEILKMDSLTILQHLGLTENLSQKRMNGL 124
+ I+ SD+ IV GL+ +V +Y +I+ D + + L ++L+ R GL
Sbjct: 67 NGIIELQGDSDAAIVKGLMAVVFILYHQMTAQDIVHFDVRPWFEKMALAQHLTPSRSQGL 126
Query: 125 YTIVNKIQDLTQE 137
++ I+
Sbjct: 127 EAMIRAIRAKAAT 139
>1wlo_A SUFE protein; structural genomics, riken structural
genomics/proteomics initiative, RSGI, unknown function;
NMR {Thermus thermophilus HB8}
Length = 136
Score = 110 bits (276), Expect = 2e-25
Identities = 21/141 (14%), Positives = 52/141 (36%), Gaps = 9/141 (6%)
Query: 1 MIP--INDIIEDMEMIEDLHDRYHYLIELGKKLPLFPKEYMTDQNIVAGCMSKLWMVIEW 58
M+P + +E + + R L+E K+ + V C + ++ +
Sbjct: 1 MVPPKLKQALELFKSLPK-ELRSQVLLEYAAKVXXXXXGV--ELERVHECQTPFFVHADV 57
Query: 59 ENKGDQDPIMIFYAVSDSQIVCGLLYIVKSIYAHKKISEILKMDSLTILQHLGLTENLSQ 118
E + F+ ++ V +++ + +L++ + GL E +
Sbjct: 58 E---GGKVRLYFHVPDEAPTVKAFAGLLREGLEGESPEAVLEVP-PGFYRGYGLEEFFTP 113
Query: 119 KRMNGLYTIVNKIQDLTQEYL 139
R+ GL + ++Q ++ L
Sbjct: 114 LRLRGLEAALLRLQAQVRKAL 134
>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 = 43.4 bits (102), Expect = 2e-05
Identities = 29/145 (20%), Positives = 47/145 (32%), Gaps = 58/145 (40%)
Query: 22 HYLIELGKKLPLFPKEYMTD---------QNIV-AGCMSKLWMVIEWENKGDQDPIMIFY 71
HY++ K L P E + Q +V A ++ WE+ F+
Sbjct: 248 HYVV-TAKLLGFTPGE-LRSYLKGATGHSQGLVTAVAIA---ETDSWES---------FF 293
Query: 72 AVSDSQIVCGLLYI-VKS--IYAHKKISEILKMDSLTILQHLGLTEN--------LSQKR 120
I L +I V+ Y + + + DSL EN LS
Sbjct: 294 VSVRKAITV-LFFIGVRCYEAYPNTSLPPSILEDSL---------ENNEGVPSPMLS--- 340
Query: 121 MNGLYTIVNKIQDLTQEYLNVHIKE 145
I +LTQE + ++ +
Sbjct: 341 ----------ISNLTQEQVQDYVNK 355
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA
degradation, kinase, transferase; 2.60A {Escherichia
coli} PDB: 1sro_A
Length = 723
Score = 26.7 bits (59), Expect = 2.2
Identities = 6/19 (31%), Positives = 13/19 (68%)
Query: 32 PLFPKEYMTDQNIVAGCMS 50
PLFP+ ++ + ++A +S
Sbjct: 107 PLFPEGFVNEVQVIATVVS 125
>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 = 26.1 bits (56), Expect = 3.1
Identities = 9/22 (40%), Positives = 11/22 (50%), Gaps = 6/22 (27%)
Query: 91 AHKKISEILKM---DS---LTI 106
A KK+ LK+ DS L I
Sbjct: 21 ALKKLQASLKLYADDSAPALAI 42
>3b8l_A Uncharacterized protein; YP_001165924.1, NTF2-like protein of
unknown function, structural genomics; HET: MSE; 1.75A
{Novosphingobium aromaticivorans DSM12444} SCOP:
d.17.4.28
Length = 163
Score = 25.9 bits (56), Expect = 3.8
Identities = 8/34 (23%), Positives = 14/34 (41%)
Query: 8 IEDMEMIEDLHDRYHYLIELGKKLPLFPKEYMTD 41
IED I+DL Y + ++ + + D
Sbjct: 24 IEDRLAIQDLMIAYAHAVDTVSDIDAVLDVFTED 57
>1a3a_A Mannitol-specific EII; phosphoenolpyruvate dependent
phosphotransferase system, IIA enzymes, histidine
phosphorylation, phosphotransferase; 1.80A {Escherichia
coli} SCOP: d.112.1.1 PDB: 1j6t_A 2few_A*
Length = 148
Score = 25.7 bits (56), Expect = 4.1
Identities = 10/99 (10%), Positives = 30/99 (30%), Gaps = 4/99 (4%)
Query: 6 DIIEDMEMIEDLHDRYHYLIELGKKLPLFPKEYMTDQNIVAGCMSKLWMVIEWENKGDQD 65
+ ++ M E L Y + +P E + + + + D
Sbjct: 41 EYVQAMLDREKLTPTY---LGESIAVPHGTVEAKDRVLKTGVVFCQYPEGVRFGEEEDDI 97
Query: 66 PIMIFY-AVSDSQIVCGLLYIVKSIYAHKKISEILKMDS 103
++ A +++ + + + ++ I + S
Sbjct: 98 ARLVIGIAARNNEHIQVITSLTNALDDESVIERLAHTTS 136
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide
transferase, ATP-GTP diphosphotransferase RNA
processing, RNA degradation; 2.5A {Streptomyces
antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4
d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Length = 757
Score = 25.5 bits (56), Expect = 4.7
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 32 PLFPKEYMTDQNIVAGCMS 50
P F K + +VA M+
Sbjct: 125 PSFKKGLRNEIQVVATIMA 143
>3gme_A Polyribonucleotide nucleotidyltransferase; protein-RNA complex,
cytoplasm, nucleotidyltransferase, RNA- binding,
transferase, hydrolase; 2.40A {Escherichia coli E24377A}
PDB: 3gll_A 3gcm_A 3h1c_A 3cdj_A
Length = 549
Score = 25.6 bits (56), Expect = 4.9
Identities = 6/19 (31%), Positives = 13/19 (68%)
Query: 32 PLFPKEYMTDQNIVAGCMS 50
PLFP+ ++ + ++A +S
Sbjct: 101 PLFPEGFVNEVQVIATVVS 119
>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 = 24.9 bits (54), Expect = 7.1
Identities = 12/63 (19%), Positives = 20/63 (31%), Gaps = 24/63 (38%)
Query: 26 ELGKKLPLFPKEYMTDQNIVAGCM---SKLWMVIEWENKGDQDPIMIFYAVSDSQIVC-- 80
+ K+ + NIV C ++E ++GD +VC
Sbjct: 6 SIDKR----AGRRGPNLNIVLTCPECKVYPPKIVERFSEGD--------------VVCAL 47
Query: 81 -GL 82
GL
Sbjct: 48 CGL 50
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
0.322 0.139 0.409
Gapped
Lambda K H
0.267 0.0624 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,261,696
Number of extensions: 53302
Number of successful extensions: 189
Number of sequences better than 10.0: 1
Number of HSP's gapped: 184
Number of HSP's successfully gapped: 22
Length of query: 146
Length of database: 5,693,230
Length adjustment: 84
Effective length of query: 62
Effective length of database: 3,656,734
Effective search space: 226717508
Effective search space used: 226717508
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 (21.9 bits)
S2: 52 (24.0 bits)