RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8849
(112 letters)
>gnl|CDD|223870 COG0799, COG0799, Uncharacterized homolog of plant Iojap protein
[Function unknown].
Length = 115
Score = 114 bits (288), Expect = 2e-34
Identities = 40/109 (36%), Positives = 69/109 (63%)
Query: 1 MNINKRQIIVIKILKDIKAQDIKVYDTSNLTNLFDRITIASGSSKRQINALAVSIRKNIK 60
M++ + ++++ L D KA+DI V D S ++L D IA+G+S R + A+A ++++ +K
Sbjct: 1 MSMEELLEVIVEALDDKKAEDIVVLDVSGKSSLTDYFVIATGNSSRHVKAIADNVKEELK 60
Query: 61 NINNNIVNIEGKKSSEWLLLDLGDIIIHIMNPYIRNMYNLEEIWGEKEI 109
+ IEG EW+L+DLGDI++H+ P R YNLE++WG+ +
Sbjct: 61 EAGEVPLRIEGLSEGEWVLIDLGDIVVHVFTPEEREFYNLEKLWGDAPV 109
>gnl|CDD|217021 pfam02410, Oligomerisation, Oligomerisation domain. In yeasts,
this domain is required for the oligomerisation of ATP
synthase subunit 9 into a ring structure.
Length = 99
Score = 111 bits (281), Expect = 1e-33
Identities = 35/96 (36%), Positives = 60/96 (62%)
Query: 9 IVIKILKDIKAQDIKVYDTSNLTNLFDRITIASGSSKRQINALAVSIRKNIKNINNNIVN 68
+++K L D KA+DI V D S +++ D IA+G+S R + A+A ++ + +K +
Sbjct: 4 LIVKALDDKKAEDIVVLDVSKKSSIADYFVIATGTSTRHVKAIADNVEEELKEAGLKPLG 63
Query: 69 IEGKKSSEWLLLDLGDIIIHIMNPYIRNMYNLEEIW 104
+EG +W+LLD GD+++HI P R Y+LE++W
Sbjct: 64 VEGLDEGDWVLLDYGDVVVHIFTPEAREFYDLEKLW 99
>gnl|CDD|161702 TIGR00090, iojap_ybeB, iojap-like ribosome-associated protein.
This model describes a widely distributed family of
bacterial proteins related to iojap from plants. It
includes YbeB from E. coli. The gene iojap is a
pattern-striping gene in maize, reflecting a chloroplast
development defect in some cells. More recent work in
bacteria suggests that the bacterial iojap-related
protein physically associates with ribosomes. The
function remains unknown [Unknown function, General].
Length = 99
Score = 110 bits (278), Expect = 4e-33
Identities = 34/96 (35%), Positives = 61/96 (63%)
Query: 9 IVIKILKDIKAQDIKVYDTSNLTNLFDRITIASGSSKRQINALAVSIRKNIKNINNNIVN 68
++++ L D KA+DI V D +++ D IASG+S R + A+A ++ + +K +
Sbjct: 4 LIVEALDDKKAEDIVVLDVRGKSSIADYFVIASGTSSRHVKAIADNVEEELKEAGLKPLG 63
Query: 69 IEGKKSSEWLLLDLGDIIIHIMNPYIRNMYNLEEIW 104
+EG + +W+L+DLGD+++HI P R Y+LE++W
Sbjct: 64 VEGLEEGDWVLVDLGDVVVHIFQPEAREFYDLEKLW 99
>gnl|CDD|183184 PRK11538, PRK11538, ribosome-associated protein; Provisional.
Length = 105
Score = 70.6 bits (173), Expect = 3e-17
Identities = 30/99 (30%), Positives = 59/99 (59%)
Query: 7 QIIVIKILKDIKAQDIKVYDTSNLTNLFDRITIASGSSKRQINALAVSIRKNIKNINNNI 66
Q VI + D+K QDI D +++ D + I +G+S R + ++A + + +
Sbjct: 7 QDFVIDKIDDLKGQDIIALDVQGKSSITDCMIICTGTSSRHVMSIADHVVQESRAAGLLP 66
Query: 67 VNIEGKKSSEWLLLDLGDIIIHIMNPYIRNMYNLEEIWG 105
+ +EG+ +++W+++DLGD+I+H+M R +Y LE++W
Sbjct: 67 LGVEGENAADWIVVDLGDVIVHVMQEESRRLYELEKLWS 105
>gnl|CDD|185387 PRK15490, PRK15490, Vi polysaccharide biosynthesis protein TviE;
Provisional.
Length = 578
Score = 28.1 bits (62), Expect = 1.0
Identities = 19/70 (27%), Positives = 36/70 (51%), Gaps = 9/70 (12%)
Query: 38 TIASGSSKRQINALAVSIRKNIKNINNNIVNIEGKKSSEWLLLDLGDIIIHIMNPYIRNM 97
++ SG ++RQI+ LA+ I + + I G K E + ++II + P +R
Sbjct: 170 SLGSGGAERQISRLAIEIARKYRQKG----KIGGLKVEEPV-----ELIIRSLTPELRQD 220
Query: 98 YNLEEIWGEK 107
+ L+E+ E+
Sbjct: 221 FFLKEVLEEQ 230
>gnl|CDD|173617 PTZ00427, PTZ00427, isoleucine-tRNA ligase, putative; Provisional.
