RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780805|ref|YP_003065218.1| chromosome partitioning protein B [Candidatus Liberibacter asiaticus str. psy62] (300 letters) >1yzs_A Sulfiredoxin; PARB domain fold, oxidoreductase; NMR {Homo sapiens} (A:) Length = 121 Score = 103 bits (258), Expect = 3e-23 Identities = 16/133 (12%), Positives = 35/133 (26%), Gaps = 20/133 (15%) Query: 6 SKRRLGRGLAALIGEVNQSIDSPEKKTETIPESQDCISIHSIVPNPHNPRNYFESEGLED 65 + G A G ++ +P + + P + ++ Sbjct: 2 APEGPGPSGGAQGGSIH---SGRIAAVHNVP-------LSVL--IRPLPSV-LDPAKVQS 48 Query: 66 LCQSIKSHGIIQPLIVR-----AIDNGLYKIIAGERRFRAAKMASLSEVPVIIRNV--DN 118 L +I+ P I A + G R+ A + +P + + Sbjct: 49 LVDTIREDPDSVPPIDVLWIKGAQGGDYFYSFGGCHRYAAYQQLQRETIPAKLVQSTLSD 108 Query: 119 KSSLEIAIVENVQ 131 A ++Q Sbjct: 109 LRVYLGASTPDLQ 121 >1vz0_A PARB, chromosome partitioning protein PARB; nuclear protein, chromosome segregation, DNA-binding, helix-turn-helix; 2.3A {Thermus thermophilus} (A:1-99) Length = 99 Score = 102 bits (255), Expect = 9e-23 Identities = 43/110 (39%), Positives = 63/110 (57%), Gaps = 15/110 (13%) Query: 7 KRRLGRGLAALIGEVNQSIDSPEKKTETIPESQDCISIHSIVPNPHNPRNYFESEGLEDL 66 LGRGL AL+ + +P + SI PNP PR F E L++L Sbjct: 5 PSGLGRGLEALLPK-------TGAGVVRLP-------LASIRPNPRQPRKRFAEESLKEL 50 Query: 67 CQSIKSHGIIQPLIVRAIDNGLYKIIAGERRFRAAKMASLSEVPVIIRNV 116 SI+ G++QPL+VR +G Y+++AGERR+RAA MA L EVP +++++ Sbjct: 51 ADSIREKGLLQPLLVRPQGDG-YELVAGERRYRAALMAGLQEVPAVVKDL 99 >1r71_A Transcriptional repressor protein KORB; INCP, plasmid partitioning, protein-DNA complex, heilx-turn- helix motif, transcription factor; HET: BRU; 2.20A {Escherichia coli} (A:1-76) Length = 76 Score = 94.7 bits (236), Expect = 1e-20 Identities = 23/80 (28%), Positives = 39/80 (48%), Gaps = 4/80 (5%) Query: 97 RFRAAKMASLSEVPVIIRNVDNKSSLEIAIVENVQRKDLNPLEEALGYEQLISEYGYTQN 156 R+R +K A +P I N N+ ++EN+QR +L P E A + + G + Sbjct: 1 RYRGSKWAGKKSIPAFIDNDYNE---ADQVIENLQRNELTPREIADFIGREL-AKGKKKG 56 Query: 157 DIGSIVGKSRSHVANILRIL 176 DI +GKS + + + +L Sbjct: 57 DIAKEIGKSPAFITQHVTLL 76 >1vk1_A Conserved hypothetical protein; reductive methylation, dimethyl lysine, structural genomics, PSI, protein structure initiative; HET: MLY; 1.20A {Pyrococcus furiosus} (A:1-93,A:228-242) Length = 108 Score = 88.4 bits (219), Expect = 1e-18 Identities = 15/78 (19%), Positives = 26/78 (33%), Gaps = 2/78 (2%) Query: 42 ISIHSIVPNPHNPRNYFESEGLEDLCQSIKSHGIIQPLIVRAI--DNGLYKIIAGERRFR 99 + I + P LED +S+ GI ++ A Y I+ G R+ Sbjct: 16 VEYVFIELDKMXPHEQLVQRELEDFIESVTGSGIFWKPMLLAKIPGTDEYLIVDGHHRWA 