RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

Searching..................................................done

Query= gi|254781064|ref|YP_003065477.1| FeS assembly scaffold SufA
[Candidatus Liberibacter asiaticus str. psy62]
         (116 letters)



>1x0g_A ISCA; [2Fe-2S], biosynthesis, cyanobacteria, domain
           swapping, Fe- S cluster, iron, iron-sulfur cluster
           protein, scaffold, sulfur; 2.50A {Thermosynechococcus
           elongatus} (A:)
          Length = 112

 Score =  116 bits (291), Expect = 1e-27
 Identities = 30/113 (26%), Positives = 54/113 (47%), Gaps = 3/113 (2%)

Query: 4   IVTMTEAAVYRIKEIV--FNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEK 61
           +V +T AA+  ++ +      +G+A  +RI ++   C    Y + LV   P   D L + 
Sbjct: 1   MVELTPAAIQELERLQTHGVRRGQAAILRIQVQPSECGDWRYDLALV-AEPKPTDLLTQS 59

Query: 62  DGVKVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEIKRA 114
            G  + I + +   + G  +D+  + +   F FHNPN    CGCG +  + R+
Sbjct: 60  QGWTIAIAAEAAELLRGLRVDYIEDLMGGAFRFHNPNASQTCGCGMAFRVSRS 112


>2apn_A Protein HI1723; HI1723 solution structure, structural
           genomics, structure 2 function project, S2F, unknown
           function; NMR {Haemophilus influenzae} (A:)
          Length = 114

 Score =  115 bits (288), Expect = 3e-27
 Identities = 39/111 (35%), Positives = 60/111 (54%), Gaps = 1/111 (0%)

Query: 1   MSDIVTMTEAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIE 60
           M+  +T T+AA  ++K ++   +     +R+ +  GGC+G +Y      +   DGD  IE
Sbjct: 5   MAVPLTFTDAAANKVKSLISEEENTDLKLRVYITGGGCSGFQYGFTFD-EKVNDGDLTIE 63

Query: 61  KDGVKVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEI 111
           K GV++ ID  SL Y++G  +D+      S F  +NPN  S CGCG S  I
Sbjct: 64  KSGVQLVIDPMSLQYLIGGTVDYTEGLEGSRFTVNNPNATSTCGCGSSFSI 114


>2d2a_A SUFA protein; iron-sulfur cluster, iron, ISCA, YADR, metal
           transport; 2.70A {Escherichia coli} (A:)
          Length = 145

 Score =  114 bits (286), Expect = 5e-27
 Identities = 42/107 (39%), Positives = 63/107 (58%), Gaps = 2/107 (1%)

Query: 5   VTMTEAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGV 64
           +T+T AA   I+E+V   Q    G+R+ +K+ GCAG  Y++D V   P   D L E DG 
Sbjct: 41  LTLTPAAAIHIRELV-AKQPGMVGVRLGVKQTGCAGFGYVLDSV-SEPDKDDLLFEHDGA 98

Query: 65  KVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEI 111
           K+++   ++ ++ GTE+DF  E L   F FHNP   + CGCG+S  +
Sbjct: 99  KLFVPLQAMPFIDGTEVDFVREGLNQIFKFHNPKAQNECGCGESFGV 145


>2qgo_A Putative Fe-S biosynthesis protein; PSI-2, NYSGXRC, 10399G,
           Fe-S cluster protein, structural genomics; 2.04A
           {Lactobacillus acidophilus ncfm} (A:)
          Length = 141

 Score = 92.2 bits (229), Expect = 2e-20
 Identities = 16/125 (12%), Positives = 38/125 (30%), Gaps = 21/125 (16%)

Query: 1   MSDI-VTMTEAAVYRIKEIVFNSQGKA-----QGIRISLKKGGCA-GLEYMVDLVTDNPV 53
           MS + +  T+ AV  +K      +         G + S++ G C+ G  + +  +     
Sbjct: 1   MSLLNIKFTDNAVDYLKRREILDKILILITDDGGGKYSIQGGSCSMGAHFSIIWLDKVDP 60

