RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14358
(381 letters)
>gnl|CDD|216686 pfam01762, Galactosyl_T, Galactosyltransferase. This family
includes the galactosyltransferases
UDP-galactose:2-acetamido-2-deoxy-D-glucose3beta-
galactosyltransferase and UDP-Gal:beta-GlcNAc beta
1,3-galactosyltranferase. Specific
galactosyltransferases transfer galactose to GlcNAc
terminal chains in the synthesis of the lacto-series
oligosaccharides types 1 and 2.
Length = 196
Score = 122 bits (308), Expect = 3e-33
Identities = 59/198 (29%), Positives = 91/198 (45%), Gaps = 19/198 (9%)
Query: 99 DKRRLIRNTWG-------TRVSVYFFIGETDPSNQTRLDI---ESETYHDIVQGRFWDSY 148
+R IR TW R+ F +G + ++ D+ E++ Y DIV F D+Y
Sbjct: 1 ARRNAIRKTWMNKGNSEGGRIKSLFLVGLSADTDGKVKDLVMEEAKLYGDIVVVDFEDTY 60
Query: 149 RNLTYKHTMVFKWVVYNCPHVKYVFKLDDDVFMNVIQLDELLTRTLSPHGTRNLLMCPIV 208
NLT+K + V P KY+ K+DDDV+ +L LL R V
Sbjct: 61 ENLTFKTLTGLLYAVSKAPSAKYIGKIDDDVYFFPDKLLSLLDRGNINP--SESSFYGYV 118
Query: 209 WEKLPVLRTYRSKWRVSFSEYRDHFYPPHCHGNALLYSPDVVFKLY---QHLQTDQEYFW 265
++ PV+R +SKW V S+Y YPP+ G L S D L +H + +
Sbjct: 119 MKEGPVIRNKKSKWYVPPSDYPCSRYPPYASGPFYLLSRDAAELLLKASKHRR----FLQ 174
Query: 266 VDDVFITGIVFSKLNLTH 283
++DV++TGI+ L ++
Sbjct: 175 IEDVYVTGILADDLGISR 192
>gnl|CDD|215596 PLN03133, PLN03133, beta-1,3-galactosyltransferase; Provisional.
Length = 636
Score = 68.3 bits (167), Expect = 2e-12
Identities = 66/214 (30%), Positives = 96/214 (44%), Gaps = 22/214 (10%)
Query: 56 SSDLLPPDDSTRLINLTNFEFLINPPC--LDTVYLVL-IHSAPYNYDKRRLIRNTW---- 108
+S L +DS +I+L E L +PP + L + + S N+ +R +R TW
Sbjct: 356 ASGLPTSEDSEHVIDL---EALKSPPLSPKKPLDLFIGVFSTANNFKRRMAVRRTWMQYD 412
Query: 109 ---GTRVSVYFFIG-ETDPSNQTRLDIESETYHDIVQGRFWDSYRNLTYKHTMVFKWVVY 164
V+V FF+G + L E+ TY DI F D Y +T+K T+
Sbjct: 413 AVRSGAVAVRFFVGLHKNQMVNEELWNEARTYGDIQLMPFVDYYSLITWK-TLAICIFGT 471
Query: 165 NCPHVKYVFKLDDDVFMNVIQLDELLTRTLSPHGTRNLLMCPIVWEKLPVLRTYRSKWRV 224
KYV K DDD F+ V ++ L RT HG LL I + P SKW +
Sbjct: 472 EVVSAKYVMKTDDDAFVRVDEVLASLKRTNVSHG---LLYGLINSDSQPHRNPD-SKWYI 527
Query: 225 SFSEYRDHFYPPHCHGNALLYSPDV---VFKLYQ 255
S E+ + YPP HG + S D+ V+K ++
Sbjct: 528 SPEEWPEETYPPWAHGPGYVVSRDIAKEVYKRHK 561
>gnl|CDD|215477 PLN02882, PLN02882, aminoacyl-tRNA ligase.
Length = 1159
Score = 31.2 bits (71), Expect = 1.1
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 338 YSKMDLQYYDPHKTLFAYLWEKDYVFK-YKYMYVATYVNTSL 378
Y MD ++ + +F L+EK V+K +K M +T T L
Sbjct: 147 YKTMDPKFMESVWWVFKQLFEKGLVYKGFKVMPYSTACKTPL 188
>gnl|CDD|178735 PLN03193, PLN03193, beta-1,3-galactosyltransferase; Provisional.
