RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780901|ref|YP_003065314.1| single-stranded-DNA-specific exonuclease protein [Candidatus Liberibacter asiaticus str. psy62] (600 letters) >2zxr_A Single-stranded DNA specific exonuclease RECJ; DNA repair, hydrolase; 2.15A {Thermus thermophilus} PDB: 2zxo_A 2zxp_A 1ir6_A (A:49-242) Length = 194 Score = 158 bits (400), Expect = 2e-39 Identities = 65/198 (32%), Positives = 100/198 (50%), Gaps = 11/198 (5%) Query: 71 DPLILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDR 130 L L +AA + +A+ ++I + GDYD DG A+++R L+ + + +IP R Sbjct: 3 ALLPLKGLREAAALLEEALRQGKRIRVHGDYDADGLTGTAILVRGLAALGADVHPFIPHR 62 Query: 131 IVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIP 190 + +GYG + + + E + L +TVDCG T++ L+ G++VIV DHH + P Sbjct: 63 LEEGYGVLMERVPEHL-EASDLFLTVDCGITNHAELRELLENGVEVIVTDHHTP-GKTPP 120 Query: 191 AYALVNPNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDNKVPLNFDLLSLLDLVALATV 250 +V+P DL AGV FL+L ++ L L DL A+ T+ Sbjct: 121 PGLVVHPALTPDLK--EKPTGAGVAFLLLWALHERLGLP-------PPLEYADLAAVGTI 171 Query: 251 CDVVPLIGLNRAYVVKGL 268 DV PL G NRA V +GL Sbjct: 172 ADVAPLWGWNRALVKEGL 189 >3dev_A SH1221; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; 3.10A {Staphylococcus haemolyticus JCSC1435} (A:1-196) Length = 196 Score = 127 bits (319), Expect = 5e-30 Identities = 29/185 (15%), Positives = 50/185 (27%), Gaps = 23/185 (12%) Query: 80 KAARRIVQAIYNSEKIMIFGDYDVDGAA--SVALMMRFLSHCSVNANMYIPDRIVDGYGP 137 + I Q + +E I+I D A S + +L N+Y Sbjct: 3 EIFNEIXQRVKEAETIIIHRHVRPDPDAYGSQLGLKLYLERKFPEKNIYATGEAEPSLSF 62 Query: 138 NPSLMEKFI-NEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPAYALVN 196 L E L+I D + Q G +I IDHH + + Sbjct: 63 IGDLDEIDDSVYSDALVIVCDTANAPRIDDQRY-LNGQSLIKIDHHPATDQYGDVNFVNT 121 Query: 197 PNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDNKVPLNFDLLSLLDLVALATVCDVVPL 256 + ++F + + D + ++ L V D Sbjct: 122 E----------ASSTSEIIFDFISHFNDLSIIDEH---------VARVLYLGIVGDTGRF 162 Query: 257 IGLNR 261 + N Sbjct: 163 LFSNT 167 >3dma_A Exopolyphosphatase-related protein; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.25A {Bacteroides fragilis} (A:1-214) Length = 214 Score = 112 bits (280), Expect = 1e-25 Identities = 26/208 (12%), Positives = 49/208 (23%), Gaps = 26/208 (12%) Query: 73 LILTDCDKAARRIVQAIYNSEKIMIFGDY--DVDGAASVALMMRFLSHCSVNANMYIPDR 130 L + ++KI+I D D S + FL N+ +P+ Sbjct: 2 LTKVIAQAHIDHFTKWFERADKIVIVSHVSPDGDAIGSSLGLYHFLDSQDKIVNVIVPNA 61 Query: 131 IVDGYGPNPSLME-----------KFINEGAQLIITVDCGSTS--YDALQYATNQGIDVI 177 D P + + A +I +D + + I Sbjct: 62 FPDFLKWXPGSKDILLYDRYQEFADKLIXEADVICCLDFNALKRIDEXSDIVAASPGRKI 121 Query: 178 VIDHHQVKSEEIPAYALVNPNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDNKVP-LNF 236 