Query: 54  DGDDLIEKD-GVKVWIDSASLLYM-LGTEIDFKTEKLYSGFVFHNPNQ--------VSAC 103
           D    I  +  VK++        +     +D+            +            +  
Sbjct: 61  DYPVKIANEQNVKIYTSDFDKTMLGPNMVMDYN----AGSLSLSSDEGLLDGSVDIGNGA 116

Query: 104 GCGQS 108
              ++
Sbjct: 117 ALLKA 121


>1r94_A Protein YFHF; tetrameric, beta barrel, iron-sulfur cluster
           protein, pseudo-symmetric motifs, metal transport; 2.30A
           {Escherichia coli} (A:1-22,A:70-118)
          Length = 71

 Score = 67.6 bits (165), Expect = 6e-13
 Identities = 19/52 (36%), Positives = 29/52 (55%)

Query: 64  VKVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEIKRAD 115
           V  ++ +    ++ GT++DF  E L  GF F NPN    CGCG+S ++  A 
Sbjct: 13  VNTFLANRGKQFLDGTQLDFVKEGLNEGFKFTNPNVKDECGCGESFKLAAAL 64


>1nwb_A Hypothetical protein AQ_1857; QR6, structural genomics,
           protein structure initiative, NESG, reduced
           dimensionality PSI; NMR {Aquifex aeolicus}
           (A:1-29,A:82-124)
          Length = 72

 Score = 64.2 bits (156), Expect = 6e-12
 Identities = 13/40 (32%), Positives = 19/40 (47%)

Query: 77  LGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEIKRADL 116
           +G E+D+  + +  GF   NPN   +CGCG S        
Sbjct: 29  IGAELDYVVDFMGGGFTIRNPNATGSCGCGSSFSCGLEHH 68


>2p2e_A Putative Fe-S biosynthesis protein; hypothetical protein,
           beta-barrel, structural genomics, protein structure
           initiative, PSI-2; 2.48A {Lactobacillus salivarius
           UCC118} (A:)
          Length = 128

 Score = 62.1 bits (151), Expect = 3e-11
 Identities = 14/106 (13%), Positives = 34/106 (32%), Gaps = 14/106 (13%)

Query: 5   VTMTEAAVYRIKEIVFNSQGKAQGIRI----SLKKGGCA---GLEYMVDLVT---DNPVD 54
           +T+T+ A  +++    +       +                   ++ + +V+   D   D
Sbjct: 5   ITVTDDAAKKLQRYT-DDSNAVLLLDFDDGVGALSKVGVCSLNSDFRILVVSKDXDYKKD 63

Query: 55  GDDLIEKDGVKVWIDSASLLYM-LGTEIDFKTEKLYSGFVFHNPNQ 99
            +++I+ +  K +    S  Y     +I   T    S       N 
Sbjct: 64  YNEVIDSNIGKFYYKGYSKXYXDDNXKISLNTN--NSLLRLTGDNS 107


>1nwb_A Hypothetical protein AQ_1857; QR6, structural genomics,
          protein structure initiative, NESG, reduced
          dimensionality PSI; NMR {Aquifex aeolicus} (A:30-81)
          Length = 52

 Score = 61.1 bits (149), Expect = 5e-11
 Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 25 KAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGVKVWIDSASLLYM 76
          +   +RI +  GGC+G +Y +    D   +GD + E DGVKV ID  S+ Y+
Sbjct: 1  ENPILRIRVVPGGCSGFQYAMGFD-DTVEEGDHVFEYDGVKVVIDPFSMPYV 51


>1r94_A Protein YFHF; tetrameric, beta barrel, iron-sulfur cluster
          protein, pseudo-symmetric motifs, metal transport;
          2.30A {Escherichia coli} (A:23-69)
          Length = 47

 Score = 59.6 bits (145), Expect = 1e-10
 Identities = 18/48 (37%), Positives = 29/48 (60%), Gaps = 1/48 (2%)

Query: 26 AQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGVKVWIDSASL 73
            G+R+ ++  GC+G+ Y+++ V D P   D + E  GVKV +D  SL
Sbjct: 1  GFGLRLGVRTSGCSGMAYVLEFV-DEPTPEDIVFEDKGVKVVVDGKSL 47