75 Query: 100 AAKMASLSEVPVIIRNVD 117 + P +I + Sbjct: 76 GLQKLGAKRAPSVILDYF 93 >1zx4_A P1 PARB, plasmid partition PAR B protein, PARB; translation; HET: CIT; 2.98A {Enterobacteria phage P1} PDB: 2ntz_A (A:1-81) Length = 81 Score = 81.6 bits (202), Expect = 1e-16 Identities = 17/78 (21%), Positives = 32/78 (41%), Gaps = 3/78 (3%) Query: 129 NVQR-KDLNPLEEALGYEQLISEYGYTQNDIGSIVGKSRSHVANILRILKLPSSVREMIR 187 +VQ + E L + G +Q DI + G S++ V L+ P + + Sbjct: 1 DVQTALQHSIREIGLRLXRXK-NDGXSQKDIAAKEGLSQAKVTRALQAASAPEELVALFP 59 Query: 188 -KEEISLGHARTLVSTSD 204 + E++ +TL + D Sbjct: 60 VQSELTFSDYKTLCAVGD 77 >1vz0_A PARB, chromosome partitioning protein PARB; nuclear protein, chromosome segregation, DNA-binding, helix-turn-helix; 2.3A {Thermus thermophilus} (A:100-158) Length = 59 Score = 78.1 bits (193), Expect = 1e-15 Identities = 32/58 (55%), Positives = 46/58 (79%), Gaps = 1/58 (1%) Query: 119 KSSLEIAIVENVQRKDLNPLEEALGYEQLISEYGYTQNDIGSIVGKSRSHVANILRIL 176 + +LE+A+VEN+QR+DL+P+EEA GY+ L+ E G TQ ++ VGK+RS VAN LR+L Sbjct: 3 REALELALVENLQREDLSPVEEARGYQALL-EMGLTQEEVARRVGKARSTVANALRLL 59 >1xw3_A Sulfiredoxin; retroreduction, sulfinic acid, peroxiredoxin, ATP, oxidoreductase; 1.65A {Homo sapiens} (A:) Length = 110 Score = 77.6 bits (191), Expect = 2e-15 Identities = 13/112 (11%), Positives = 31/112 (27%), Gaps = 11/112 (9%) Query: 28 PEKKTETIPESQ-DCISIHSIVPNPHNPRNYFESEGLEDLCQSIKSHGIIQPLIV----- 81 P + + + + + P + ++ L +I+ P I Sbjct: 2 PHMSIHSGRIAAVHNVPLSVL--IRPLPSV-LDPAKVQSLVDTIREDPDSVPPIDVLWIK 58 Query: 82 RAIDNGLYKIIAGERRFRAAKMASLSEVPVIIRNV--DNKSSLEIAIVENVQ 131 A + G R+ A + +P + + A ++Q Sbjct: 59 GAQGGDYFYSFGGCHRYAAYQQLQRETIPAKLVQSTLSDLRVYLGASTPDLQ 110 >1vz0_A PARB, chromosome partitioning protein PARB; nuclear protein, chromosome segregation, DNA-binding, helix-turn-helix; 2.3A {Thermus thermophilus} (A:159-230) Length = 72 Score = 70.1 bits (172), Expect = 4e-13 Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 2/64 (3%) Query: 177 KLPSSVREMIRKEEISLGHARTLVSTSDP--LSLAQVIVSKKMSVRDTEELVQEQDNKKE 234 +LP E + + EI+ GHAR L+ L + I+ K +SVR E L + + Sbjct: 1 QLPPEALEALERGEITAGHARALLMLEPEDRLWGLKEILEKGLSVRQAEALRERLAMAPK 60 Query: 235 KRKK 238 + + Sbjct: 61 RSAE 64 >2p8t_A Hypothetical protein PH0730; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics; 1.80A {Pyrococcus horikoshii OT3} (A:) Length = 200 Score = 30.1 bits (67), Expect = 0.35 Identities = 14/93 (15%), Positives = 24/93 (25%), Gaps = 3/93 (3%) Query: 126 