RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|255764482|ref|YP_003065169.2| methyltransferase protein
[Candidatus Liberibacter asiaticus str. psy62]
(225 letters)
>gnl|CDD|129627 TIGR00536, hemK_fam, HemK family putative methylases. The gene
hemK from E. coli was found to contribute to heme
biosynthesis and originally suggested to be
protoporphyrinogen oxidase (Medline 95189105).
Functional analysis of the nearest homolog in
Saccharomyces cerevisiae, YNL063w, finds it is not
protoporphyrinogen oxidase and sequence analysis
suggests that HemK homologs have
S-adenosyl-methionine-dependent methyltransferase
activity (Medline 99237242). Homologs are found, usually
in a single copy, in nearly all completed genomes, but
varying somewhat in apparent domain architecture. Both
E. coli and H. influenzae have two members rather than
one. The members from the Mycoplasmas have an additional
C-terminal domain.
Length = 284
Score = 39.3 bits (92), Expect = 8e-04
Identities = 34/122 (27%), Positives = 57/122 (46%), Gaps = 18/122 (14%)
Query: 3 LASLVNATGSFHLADLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANA- 61
LASL++ H+ DLG G+G LA+A A+++ + SP A + NA
Sbjct: 106 LASLISQNPILHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEE------NAE 159
Query: 62 --QISKRISLIEVDVTLVGENRNLAGLKNNFYDHVIMNPPF-NERIGTMTPDKIKEEAHV 118
Q+ R+ I+ ++ LAG K D ++ NPP+ +E P+ ++ E +
Sbjct: 160 KNQLEHRVEFIQSNLF-----EPLAGQK---IDIIVSNPPYIDEEDLADLPNVVRFEPLL 211
Query: 119 ML 120
L
Sbjct: 212 AL 213
>gnl|CDD|181780 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 38.2 bits (90), Expect = 0.002
Identities = 23/94 (24%), Positives = 38/94 (40%), Gaps = 16/94 (17%)
Query: 8 NATGSFHLADLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANAQIS--K 65
+ DLG G+GA LA+A +A++ + SP AR+ NA+
Sbjct: 105 LLKEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARR------NAKHGLGA 158
Query: 66 RISLIEVDVTLVGENRNLAGLKNNFYDHVIMNPP 99
R+ ++ D L +D ++ NPP
Sbjct: 159 RVEFLQGDW--------FEPLPGGRFDLIVSNPP 184
>gnl|CDD|163311 TIGR03534, RF_mod_PrmC, protein-(glutamine-N5) methyltransferase,
release factor-specific. Members of this protein family
are HemK (PrmC), a protein once thought to be involved
in heme biosynthesis but now recognized to be a
protein-glutamine methyltransferase that modifies the
peptide chain release factors. All members of the seed
alignment are encoded next to the release factor 1 gene
(prfA) and confirmed by phylogenetic analysis. SIMBAL
analysis (manuscript in prep.) shows the motif
[LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers
specificity for the release factors rather than for
ribosomal protein L3.
Length = 251
Score = 37.1 bits (87), Expect = 0.004
Identities = 34/142 (23%), Positives = 56/142 (39%), Gaps = 26/142 (18%)
Query: 11 GSFHLADLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANAQIS--KRIS 68
G + DLG G+GA LA+A +A++ + SP ARK NA ++
Sbjct: 87 GPLRVLDLGTGSGAIALALAKERPDARVTAVDISPEALAVARK------NAARLGLDNVT 140
Query: 69 LIEVDVTLVGENRNLAGLKNNFYDHVIMNPP---FNERIGTMTPDKIKEEAHVML---ED 122
++ D L +D ++ NPP + I + P+ E + L ED
Sbjct: 141 FLQSDW--------FEPLPGGKFDLIVSNPPYIPEAD-IHLLDPEVRFHEPRLALFGGED 191
Query: 123 SF---EKWIRTACAIMRSSGQL 141
+ I A +++ G L
Sbjct: 192 GLDFYRRIIAQAPRLLKPGGWL 213
>gnl|CDD|184963 PRK15001, PRK15001, SAM-dependent 23S ribosomal RNA mG1835
methyltransferase; Provisional.
