RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780246|ref|YP_003064659.1| 50S ribosomal protein L6
[Candidatus Liberibacter asiaticus str. psy62]
(177 letters)
>gnl|CDD|180118 PRK05498, rplF, 50S ribosomal protein L6; Validated.
Length = 178
Score = 269 bits (691), Expect = 2e-73
Identities = 102/177 (57%), Positives = 133/177 (75%)
Query: 1 MSRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKK 60
MSRIGKK I +P GV+V + + + VKGPKG+LS ++ ++V +++ ++V + SKK
Sbjct: 1 MSRIGKKPIAIPAGVEVTINGNVVTVKGPKGELSRTLNPDVTVKVEDNEITVTRPDDSKK 60
Query: 61 ARAAWGMSRTMINNLFHGVTKGYERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPLEG 120
ARA G +R +INN+ GVT+G+E+KLEI GVG RA + G+ L +SLG+SH V Y EG
Sbjct: 61 ARALHGTTRALINNMVVGVTEGFEKKLEIVGVGYRAQVKGKKLNLSLGYSHPVEYEIPEG 120
Query: 121 ISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKGIRYSGEVIIRKEGKKK 177
I++ V KPTEI+V GIDKQ VG VAAEIRSYR EPYKGKGIRY+GEV+ RKEGKKK
Sbjct: 121 ITVEVPKPTEIVVKGIDKQLVGQVAAEIRSYRPPEPYKGKGIRYAGEVVRRKEGKKK 177
>gnl|CDD|163378 TIGR03654, L6_bact, ribosomal protein L6, bacterial type.
Length = 175
Score = 257 bits (659), Expect = 1e-69
Identities = 100/175 (57%), Positives = 134/175 (76%)
Query: 2 SRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKKA 61
SRIGKK I +P GV+V ++ + + VKGPKG+LS + G++V +++G L+V+ N SK+A
Sbjct: 1 SRIGKKPIAIPAGVEVTIDGNVVTVKGPKGELSRTLHPGVTVKVEDGQLTVSRPNDSKEA 60
Query: 62 RAAWGMSRTMINNLFHGVTKGYERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPLEGI 121
RA G +R +INN+ GV++G+E+KLEI GVG RA + G+ L +SLG+SH V Y EGI
Sbjct: 61 RALHGTTRALINNMVIGVSEGFEKKLEIVGVGYRAQLQGKKLNLSLGYSHPVEYEIPEGI 120
Query: 122 SIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKGIRYSGEVIIRKEGKK 176
++ V KPTEI+V GIDKQ VG VAAEIR++R EPYKGKGIRY+GEV+ RKEGKK
Sbjct: 121 TVEVPKPTEIVVKGIDKQLVGQVAAEIRAFRKPEPYKGKGIRYAGEVVRRKEGKK 175
>gnl|CDD|180122 PRK05518, rpl6p, 50S ribosomal protein L6P; Reviewed.
Length = 180
Score = 79.9 bits (198), Expect = 3e-16
Identities = 48/148 (32%), Positives = 80/148 (54%), Gaps = 6/148 (4%)
Query: 6 KKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSD-GISVTLQEGMLSVATINGSKKARAA 64
++ I++P GV V +E + VKGPKG+L+ G+++++++G + + T KK +A
Sbjct: 7 REEIEIPEGVTVEIEGLVVTVKGPKGELTRDFWYPGVTISVEDGKVVIETEFARKKTKAM 66
Query: 65 WGMSRTMINNLFHGVTKGYERKLEI--SGVGCRAFMDGRNLKMS--LGFSHDVLYTPLEG 120
G + I N+ GVT+G+E KL+I S + + G + + LG L G
Sbjct: 67 VGTFASHIKNMIKGVTEGFEYKLKIVYSHFPMQVKVQGNEVVIENFLGEKSPRRAKILGG 126
Query: 121 ISIFVSKPTEIIVSGIDKQKVGHVAAEI 148
+ + V ++IV GIDK+ VG AA I
Sbjct: 127 VKVKVKG-EDVIVEGIDKEDVGQTAANI 153
>gnl|CDD|163377 TIGR03653, arch_L6P, archaeal ribosomal protein L6P. Members of
this protein family are the archaeal ribosomal protein
L6P. The top-scoring proteins not selected by this model
are eukaryotic cytosolic ribosomal protein L9. Bacterial
ribosomal protein L6 scores lower and is described by a
distinct model.
