RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780418|ref|YP_003064831.1| 50S ribosomal protein
L25/general stress protein Ctc [Candidatus Liberibacter asiaticus str.
psy62]
(191 letters)
>gnl|CDD|180166 PRK05618, PRK05618, 50S ribosomal protein L25/general stress
protein Ctc; Reviewed.
Length = 197
Score = 227 bits (581), Expect = 2e-60
Identities = 78/181 (43%), Positives = 117/181 (64%)
Query: 7 KLSAVMRDKVGKGSARLLRKNGQIPAIIYGNMSDPKPIALSAKDISKRLYSKNFMTTILT 66
L A +R++ GKG+AR LR+ G++PA+IYG +P I++ K++ K L F++T+L
Sbjct: 5 TLEAEVREEFGKGAARRLRRAGKVPAVIYGKGKEPVSISVDEKELIKALKKGAFLSTLLD 64
Query: 67 LDIGKELVHVIPKDYQLDPVSDILIHADFLQVSEGSTVTVHVPVRFINENKSPGIKQGGK 126
L++G + V+ KD Q PV D ++H DFL+V G V V VPV F+ E K G+K GG
Sbjct: 65 LEVGGKKQKVLVKDVQRHPVKDFILHVDFLRVDAGEKVKVEVPVHFVGEAKGVGVKLGGV 124
Query: 127 LNVVCHEVSLLCPANNIPDSITVDLNDLKIGDSIHMEDIRLPEKTSSMSQLNITIATIVA 186
LN V HE+ + C +IP+ I VD++ L+IGDSIH+ D++LPE + + +AT+VA
Sbjct: 125 LNQVLHELEVECLPEDIPEFIEVDVSGLEIGDSIHVSDLKLPEGVKLLDDPDEVVATVVA 184
Query: 187 P 187
P
Sbjct: 185 P 185
>gnl|CDD|162013 TIGR00731, ctc_TL5, ribosomal protein L25, Ctc-form. The
C-terminal domain of sll1824, an apparent L25 of
Synechocystis PCC6803, matches the N-terminal domain of
this family. Examples of L25 and Ctc are not separated
by a UPGMA tree built on the region of shared homology.
Length = 176
Score = 139 bits (352), Expect = 4e-34
Identities = 62/178 (34%), Positives = 103/178 (57%), Gaps = 3/178 (1%)
Query: 8 LSAVMRDKVGKGSARLLRKNGQIPAIIYGNMSDPKPIALSAKDISKRLYSKNFMTTILTL 67
L R GK +AR +RK G+IPA++YG + + L +K+ K L +T+LTL
Sbjct: 1 LEVKSRTSFGKSAARRIRKEGRIPAVVYGKGKENVNLELKSKEFIKYLRKGA-TSTVLTL 59
Query: 68 DIGKELVHVIPKDYQLDPVSDILIHADFLQVSEGSTVTVHVPVRFINENKSPGIKQGGKL 127
+IG + V+ KDYQ +PV++ +IH DFL+V EG + V VP++ I G+K GG L
Sbjct: 60 EIGGKEFKVLVKDYQYNPVTNEVIHVDFLEVVEGVKLKVEVPIKLIGT--PIGVKNGGIL 117
Query: 128 NVVCHEVSLLCPANNIPDSITVDLNDLKIGDSIHMEDIRLPEKTSSMSQLNITIATIV 185
V + + C +IPD + +D++ L +G+S+ + D+ LP S ++ + + T++
Sbjct: 118 TQVKRRIEVECKPKDIPDFLELDVSSLGVGESLKLSDLELPAGVSFITDDDEVVVTVI 175
>gnl|CDD|180318 PRK05943, PRK05943, 50S ribosomal protein L25; Reviewed.
Length = 94
Score = 71.5 bits (176), Expect = 1e-13
Identities = 32/92 (34%), Positives = 47/92 (51%)
Query: 7 KLSAVMRDKVGKGSARLLRKNGQIPAIIYGNMSDPKPIALSAKDISKRLYSKNFMTTILT 66
++A +R + GKG++R LR+ G+ PAIIYG P I L KD+ F ++T
Sbjct: 3 TINAEVRPEQGKGASRRLRRAGKFPAIIYGGNEAPVSIVLDHKDVINLQAKAEFYKEVIT 62
Query: 67 LDIGKELVHVIPKDYQLDPVSDILIHADFLQV 98
L I + V V + Q P L H DF++
Sbjct: 63 LVIDGKEVKVKVQAVQRHPFKPKLEHIDFVRA 94
>gnl|CDD|117761 pfam09208, Endonuc-MspI, Restriction endonuclease MspI. Members of
this family of prokaryotic restriction endonucleases
recognize the palindromic tetranucleotide sequence
5'-CCGG and cleave between the first and second
nucleotides, leaving 2 base 5' overhangs. They fold into
an alpha/beta architecture, with a five-stranded mixed
beta-sheet sandwiched on both sides by alpha-helices.