>2bsc_A F17A-G adhesin; bacterial adhesion, lectin, protein-sugar
           complex, fimbriae; HET: NAG; 1.4A {Escherichia coli}
           (A:)
          Length = 177

 Score = 27.4 bits (60), Expect = 0.70
 Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 6/64 (9%)

Query: 33  LKKGGCAGLEYMVDLVTDNPVDGDD---LIEKDGVKVWIDSASLLYMLGTEIDFKT-EKL 88
           + KG C GL+  VDL     +DG     L E+ G+ +W+      Y  GT +   + E +
Sbjct: 48  ISKGFCVGLDGKVDLPVVGSLDGQSIYGLTEEVGLLIWMGDTK--YSRGTAMSGNSWENV 105

Query: 89  YSGF 92
           +SG+
Sbjct: 106 FSGW 109


>3eb8_A Cysteine protease-like VIRA; beta sheet, alpha helix,
           hydrolase, plasmid, secreted, thiol protease, virulence;
           2.40A {Shigella flexneri} (A:84-358)
          Length = 275

 Score = 27.0 bits (59), Expect = 0.84
 Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 14/60 (23%)

Query: 57  DLIEKDGVKVWIDSASLLYMLG--------------TEIDFKTEKLYSGFVFHNPNQVSA 102
           DLI + G+  +IDS   L ML                ++ F+TEKL    +F +P  +SA
Sbjct: 89  DLINELGINEFIDSKKELQMLSYNQVNKIINSNFPQQDLCFQTEKLLFTSLFQDPAFISA 148


>1lwj_A 4-alpha-glucanotransferase; alpha-amylase family, acarbose,
           (beta/alpha)8 barrel; HET: ACG; 2.50A {Thermotoga
           maritima} (A:1-92,A:160-389)
          Length = 322

 Score = 25.7 bits (55), Expect = 2.1
 Identities = 10/31 (32%), Positives = 18/31 (58%), Gaps = 2/31 (6%)

Query: 39  AGLEYMVDLVTDNPVDGDDLIEKDGVKVWID 69
           +G++ ++DL  DNP   D++  K  V   +D
Sbjct: 82  SGIKVVLDLPIDNPQVFDEM--KRLVLHLLD 110


>2dch_X Putative homing endonuclease; alpha/beta fold, hydrolase;
          2.06A {Thermoproteus} (X:127-216)
          Length = 90

 Score = 25.4 bits (55), Expect = 2.6
 Identities = 10/43 (23%), Positives = 18/43 (41%)

Query: 29 IRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGVKVWIDSA 71
          IRI +K       +++   + D  +      + DG +V ID  
Sbjct: 18 IRIGIKTKSKELRDWIAQTLNDLGIRASRADKSDGYEVHIDGV 60


>3ee1_A Effector protein VIRA; beta barrels, six-stranded beta
           barrel, hydrolase, plasmid, protease, secreted, thiol
           protease, virulence; 3.01A {Shigella flexneri}
           (A:1-38,A:115-400)
          Length = 324

 Score = 24.7 bits (53), Expect = 4.2
 Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 14/60 (23%)

Query: 57  DLIEKDGVKVWIDSASLLYMLG--------------TEIDFKTEKLYSGFVFHNPNQVSA 102
           DLI + G+  +IDS   L  L                ++ F+TEKL    +F +P  +SA
Sbjct: 138 DLINELGINEFIDSKKELQXLSYNQLNKIINSNFPQQDLCFQTEKLLFTSLFQDPAFISA 197


>3bes_R Interferon-gamma binding protein C4R; orthopoxvirus,
          protein complex, antiviral defense, cytokine,
          glycoprotein, receptor, immune system; HET: NAG BMA;
          2.20A {Ectromelia virus} (R:1-83)
          Length = 83

 Score = 24.6 bits (53), Expect = 5.1
 Identities = 18/83 (21%), Positives = 32/83 (38%), Gaps = 11/83 (13%)

Query: 13 YRIKEIVFNSQGKAQG---IRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGVKVWID 69
          Y+ + + F+S+ +  G     ISL+  G    + M   V +   D       D V  W+ 
Sbjct: 5  YKFESVNFDSKIEWTGNGLYNISLRNYGIKTWQTMYTNVPEGTYDISGFPNNDFVSFWVK 64