Length = 378
Score = 34.2 bits (78), Expect = 0.027
Identities = 21/89 (23%), Positives = 44/89 (49%), Gaps = 9/89 (10%)
Query: 15 LADLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANAQISKRISLIEVDV 74
+ DLG G G GL + + +A+++ + SP+ +R L + + + E +
Sbjct: 232 IVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSR----LNVETNMPEALDRCEFMI 287
Query: 75 TLVGENRNLAGLKNNFYDHVIMNPPFNER 103
N L+G++ ++ V+ NPPF+++
Sbjct: 288 -----NNALSGVEPFRFNAVLCNPPFHQQ 311
>gnl|CDD|149354 pfam08242, Methyltransf_12, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 98
Score = 32.0 bits (73), Expect = 0.12
Identities = 16/81 (19%), Positives = 28/81 (34%), Gaps = 10/81 (12%)
Query: 17 DLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANAQISKRISLIEVDVTL 76
D+G G G A+ L + + SP A + LA A + +DV
Sbjct: 2 DIGCGTGTLLRALLEALPGLEYTGVDISPAALEAAAERLA----ALGLLDAVRVRLDVLD 57
Query: 77 VGENRNLAGLKNNFYDHVIMN 97
+ + +D V+ +
Sbjct: 58 AIDLDPGS------FDVVVAS 72
>gnl|CDD|181902 PRK09489, rsmC, 16S ribosomal RNA m2G1207 methyltransferase;
Provisional.
Length = 342
Score = 31.8 bits (73), Expect = 0.14
Identities = 24/100 (24%), Positives = 40/100 (40%), Gaps = 28/100 (28%)
Query: 14 HLADLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANAQISKRISLIEVD 73
+ D+G GAG +A + ++ L++ S +R TLA AN +E +
Sbjct: 199 KVLDVGCGAGVLSAVLARHSPKIRLTLSDVSAAALESSRATLA--ANG--------LEGE 248
Query: 74 VTLVGENRNLAGLKNNFYDHV-------IMNPPFNERIGT 106
V +N + + I NPPF++ I T
Sbjct: 249 V-----------FASNVFSDIKGRFDMIISNPPFHDGIQT 277
>gnl|CDD|128898 smart00650, rADc, Ribosomal RNA adenine dimethylases.
Length = 169
Score = 30.6 bits (70), Expect = 0.32
Identities = 23/124 (18%), Positives = 45/124 (36%), Gaps = 30/124 (24%)
Query: 54 TLALPANAQISKRISLIEVDVTLVGENRNLAGLKNNF----------------YDHVIMN 97
T L + + R++ IE+D L R +N V+ N
Sbjct: 28 TEEL---LERAARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKLQPYKVVGN 84
Query: 98 PPFNERIGT------MTPDKIKEEAHVMLEDSF-EKWIRTACAIMRSSGQLSLIARPQSL 150
P+N I T + +A +M++ + A + G+LS++ +P
Sbjct: 85 LPYN--ISTPILFKLLEEPPAFRDAVLMVQKEVARR--LAAKPGSKDYGRLSVLLQPYFD 140
Query: 151 IQIV 154
++I+
Sbjct: 141 VKIL 144
>gnl|CDD|150895 pfam10294, Methyltransf_16, Putative methyltransferase.
Length = 171
Score = 30.4 bits (69), Expect = 0.44
Identities = 17/79 (21%), Positives = 28/79 (35%), Gaps = 6/79 (7%)
Query: 18 LGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANAQISKRISLIEVDVTLV 77
LG+G G G+AVA L A + + + +K + L S + V
Sbjct: 51 LGSGCGLVGIAVALLLPGASVTITDLEE-AIELMKKNIELNKALS-----SKVTAKVLDW 104
Query: 78 GENRNLAGLKNNFYDHVIM 96
GE + D ++
Sbjct: 105 GEELPDDVFDPHPVDLILA 123
>gnl|CDD|163310 TIGR03533, L3_gln_methyl, protein-(glutamine-N5) methyltransferase,
ribosomal protein L3-specific. Members of this protein
family methylate ribosomal protein L3 on a glutamine
side chain. This family is related to HemK, a
protein-glutamine methyltranferase for peptide chain
release factors.
Length = 284
Score = 29.8 bits (68), Expect = 0.56
Identities = 23/87 (26%), Positives = 38/87 (43%), Gaps = 11/87 (12%)
Query: 14 HLADLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANAQISKRISLIEVD 73
+ DL G+G +A A EA++ + SP A + + R++LI+ D
Sbjct: 124 RILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINI---ERHGLEDRVTLIQSD 180
Query: 74 VTLVGENRNLAGLKNNFYDHVIMNPPF 100
+ L G K YD ++ NPP+
Sbjct: 181 LF-----AALPGRK---YDLIVSNPPY 199
>gnl|CDD|177639 PHA03411, PHA03411, putative methyltransferase; Provisional.