Length = 263
Score = 29.9 bits (67), Expect = 0.43
Identities = 30/141 (21%), Positives = 49/141 (34%), Gaps = 9/141 (6%)
Query: 52 SKRLYSKNFMTTILTLDIGKELVHVIPKDYQLDPVSDILIHADFLQVSEGSTVTVHVPVR 111
+ + Y+ N DI +L+ + D QLD + ++ D ++ G + +R
Sbjct: 46 NLKKYNTNAFAQEKYDDISSKLLKALNLDKQLDNILEVTSTDDIGRLINGGSPKTDATIR 105
Query: 112 FINENKSP-----GIKQGGKLNVVCHEVSLLCPANNIPDSITVDLNDLKIGDSIHMEDIR 166
F NK IK K V HE +I + + DLK D
Sbjct: 106 FTFHNKESRIVNISIKNTSKKKVSIHEYD----VEDICTGVGISDGDLKELIRKFQNDGS 161
Query: 167 LPEKTSSMSQLNITIATIVAP 187
T Q + T++ P
Sbjct: 162 AKLFTPVQKQRLTELDTVLEP 182
>gnl|CDD|162323 TIGR01371, met_syn_B12ind,
5-methyltetrahydropteroyltriglutamate--homocysteine
S-methyltransferase. This model describes the
cobalamin-independent methionine synthase. A family of
uncharacterized archaeal proteins is homologous to the
C-terminal region of this family. That family is
excluded from this model but, along with this family,
belongs to pfam model pfam01717.
Length = 750
Score = 27.7 bits (62), Expect = 2.0
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 31 PAIIYGNMSDPKPIAL 46
P IIYG++S PKP+ +
Sbjct: 515 PPIIYGDVSRPKPMTV 530
>gnl|CDD|162307 TIGR01341, aconitase_1, aconitate hydratase 1. This model
represents one form of the TCA cycle enzyme aconitate
hydratase, also known as aconitase and citrate
hydro-lyase. It is found in bacteria, archaea, and
eukaryotic cytosol. It has been shown to act also as an
iron-responsive element binding protein in animals and
may have the same role in other eukaryotes.
Length = 876
Score = 26.7 bits (59), Expect = 4.2
Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 5/66 (7%)
Query: 66 TLDI-GKELVHVIPKDYQLDPVSDILIHADFLQVSEGSTVTVHVPVRFINENKSPGIKQG 124
TL + G E + I L P ++ + S+G +T +R E + K G
Sbjct: 810 TLGLTGDETID-IDGIKDLKPGKEVTVTFT---NSKGEKITFKCVLRIDTEVELDYYKHG 865
Query: 125 GKLNVV 130
G L V
Sbjct: 866 GILQYV 871
>gnl|CDD|162236 TIGR01174, ftsA, cell division protein FtsA. This bacterial cell
division protein interacts with FtsZ, the bacterial
homolog of tubulin. It is an ATP-binding protein and
shows structural similarities to actin and heat shock
cognate protein 70.
Length = 371
Score = 25.7 bits (57), Expect = 7.4
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 67 LDIGKELVHVIPKDYQLD 84
+ +E++HVIP++Y LD
Sbjct: 113 IPNDQEILHVIPQEYILD 130
>gnl|CDD|148092 pfam06277, EutA, Ethanolamine utilisation protein EutA. This
family consists of several bacterial EutA ethanolamine
utilisation proteins. The EutA protein is thought to
protect the lyase (EutBC) from inhibition by CNB12.
Length = 473
Score = 25.6 bits (57), Expect = 7.4
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 56 YSKNFMTTILTLDIG 70
SK TT+L +DIG
Sbjct: 137 LSKEHHTTVLNIDIG 151
>gnl|CDD|182624 PRK10658, PRK10658, putative alpha-glucosidase; Provisional.
Length = 665
Score = 25.6 bits (57), Expect = 7.5
Identities = 7/44 (15%), Positives = 16/44 (36%), Gaps = 7/44 (15%)
Query: 100 EGSTVTVHVPVRFINENKSPGIKQGGKLNVVCHEVSLLCPANNI 143
+ + + V+ P R + E +G L+ + P +
Sbjct: 28 QDNELVVYAPPRDVRE-------RGDTLDTPLFTIRFSSPQEGV 64
>gnl|CDD|162029 TIGR00764, lon_rel, lon-related putative ATP-dependent protease.
Members of this family from Pyrococcus horikoshii and
Pyrococcus abyssi each contain a predicted intein.
Length = 608
Score = 25.2 bits (55), Expect = 9.9
Identities = 22/64 (34%), Positives = 27/64 (42%), Gaps = 6/64 (9%)
Query: 44 IALSAKDISKRLYSKNFMTTILTL---DIGKE---LVHVIPKDYQLDPVSDILIHADFLQ 97
I L K I SK I T +I KE V + K Y + +S+ IH FLQ
Sbjct: 434 IVLPIKAIVAPAESKEEGRIIATGKLGEIAKEAVTNVSALIKKYTGEDISNYDIHIQFLQ 493
Query: 98 VSEG 101
EG
Sbjct: 494 TYEG 497
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 0.379
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,975,311
Number of extensions: 178418
Number of successful extensions: 348
Number of sequences better than 10.0: 1
Number of HSP's gapped: 345
Number of HSP's successfully gapped: 27
Length of query: 191
Length of database: 5,994,473
Length adjustment: 88
Effective length of query: 103
Effective length of database: 4,092,969
Effective search space: 421575807
Effective search space used: 421575807
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 (24.6 bits)