IDHH + +C G + + F Sbjct: 122 XIDHHLYPEDFCRITISHPEISSTSELVFRLICRXGYFSDISKEGAECIYTGXXTDTGGF 181 Query: 237 --------DLLSLLDLVALATVCDVVPL 256 + +L++ D + Sbjct: 182 TYNSNNREIYFIISELLSKG--IDKDDI 207 >2zxr_A Single-stranded DNA specific exonuclease RECJ; DNA repair, hydrolase; 2.15A {Thermus thermophilus} PDB: 2zxo_A 2zxp_A 1ir6_A (A:327-422) Length = 96 Score = 102 bits (256), Expect = 1e-22 Identities = 27/101 (26%), Positives = 50/101 (49%), Gaps = 7/101 (6%) Query: 367 QASVIVVEGDRWHPGIVGLLAARLKEKFGRPSFAISFEEDGKGIGSGRSIEGFDIGKMVS 426 +A IV+ HPG++G++A+R+ E RP F ++ +G G+ RS+ + + Sbjct: 2 EAKAIVLLDPEGHPGVMGIVASRILEATLRPVFLVA-----QGKGTVRSLAPISAVEALR 56 Query: 427 FAVEEGILVKGGGHAMAAGLTVERVNFGRLCDFFQKFAHNI 467 A + +L++ GGH AAG ++ F + +A Sbjct: 57 SAED--LLLRYGGHKEAAGFAMDEALFPAFKARVEAYAARF 95 >2zxr_A Single-stranded DNA specific exonuclease RECJ; DNA repair, hydrolase; 2.15A {Thermus thermophilus} PDB: 2zxo_A 2zxp_A 1ir6_A (A:1-48,A:423-534) Length = 160 Score = 101 bits (252), Expect = 3e-22 Identities = 23/122 (18%), Positives = 40/122 (32%), Gaps = 13/122 (10%) Query: 474 TPVFKIDGVLNASAVNIALIDMLESAGPYGAGNPNPVFAFPNHKLQSIRVVNLAHLQMTF 533 + +L + + L PYG GNP P+F ++ R+ HL Sbjct: 51 VREVALLDLLPEPGLLPQVFRELALLEPYGEGNPEPLFLLFGAPEEARRLGEGRHLAFRL 110 Query: 534 ESQDSETLQAIAFRVYGTPLGEFLMQSRGKRMHVTGHLCVNYWRGSKRCQLRVLDASPVE 593 + +A++ L + V G L N W G +++ +D E Sbjct: 111 KGVR-----VLAWKQGDLALPP--------EVEVAGLLSENAWNGHLAYEVQAVDLRKPE 157 Query: 594 GH 595 Sbjct: 158 AL 159 >2zxr_A Single-stranded DNA specific exonuclease RECJ; DNA repair, hydrolase; 2.15A {Thermus thermophilus} PDB: 2zxo_A 2zxp_A 1ir6_A (A:243-326) Length = 84 Score = 94.0 bits (234), Expect = 5e-20 Identities = 29/83 (34%), Positives = 43/83 (51%), Gaps = 2/83 (2%) Query: 276 NPGLKALIERVNISSPITAENLGYMIGPSINAGGRIGESNLGSRLLISDDSQELEMLAMK 335 GL+ L E V A + + I P INA R+GE+ RLL++DD+ E + L + Sbjct: 3 WVGLRLLAEAVGY--TGKAVEVAFRIAPRINAASRLGEAEKALRLLLTDDAAEAQALVGE 60 Query: 336 LDVLNQNRRLMESAMLEQAEAKV 358 L LN R+ +E AML + + Sbjct: 61 LHRLNARRQTLEEAMLRKLLPQA 83 >2eb0_A Manganese-dependent inorganic pyrophosphatase; DHH domain, DHHA2 domain, structural genomics, NPPSFA; 2.20A {Methanocaldococcus jannaschii DSM2661} (A:1-191) Length = 191 Score = 91.0 bits (225), Expect = 4e-19 Identities = 26/183 (14%), Positives = 49/183 (26%), Gaps = 24/183 (13%) Query: 95 IMIFG--DYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFINEGAQL 152 + G + D D AS ++ FL P+ E + + Sbjct: 2 RYVVGHKNPDTDSIASAIVLAYFLDCYPARLGDINPETEFVLRKFGVMEPELIESAKGKE 61 Query: 153 IITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPAYALVNPNRLDDLS-GQGHLCA 211 II VD S +G + +IDHH+V + Sbjct: 62 IILVDHSEKSQ--SFDDLEEGKLIAIIDHHKVGLTTTEPILYYAKPVGSTATVIAELYFK 119 Query: 212 