Query: 70 SASLLYMLGTEIDFKTEKLYSGF 92
                    + D+K +K  +G 
Sbjct: 65 F--------EQGDYKVDKYCTGL 79


>1qho_A Alpha-amylase; glycoside hydrolase, starch degradation; HET:
           MAL ABD; 1.70A {Geobacillus stearothermophilus}
           (A:1-130,A:202-404)
          Length = 333

 Score = 24.5 bits (52), Expect = 5.4
 Identities = 7/31 (22%), Positives = 12/31 (38%), Gaps = 2/31 (6%)

Query: 39  AGLEYMVDLVTDNPVDGDDLIEKDGVKVWID 69
            G++ +VD V +N      L   D     + 
Sbjct: 120 NGIKVIVDFVPENGTIAQYLT--DAAVQLVA 148


>2uva_G Fatty acid synthase beta subunits; fungal, dehydratase,
           enoyl reductase, ketoacyl synthase, ketoacyl reductase;
           HET: FMN; 3.10A {Thermomyces lanuginosus} PDB: 2uvc_G*
           (G:135-311,G:423-557)
          Length = 312

 Score = 24.3 bits (52), Expect = 5.6
 Identities = 5/29 (17%), Positives = 13/29 (44%)

Query: 41  LEYMVDLVTDNPVDGDDLIEKDGVKVWID 69
           +  +V ++T +PV+ +           +D
Sbjct: 224 IPELVRMITYDPVNWETATVFPDATHIVD 252


>3bh4_A Alpha-amylase; calcium, carbohydrate metabolism,
           glycosidase, hydrolase, metal-binding, secreted; 1.40A
           {Bacillus amyloliquefaciens} PDB: 1e43_A 1e3z_A* 1e40_A*
           1e3x_A 1vjs_A 1ob0_A 1bli_A 1bpl_B 1bpl_A
           (A:1-101,A:204-394)
          Length = 292

 Score = 24.1 bits (51), Expect = 7.2
 Identities = 5/31 (16%), Positives = 12/31 (38%), Gaps = 2/31 (6%)

Query: 39  AGLEYMVDLVTDNPVDGDDLIEKDGVKVWID 69
             ++   D+V D+P    +   K     + +
Sbjct: 91  RNVQVYGDVVLDHPDVVAET--KKWGIWYAN 119


>2zkq_q 40S ribosomal protein S11E; protein-RNA complex, 40S
           ribosomal subunit, ribosomal protein/RNA complex; 8.70A
           {Canis familiaris} PDB: 1s1h_Q (q:)
          Length = 158

 Score = 24.1 bits (52), Expect = 7.7
 Identities = 5/28 (17%), Positives = 8/28 (28%)

Query: 84  KTEKLYSGFVFHNPNQVSACGCGQSVEI 111
           + EK +     H          G  V +
Sbjct: 101 RFEKRHKNMSVHLSPCFRDVQIGDIVTV 128


>1g94_A Alpha-amylase; beta-alpha-8-barrel, 3 domain structure,
           hydrolase; HET: DAF GLC; 1.74A {Pseudoalteromonas
           haloplanktis} (A:1-87,A:148-337)
          Length = 277

 Score = 23.6 bits (50), Expect = 8.9
 Identities = 4/31 (12%), Positives = 11/31 (35%), Gaps = 2/31 (6%)

Query: 39  AGLEYMVDLVTDNPVDGDDLIEKDGVKVWID 69
           AG++  VD +  +    + +     +     
Sbjct: 77  AGVDIYVDTLIASNYVQNTI--AAYINDLQA 105


  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
   0.319    0.137    0.398 

Gapped
Lambda     K      H
   0.267   0.0509    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 889,836
Number of extensions: 36537
Number of successful extensions: 126
Number of sequences better than 10.0: 1
Number of HSP's gapped: 113
Number of HSP's successfully gapped: 24
Length of query: 116
Length of database: 4,956,049
Length adjustment: 69
Effective length of query: 47
Effective length of database: 2,623,504
Effective search space: 123304688
Effective search space used: 123304688
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 (21.7 bits)
S2: 50 (23.6 bits)