RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780955|ref|YP_003065368.1| hypothetical protein
CLIBASIA_04270 [Candidatus Liberibacter asiaticus str. psy62]
(204 letters)
>2nys_A AGR_C_3712P; SSPB, stringent starvation protein B, NESG, ATR88,
structural genomics, PSI-2, protein structure
initiative; 2.70A {Agrobacterium tumefaciens str} SCOP:
b.136.1.2
Length = 176
Score = 185 bits (471), Expect = 6e-48
Identities = 96/180 (53%), Positives = 123/180 (68%), Gaps = 13/180 (7%)
Query: 25 MNYDHIRYDILAKEALRGLVKVVLSEVASIGSLPGEHHFYITFATNARGVRISQNLRKNY 84
M DHIRYDILA++ALRG+++ VL EVA+ G LPG+HHF+ITF T A GVRISQ+L+ Y
Sbjct: 1 MGQDHIRYDILAQDALRGVIRKVLGEVAATGRLPGDHHFFITFLTGAPGVRISQHLKSKY 60
Query: 85 PEKMTIVIQNQFWDLKVLDNHFEVGLSFSNVPERLVIPFNAIKGFYDPSVNFELEFDVHI 144
E+MTIVIQ+QFWD+KV + FE+GLSFS+ PE+LVIP+NAI+GFYDPSVNFELEFDV +
Sbjct: 61 AEQMTIVIQHQFWDMKVTETGFEIGLSFSDTPEKLVIPYNAIRGFYDPSVNFELEFDVPL 120
Query: 145 EHIEEKLEGGNTGKVLTSPDNFDKNQTNSVSQDSSKKKSTKKQNKNKMASVISLDNFRKK 204
EE + + + ++ K + K SV+SLD FRKK
Sbjct: 121 AKEEE-------------MEEAEITAYPVSHEAKPASETPKSGEEKKEGSVVSLDAFRKK 167
>2qas_A SSPB, hypothetical protein; SSPB, adaptor, CLPX, unknown function,
hydrolase activator; 2.55A {Caulobacter vibrioides} PDB:
2qaz_A
Length = 157
Score = 177 bits (450), Expect = 2e-45
Identities = 57/163 (34%), Positives = 87/163 (53%), Gaps = 19/163 (11%)
Query: 28 DHIRYDILAKEALRGLVKVVLSEVASIGSLPGEHHFYITFATNARGVRISQNLRKNYPEK 87
D ++Y+ +A++ALRG+VK L + A+ G LP HH YITF T A GV Q+L YP++
Sbjct: 12 DLMQYEAMAQDALRGVVKAALKKAAAPGGLPEPHHLYITFKTKAAGVSGPQDLLSKYPDE 71
Query: 88 MTIVIQNQFWDLKVLDNHFEVGLSFSNVPERLVIPFNAIKGFYDPSVNFELEFDVHIEHI 147
MTIV+Q+Q+WDL + F V L F P+RL +P+ A+ FYDPSV F L+F
Sbjct: 72 MTIVLQHQYWDLAPGETFFSVTLKFGGQPKRLSVPYAALTRFYDPSVQFALQFSA----- 126
Query: 148 EEKLEGGNTGKVLTSPDNFDKNQTNSVSQDSSKKKSTKKQNKN 190
D+ + + +D + + ++ +
Sbjct: 127 --------------PEIIEDEPEPDPEPEDKANQGASGDEGPK 155
>1ou9_A Stringent starvation protein B homolog; SSRA peptide-binding
protein, homodimer, transport protein; 1.80A
{Haemophilus influenzae} SCOP: b.136.1.1 PDB: 1oul_A
1zsz_C
Length = 129
Score = 74.4 bits (183), Expect = 2e-14
Identities = 17/92 (18%), Positives = 32/92 (34%), Gaps = 7/92 (7%)
Query: 64 YITFATNARGVRISQNLRKNYPEKMTIVIQ---NQFWDLKVLDNHFEVGLSFSNVPERLV 120
Y+ GV + Y + IV+ + +L++ ++ + F V L
Sbjct: 28 YLVVDATYLGVNVPVE----YVKDGQIVLNLSASATGNLQLTNDFIQFNARFKGVSRELY 83
Query: 121 IPFNAIKGFYDPSVNFELEFDVHIEHIEEKLE 152
IP A Y + F+ + E +E
Sbjct: 84 IPMGAALAIYARENGDGVMFEPEEIYDELNIE 115
>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 = 41.1 bits (96), Expect = 2e-04
Identities = 32/190 (16%), Positives = 55/190 (28%), Gaps = 82/190 (43%)
Query: 41 RGLVKVVLSE-VASI-GSLPGEHHFYITFATNAR-----G-----VRISQNLRKN----- 83
L + + + V LP I+ A+ G ++ LRK
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSG 401
Query: 84 -------YPEKMTIVIQNQFWDL----------------KVLDNHFEVGLSFSNVPERLV 120
+ E+ + N+F L + + + +SF+ + +
Sbjct: 402 LDQSRIPFSER-KLKFSNRF--LPVASPFHSHLLVPASDLINKDLVKNNVSFN--AKDIQ 456
Query: 121 IP---------------------FNAIKGFYDPSVNFE--LEFDV-HIEHIEEKLE---G 153
IP + I P V +E +F HI L+ G
Sbjct: 457 IPVYDTFDGSDLRVLSGSISERIVDCI--IRLP-VKWETTTQFKATHI------LDFGPG 507
Query: 154 GNTG-KVLTS 162
G +G VLT
Sbjct: 508 GASGLGVLTH 517
Score = 29.1 bits (65), Expect = 0.75
Identities = 14/38 (36%), Positives = 16/38 (42%), Gaps = 8/38 (21%)
