RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780891|ref|YP_003065304.1| hypothetical protein
CLIBASIA_03940 [Candidatus Liberibacter asiaticus str. psy62]
(215 letters)
>3d36_A Sporulation kinase B; GHKL ATPase, four helix bundle, class I
two-component histidine kinase, phosphoprotein; HET:
ADP; 2.03A {Geobacillus stearothermophilus}
Length = 244
Score = 46.0 bits (109), Expect = 6e-06
Identities = 41/174 (23%), Positives = 70/174 (40%), Gaps = 22/174 (12%)
Query: 12 MDLVALLCSRICHDIISPIGAIHNSLELL-DEVGIEDEVMQLIR-----LSSMSAIIR-- 63
M+ V L + I H+I +P+ A ++L+ ++ D+ Q R L AII
Sbjct: 11 MEAVTHLAASISHEIRNPLTAARGFIQLIEEQPLAADKRRQYARIAIEELDRAEAIITDY 70
Query: 64 LKFMRLAFGYTGSVDSLIGLGDIEQVIEDF--IAVDKRVQVSWTGEKIDLSRERAKI--- 118
L F + A ++ + +IE+VI+ +A V + T + ER K
Sbjct: 71 LTFAKPAPETPEKLNVKL---EIERVIDILRPLANMSCVDIQATLAPFSVIGEREKFRQC 127
Query: 119 LLNLFMVAHASLPRGGKVTISVQDSKNENIFSLKING------NLARFPEKFTQ 166
LLN+ A ++P GG + + V + + G L R E +
Sbjct: 128 LLNVMKNAIEAMPNGGTLQVYVSIDNGRVLIRIADTGVGMTKEQLERLGEPYFT 181
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 39.4 bits (91), Expect = 7e-04
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 154 NGNLARFPEKFTQIVDGNVESTIDSHDIQFYYVILLAHENKIRLL-PEIIDDHN 206
NGNL P +T VD + +D D++ Y + + IRL+ PE+ + +N
Sbjct: 865 NGNLKGRP--YTGWVDSKTKEPVDDKDVKAKYETSILEHSGIRLIEPELFNGYN 916
>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 = 35.3 bits (81), Expect = 0.009
Identities = 25/149 (16%), Positives = 41/149 (27%), Gaps = 66/149 (44%)
Query: 74 TGSVDSLIGLGDIEQVIEDFIAVDKRVQVSWTGEKIDLSR----ERAKILLNLFMVAHAS 129
+G SL GL + ++ + +G +D SR ER N F
Sbjct: 380 SGPPQSLYGL---NLTL-------RKAKAP-SG--LDQSRIPFSERKLKFSNRF------ 420
Query: 130 LPRGGKVTISV---------------QDSKNENIFSLKINGNLARFPEKFTQIVDGNVES 174
LP ++ +D N+ N + P V
Sbjct: 421 LP------VASPFHSHLLVPASDLINKDLVKNNV---SFNAKDIQIP----------VYD 461
Query: 175 TIDSHDIQFYYVILLAHENKIRLLPEIID 203
T D D++ + I+D
Sbjct: 462 TFDGSDLR---------VLSGSISERIVD 481
>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase,
phosphoprotein, transferase, two-component regulatory
system; 3.80A {Thermotoga maritima}
Length = 349
Score = 35.0 bits (80), Expect = 0.013
Identities = 28/169 (16%), Positives = 64/169 (37%), Gaps = 23/169 (13%)
Query: 19 CSRICHDIISPIGAIHNSLELLDEVGIEDEV----MQLIRLSS--MSAIIR--LKFMRLA 70
+R+ H+I +PI I + + + + E + +I + I++ L++ +