Length = 279
Score = 28.9 bits (64), Expect = 1.1
Identities = 26/104 (25%), Positives = 40/104 (38%), Gaps = 17/104 (16%)
Query: 7 VNATGSFHLADLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANAQISKR 66
++A + + DL AG G + R +I+ E +P A ++ L P I+
Sbjct: 60 IDAHCTGKVLDLCAGIGRLSFCMLHRCKPEKIVCVELNPEFARIGKRLL--PEAEWITSD 117
Query: 67 ISLIEVDVTLVGENRNLAGLKNNFYDHVIMNPPFNERIGTMTPD 110
+ E N +D VI NPPF + T T D
Sbjct: 118 VFEFE---------------SNEKFDVVISNPPFGKINTTDTKD 146
>gnl|CDD|184930 PRK14966, PRK14966, unknown domain/N5-glutamine
S-adenosyl-L-methionine-dependent methyltransferase
fusion protein; Provisional.
Length = 423
Score = 28.5 bits (63), Expect = 1.4
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 13/87 (14%)
Query: 17 DLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLA-LPANAQISKRISLIEVDVT 75
DLG G+GA + VA +A + ++ SP ARK A L A + + S + D+
Sbjct: 257 DLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLGARVEFAHG-SWFDTDMP 315
Query: 76 LVGENRNLAGLKNNFYDHVIMNPPFNE 102
G+ +D ++ NPP+ E
Sbjct: 316 SEGK-----------WDIIVSNPPYIE 331
>gnl|CDD|139246 PRK12814, PRK12814, putative NADPH-dependent glutamate synthase
small subunit; Provisional.
Length = 652
Score = 28.5 bits (64), Expect = 1.6
Identities = 23/88 (26%), Positives = 30/88 (34%), Gaps = 26/88 (29%)
Query: 21 GAGAAGLAVASRL----HEAQILLAERSP-LMAHYARKTLALPANAQISKRISLIEVDV- 74
GAG AGL A L H+ I A M Y LP S+I+ D+
Sbjct: 200 GAGPAGLTAAYYLLRKGHDVTIFDANEQAGGMMRYGIPRFRLPE--------SVIDADIA 251
Query: 75 ------------TLVGENRNLAGLKNNF 90
T+ G + L L+ F
Sbjct: 252 PLRAMGAEFRFNTVFGRDITLEELQKEF 279
>gnl|CDD|180899 PRK07233, PRK07233, hypothetical protein; Provisional.
Length = 434
Score = 28.3 bits (64), Expect = 1.8
Identities = 14/38 (36%), Positives = 16/38 (42%), Gaps = 10/38 (26%)
Query: 21 GAGAAGLAVASRL----HEAQILLAERSP----LMAHY 50
G G AGLA A RL HE + E L A +
Sbjct: 6 GGGIAGLAAAYRLAKRGHEVTVF--EADDQLGGLAASF 41
>gnl|CDD|163170 TIGR03169, Nterm_to_SelD, pyridine nucleotide-disulfide
oxidoreductase family protein. Members of this protein
family include N-terminal sequence regions of (probable)
bifunctional proteins whose C-terminal sequences are
SelD, or selenide,water dikinase, the selenium donor
protein necessary for selenium incorporation into
protein (as selenocysteine), tRNA (as 2-selenouridine),
or both. However, some members of this family occur in
species that do not show selenium incorporation, and the
function of this protein family is unknown.
Length = 364
Score = 28.0 bits (63), Expect = 2.1
Identities = 16/61 (26%), Positives = 24/61 (39%), Gaps = 10/61 (16%)
Query: 2 ILASLVNATGSFHLADLGAGAGAAGLAVASRLHEA--------QILLAERSPLMAHYARK 53
+L S G+ LA G GAAG+ +A L Q+ L + L+ + K
Sbjct: 135 LLESADAPPGTKRLA--VVGGGAAGVEIALALRRRLPKRGLRGQVTLIAGASLLPGFPAK 192
Query: 54 T 54
Sbjct: 193 V 193
>gnl|CDD|179629 PRK03673, PRK03673, hypothetical protein; Provisional.
Length = 396
Score = 27.7 bits (62), Expect = 2.4
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 5/52 (9%)
Query: 17 DLGAGAGAAGLAVASRLHEAQI-----LLAERSPLMAHYARKTLALPANAQI 63
DL A A A LHE + AER +MA RK LPA+A++
Sbjct: 76 DLSALAAATAAGEGLVLHEEWLAEMERFFAERGRVMAPSNRKQAELPASAEM 127
>gnl|CDD|181354 PRK08287, PRK08287, cobalt-precorrin-6Y C(15)-methyltransferase;
Validated.