AGVVF--------------LVLVLIYR---ILRQDNKVPLNFDLLSLLDLVALATVCDVV 254 + L+L I + + L+ ++ L +A + ++ Sbjct: 120 DAIDLIGGKKKELKPDLAGLLLSAIISDTVLFKSPTTTDLDKEMAK--KLAEIAGISNIE 177 Query: 255 PLI 257 Sbjct: 178 EFG 180 >2haw_A Manganese-dependent inorganic pyrophosphatase; substrate complex, hydrolase; HET: 1PE PG4; 1.75A {Bacillus subtilis} (A:1-192) Length = 192 Score = 42.8 bits (100), Expect = 1e-04 Identities = 21/108 (19%), Positives = 35/108 (32%), Gaps = 11/108 (10%) Query: 93 EKIMIFGDY--DVDGAASVALMMRFLSHCSVNANMYIPDRI-------VDGYGPNPSLME 143 EKI+IFG D D S + NA ++ +D + + Sbjct: 2 EKILIFGHQNPDTDTICSAIAYADLKNKLGFNAEPVRLGQVNGETQYALDYFKQESPRLV 61 Query: 144 KFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPA 191 + +I VD + + VIDHH++ + E Sbjct: 62 ETAANEVNGVILVDHNERQQ--SIKDIEEVQVLEVIDHHRIANFETAE 107 >1wpn_A Manganese-dependent inorganic pyrophosphatase; metal binding, hydrolase; 1.30A {Bacillus subtilis} (A:) Length = 188 Score = 42.8 bits (100), Expect = 1e-04 Identities = 21/108 (19%), Positives = 36/108 (33%), Gaps = 11/108 (10%) Query: 93 EKIMIFG--DYDVDGAASVALMMRFLSHCSVNANMYIPDRI-------VDGYGPNPSLME 143 EKI+IFG + D D S + NA ++ +D + + Sbjct: 2 EKILIFGHQNPDTDTICSAIAYADLKNKLGFNAEPVRLGQVNGETQYALDYFKQESPRLV 61 Query: 144 KFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPA 191 + +I VD + + VIDHH++ + E Sbjct: 62 ETAANEVNGVILVDHN--ERQQSIKDIEEVQVLEVIDHHRIANFETAE 107 >3dma_A Exopolyphosphatase-related protein; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.25A {Bacteroides fragilis} (A:215-343) Length = 129 Score = 35.5 bits (82), Expect = 0.017 Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 7/53 (13%) Query: 398 SFAISFEEDGKGI-GSGRSIEGFDIGKMVSFAVEEGILVKGGGHAMAAGLTVE 449 S + + + K I S RS+ F + A E GGGH A+G Sbjct: 60 SCFLREDTEKKXIKISLRSVGKFPCNR---LAAE---FFNGGGHLNASGGEFY 106 >1nmo_A Hypothetical protein YBGI; toroidal structure, structure 2 function project, S2F, structural genomics, unknown functio; 2.20A {Escherichia coli} (A:103-217) Length = 115 Score = 32.8 bits (75), Expect = 0.13 Identities = 13/52 (25%), Positives = 17/52 (32%), Gaps = 5/52 (9%) Query: 131 IVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHH 182 G G S ++ G IT G S + A QG+ HH Sbjct: 68 WCTGGGQ--SFIDSAARFGVDAFIT---GEVSEQTIHSAREQGLHFYAAGHH 114 >2gx8_A NIF3-related protein; structural genomics, unknown function, PSI, protein structure initiative; HET: EPE; 2.20A {Bacillus cereus atcc 14579} (A:133-154,A:269-359) Length = 113 Score = 32.9 bits (75), Expect = 0.13 Identities = 10/52 (19%), Positives = 22/52 (42%), Gaps = 5/52 (9%) Query: 131 IVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHH 182 ++ G G + + +GA + +T G Y A G++++ H+ Sbjct: 66 VLGGDGN--KYINQAKFKGADVYVT---GDMYYHVAHDAMMLGLNIVDPGHN 112 >2nyd_A UPF0135 protein SA1388; hypothetical protein SA1388, selenomethionine SAD, unknown function; 2.00A {Staphylococcus aureus subsp} (A:108-131,A:239-332) Length = 118 Score = 32.5 bits (74), Expect = 0.14 Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 5/52 (9%) Query: 131 IVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHH 182 I+ G G + + +GA + +T G + A G+++I I+H+ Sbjct: 71 IIGGSGI--GYEYQAVQQGADVFVT---GDIKHHDALDAKIHGVNLIDINHY 117 >2bpl_A Glucosamine--fructose-6-phosphate aminotransferase [isomerizing]; amidotransferase, ammonia channeling, glucosamine 6- phosphate synthase; HET: F6R; 2.05A {Escherichia coli} (A:450-608) Length = 159 Score = 32.1 bits (72), Expect = 0.21 Identities = 12/155 (7%), Positives = 39/155 (25%), Gaps = 11/155 (7%) Query: 79 DKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGYGPN 138 DK + + + + G ++ ++ ++A Y + G Sbjct: 2 DKRIEALAEDFSDKHHALFLG-RGDQYPIALEGALKLKEISYIHAEAYAAGELKHGPLAL 60 Query: 139 PSLMEKFINEGAQLIITVDCGSTS---YDALQYATNQGIDVIVIDHHQVKSEEIPAYALV 195 I+ +I+ ++ +G + V ++ Sbjct: 61 -------IDADMPVIVVAPNNELLEKLKSNIEEVRARGGQLYVFADQDAGFVSSDNMHII 113 Query: 196 NPNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDN 230 ++++ + V + + D Sbjct: 114 EMPHVEEVIAPIFYTVPLQLLAYHVALIKGTDVDQ 148 >3dev_A SH1221; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; 3.10A {Staphylococcus haemolyticus JCSC1435} (A:197-320) Length = 124 Score = 30.6 bits (69), Expect = 0.55 Identities = 16/71 (22%), Positives = 26/71 (36%), Gaps = 8/71 (11%) Query: 379 HPGIVGLLAARLKEKFGRPSFAISFEEDGKGIGSGRSIEGFDIGKMVSFAVEEGILVKGG 438 P + + G + +E + RS G I + A + G GG Sbjct: 38 QPNEASQFVNTVADISGLKIWXFGVDEGDQIRCRIRSK-GITINDV---ANQFG----GG 89 Query: 439 GHAMAAGLTVE 449 GH A+G++V Sbjct: 90 GHPNASGVSVY 100 >2fyw_A Conserved hypothetical protein; structural genomics, PSI, midwest center for structural genomics, MCSG; 2.40A {Streptococcus pneumoniae TIGR4} (A:107-229) Length = 123 Score = 30.6 bits (69), Expect = 0.61 Identities = 13/52 (25%), Positives = 21/52 (40%), Gaps = 5/52 (9%) Query: 131 IVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHH 182 I G G S + + +GA + IT G Y Q + G+ + H+ Sbjct: 76 ICGGSGQ--SFYKDALAKGADVYIT---GDIYYHTAQDXLSDGLLALDPGHY 122 >2zj3_A Glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1; glucosamine-6-phosphate synthase, aldose/ketose isomerase, rossmann-like fold; HET: G6P; 1.90A {Homo sapiens} PDB: 2zj4_A* 2v4m_A* (A:217-375) Length = 159 Score = 30.5 bits (68), Expect = 0.62 Identities = 15/107 (14%), Positives = 37/107 (34%), Gaps = 13/107 (12%) Query: 79 DKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRF-LSHCSVNANMYIPDRIVDGYGP 137 D +++ +Y+ + ++I G + L + + + I +GP Sbjct: 2 DDEIQKLATELYHQKSVLIMG---RGYHYATCLEGALKIKEITYMHSEGILA-GELKHGP 