RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 029665
(190 letters)
>gnl|CDD|185485 PTZ00156, PTZ00156, 60S ribosomal protein L11; Provisional.
Length = 172
Score = 333 bits (856), Expect = e-119
Identities = 135/171 (78%), Positives = 155/171 (90%)
Query: 13 KKLSNPMREIKVQKLVLNISVGESGDRLTRAAKVLEQLSGQTPVFSKARYTVRSFGIRRN 72
K NPMR+I+++KLVLNI VGESGDRLTRAAKVLEQL+GQ PVFSKARYTVRSFGIRRN
Sbjct: 2 SKKENPMRKIRIEKLVLNICVGESGDRLTRAAKVLEQLTGQKPVFSKARYTVRSFGIRRN 61
Query: 73 EKIACYVTVRGDKAMQLLESGLKVKEYELLRRNFSDTGCFGFGIQEHIDLGIKYDPSTGI 132
EKIAC+VTVRGDKA ++LE GLKVKE+EL +RNFSDTG FGFGIQEHIDLGIKYDPSTGI
Sbjct: 62 EKIACHVTVRGDKAEEILERGLKVKEFELKKRNFSDTGNFGFGIQEHIDLGIKYDPSTGI 121
Query: 133 YGMDFFVVLERPGYRVGRRRRCKSRVGIQHRVTKEDAMKWFQVKYEGVILN 183
YGMDF+VVL RPG+RV RR+R +S+VG HRVTKE+AMKWF+ ++G+ILN
Sbjct: 122 YGMDFYVVLGRPGFRVARRKRKQSKVGKSHRVTKEEAMKWFKTTFDGIILN 172
>gnl|CDD|235259 PRK04219, rpl5p, 50S ribosomal protein L5P; Reviewed.
Length = 177
Score = 234 bits (599), Expect = 1e-79
Identities = 82/163 (50%), Positives = 119/163 (73%), Gaps = 1/163 (0%)
Query: 16 SNPMREIKVQKLVLNISVGESGDRLTRAAKVLEQLSGQTPVFSKARYTVRSFGIRRNEKI 75
NPMR+ +++K+V+NI VGESG+RLT+A K+LE+L+GQ PV ++A+ T+ FGIR+ E I
Sbjct: 9 MNPMRKPRIEKVVVNIGVGESGERLTKAEKLLEELTGQKPVRTRAKKTIPDFGIRKGEPI 68
Query: 76 ACYVTVRGDKAMQLLESGLKVKEYELLRRNFSDTGCFGFGIQEHIDL-GIKYDPSTGIYG 134
VT+RG+KA + L++ L+ L +F +TG FGI+EHID G+KYDP GI+G
Sbjct: 69 GVKVTLRGEKAEEFLKTALEAVGNRLKASSFDETGNVSFGIEEHIDFPGVKYDPEIGIFG 128
Query: 135 MDFFVVLERPGYRVGRRRRCKSRVGIQHRVTKEDAMKWFQVKY 177
MD V LERPGYRV RRRR + ++ +HRVTKE+A+++ + +
Sbjct: 129 MDVCVTLERPGYRVARRRRKRRKIPSRHRVTKEEAIEFLEENF 171
>gnl|CDD|223172 COG0094, RplE, Ribosomal protein L5 [Translation, ribosomal
structure and biogenesis].
Length = 180
Score = 174 bits (444), Expect = 4e-56
Identities = 56/158 (35%), Positives = 87/158 (55%), Gaps = 10/158 (6%)
Query: 16 SNPMREIKVQKLVLNISVGES---GDRLTRAAKVLEQLSGQTPVFSKARYTVRSFGIRRN 72
SNPM+ +++K+V+N+ VGE+ G RL +AAK LE ++GQ PV +KA+ ++ F IR
Sbjct: 23 SNPMQVPRIEKVVVNMGVGEAAADGKRLEKAAKDLELITGQKPVITKAKKSIAGFKIREG 82
Query: 73 EKIACYVTVRGDKAMQLLESGL-----KVKEYELL-RRNFSDTGCFGFGIQEHIDL-GIK 125
I VT+RG++ + L+ L +V+++ L ++F G + FGI+E I I
Sbjct: 83 MPIGVKVTLRGERMYEFLDRLLNIALPRVRDFRGLSPKSFDGRGNYSFGIKEQIIFPEID 142
Query: 126 YDPSTGIYGMDFFVVLERPGYRVGRRRRCKSRVGIQHR 163
YDP GI GMD +V G R + + R
Sbjct: 143 YDPIIGIRGMDITIVTTAKGDVEARALLSAFGIPFRKR 180
>gnl|CDD|201383 pfam00673, Ribosomal_L5_C, ribosomal L5P family C-terminus. This
region is found associated with pfam00281.