IVENVQRKDLNPLEEALGYEQLISEY---GYTQNDIGSIVGKSRSHVANILRILKLPSSV 182 +V V RK E + + + I + V +LR L + Sbjct: 1 MVGQVIRKRGAYPEYTVEDVLAVIFLLKEPLGRKQISERLELGEGSVRTLLRKLSHLDII 60 Query: 183 REMIRKEEISLGHARTLVSTSDPLSLAQVIVSK 215 R R ++L S + Sbjct: 61 RSKQRGHFLTLKGKEIRDKLLSMFSEPIGVSVD 93 >2hwj_A AGR_C_2837P, hypothetical protein ATU1540; structural genomics, PSI-2, protein structure initiative; 2.61A {Agrobacterium tumefaciens str} (A:) Length = 205 Score = 29.4 bits (66), Expect = 0.62 Identities = 13/115 (11%), Positives = 32/115 (27%), Gaps = 12/115 (10%) Query: 58 FESEGLEDLCQSIKSHGIIQPLIVRAIDNGLYKIIAGERRFRAAKMASLSEVPV-IIRNV 116 + +D + +H + +V + Y +I A + V + Sbjct: 36 WRETRKKDGDDFLGNHIVP---VVAGPKDRAY-LIDHHHLVLALSKEGVEHVLTSEVAKF 91 Query: 117 DNKSSLEIAIVENVQRKDLNPLEEA----LGYEQLISEYGYTQNDI-GSIVGKSR 166 + + ++L +A + ++D S+ G R Sbjct: 92 SHLG--KDEFWSVXDHRNLIYPFDAQGLRRQSGDIPKNIHDLEDDPFRSLAGALR 144 >3gqv_A Enoyl reductase; medium-chain reductase (MDR superfamily), rossmann fold, NADP-binding, oxidoreductase; HET: NAP; 1.74A {Aspergillus terreus} PDB: 3b6z_A* 3b70_A* (A:1-127,A:284-371) Length = 215 Score = 27.6 bits (61), Expect = 2.2 Identities = 9/52 (17%), Positives = 16/52 (30%) Query: 51 PHNPRNYFESEGLEDLCQSIKSHGIIQPLIVRAIDNGLYKIIAGERRFRAAK 102 P + E L + + G + +R + G I G R + Sbjct: 143 PGSEEERQFGEDLWRIAGQLVEDGRLVHHPLRVVQGGFDHIKQGMELVRKGE 194 >2pyq_A Uncharacterized protein; YP_512017.1, structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 1.50A {Jannaschia SP} (A:) Length = 114 Score = 27.3 bits (61), Expect = 2.5 Identities = 16/68 (23%), Positives = 27/68 (39%), Gaps = 14/68 (20%) Query: 184 EMIRKEEISLGHA-----RTLVSTSDPLSLAQV---IVSKKMSVRDTEEL------VQEQ 229 ++ K G A + V+ SD L + + KK+ + D+E L V E Sbjct: 27 ALLEKVTKGCGPAIYNRDASTVAGSDTAELETIKKNFLXKKLGLADSESLXGGIQSVIET 86 Query: 230 DNKKEKRK 237 + E+ K Sbjct: 87 YGRSERNK 94 >3fx3_A Cyclic nucleotide-binding protein; helix_TURN_helix, CAMP regulatory protein, structural genomics, PSI-2, protein structure initiative; 2.20A {Ruegeria pomeroyi} PDB: 3h3z_A* (A:152-237) Length = 86 Score = 27.3 bits (61), Expect = 2.7 Identities = 5/25 (20%), Positives = 9/25 (36%) Query: 153 YTQNDIGSIVGKSRSHVANILRILK 177 Y + I +G ++ LK Sbjct: 28 YDKXLIAGRLGXKPESLSRAFSRLK 52 >3f6w_A XRE-family like protein; helix-turn-helix, DNA binding protein, xenobiotic response element family of transcriptional regulators; HET: MSE BTB; 1.85A {Pseudomonas syringae PV} (A:) Length = 83 Score = 27.0 bits (60), Expect = 3.4 Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 