57 Query: 138 NPSLMEKFINEGAQLIITVDCGSTS---YDALQYATNQGIDVIVIDH 181 +++ +I+ + T +ALQ + +VI Sbjct: 58 LA-----LVDKLMPVIMIIMRDHTYAKCQNALQQVVARQGRPVVICD 99 >2vh3_A Ranasmurfin, RSF-1; LTQ, bisltq, unknown function; HET: TY3 TY2; 1.16A {Polypedates leucomystax} PDB: 2vh3_B* (A:) Length = 113 Score = 30.5 bits (68), Expect = 0.67 Identities = 27/99 (27%), Positives = 44/99 (44%), Gaps = 18/99 (18%) Query: 380 PGIVGLLAARLK--EKFGRPSFAI-----SFEEDGKGIGSGRSIEGFDIGKMVSFAVEEG 432 PG LA L+ + F + S+A+ +++ED + R+ E FD + +EG Sbjct: 12 PGSKECLAEALQKHQGFKKKSYALICAYLNYKEDAENYE--RAAEDFDSAVKCT-GCKEG 68 Query: 433 I--------LVKGGGHAMAAGLTVERVNFGRLCDFFQKF 463 + L++ G A L ++R G LC FQK Sbjct: 69 VDLHEGNPELIEEGFEKFLASLKIDRKALGSLCTLFQKL 107 >2dri_A D-ribose-binding protein; sugar transport; HET: RIP; 1.60A {Escherichia coli} (A:1-104,A:237-271) Length = 139 Score = 29.5 bits (66), Expect = 1.2 Identities = 10/59 (16%), Positives = 25/59 (42%), Gaps = 2/59 (3%) Query: 140 SLMEKFINEGAQLIITVDCGSTSYD-ALQYATNQGIDVIVIDHHQVKSEEIPAYALVNP 197 + ++ G ++++ S + A++ A I VI +D E+ ++ +P Sbjct: 48 ANVQDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRQ-ATKGEVVSHIASDP 105 >3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation termination, ATP-binding, cytoplasm, hydrolase, membrane; 2.80A {Schizosaccharomyces pombe} (A:1-326) Length = 326 Score = 29.4 bits (65), Expect = 1.4 Identities = 24/173 (13%), Positives = 50/173 (28%), Gaps = 37/173 (21%) Query: 72 PLILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDRI 131 PL+L++ + I Q+ + K F + LS + + Sbjct: 151 PLLLSNPPRNM--IGQSQSGTGKTAAF-------------ALTMLSRVDASVPKPQAICL 195 Query: 132 VDGYGPNPSLMEKFINEGAQLI--ITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEI 189 P+ L + ++ ++ V D++ +++ Sbjct: 196 A----PSRELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKIDAQIVIG---------- 241 Query: 190 PAYALVNPNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDNKVPLNFDLLSLL 242 P + DL + L A + VL +L Q + + LL Sbjct: 242 ------TPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLL 288 Score = 27.1 bits (59), Expect = 7.5 Identities = 13/132 (9%), Positives = 37/132 (28%), Gaps = 32/132 (24%) Query: 35 QKHAIPDIVARVLVNRNVSIDYAKD-------FLNPSIRLLMPDP-----LILTDCDKAA 82 Q+ A+P +++ RN+ I ++ F + + + L + A Sbjct: 146 QEKALPLLLSN--PPRNM-IGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELA 202 Query: 83 RRI---VQAIYNSEKIMIFGDYDVDGAAS--------VALMMRFLSHC------SVNANM 125 R+I V + ++ + + + + + Sbjct: 203 RQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKIDAQIVIGTPGTVMDLMKRRQLDARDIKV 262 Query: 126 YIPDRIVDGYGP 137 ++ D + Sbjct: 263 FVLDEADNMLDQ 274 >3g1w_A Sugar ABC transporter; sugar-binding protein, target 11229F, transport protein, structural