Length = 95
Score = 94.9 bits (237), Expect = 9e-26
Identities = 34/108 (31%), Positives = 50/108 (46%), Gaps = 21/108 (19%)
Query: 74 KIACYVTVRGDKAMQLLESGLKV------KEYELLRRNFSDTGCFGFGIQEHIDL-GIKY 126
I C VT+RG+K + L+ + V L ++F G + FGI+EHI IKY
Sbjct: 1 PIGCKVTLRGEKMYEFLDRLINVALPRIRDFRGLSPKSFDGRGNYSFGIKEHIIFPEIKY 60
Query: 127 DPSTGIYGMDFFVVLERPGYRVGRRRRCKSRVGIQHR-VTKEDAMKWF 173
DP GI+GMD +V ++ + R + KE M +F
Sbjct: 61 DPIIGIFGMDITIV-------------TTAKTDKEARALLKELGMPFF 95
>gnl|CDD|109342 pfam00281, Ribosomal_L5, Ribosomal protein L5.
Length = 56
Score = 73.1 bits (180), Expect = 7e-18
Identities = 26/56 (46%), Positives = 40/56 (71%), Gaps = 2/56 (3%)
Query: 17 NPMREIKVQKLVLNISVGESGDR--LTRAAKVLEQLSGQTPVFSKARYTVRSFGIR 70
N M K++K+V+N+ VGE+GD L +AA LE++SGQ P+ +KA+ ++ SF IR
Sbjct: 1 NVMEVPKLEKIVVNMGVGEAGDNKILEKAALELEEISGQKPIITKAKKSIASFKIR 56
>gnl|CDD|178791 PRK00010, rplE, 50S ribosomal protein L5; Validated.
Length = 179
Score = 63.6 bits (156), Expect = 6e-13
Identities = 47/147 (31%), Positives = 68/147 (46%), Gaps = 34/147 (23%)
Query: 16 SNPMREIKVQKLVLNISVGE-SGDR--LTRAAKVLEQLSGQTPVFSKARYTVRSFGIRRN 72
N M+ K++K+VLN+ VGE D+ L A + L ++GQ PV +KA+ ++ F +R
Sbjct: 23 KNVMQVPKLEKIVLNMGVGEAVADKKLLENAVEDLTLITGQKPVVTKAKKSIAGFKLREG 82
Query: 73 EKIACYVTVRGDKAMQLLESGLKVKEYELLRR------------------NFSDTGCFGF 114
I C VT+RG++ M YE L R +F G +
Sbjct: 83 MPIGCKVTLRGER-M-----------YEFLDRLINIALPRVRDFRGLSPKSFDGRGNYTL 130
Query: 115 GIQEHID-LGIKYDPSTGIYGMDFFVV 140
GI+E I I YD I GMD +V
Sbjct: 131 GIKEQIIFPEIDYDKIDKIRGMDITIV 157
>gnl|CDD|214356 CHL00078, rpl5, ribosomal protein L5.
Length = 181
Score = 48.7 bits (117), Expect = 1e-07
Identities = 35/128 (27%), Positives = 68/128 (53%), Gaps = 18/128 (14%)
Query: 23 KVQKLVLNISVGESGDRLTRAAKVLEQ-------LSGQTPVFSKARYTVRSFGIRRNEKI 75
K++K+V+N +GE+ ++ +K+LE ++GQ P+ ++A+ + F IR +
Sbjct: 31 KLKKIVINRGLGEA----SQNSKILESSIKELTIITGQKPIITRAKKAIAGFKIREKMPV 86
Query: 76 ACYVTVRGDKAMQLLESGL-----KVKEYE-LLRRNFSDTGCFGFGIQEH-IDLGIKYDP 128
VT+RGDK L+ + ++++++ L ++F G + G++E + I YD
Sbjct: 87 GVSVTLRGDKMYAFLDRLINLALPRIRDFQGLSPKSFDGHGNYNLGLKEQLMFPEIDYDK 146
Query: 129 STGIYGMD 136
I GMD
Sbjct: 147 IDQIRGMD 154
>gnl|CDD|153172 cd04900, ACT_UUR-like_1, ACT domain family, ACT_UUR-like_1,
includes the first of two C-terminal ACT domains of the
bacterial signal-transducing uridylyltransferase
/uridylyl-removing (UUR) enzyme, GlnD and related
domains. This ACT domain family, ACT_UUR-like_1,
includes the first of two C-terminal ACT domains of the
bacterial signal-transducing uridylyltransferase
/uridylyl-removing (UUR) enzyme, GlnD; including those
enzymes similar to the GlnD found in enteric Escherichia
coli and those found in photosynthetic, nitrogen-fixing
bacterium Rhodospirillum rubrum. Also included in this
CD is the N-terminal ACT domain of a yet characterized
Arabidopsis/Oryza predicted tyrosine kinase. Members of
this CD belong to the superfamily of ACT regulatory
domains.