Length = 170
Score = 75.4 bits (186), Expect = 8e-15
Identities = 47/148 (31%), Positives = 83/148 (56%), Gaps = 6/148 (4%)
Query: 6 KKAIQVPLGVDVAVEDHEIKVKGPKGQLS-FMMSDGISVTLQEGMLSVATINGSKKARAA 64
++ I++P GV V +E + + VKGPKG+++ + GI +++++G + + T KK +A
Sbjct: 1 REEIEIPEGVSVTIEGNIVTVKGPKGEVTRELWYPGIEISVEDGKVVIETDFARKKDKAM 60
Query: 65 WGMSRTMINNLFHGVTKGYERKLEI--SGVGCRAFMDGRNLKMS--LGFSHDVLYTPLEG 120
G R+ I N+ GVT+G+E K+++ S + ++G + + LG G
Sbjct: 61 VGTYRSHIKNMIKGVTEGFEYKMKVVYSHFPMQVKVEGNKVVIENFLGEKAPRRAKIPGG 120
Query: 121 ISIFVSKPTEIIVSGIDKQKVGHVAAEI 148
+ + V E+IV+GIDK+ VG AA I
Sbjct: 121 VKVKVKG-EEVIVTGIDKEDVGQTAANI 147
>gnl|CDD|140206 PTZ00179, PTZ00179, 60S ribosomal protein L9; Provisional.
Length = 189
Score = 34.1 bits (78), Expect = 0.019
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 9 IQVPLGVDVAVEDHEIKVKGPKGQLSFMMSD---GISVTLQEGMLSVATINGSKKARAAW 65
I +P V V+V+D + VKG +G L+ + V + + GSK +
Sbjct: 9 ITIPEDVTVSVKDRIVTVKGKRGTLTKDLRHLQLDFRVNKKNRTFTAVRWFGSKIPNSTI 68
Query: 66 GMSRTMINNLFHGVTKGYERKL 87
+ + + N+ GVTKG+ K+
Sbjct: 69 NTALSHVRNMITGVTKGFRFKV 90
>gnl|CDD|185403 PTZ00027, PTZ00027, 60S ribosomal protein L6; Provisional.
Length = 190
Score = 33.6 bits (77), Expect = 0.028
Identities = 40/156 (25%), Positives = 64/156 (41%), Gaps = 21/156 (13%)
Query: 9 IQVPLGVDVAVEDHEIKVKGPKGQLSFMMSD---GISVTLQEGMLSVATINGSKKARAAW 65
I++P GV V V+ ++ V G G+L+ I ++ + V G+ A
Sbjct: 10 IRIPEGVTVTVKSRKVTVTGKYGELTRSFRHLPVDIKLSKDGKYIKVEMWFGTPSHLACI 69
Query: 66 GMSRTMINNLFHGVTKGYERKLE-----------ISGVGCRAFMDGRNLKMSLGFSHDVL 114
+ I N+ GVTK ++ K+ I+ G ++ RN LG
Sbjct: 70 RTVCSHIKNMMTGVTKKFQYKMRLVYAHFPINSNITDNGKT--IEIRNF---LGEKRVRT 124
Query: 115 YTPLEGISIFVSKPT--EIIVSGIDKQKVGHVAAEI 148
L G+ + S+ EIIV+G D + V AA I
Sbjct: 125 VKMLPGVVVEKSESVKDEIIVTGADLELVSRSAALI 160
>gnl|CDD|181069 PRK07657, PRK07657, enoyl-CoA hydratase; Provisional.