Sbjct: 136 TARVAHEIRNPITIIGGFIMRMKKHLDDPETLKKYINIITNELSRLETIVKEILEYSKER 195
Query: 71 FGYTGSVDSLIGLGDIEQVIEDF--IAVDKRVQVSWTGE----KIDLSRER-AKILLNLF 123
+ +L L I +V F + + + +++ R R ++L+NL
Sbjct: 196 QVLEFTEFNLNEL--IREVYVLFEEKIRKMNIDFCFETDNEDLRVEADRTRIKQVLINLV 253
Query: 124 MVAHASLPRGGKVTISVQDSKNENIFSLKING------NLARFPEKFTQ 166
A + GK+ I+ +D + S+ +G + F
Sbjct: 254 QNAIEATGENGKIKITSEDMYTKVRVSVWNSGPPIPEELKEKIFSPFFT 302
>3jz3_A Sensor protein QSEC; helix-turn-helix, kinase domain, ATP-binding,
cell inner MEM cell membrane, kinase, membrane,
nucleotide-binding; 2.50A {Escherichia coli}
Length = 222
Score = 33.9 bits (78), Expect = 0.027
Identities = 34/174 (19%), Positives = 67/174 (38%), Gaps = 26/174 (14%)
Query: 24 HDIISPIGAIHNSLELLDEVGIEDEVMQ--LIRLSS----MSAIIR--LKFMRLAFGYTG 75
H++ SP+ A+ E+ + + + L++L S + ++ L RL
Sbjct: 11 HELRSPLTALKVQTEVAQLSDDDPQARKKALLQLHSGIDRATRLVDQLLTLSRLDSLDNL 70
Query: 76 SVDSLIGLGD-IEQVIEDF--IAVDKRVQVSWTGEKIDLSRER-----AKILLNLFMVAH 127
+ I L D ++ + D A ++ V T + R + ++ NL A
Sbjct: 71 QDVAEIPLEDLLQSSVMDIYHTAQQAKIDVRLTLNAHSIKRTGQPLLLSLLVRNLLDNAV 130
Query: 128 ASLPRGGKVTISVQDSKNENIFSLKING------NLARFPEKFTQIVDGNVEST 175
P+G V +++ N + F ++ NG LAR E+F + +
Sbjct: 131 RYSPQGSVVDVTL----NADNFIVRDNGPGVTPEALARIGERFYRPPGQTATGS 180
>2vxt_I Interleukin-18; FAB, IL-18, secreted, cytokine, autoimmunity,
glycoprotein, TH1/TH2 cells, immunoglobulin domain,
immunoglobulin V region; 1.49A {Homo sapiens} PDB:
1j0s_A 3f62_B
Length = 157
Score = 33.3 bits (76), Expect = 0.041
Identities = 22/71 (30%), Positives = 30/71 (42%), Gaps = 12/71 (16%)
Query: 129 SLPRGGKVTISVQDSKNENIFSLKINGNLARFPEKFTQIVDGNVESTIDS--HDIQFYYV 186
S PRG VTISV+ K I +L + F E N I DI F+
Sbjct: 55 SQPRGMAVTISVKAEK---ISTLSAENKIISFKE-------MNPPDNIKDTKSDIIFFQR 104
Query: 187 ILLAHENKIRL 197
+ H+NK++
Sbjct: 105 SVPGHDNKMQF 115
>1gkz_A [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase;
transferase, mitochondrial protein kinase, potassium;
HET: ADP; 2.2A {Rattus norvegicus} SCOP: a.29.5.1
d.122.1.4 PDB: 1gjv_A 1gkx_A*
Length = 388
Score = 29.8 bits (66), Expect = 0.44
Identities = 18/162 (11%), Positives = 45/162 (27%), Gaps = 26/162 (16%)
Query: 20 SRICHDIISPIGAIHNSLELL-DEVGIEDEVMQLIRLSSMSAII-------RLKFMRLAF 71
++ D + + L + E V + + S + L
Sbjct: 126 RQLLDDHKDVVTLLAEGLRESRKHIEDEKLVRYFLDKTLTSRLGIRMLATHHLALHEDKP 185
Query: 72 GYTGSVDSLIGLGD-IEQVIEDFIAVDKRVQVSWTGEKIDLS---------RERAKILLN 121