2/54 (3%) Query: 129 NVQRKDLNPLEEALGYE--QLISEYGYTQNDIGSIVGKSRSHVANILRILKLPS 180 N + N +AL + S G TQ ++ + +G+ +S V+ + Sbjct: 2 NATKTIHNARYQALLDLLLEARSAAGITQKELAARLGRPQSFVSKTENAERRLD 55 >2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary phase, DNA-binding, transcription regulation; 1.50A {Thermus thermophilus} (A:118-202) Length = 85 Score = 26.2 bits (58), Expect = 5.1 Identities = 6/24 (25%), Positives = 12/24 (50%) Query: 154 TQNDIGSIVGKSRSHVANILRILK 177 T +++ + VG R V ++ L Sbjct: 31 THDELAAAVGSVRETVTKVIGELA 54 >2zdb_A Transcriptional regulator, CRP family; CAMP-binding domain, winged helix-turn-helix, thermus thermophilus DNA-binding, plasmid; 2.00A {Thermus thermophilus} (A:111-195) Length = 85 Score = 26.2 bits (58), Expect = 5.4 Identities = 5/24 (20%), Positives = 10/24 (41%) Query: 154 TQNDIGSIVGKSRSHVANILRILK 177 + +I R V+ +L L+ Sbjct: 31 SHEEIADATASIRESVSKVLADLR 54 >3g7q_A Valine-pyruvate aminotransferase; NP_462565.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.80A {Salmonella typhimurium} (A:96-123,A:177-281) Length = 133 Score = 26.1 bits (57), Expect = 5.7 Identities = 10/31 (32%), Positives = 11/31 (35%), Gaps = 1/31 (3%) Query: 47 IVPNPHNPR-NYFESEGLEDLCQSIKSHGII 76 V P NP N E L L + H I Sbjct: 37 CVSRPTNPTGNVITDEELXKLDRLANQHNIP 67 >3kcc_A Catabolite gene activator; helix-turn-helix, CAMP, CAMP-binding, DNA- binding, nucleotide-binding, transcription; HET: CMP; 1.66A {Escherichia coli k-12} PDB: 3fwe_A 1g6n_A* 2cgp_A* 3hif_A 1i5z_A* 1j59_A* 1lb2_A* 1run_A* 1zrc_A* 1zrd_A* 1zre_A* 1zrf_A* 2gzw_A* 2wc2_A 3iyd_G* 1hw5_A* 1ruo_A* 1i6x_A* 1cgp_A* 1o3t_A* ... (A:189-260) Length = 72 Score = 25.8 bits (57), Expect = 6.4 Identities = 12/24 (50%), Positives = 17/24 (70%) Query: 154 TQNDIGSIVGKSRSHVANILRILK 177 T+ +IG IVG SR V IL++L+ Sbjct: 31 TRQEIGQIVGCSRETVGRILKMLE 54 >1nr3_A MTH0916, DNA-binding protein TFX; northeast structural genomics consortium, reduced- dimensionality PSI; NMR {Methanothermobacterthermautotrophicus} (A:1-46) Length = 46 Score = 25.9 bits (57), Expect = 6.4 Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 6/50 (12%) Query: 150 EYGYTQNDIGSIVGKSRSHVANILRILKLPSSVREMIRKEEISLGHARTL 199 E G++Q I + +R +V+ I R E I K +L ++L Sbjct: 3 ERGWSQKKIARELKTTRQNVSAIER------KAMENIEKSRNTLDFVKSL 46 >1rrm_A Lactaldehyde reductase; structural genomics, dehydrogenase, PSI, protein structure initiative; HET: APR; 1.60A {Escherichia coli} (A:1-183) Length = 183 Score = 25.9 bits (56), Expect = 6.6 Identities = 