Length = 260
Score = 30.5 bits (69), Expect = 0.25
Identities = 21/80 (26%), Positives = 37/80 (46%), Gaps = 7/80 (8%)
Query: 37 MSDGISVTLQEGMLSVATINGSKKARAAWGMSRTMINNLFHGVTKGYERK----LEISGV 92
M ISV + T+N + RAA +S ++ L + +T+ E + ++G
Sbjct: 1 MLQNISVDYVTPHVVKITLN---RPRAANALSLALLEELQNILTQINEEANVRVVILTGA 57
Query: 93 GCRAFMDGRNLKMSLGFSHD 112
G +AF G +LK G + +
Sbjct: 58 GEKAFCAGADLKERAGMNEE 77
>gnl|CDD|178179 PLN02566, PLN02566, amine oxidase (copper-containing).
Length = 646
Score = 30.2 bits (68), Expect = 0.29
Identities = 26/81 (32%), Positives = 36/81 (44%), Gaps = 11/81 (13%)
Query: 84 ERKLEISGVGCRAFMDG--------RNLKMSL---GFSHDVLYTPLEGISIFVSKPTEII 132
R L IS V C F G R LK+S G S +V P+EGISI + + I
Sbjct: 143 RRGLNISEVSCIPFTVGWYGETVTKRALKISCFYRGGSVNVFARPIEGISILIDVDSMQI 202
Query: 133 VSGIDKQKVGHVAAEIRSYRS 153
+ D+ + AE +R+
Sbjct: 203 IKYSDRFRAPLPKAEGTDFRT 223
>gnl|CDD|178625 PLN03076, PLN03076, ARF guanine nucleotide exchange factor
(ARF-GEF); Provisional.
Length = 1780
Score = 30.2 bits (68), Expect = 0.34
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 119 EGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSY 151
EGIS+F KP + I I+ KVG EI ++
Sbjct: 622 EGISLFNRKPKKGIEFLINANKVGESPEEIAAF 654
>gnl|CDD|150434 pfam09763, Sec3, Exocyst complex component Sec3. This entry is the
conserved middle and C-terminus of the Sec3 protein.
Sec3 binds to the C-terminal cytoplasmic domain of GLYT1
(glycine transporter protein 1). Sec3 is the exocyst
component that is closest to the plasma membrane docking
site and it serves as a spatial landmark in the plasma
membrane for incoming secretory vesicles. Sec3 is
recruited to the sites of polarized membrane growth
through its interaction with Rho1p, a small GTP-binding
protein.
Length = 690
Score = 29.2 bits (66), Expect = 0.55
Identities = 13/66 (19%), Positives = 25/66 (37%), Gaps = 8/66 (12%)
Query: 17 VAVEDHEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKKARAAWGMSRTMINNLF 76
+E ++ VK KG L F+ + + E ML A RT+++ +
Sbjct: 457 RQIERTKVNVKSRKGVLPFVRNFPVFAKRVEDMLD--------SAERRGLDVRTLVDQAY 508
Query: 77 HGVTKG 82
+ +
Sbjct: 509 EKLIEA 514
>gnl|CDD|148542 pfam06980, DUF1302, Protein of unknown function (DUF1302). This
family contains a number of hypothetical bacterial
proteins of unknown function that are approximately 600
residues long. Most family members seem to be from
Pseudomonas.
Length = 553
Score = 27.2 bits (61), Expect = 2.3
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 1/23 (4%)
Query: 99 DGRNLKMSLGFSHDVL-YTPLEG 120
G +L + +SHDV Y+P G
Sbjct: 477 AGVDLSPPIAWSHDVKGYSPDPG 499
>gnl|CDD|178300 PLN02697, PLN02697, lycopene epsilon cyclase.