+ G + + + IE+ ++ + + + +I+ IL
Sbjct: 186 DFVGIICTRLSPKKIIEKWVDFARRLCEHKYGNAPRVRINGHVAARFPFIPMPLDYILPE 245
Query: 122 LFMVAHASLPRGG--------KVTISVQDSKNENIFSLKING 155
L A + V I++ ++ + I + G
Sbjct: 246 LLKNAMRATMESHLDTPYNVPDVVITIANNDVDLIIRISDRG 287
>1a9x_A Carbamoyl phosphate synthetase (large chain); amidotransferase,
thioester; HET: CYG ADP; 1.80A {Escherichia coli} SCOP:
a.92.1.1 c.24.1.1 c.30.1.1 c.30.1.1 d.142.1.2 d.142.1.2
PDB: 1ce8_A* 1m6v_A* 1c30_A* 1bxr_A* 1c3o_A* 1cs0_A*
1jdb_B* 1kee_A* 1t36_A*
Length = 1073
Score = 29.9 bits (67), Expect = 0.46
Identities = 22/138 (15%), Positives = 53/138 (38%), Gaps = 34/138 (24%)
Query: 42 EVGIEDEVMQLIRLSSMSAIIRLKF------------MRLAFGYTGSVDSLIGLGDIEQV 89
+ +++ + LI ++ +A R+ G + L G ++V
Sbjct: 829 QFAVKNNEVYLIEVNPRAARTVPFVSKATGVPLAKVAARVMAGKS-----LAEQGVTKEV 883
Query: 90 IEDFIAVDKRVQVSW----------------TGEKIDLSRERAKILLNLFMVAHASLPRG 133
I + +V K V + + TGE + + R A+ + +++++ +
Sbjct: 884 IPPYYSV-KEVVLPFNKFPGVDPLLGPEMRSTGEVMGVGRTFAEAFAKAQLGSNSTMKKH 942
Query: 134 GKVTISVQDSKNENIFSL 151
G+ +SV++ E + L
Sbjct: 943 GRALLSVREGDKERVVDL 960
>3fmw_A Oxygenase; mithramycin, baeyer-villiger, flavin binding protein,
oxidoreductase; HET: FAD; 2.89A {Streptomyces
argillaceus}
Length = 570
Score = 29.3 bits (64), Expect = 0.68
Identities = 11/65 (16%), Positives = 24/65 (36%), Gaps = 3/65 (4%)
Query: 34 HNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGSVDSLIGL---GDIEQVI 90
++E LD G+ D ++ +++ + L FG + GL E ++
Sbjct: 95 IRTVETLDLRGLLDRFLEGTQVAKGLPFAGIFTQGLDFGLVDTRHPYTGLVPQSRTEALL 154
Query: 91 EDFIA 95
+
Sbjct: 155 AEHAR 159
>1zvo_C Myeloma immunoglobulin D delta; immunoglobulin fold, antibody,
immune system; NMR {Homo sapiens}
Length = 512
Score = 29.0 bits (64), Expect = 0.87
Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 134 GKVTISVQDSKNENIFSLKIN 154
G+VTISV S+ N FSL +
Sbjct: 67 GRVTISVDTSR--NQFSLNLR 85
>2dkh_A 3-hydroxybenzoate hydroxylase; flavoprotein, monooxygenase,
substrate complex, oxidoreductase; HET: FAD 3HB; 1.80A
{Comamonas testosteroni} PDB: 2dki_A*
Length = 639
Score = 28.9 bits (63), Expect = 0.97
Identities = 10/64 (15%), Positives = 23/64 (35%), Gaps = 5/64 (7%)
Query: 30 IGAIHNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGSVDSLIGLGDIEQV 89
G ++E+ + D +++ I + F + G G + + D E
Sbjct: 75 DGIACRTMEMFEAFEFADSILKEA-----CWINDVTFWKPDPGQPGRIARHGRVQDTEDG 129
Query: 90 IEDF 93
