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)