Query: 97 WDLKVLDNHFEVGLSFS------NVPERLVIPFNAIKG 128
W+ DNHF+ FS N P L I F KG
Sbjct: 1646 WNRA--DNHFKDTYGFSILDIVINNPVNLTIHFGGEKG 1681
>1yfn_A Stringent starvation protein B; protein-peptide complex, SSPB,
RSEA, protein binding; 1.80A {Escherichia coli} SCOP:
b.136.1.1 PDB: 1ox9_A 1ox8_A
Length = 118
Score = 29.3 bits (66), Expect = 0.59
Identities = 12/87 (13%), Positives = 30/87 (34%), Gaps = 3/87 (3%)
Query: 64 YITFATNARGVRISQNLRKNYPEKMTIVIQNQFWDLKVLDNHF-EVGLSFSNVPERLVIP 122
++ GV++ ++ ++ + I + L N F +P ++ +P
Sbjct: 29 HLVVDVTLPGVQVPMEYARD--GQIVLNIAPRAVGNLELANDEVRFNARFGGIPRQVSVP 86
Query: 123 FNAIKGFYDPSVNFELEFDVHIEHIEE 149
A+ Y F+ + E+
Sbjct: 87 LAAVLAIYARENGAGTMFEPEAAYDED 113
>1ou8_A Stringent starvation protein B homolog; peptide-binding pocket,
protein-peptide complex, homodimer, transport protein;
1.60A {Haemophilus influenzae} SCOP: b.136.1.1 PDB:
1zsz_A 1twb_A 1zsz_B
Length = 111
Score = 29.2 bits (66), Expect = 0.60
Identities = 12/69 (17%), Positives = 25/69 (36%), Gaps = 3/69 (4%)
Query: 64 YITFATNARGVRISQNLRKNYPEKMTIVIQNQF-WDLKVLDNHFEVGLSFSNVPERLVIP 122
Y+ GV + K+ ++ + + +L++ ++ + F V L IP
Sbjct: 28 YLVVDATYLGVNVPVEYVKD--GQIVLNLSASATGNLQLTNDFIQFNARFKGVSRELYIP 85
Query: 123 FNAIKGFYD 131
A Y
Sbjct: 86 MGAALAIYA 94
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse
transcriptase, transferase, replication; 3.00A {Moloney
murine leukemia virus} SCOP: e.8.1.2
Length = 455
Score = 26.4 bits (57), Expect = 4.4
Identities = 2/16 (12%), Positives = 9/16 (56%)
Query: 17 IIKWIDTLMNYDHIRY 32
+ + L++ D +++
Sbjct: 438 MTHYQALLLDTDRVQF 453
>2k8i_A SLYD, peptidyl-prolyl CIS-trans isomerase; ppiase, chaperone,
rotamase; NMR {Escherichia coli}
Length = 171
Score = 25.8 bits (56), Expect = 6.7
Identities = 16/102 (15%), Positives = 34/102 (33%), Gaps = 12/102 (11%)
Query: 65 ITFATNARGVRISQNLRKNYPEKMTIVIQNQFWDLKVLDNHFEVGLSFSNVPERLVIPFN 124
+ ++ Y + ++Q D+ + + +VG+ F ++ +P
Sbjct: 49 LEGHEVGDKFDVAVGANDAYGQYDENLVQRVPKDVFMGVDELQVGMRFLAETDQGPVPVE 108
Query: 125 AIKGFYD--------PSVNFELEFDVHIEHI----EEKLEGG 154
D L+F+V + I EE+L G
Sbjct: 109 ITAVEDDHVVVDGNHMLAGQNLKFNVEVVAIREATEEELAHG 150
>1v54_A Cytochrome C oxidase polypeptide I; oxidoreductase; HET: FME TPO
HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus}
SCOP: f.24.1.1 PDB: 1oco_A* 1occ_A* 1ocz_A* 1ocr_A*
1v55_A* 2dyr_A* 2dys_A* 2eij_A* 2eik_A* 2eil_A* 2eim_A*
2ein_A* 2occ_A* 2zxw_A*
Length = 514
Score = 25.5 bits (56), Expect = 7.7
Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 14/63 (22%)
Query: 16 FIIKWIDTLMNYDH----IRYDILAKEALRGLVKVVLS-----EVASIGSLPGEHHFYIT 66
FI +W+ + +H Y + A G+V LS E+ G+L G+ Y
Sbjct: 2 FINRWLFST---NHKDIGTLYLLFG--AWAGMVGTALSLLIRAELGQPGTLLGDDQIYNV 56
Query: 67 FAT 69
T
Sbjct: 57 VVT 59
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
0.319 0.135 0.402
Gapped
Lambda K H
0.267 0.0578 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,805,619
Number of extensions: 81355
Number of successful extensions: 202
Number of sequences better than 10.0: 1
Number of HSP's gapped: 200
Number of HSP's successfully gapped: 19
Length of query: 204
Length of database: 5,693,230
Length adjustment: 88
Effective length of query: 116
Effective length of database: 3,559,758
Effective search space: 412931928
Effective search space used: 412931928
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 (21.8 bits)
S2: 54 (24.9 bits)