13/70 (18%), Positives = 21/70 (30%), Gaps = 4/70 (5%) Query: 52 HNP-RNYFESEGLEDLCQSIKSHGIIQPLIVRAIDNGLYKIIAGERRFRAAKMASLSEVP 110 +F + L +K G + LIV D L + + A L Sbjct: 7 ILNETAWFGRGAVGALTDEVKRRGYQKALIV--TDKTLVQCGVVAKVTDKXDAAGL-AWA 63 Query: 111 VIIRNVDNKS 120 + V N + Sbjct: 64 IYDGVVPNPT 73 >2gau_A Transcriptional regulator, CRP/FNR family; structural genomics, PSI; 1.90A {Porphyromonas gingivalis W83} (A:152-232) Length = 81 Score = 25.8 bits (57), Expect = 7.1 Identities = 2/24 (8%), Positives = 10/24 (41%) Query: 154 TQNDIGSIVGKSRSHVANILRILK 177 ++ ++ ++ + S+ L Sbjct: 31 SREELATLSNMTVSNAIRTLSTFV 54 >2fmy_A COOA, carbon monoxide oxidation system transcription regulator COOA-1; DNA transcription regulator, DNA binding protein; HET: HEM; 2.20A {Carboxydothermus hydrogenoformans} PDB: 2hkx_A* (A:137-220) Length = 84 Score = 25.8 bits (57), Expect = 7.1 Identities = 6/24 (25%), Positives = 12/24 (50%) Query: 154 TQNDIGSIVGKSRSHVANILRILK 177 +I ++G +R V+ +L K Sbjct: 33 NTEEIALMLGTTRQTVSVLLNDFK 56 >1qop_B Tryptophan synthase beta chain; lyase, carbon-oxygen lyase, tryptophan biosynthesis, pyridoxal phosphate; HET: IPL PLP; 1.4A {Salmonella typhimurium} (B:53-82,B:192-270,B:320-379) Length = 169 Score = 25.8 bits (56), Expect = 7.1 Identities = 8/39 (20%), Positives = 14/39 (35%) Query: 49 PNPHNPRNYFESEGLEDLCQSIKSHGIIQPLIVRAIDNG 87 P P R + G E Q + G + ++ + G Sbjct: 34 PYPTIVREFQRMIGEETKAQILDKEGRLPDAVIACVGGG 72 >1ft9_A Carbon monoxide oxidation system transcription regulator; heme sensor, catabolite gene activator protein; HET: HEM; 2.60A {Rhodospirillum rubrum} (A:133-222) Length = 90 Score = 25.9 bits (57), Expect = 7.3 Identities = 7/24 (29%), Positives = 12/24 (50%) Query: 154 TQNDIGSIVGKSRSHVANILRILK 177 T +I +++G SR + L L Sbjct: 33 TVEEIANLIGSSRQTTSTALNSLI 56 >3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity, CRP, CLP, C-DI-GMP receptor, quorum sensing, DNA-binding; 2.30A {Xanthomonas campestris PV} (A:159-230) Length = 72 Score = 25.8 bits (57), Expect = 7.8 Identities = 6/24 (25%), Positives = 14/24 (58%) Query: 154 TQNDIGSIVGKSRSHVANILRILK 177 ++ ++ +VG SR +L+ L+ Sbjct: 31 SRQELARLVGCSREMAGRVLKKLQ 54 >3iuo_A ATP-dependent DNA helicase RECQ; C-terminal, domain, PSI, MCSG, structural genomics, midwest center for structural genomics; 1.60A {Porphyromonas gingivalis} (A:) Length = 122 Score = 25.8 bits (57), Expect = 8.0 Identities = 13/42 (30%), Positives = 26/42 (61%), Gaps = 3/42 (7%) Query: 112 IIRNVDNKSSLEIAIVENVQRK-DLNPLEEALG--YEQLISE 