+ +F
Sbjct: 130 LSEF 133
>3a0y_A Sensor protein; ATP-LID, kinase, phosphoprotein, transferase,
two-component regulatory system; 1.57A {Thermotoga
maritima} PDB: 3a0t_A* 3a0x_A 3a0w_A 3a0z_A
Length = 152
Score = 28.4 bits (63), Expect = 1.3
Identities = 14/72 (19%), Positives = 29/72 (40%), Gaps = 7/72 (9%)
Query: 86 IEQVIEDF--IAVDKRVQVSWTGE----KIDLSRER-AKILLNLFMVAHASLPRGGKVTI 138
I +V F + + + +++ R R ++L+NL A + GK+ I
Sbjct: 12 IREVYVLFEEKIRKMNIDFCFETDNEDLRVEADRTRIKQVLINLVQNAIEATGENGKIKI 71
Query: 139 SVQDSKNENIFS 150
+ +D + S
Sbjct: 72 TSEDMYTKVRVS 83
>1wth_A Protein GP5, tail-associated lysozyme; triple-stranded beta-helix,
OB fold, pseudohexamer, T4 tail lysozyme, GP5-GP27;
2.80A {Enterobacteria phage T4} PDB: 2z6b_A 1k28_A
1pdl_A
Length = 584
Score = 28.2 bits (62), Expect = 1.5
Identities = 8/53 (15%), Positives = 15/53 (28%), Gaps = 3/53 (5%)
Query: 133 GGKVTISVQDSKNENI---FSLKINGNLARFPEKFTQIVDGNVESTIDSHDIQ 182
G T +V + + + + G+ + I G DI
Sbjct: 523 EGNQTNTVNGNLSWKVAGTVDWDVGGDWTEKMASMSSISSGQYTIDGSRIDIG 575
>2fq6_A Cystathionine beta-lyase; protein-inhibitor complex, PLP cofactor
covalently bound to P3F inhibitor; HET: P3F; 1.78A
{Escherichia coli} SCOP: c.67.1.3 PDB: 2gqn_A* 1cl1_A*
1cl2_A*
Length = 415
Score = 28.0 bits (61), Expect = 1.9
Identities = 12/68 (17%), Positives = 20/68 (29%), Gaps = 27/68 (39%)
Query: 26 IISPIGAIHNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGSVDSLIGLGD 85
I++ ++ E+ LIRL IGL D
Sbjct: 367 ILANQPEHIAAIRPQGEIDFSGT---LIRLH------------------------IGLED 399
Query: 86 IEQVIEDF 93
++ +I D
Sbjct: 400 VDDLIADL 407
>2znx_A SCFV; fluorotryptohpan, 5-fluorotryptophan, 19F, single chain FV,
allergen, antimicrobial, bacteriolytic enzyme,
glycosidase, hydrolase; HET: FTR 1PG; 2.30A {Homo
sapiens} PDB: 2znw_A*
Length = 242
Score = 27.8 bits (62), Expect = 2.0
Identities = 6/21 (28%), Positives = 12/21 (57%), Gaps = 2/21 (9%)
Query: 134 GKVTISVQDSKNENIFSLKIN 154
+++I+ SK N + L +N
Sbjct: 187 SRISITRDTSK--NQYYLDLN 205
>3b7s_A Leukotriene A-4 hydrolase; transition state, analogue peptide,
hydrolysis, alternative splicing, cytoplasm, hydrolase,
leukotriene biosynthesis, metal-binding; 1.47A {Homo
sapiens} SCOP: a.118.1.7 b.98.1.1 d.92.1.13 PDB: 3b7t_A
3b7r_L* 2r59_A* 3b7u_X* 3fun_A* 1hs6_A* 3fts_A* 3ftu_A*
2vj8_A* 3ftw_A* 3ftx_A* 3fty_A* 3fu0_A* 3fu3_A* 3fu5_A*
3fu6_A* 3fud_A* 3fue_A* 3fuf_A* 3fuh_A* ...