genomics, PSI-2; 2.02A {Bacillus halodurans c-125} (A:1-108,A:243-305) Length = 171 Score = 28.8 bits (64), Expect = 2.0 Identities = 8/59 (13%), Positives = 20/59 (33%), Gaps = 2/59 (3%) Query: 140 SLMEKFINEGAQLIITVDCGSTSYD-ALQYATNQGIDVIVIDHHQVKSEEIPAYALVNP 197 +++E+ I + I + A + GI +++ D ++ N Sbjct: 52 TVLEQAIAKNPAGIAISAIDPVELTDTINKAVDAGIPIVLFDSG-APDSHAHSFLGTNT 109 >2yyb_A Hypothetical protein TTHA1606; structural genomics, unknown function, NPPSFA; 2.60A {Thermus thermophilus HB8} (A:103-213) Length = 111 Score = 28.6 bits (64), Expect = 2.3 Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 3/34 (8%) Query: 149 GAQLIITVDCGSTSYDALQYATNQGIDVIVIDHH 182 A L +T G + +G++VI H+ Sbjct: 79 DADLFVT---GEPKHSVFHETFERGLNVIYAGHY 109 >3ksm_A ABC-type sugar transport system, periplasmic component; PSI- II, structural genomics, protein structure initiative; HET: BDR; 1.90A {Hahella chejuensis kctc 2396} (A:1-106,A:243-276) Length = 140 Score = 28.4 bits (63), Expect = 2.8 Identities = 8/69 (11%), Positives = 24/69 (34%), Gaps = 3/69 (4%) Query: 140 SLMEKFINEG-AQLIITVDCGST-SYDALQYATNQGIDVIVIDHHQVKSEEIPAYALVNP 197 ++ +++ +I + ++ + I V+V+D + + +P Sbjct: 49 QILSYHLSQAPPDALILAPNSAEDLTPSVAQYRARNIPVLVVDSD-LAGDAHQGLVATDP 107 Query: 198 NRLDDLSGQ 206 L+ Q Sbjct: 108 EYXGYLAVQ 116 >1k20_A Manganese-dependent inorganic pyrophosphatase; family II ppase, binuclear metal centre, hydrolase; 1.50A {Streptococcus gordonii} (A:1-192) Length = 192 Score = 28.2 bits (62), Expect = 3.1 Identities = 15/107 (14%), Positives = 26/107 (24%), Gaps = 9/107 (8%) Query: 94 KIMIFGDY--DVDGAASVALMMRFLSHCSVNANMYIPD-------RIVDGYGPNPSLMEK 144 KI++FG D D S + V Y + Sbjct: 2 KILVFGHQNPDSDAIGSSYAFAYLAREAYGLDTEAVALGEPNEETAFVLDYFGVAAPRVI 61 Query: 145 FINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPA 191 + + + + V+DHH+V + E Sbjct: 62 TSAKAEGAEQVILTDHNEFQQSVADIAEVEVYGVVDHHRVANFETAN 108 >3brs_A Periplasmic binding protein/LACI transcriptional regulator; structural genomics, protein structure initiative; 2.00A {Clostridium phytofermentans isdg} (A:1-112,A:246-289) Length = 156 Score = 27.7 bits (61), Expect = 4.9 Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 2/59 (3%) Query: 140 SLMEKFINEGAQLIITVDCGSTSYD-ALQYATNQGIDVIVIDHHQVKSEEIPAYALVNP 197 L+E+ I +I+ A + + GI +IVID + + +P Sbjct: 56 ELIEEAIKRKPDVILLAAADYEKTYDAAKEIKDAGIKLIVIDSGMKQ-DIADITVATDP 113 >1q7z_A 5-methyltetrahydrofolate S-homocysteine methyltransferase; methionine, cobalamin, vitamin B12; 1.70A {Thermotoga maritima} (A:1-294) Length = 294 Score = 27.3 bits (60), Expect = 5.5 Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 12/64 (18%) Query: 92 SEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFINEGAQ 151 SE++++ DGA M N+ PD ++ + +I G+ Sbjct: 12 SERVLLL-----DGAYGTEFMKYGYDDLPEELNIKAPDVVLKVH-------RSYIESGSD 59 Query: 152 LIIT 155 +I+T Sbjct: 60 VILT 63 >1zq1_A Glutamyl-tRNA(Gln) amidotransferase subunit D; X-RAY, 3D structure, asparaginase 1 family, GATD subfamily, lyase; 3.00A {Pyrococcus abyssi} (A:304-438) Length = 135 Score = 27.4 bits (61), Expect = 5.8 Identities = 17/100 (17%), Positives = 36/100 (36%), Gaps = 11/100 (11%) Query: 131 IVDGY-GPNPSLMEKFINEGAQLII--TVDCGSTS---YDALQYATNQGIDVIVIDHHQV 184 +V Y G + +++ +++G + I+ G T +++ A +G+ V Q Sbjct: 6 LVKVYPGISSEIIDFLVDKGYKGIVIEGTGLGHTPNDIIPSIERAVEEGVAVCXT--SQC 63 Query: 185 KSEEIPAYALVNPNRLDD---LSGQGHLCAAGVVFLVLVL 221 + +L + + L V L VL Sbjct: 64 IYGRVNLNVYSTGRKLLKAGVIPCEDXLPETAYVKLXWVL 103 >1wsa_A Asparaginase, asparagine amidohydrolase; signal, periplasmic; 2.20A {Wolinella succinogenes} (A:206-330) Length = 125 Score = 27.1 bits (60), Expect = 6.1 Identities = 21/97 (21%), Positives = 38/97 (39%), Gaps = 8/97 (8%) Query: 131 IVDGY-GPNPSLMEKFINEGAQLIITVDCGSTS-----YDALQYATNQGIDVIVIDHHQV 184 I+ + L+ + GA+ II G+ + +AL+ A G+ V +V Sbjct: 15 ILYAHPDDTDVLVNAALQAGAKGIIHAGMGNGNPFPLTQNALEKAAKSGVVVARS--SRV 72 Query: 185 KSEEIPAYALVNPNRLDDLSGQGHLCAAGVVFLVLVL 221 S A V+ +L ++ + V L+L L Sbjct: 73 GSGSTTQEAEVDDKKLGFVATESLNPQKARVLLMLAL 109 >3l6u_A ABC-type sugar transport system periplasmic component; structural genomics, nysgrc, target 11006S, PSI-2, protein structure initiative; 1.90A {Exiguobacterium sibiricum} (A:1-111,A:250-293) Length = 155 Score = 27.0 bits (59), Expect = 6.1 Identities = 9/43 (20%), Positives = 15/43 (34%), Gaps = 1/43 (2%) Query: 140 SLMEKFINEGAQLIITVDCGSTSYD-ALQYATNQGIDVIVIDH 181 + +F++ I A++ A GI V ID Sbjct: 55 EQILEFVHLKVDAIFITTLDDVYIGSAIEEAKKAGIPVFAIDR 97 >2ioy_A Periplasmic sugar-binding protein; ribose binding protein, thermophilic proteins; HET: RIP; 1.90A {Thermoanaerobacter tengcongensis} (A:1-104,A:238-283) Length = 150 Score = 27.3 bits (60), Expect = 6.4 Identities = 12/59 (20%), Positives = 26/59 (44%), Gaps = 2/59 (3%) Query: 140 SLMEKFINEGAQLIITVDCGSTSYD-ALQYATNQGIDVIVIDHHQVKSEEIPAYALVNP 197 S +E I + +++ S + A++ A ++ I VI ID ++ + +P Sbjct: 48 SNVEDLIQQKVDVLLINPVDSDAVVTAIKEANSKNIPVITIDRS-ANGGDVVCHIASDP 105 >1nns_A L-asparaginase II; amidrohydrolase, crystallographic comparison,; 1.95A {Escherichia coli} (A:202-326) Length = 125 Score = 27.1 bits (60), Expect = 6.8 Identities = 18/97 (18%), Positives = 34/97 (35%), Gaps = 8/97 (8%) Query: 131 IVDGY-GPNPSLMEKFINEGAQLIITVDCGSTS-----YDALQYATNQGIDVIVIDHHQV 184 IV Y + + ++ G I++ G+ + +D L A G V+ +V Sbjct: 15 IVYNYANASDLPAKALVDAGYDGIVSAGVGNGNLYKSVFDTLATAAKTGTAVVRS--SRV 72 Query: 185 KSEEIPAYALVNPNRLDDLSGQGHLCAAGVVFLVLVL 221 + A V+ + ++ V L L L Sbjct: 73 PTGATTQDAEVDDAKYGFVASGTLNPQKARVLLQLAL 