150 +R + NKS +++IV+ + RK L+ + + G + +L+SE Sbjct: 11 RVRTLANKSKXKVSIVQQIDRKVALDDIAVSHGLDFPELLSE 52 >2a6c_A Helix-turn-helix motif; NP_841403.1, , structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI; HET: CIT; 1.90A {Nitrosomonas europaea} (A:) Length = 83 Score = 25.4 bits (56), Expect = 9.2 Identities = 6/29 (20%), Positives = 15/29 (51%) Query: 146 QLISEYGYTQNDIGSIVGKSRSHVANILR 174 + + G TQ ++G ++ V+++ R Sbjct: 25 EHLRNSGLTQFKAAELLGVTQPRVSDLXR 53 >2hke_A Diphosphomevalonate decarboxylase, putative; mevalonate diphosphate decarboxylase, lyase; 1.80A {Trypanosoma brucei} (A:179-364) Length = 186 Score = 25.5 bits (56), Expect = 9.6 Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 1/46 (2%) Query: 254 EKKISSKVGLNISIKHRNNKGQFCIKYETNEQLKIICSLLGENDFE 299 +K +SS G+ S+K + I E++KI + DF Sbjct: 16 QKDVSSTKGMQQSLKTSPLM-KKRISETVPERMKIASRAIKARDFA 60 >3eus_A DNA-binding protein; structural genomics, PSI2,MCSG, protein structure initiative, midwest center for structural genomics; 1.80A {Silicibacter pomeroyi} (A:) Length = 86 Score = 25.5 bits (56), Expect = 9.9 Identities = 11/51 (21%), Positives = 18/51 (35%), Gaps = 2/51 (3%) Query: 132 RKDLNPLEEALGYE--QLISEYGYTQNDIGSIVGKSRSHVANILRILKLPS 180 + P L Q + G TQ D+ + K +S VA + + Sbjct: 5 KTLRTPEHVYLCQRLRQARLDAGLTQADLAERLDKPQSFVAKVETRERRLD 55 >3ivp_A Putative transposon-related DNA-binding protein; APC62618, structural genomics, PSI-2, protein structure initiative; HET: PG4; 2.02A {Clostridium difficile 630} (A:1-73) Length = 73 Score = 25.4 bits (56), Expect = 9.9 Identities = 11/52 (21%), Positives = 23/52 (44%), Gaps = 2/52 (3%) Query: 131 QRKDLNPLEEALGYE--QLISEYGYTQNDIGSIVGKSRSHVANILRILKLPS 180 ++K+ ALG + + G T+ +G+ + ++ NI + PS Sbjct: 2 RKKEDKYDFRALGLAIKEARKKQGLTREQVGAXIEIDPRYLTNIENKGQHPS 53 Database: mmdb70 Posted date: Jun 20, 2010 3:12 AM Number of letters in database: 4,956,049 Number of sequences in database: 33,805 Lambda K H 0.313 0.132 0.356 Gapped Lambda K H 0.267 0.0659 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 2,078,031 Number of extensions: 92387 Number of successful extensions: 333 Number of sequences better than 10.0: 1 Number of HSP's gapped: 319 Number of HSP's successfully gapped: 79 Length of query: 300 Length of database: 4,956,049 Length adjustment: 88 Effective length of query: 212 Effective length of database: 1,981,209 Effective search space: 420016308 Effective search space used: 420016308 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 54 (24.7 bits)