Length = 616
Score = 27.2 bits (59), Expect = 2.7
Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 11/49 (22%)
Query: 134 GKVTISVQ-----------DSKNENIFSLKINGNLARFPEKFTQIVDGN 171
G ++VQ D+K+ I + ING ++ Q G+
Sbjct: 42 GTAALTVQSQEDNLRSLVLDTKDLTIEKVVINGQEVKYALGERQSYKGS 90
>1x9q_A SCFV, 4M5.3 anti-fluorescein single chain antibody fragment; VERY
high affinity, antibody binding, electrostatics,
directed evolution; HET: FLU; 1.50A {Homo sapiens}
Length = 268
Score = 26.7 bits (59), Expect = 3.5
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 134 GKVTISVQDSKNENIFSLKIN 154
G+ TIS DSK + L++N
Sbjct: 219 GRFTISRDDSK--SSVYLQMN 237
>3hwc_A Chlorophenol-4-monooxygenase component 2; beta barrel, helix
bundle, oxidoreductase; 2.50A {Burkholderia cepacia}
Length = 515
Score = 26.1 bits (57), Expect = 6.2
Identities = 6/58 (10%), Positives = 16/58 (27%)
Query: 19 CSRICHDIISPIGAIHNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGS 76
D+ + S D+ ++L + R++ R+ +
Sbjct: 376 VMYELLDLAGRSSLMIPSEGQWDDSQSGQWFVKLNNGPKGNPRERVQIGRVIRDLYLT 433
>2c2a_A Sensor histidine kinase; phosphotransfer, PHOQ, selenomethionyl
MAD, two-component systems, transferase; HET: ADP; 1.9A
{Thermotoga maritima} SCOP: a.30.2.1 d.122.1.3 PDB:
3dge_A*
Length = 258
Score = 26.0 bits (57), Expect = 6.6
Identities = 32/177 (18%), Positives = 61/177 (34%), Gaps = 30/177 (16%)
Query: 20 SRICHDIISPIGAIHNSLELLDEVGIED------EVMQLIRLSS--MSAIIR--LKFMRL 69
+ I H++ +P+ AI E + E E +++I S + ++ L F RL
Sbjct: 25 ANISHELRTPLTAIKAYAETIYNSLGELDLSTLKEFLEVIIDQSNHLENLLNELLDFSRL 84
Query: 70 AFGYTGSVDSLIGLGD-IEQVIEDFIAVDKRVQVSWTGE---------KIDLSRERAKIL 119
+ L D +E + V+ E ID +R R ++L
Sbjct: 85 ERKSLQINREKVDLCDLVESAVNAIKEFASSHNVNVLFESNVPCPVEAYIDPTRIR-QVL 143
Query: 120 LNLFMVAHASLPRGGKV---TISVQDSKNENIFSLKING------NLARFPEKFTQI 167
LNL + + + + + ++ NG R E+F ++
Sbjct: 144 LNLLNNGVKYSKKDAPDKYVKVILDEKDGGVLIIVEDNGIGIPDHAKDRIFEQFYRV 200
>2k9g_A SH3 domain-containing kinase-binding protein 1; CIN85, adaptor
protein, downregulation, CBL, alternative splicing,
apoptosis, cell junction; NMR {Homo sapiens}
Length = 73
Score = 26.0 bits (57), Expect = 6.7
Identities = 10/45 (22%), Positives = 23/45 (51%)
Query: 129 SLPRGGKVTISVQDSKNENIFSLKINGNLARFPEKFTQIVDGNVE 173
++ G VT+ +D + + ++NG FP+ F +++ + E
Sbjct: 27 TIKEGDIVTLINKDCIDVGWWEGELNGRRGVFPDNFVKLLPPDFE 71
>3i4u_A ATP-dependent RNA helicase DHX8; splicing, ATP-binding,
hydrolase, mRNA processing, splicing,
nucleotide-binding, nucleus, phosphoprotein, SPLI;
2.10A {Homo sapiens}
Length = 270
Score = 25.5 bits (55), Expect = 8.8
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 28 SPIGAIHNSLELLDEVGIEDEVMQLIRL 55
SP+ + ++E L +G D+ L RL
Sbjct: 15 SPMETLITAMEQLYTLGALDDEGLLTRL 42
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
0.323 0.140 0.390
Gapped
Lambda K H
0.267 0.0688 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,814,717
Number of extensions: 83078
Number of successful extensions: 304
Number of sequences better than 10.0: 1
Number of HSP's gapped: 302
Number of HSP's successfully gapped: 26
Length of query: 215
Length of database: 5,693,230
Length adjustment: 88
Effective length of query: 127
Effective length of database: 3,559,758
Effective search space: 452089266
Effective search space used: 452089266
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.0 bits)