Length = 187
Score = 27.7 bits (62), Expect = 2.6
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 5 SLVNATGSFHLADLGAGAGAAGLAVASRLHEAQILLAERSP 45
S + + HL D+GAG G+ + A + Q+ ER+P
Sbjct: 25 SKLELHRAKHLIDVGAGTGSVSIEAALQFPSLQVTAIERNP 65
>gnl|CDD|162642 TIGR01988, Ubi-OHases, Ubiquinone biosynthesis hydroxylase,
UbiH/UbiF/VisC/COQ6 family. This model represents a
family of FAD-dependent hydroxylases (monooxygenases)
which are all believed to act in the aerobic ubiquinone
biosynthesis pathway. A separate set of hydroxylases,
as yet undiscovered, are believed to be active under
anaerobic conditions. In E. coli three enzyme
activities have been described, UbiB (which acts first
at position 6, see TIGR01982), UbiH (which acts at
position 4, ) and UbiF (which acts at position 5). UbiH
and UbiF are similar to one another and form the basis
of this subfamily. Interestingly, E. coli contains
another hydroxylase gene, called visC, that is highly
similar to UbiF, adjacent to UbiH and, when mutated,
results in a phenotype similar to that of UbiH (which
has also been named visB). Several other species appear
to have three homologs in this family, although they
assort themselves differently on phylogenetic trees
(e.g. Xylella and Mesorhizobium) making it difficult to
ascribe a specific activity to each one. Eukaryotes
appear to have only a single homolog in this subfamily
(COQ6) which complements UbiH, but also possess a
non-orthologous gene, COQ7 which complements UbiF.
Length = 385
Score = 27.6 bits (62), Expect = 2.6
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 7/55 (12%)
Query: 20 AGAGAAGLAVASRL--HEAQILLAERSPLMAHYA----RKTLAL-PANAQISKRI 67
G G GLA+A L +I L E +P A + AL A+ ++ +++
Sbjct: 5 VGGGMVGLALALALARSGLKIALIEATPAEAAATPGFDNRVSALSAASIRLLEKL 59
>gnl|CDD|181663 PRK09126, PRK09126, hypothetical protein; Provisional.
Length = 392
Score = 27.2 bits (61), Expect = 3.3
Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 8/41 (19%)
Query: 21 GAGAAGLAVASRLHEAQ--ILLAERSPLMAHYARKTLALPA 59
GAG AGL+ A L + + L ER PL LA PA
Sbjct: 10 GAGPAGLSFARSLAGSGLKVTLIERQPL------AALADPA 44
>gnl|CDD|136070 PRK06823, PRK06823, ornithine cyclodeaminase; Validated.
Length = 315
Score = 26.7 bits (59), Expect = 4.6
Identities = 11/32 (34%), Positives = 15/32 (46%)
Query: 25 AGLAVASRLHEAQILLAERSPLMAHYARKTLA 56
AGL L E + LA+ P + + TLA
Sbjct: 262 AGLLAHHNLTELGLALAQGIPFRENDQQITLA 293
>gnl|CDD|183358 PRK11883, PRK11883, protoporphyrinogen oxidase; Reviewed.
Length = 451
Score = 26.7 bits (60), Expect = 4.8
Identities = 13/29 (44%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 21 GAGAAGLAVASRLHE----AQILLAERSP 45
G G GL+ A RLH+ A I L E S
Sbjct: 7 GGGITGLSAAYRLHKKGPDADITLLEASD 35
>gnl|CDD|114555 pfam05834, Lycopene_cycl, Lycopene cyclase protein. This family
consists of lycopene beta and epsilon cyclase proteins.
Carotenoids with cyclic end groups are essential
components of the photosynthetic membranes in all
plants, algae, and cyanobacteria. These lipid-soluble
compounds protect against photo-oxidation, harvest
light for photosynthesis, and dissipate excess light
energy absorbed by the antenna pigments. The
cyclisation of lycopene (psi, psi-carotene) is a key
branch point in the pathway of carotenoid biosynthesis.
Two types of cyclic end groups are found in higher
plant carotenoids: the beta and epsilon rings.
Carotenoids with two beta rings are ubiquitous, and
those with one beta and one epsilon ring are common;
however, carotenoids with two epsilon rings are rare.
Length = 374
Score = 26.5 bits (59), Expect = 5.6
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 20 AGAGAAGLAVASRLHEAQ----ILLAERSP 45
GAG AGL +A RL +A+ +LL + P
Sbjct: 5 VGAGLAGLLLALRLRQARPGLRVLLIDAGP 34
>gnl|CDD|185348 PRK15451, PRK15451, tRNA cmo(5)U34 methyltransferase; Provisional.