Length = 73
Score = 26.3 bits (59), Expect = 3.6
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 133 YGMDFFVVLERPGYRVGRRRRCKSRVGIQHRVTKE 167
Y +D FVVL+ G +G R R I+ +
Sbjct: 41 YALDTFVVLDPDGEPIGERERLAR---IREALEDA 72
>gnl|CDD|181625 PRK09051, PRK09051, beta-ketothiolase; Provisional.
Length = 394
Score = 27.6 bits (62), Expect = 4.7
Identities = 22/61 (36%), Positives = 25/61 (40%), Gaps = 8/61 (13%)
Query: 38 DRLTRAAKVLEQLSGQTPVFSKARYTV---RSFGIRRNEKIACYVTVRGDKAMQLLESGL 94
D RA LE L+ PVF K TV + GI N+ A V D A GL
Sbjct: 217 DEHVRADTTLEDLAKLKPVFKKENGTVTAGNASGI--NDGAAAVVLAEADAAEAR---GL 271
Query: 95 K 95
K
Sbjct: 272 K 272
>gnl|CDD|218740 pfam05768, DUF836, Glutaredoxin-like domain (DUF836). These
proteins are related to the pfam00462 family.
Length = 76
Score = 25.7 bits (57), Expect = 5.4
Identities = 11/79 (13%), Positives = 23/79 (29%), Gaps = 22/79 (27%)
Query: 84 DKAMQLLESGLKVKEYELLRRNFSDTGCFGFGIQEHIDLGIKYDPSTGIYGMDFFVVLER 143
+ A ++L ++L R + I + +L +Y V+
Sbjct: 14 EGAKEVLAELEAALGFDLERID----------IDDDEELFARYGLEIP-------VLA-- 54
Query: 144 PGYRVGRRRRCKSRVGIQH 162
VG R+ +
Sbjct: 55 ---LVGILEILSWRLDEEQ 70
>gnl|CDD|226076 COG3546, COG3546, Mn-containing catalase [Inorganic ion transport
and metabolism].
Length = 277
Score = 27.0 bits (60), Expect = 5.9
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 43 AAKVLEQLSGQTPVFSKA-RYTVRSFGIR 70
A + EQL G S A +Y + F +R
Sbjct: 22 AKLLQEQLGGAFGELSAAMQYLFQGFNVR 50
>gnl|CDD|224446 COG1529, CoxL, Aerobic-type carbon monoxide dehydrogenase, large
subunit CoxL/CutL homologs [Energy production and
conversion].
Length = 731
Score = 27.3 bits (61), Expect = 6.0
Identities = 20/106 (18%), Positives = 31/106 (29%), Gaps = 29/106 (27%)
Query: 71 RNEKIACYV---------TVRGD---KAMQLLESG-------LKVKEYELLRRNFSDTGC 111
I Y+ RG + LE L + E+ RN G
Sbjct: 326 EAVYIEPYLVHTNMPPNGAYRGAGRPEGTFALERAVDELAEELGIDPVEIRLRNLIRGGP 385
Query: 112 FGFGIQEHIDLGIKYDPSTGIYGMDFFVVLERPGYRVGRRRRCKSR 157
FG G + YD + +D +R G+ + +R
Sbjct: 386 FGLGRR--------YDSGDYLEELDE--AAKRFGWSERPVKPIWTR 421
>gnl|CDD|236950 PRK11664, PRK11664, ATP-dependent RNA helicase HrpB; Provisional.
Length = 812
Score = 27.2 bits (61), Expect = 7.2
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 3/27 (11%)
Query: 142 ERPGYRVGRRRRCKSRVGIQHR---VT 165
E+PG VG R R +S+VG R VT
Sbjct: 74 EKPGETVGYRMRAESKVGPNTRLEVVT 100
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.323 0.139 0.406
Gapped
Lambda K H
0.267 0.0539 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,759,531
Number of extensions: 915081
Number of successful extensions: 733
Number of sequences better than 10.0: 1
Number of HSP's gapped: 724
Number of HSP's successfully gapped: 20
Length of query: 190
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 99
Effective length of database: 6,901,388
Effective search space: 683237412
Effective search space used: 683237412
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: 56 (25.8 bits)