109 >2d6f_A Glutamyl-tRNA(Gln) amidotransferase subunit D; ligase, ligase/RNA complex; 3.15A {Methanothermobacterthermautotrophicus} (A:301-435) Length = 135 Score = 27.1 bits (60), Expect = 7.3 Identities = 17/100 (17%), Positives = 34/100 (34%), Gaps = 11/100 (11%) Query: 131 IVDGY-GPNPSLMEKFINEGAQLII--TVDCGSTS---YDALQYATNQGIDVIVIDHHQV 184 + Y G +P +++ ++EG + I+ G + A + G+ V + Q Sbjct: 6 FIKSYPGISPDIIKWHLDEGYRGIVIEGTGLGHCPDTLIPVIGEAHDMGVPVAMT--SQC 63 Query: 185 KSEEIPAYALVNPNRLDD---LSGQGHLCAAGVVFLVLVL 221 + + RL + L V + VL Sbjct: 64 LNGRVNMNVYSTGRRLLQAGVIPCDDMLPEVAYVKMCWVL 103 >2fn9_A Ribose ABC transporter, periplasmic ribose- binding protein; RBP, periplasmic binding protein, thermophilic proteins; 1.40A {Thermotoga maritima MSB8} PDB: 2fn8_A* (A:1-106,A:247-290) Length = 150 Score = 26.9 bits (59), Expect = 8.2 Identities = 11/59 (18%), Positives = 18/59 (30%), Gaps = 1/59 (1%) Query: 140 SLMEKFINEGAQLIITVDCGSTS-YDALQYATNQGIDVIVIDHHQVKSEEIPAYALVNP 197 + + I G II + ++ A GI V +D A +P Sbjct: 49 AHFDAIIAAGYDAIIFNPTDADGSIANVKRAKEAGIPVFCVDRGINARGLAVAQIYSDP 107 >3k9f_C DNA topoisomerase 4 subunit B; quinolone, topoisomerase, protein-DNA cleavage complex; HET: DNA LFX; 2.90A {Streptococcus pneumoniae} PDB: 3fof_C* 3foe_C* (C:1-161,C:205-230) Length = 187 Score = 26.8 bits (59), Expect = 8.3 Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 7/42 (16%) Query: 94 KIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGY 135 KI+I D D DGA L++ F Y+ + G+ Sbjct: 121 KIIIMTDADTDGAHIQTLLLTFFYR-------YMRPLVEAGH 155 >2h3h_A Sugar ABC transporter, periplasmic sugar-binding protein; glucose binding protein, periplasmic binding protein, GBP; HET: BGC; 1.70A {Thermotoga maritima} PDB: 2qvc_A* 3c6q_B* (A:1-104,A:238-280) Length = 147 Score = 26.6 bits (58), Expect = 9.1 Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 2/66 (3%) Query: 140 SLMEKFINEGAQLIITVDCGSTSYD-ALQYATNQGIDVIVIDHHQVKSEEIPAYALVNPN 198 ++E FI EG I T+ ++ A GI V+ +D S Y +P Sbjct: 48 QMLESFIAEGVNGIAIAPSDPTAVIPTIKKALEMGIPVVTLDTDSPDSGRYV-YIGTDPY 106 Query: 199 RLDDLS 204 + LS Sbjct: 107 MMGYLS 112 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 0.322 0.139 0.406 Gapped Lambda K H 0.267 0.0536 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 4,616,101 Number of extensions: 214429 Number of successful extensions: 664 Number of sequences better than 10.0: 1 Number of HSP's gapped: 647 Number of HSP's successfully gapped: 52 Length of query: 600 Length of database: 4,956,049 Length adjustment: 93 Effective length of query: 507 Effective length of database: 1,812,184 Effective search space: 918777288 Effective search space used: 918777288 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: 57 (26.2 bits)