Length = 247
Score = 26.5 bits (58), Expect = 6.2
Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 17 DLGAGAGAAGLAVASRLHEA--QILLAERSPLMAHYARK 53
DLG GAA L+V +H +I+ + SP M R+
Sbjct: 62 DLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRR 100
>gnl|CDD|183320 PRK11805, PRK11805, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 307
Score = 26.3 bits (59), Expect = 6.3
Identities = 23/98 (23%), Positives = 39/98 (39%), Gaps = 11/98 (11%)
Query: 3 LASLVNATGSFHLADLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANAQ 62
A + + DL G+G +A A +A++ + SP A +
Sbjct: 125 FAPWLEDPPVTRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIE---RHG 181
Query: 63 ISKRISLIEVDVTLVGENRNLAGLKNNFYDHVIMNPPF 100
+ R++LIE D+ A L YD ++ NPP+
Sbjct: 182 LEDRVTLIESDL--------FAALPGRRYDLIVSNPPY 211
>gnl|CDD|180546 PRK06370, PRK06370, mercuric reductase; Validated.
Length = 463
Score = 26.3 bits (59), Expect = 7.2
Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 21 GAGAAGLAVASRLHEA--QILLAERSPL 46
GAG AG +A+R ++ L ER L
Sbjct: 12 GAGQAGPPLAARAAGLGMKVALIERGLL 39
>gnl|CDD|185595 PTZ00396, PTZ00396, Casein kinase II subunit beta; Provisional.
Length = 251
Score = 26.1 bits (58), Expect = 8.1
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 69 LIEVDVTLVGENRNLAGLKN--NFYDHVI 95
L EVD + + NL GLK+ FY+ +
Sbjct: 36 LCEVDEDFIRDEFNLYGLKSKFPFYNEAL 64
>gnl|CDD|183826 PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed.
Length = 830
Score = 25.8 bits (58), Expect = 8.3
Identities = 13/58 (22%), Positives = 19/58 (32%), Gaps = 13/58 (22%)
Query: 88 NNF--------YDHVIMNPP----FNERIGTMTPDKIKEEAHVMLEDSFEKWIRTACA 133
NF YD V MN + +R + + + E M ED E +
Sbjct: 619 RNFDIRKQLLEYDDV-MNDQRKVIYAQRNEILEGEDLSETILDMREDVIEDLVDAYIP 675
>gnl|CDD|184644 PRK14357, glmU, bifunctional N-acetylglucosamine-1-phosphate
uridyltransferase/glucosamine-1-phosphate
acetyltransferase; Provisional.
Length = 448
Score = 25.9 bits (57), Expect = 8.4
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 187 GMRGQLRFRYPIVLHKPNGQPYSRFVTDL 215
G +++ + P VLHK +G+P +V D
Sbjct: 9 GKGTRMKSKIPKVLHKISGKPMINWVIDT 37
>gnl|CDD|182113 PRK09853, PRK09853, putative selenate reductase subunit YgfK;
Provisional.
Length = 1019
Score = 26.1 bits (58), Expect = 8.4
Identities = 23/88 (26%), Positives = 35/88 (39%), Gaps = 18/88 (20%)
Query: 21 GAGAAGLAVASRL----HEAQILLAERSP--LMAHYA---RKTLALPANAQISKRISLIE 71
GAG AGLA A L H + E + ++ + R +PA I I ++
Sbjct: 546 GAGPAGLAAAYFLARAGHPVTVFEREENAGGVVKNIIPQFR----IPAEL-IQHDIEFVK 600
Query: 72 ---VDVTL-VGENRNLAGLKNNFYDHVI 95
V + + LKN YD+V+
Sbjct: 601 AHGVKFEFGCSPDLTVEQLKNEGYDYVV 628
>gnl|CDD|183312 PRK11783, rlmL, 23S rRNA m(2)G2445 methyltransferase; Provisional.
Length = 702
Score = 25.9 bits (58), Expect = 9.7
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 94 VIMNPPFNERIGTMT 108
VI NPP+ ER+G
Sbjct: 307 VISNPPYGERLGEEP 321
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
0.322 0.136 0.392
Gapped
Lambda K H
0.267 0.0650 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,723,387
Number of extensions: 239198
Number of successful extensions: 627
Number of sequences better than 10.0: 1
Number of HSP's gapped: 624
Number of HSP's successfully gapped: 46
Length of query: 225
Length of database: 5,994,473
Length adjustment: 90
Effective length of query: 135
Effective length of database: 4,049,753
Effective search space: 546716655
Effective search space used: 546716655
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: 55 (25.1 bits)