Length = 529
Score = 26.3 bits (58), Expect = 4.5
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 2 SRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFM 36
+R GK + + VD D E +K +L F+
Sbjct: 47 TRGGKSGSESCVVVDEEFADEEDYIKAGGSELLFV 81
>gnl|CDD|148687 pfam07228, SpoIIE, Stage II sporulation protein E (SpoIIE). This
family contains a number of bacterial stage II
sporulation E proteins (EC:3.1.3.16). These are required
for formation of a normal polar septum during
sporulation. The N-terminal region is hydrophobic and is
expected to contain up to 12 membrane-spanning segments.
Length = 192
Score = 26.1 bits (58), Expect = 5.6
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 4/32 (12%)
Query: 12 PLGV--DVAVEDHEIKVKGPKGQLSFMMSDGI 41
PLGV D E E + G + +DG+
Sbjct: 104 PLGVLPDAPYETAEFPL--EPGDTLLLYTDGL 133
>gnl|CDD|115749 pfam07115, DUF1371, Protein of unknown function (DUF1371). This
family consists of several hypothetical bacterial
proteins of around 110 residues in length. The function
of this family is unknown but members seem to be
specific to Borrelia burgdorferi (Lyme disease
spirochete).
Length = 110
Score = 25.6 bits (56), Expect = 7.4
Identities = 23/92 (25%), Positives = 39/92 (42%), Gaps = 16/92 (17%)
Query: 35 FMMSDGISVTLQEGMLSVATINGSKKARAAWGMSRTM------INNL------FHGVTKG 82
F + DGI Q + + T+ GS WG+ ++ INNL F ++K
Sbjct: 17 FSLVDGIEEQKQRLFIFLKTLRGSLSYAPNWGLDYSLLLKLLKINNLEAVKNYFLEISK- 75
Query: 83 YERKLEISGVGCRAFMDGRNLKMSLGFSHDVL 114
E L++ + + + + +S F DVL
Sbjct: 76 -ELNLDL--INVSPSIQDKKIHISFFFLGDVL 104
>gnl|CDD|173619 PTZ00429, PTZ00429, beta-adaptin; Provisional.
Length = 746
Score = 25.7 bits (56), Expect = 7.8
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 83 YERKLEISGVGCRAFMDGRNLKMSLGFSHDVL 114
Y RK G+G + F D L F D++
Sbjct: 155 YVRKTAAMGLG-KLFHDDMQLFYQQDFKKDLV 185
>gnl|CDD|184205 PRK13646, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 286
Score = 25.5 bits (56), Expect = 8.6
Identities = 32/115 (27%), Positives = 48/115 (41%), Gaps = 33/115 (28%)
Query: 86 KLEISGVGCRAFMDGRNLKMSLGFSHDVL-YTPLEG----------ISIFVSKPTEIIV- 133
K+ + V A L M LGFS DV+ +P + +SI P I++
Sbjct: 115 KMNLDEVKNYAH----RLLMDLGFSRDVMSQSPFQMSGGQMRKIAIVSILAMNPDIIVLD 170
Query: 134 ---SGIDKQKVGHVAAEIRSYRSAEPYKGKGI-----------RYSGEVIIRKEG 174
+G+D Q V ++S ++ E K I RY+ EVI+ KEG
Sbjct: 171 EPTAGLDPQSKRQVMRLLKSLQTDE---NKTIILVSHDMNEVARYADEVIVMKEG 222
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.317 0.135 0.381
Gapped
Lambda K H
0.267 0.0880 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,827,812
Number of extensions: 170286
Number of successful extensions: 278
Number of sequences better than 10.0: 1
Number of HSP's gapped: 271
Number of HSP's successfully gapped: 23
Length of query: 177
Length of database: 5,994,473
Length adjustment: 87
Effective length of query: 90
Effective length of database: 4,114,577
Effective search space: 370311930
Effective search space used: 370311930
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (24.3 bits)