Length = 1205
Score = 26.5 bits (58), Expect = 4.3
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 11/56 (19%)
Query: 51 LAVSIRKNIKNINNNIVNI----------EGKKSSEWLLLDLGDIIIHIMNPYIRN 96
L V + N+K + N I N+ EGK + + + L+ DIII M P +N
Sbjct: 1035 LGVKLGYNLKKVQNKIKNMDSESIKLYQQEGKITLDNVTLEGDDIIIQ-MKPNFQN 1089
>gnl|CDD|227427 COG5096, COG5096, Vesicle coat complex, various subunits
[Intracellular trafficking and secretion].
Length = 757
Score = 26.2 bits (58), Expect = 4.6
Identities = 18/121 (14%), Positives = 38/121 (31%), Gaps = 17/121 (14%)
Query: 1 MNINKRQIIVIKILKDIKAQDIKVYDTSNLTNLFDRITIASGSSKRQINALAVSIRKNIK 60
+ N+ ++ + D + + NL G+ Q + +
Sbjct: 589 LLTNQTPELLENLRLDFTLGTLSTIPLKPIFNL------RKGAVVLQQVTVKKPN-AELG 641
Query: 61 NINNNIVNIEGKKSSEWLLLDLGDIIIHI---------MNPYIRNMYNLEEIWGEKEIKF 111
I NI G + + ++L D I I Y R ++ ++E + +
Sbjct: 642 FITGNINPS-GAANEDLRDINLNDSINSISGFVNPRTVDEDYFRELWKMDEFENKIDESS 700
Query: 112 N 112
N
Sbjct: 701 N 701
>gnl|CDD|226049 COG3518, COG3518, Predicted component of the type VI protein
secretion system [Intracellular trafficking, secretion,
and vesicular transport].
Length = 157
Score = 25.8 bits (57), Expect = 5.0
Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 6/68 (8%)
Query: 22 IKVYDTSNLTNLFDRITIASGSSKR--QINALAVSIRKNIKNI-NNNIVNIEGKKSSEWL 78
I + S L LFDR A+ ++ L S+R++++ + N +
Sbjct: 4 IDTLEPSLLDRLFDREPGAADERRQVSDARQLRESVRRDLERLLNTRAGSARLLARYPEA 63
Query: 79 ---LLDLG 83
+L+ G
Sbjct: 64 ARSVLNYG 71
>gnl|CDD|237806 PRK14727, PRK14727, putative mercuric reductase; Provisional.
Length = 479
Score = 25.7 bits (56), Expect = 6.3
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 14 LKDIKAQDIKVYDTSNLTNLFDRITIASGSS 44
KD ++++D DR IA+GS+
Sbjct: 131 FKDGNTLVVRLHDGGERVLAADRCLIATGST 161
>gnl|CDD|187864 cd09733, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily
protein Cas6. CRISPR (Clustered Regularly Interspaced
Short Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Cas6 is an endoribonuclease that generates crRNAs,
predicted subunit of Cascade complex; RAMP superfamily
protein; Possesses double RRM/ferredoxin fold; also
known as AF0072 family.
Length = 193
Score = 25.3 bits (56), Expect = 6.5
Identities = 12/54 (22%), Positives = 20/54 (37%), Gaps = 9/54 (16%)
Query: 23 KVYDTSNLTNLFDRITIASGSS---------KRQINALAVSIRKNIKNINNNIV 67
K+ LF RI + G+ +RQ+ AL + +K + I
Sbjct: 95 KLRLLQPAPVLFARIVVIKGAMEEEAFLQAAQRQLEALGIQAKKMLCGRRRTIK 148
>gnl|CDD|129357 TIGR00255, TIGR00255, TIGR00255 family protein. The apparent
ortholog from Aquifex aeolicus as reported is split into
two consecutive reading frames [Hypothetical proteins,
Conserved].
Length = 291
Score = 25.6 bits (56), Expect = 6.6
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 38 TIASGSSKRQINALAVSIRKNIKNINNNIVNIE 70
T+AS + I LAV ++ I+ I I NIE
Sbjct: 259 TLASKAIDADITNLAVEMKVLIEKIKEQIQNIE 291
>gnl|CDD|146132 pfam03338, Pox_J1, Poxvirus J1 protein.
Length = 145
Score = 25.3 bits (56), Expect = 6.7
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 22 IKVYDTSNLTNLFDRITIASGSSKRQIN 49
I D L LF+RI I S + Q+N
Sbjct: 73 IDFRDLKELRQLFNRIPINPDSGRVQVN 100
>gnl|CDD|152881 pfam12447, DUF3683, Protein of unknown function (DUF3683). This
domain family is found in bacteria, and is
approximately 120 amino acids in length. The family is
found in association with pfam02754, pfam01565,
pfam02913.
Length = 117
Score = 24.9 bits (55), Expect = 7.6
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 82 LGDIIIHIMNPYIRN 96
LGDI + NPY+++
Sbjct: 53 LGDIWVVRRNPYLQD 67
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
0.319 0.137 0.380
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,772,306
Number of extensions: 501708
Number of successful extensions: 611
Number of sequences better than 10.0: 1
Number of HSP's gapped: 608
Number of HSP's successfully gapped: 55
Length of query: 112
Length of database: 10,937,602
Length adjustment: 76
Effective length of query: 36
Effective length of database: 7,566,698
Effective search space: 272401128
Effective search space used: 272401128
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: 53 (24.2 bits)