Length = 408
Score = 30.3 bits (68), Expect = 1.6
Identities = 36/126 (28%), Positives = 53/126 (42%), Gaps = 28/126 (22%)
Query: 88 LVLIHSAPYNYDKRRLIRNTW---GTR---------VSVYFFIGETDPSNQTRLD--IES 133
+V I++A + +R +R TW G + + + F IG + S LD IE+
Sbjct: 142 VVGINTAFSSRKRRDSVRATWMPQGEKRKKLEEEKGIIIRFVIGHSATSGGI-LDRAIEA 200
Query: 134 ETYH-------DIVQGRFWDSYRNLTYKHTMVFKWVVYNCPHVKYVFKLDDDVFMNVIQL 186
E D V+G S + TY T V W + K+DDDV +N+ L
Sbjct: 201 EDRKHGDFLRLDHVEGYLELSAKTKTYFATAVAMW------DADFYVKVDDDVHVNIATL 254
Query: 187 DELLTR 192
E L R
Sbjct: 255 GETLVR 260
>gnl|CDD|130148 TIGR01076, sortase_fam, LPXTG-site transpeptidase (sortase) family
protein. This family includes Staphylococcus aureus
sortase, a transpeptidase that attaches surface proteins
by the Thr of an LPXTG motif to the cell wall. It also
includes a protein required for correct assembly of an
LPXTG-containing fimbrial protein, a set of homologous
proteins from Streptococcus pneumoniae, in which LPXTG
proteins are common. However, related proteins are found
in Bacillus subtilis and Methanobacterium
thermoautotrophicum, in which LPXTG-mediated cell wall
attachment is not known [Cell envelope, Other, Protein
fate, Protein and peptide secretion and trafficking].
Length = 136
Score = 28.6 bits (64), Expect = 2.6
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 64 DSTRLINLTNFEFLINPPCLDTVYLVLIHSAPYNYDKRRLIRNTWGTRVSVY 115
ST+++ T+ E L+ D YL LI PY + RL+ G R+
Sbjct: 84 TSTKIVEPTDTEVLLIQHGKD--YLTLITCTPYMINTHRLL--VRGKRIPYV 131
>gnl|CDD|235780 PRK06330, PRK06330, transcript cleavage factor/unknown domain
fusion protein; Validated.
Length = 718
Score = 29.3 bits (66), Expect = 4.3
Identities = 18/71 (25%), Positives = 27/71 (38%), Gaps = 9/71 (12%)
Query: 25 LSIPPDSPNQEDQFALLLSQGLTSSDSTWQSSSDL--LPPDDSTRLINLTNFEFLINPPC 82
L + + Q ALLLS+ L S ++ L D ++N N E +
Sbjct: 330 LDLEELNSALLLQRALLLSEFLGEKSSE-LDCENIASLSEDQIEDIVN--NIEIV----A 382
Query: 83 LDTVYLVLIHS 93
L +L LI
Sbjct: 383 LQKSFLALIRK 393
>gnl|CDD|221004 pfam11152, DUF2930, Protein of unknown function (DUF2930). This
family of proteins has no known function.
Length = 195
Score = 28.4 bits (64), Expect = 5.4
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 7 LVLIVVGIFLCLCLLIDFLSIPPDSPNQE--DQFALLLSQGLTSSDSTWQ 54
L LI + L LL++ LS +P+Q D LLL+ GL W
Sbjct: 1 LPLIAGLLGGLL-LLLNRLSTADITPSQSRADVLGLLLAAGLILVGLLWT 49
>gnl|CDD|140237 PTZ00210, PTZ00210, UDP-GlcNAc-dependent glycosyltransferase;
Provisional.
Length = 382
Score = 28.7 bits (64), Expect = 6.1
Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Query: 123 PSNQTRLDIESETYHDIVQGRFW--DSYRNLTYKHTMVFKWVVYNCPHVKYVFKLDDDVF 180
P+N D+ T I + W ++ ++ K + ++ ++ P+V Y+ K DDD+F
Sbjct: 156 PTN----DVSPSTRKKIGENGNWGIEAEVAMSRKTYLWLRFALHMFPNVSYIVKGDDDIF 211
Query: 181 MNVIQ 185
+ V +
Sbjct: 212 IRVPK 216
>gnl|CDD|189027 cd09857, PIN_EXO1, PIN domain of Exonuclease-1, a
structure-specific, divalent-metal-ion dependent, 5'
nuclease and homologs. Exonuclease-1 (EXO1) is involved
in multiple, eukaryotic DNA metabolic pathways,
including DNA replication processes (5' flap DNA
endonuclease activity and double stranded DNA
5'-exonuclease activity), DNA repair processes (DNA
mismatch repair (MMR) and post-replication repair
(PRR)), recombination, and telomere integrity. EXO1
functions in the MMS2 error-free branch of the PRR
pathway in the maintenance and repair of stalled
replication forks. Studies also suggest that EXO1 plays
both structural and catalytic roles during MMR-mediated
mutation avoidance. EXO1 belongs to the FEN1-EXO1-like
family of structure-specific, 5' nucleases. These
nucleases contain a PIN (PilT N terminus) domain with a
helical arch/clamp region (I domain) of variable length
(approximately 43 residues in EXO1 PIN domains) and a
H3TH (helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region. Both the H3TH domain
(not included here) and the helical arch/clamp region
are involved in DNA binding. Nucleases within this group
also have a carboxylate-rich active site that is
involved in binding essential divalent metal ion
cofactors (Mg2+/Mn2+). EXO1 nucleases also have
C-terminal Mlh1- and Msh2-binding domains which allow
interaction with MMR and PRR proteins, respectively.
Length = 210
Score = 28.2 bits (64), Expect = 6.2
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 162 VVYNCPHVKYVFKLDDDVFMNVIQLDELL 190
+ Y CP V +FKLD + I L +LL
Sbjct: 175 LAYGCPKV--LFKLDKNGSCQEIDLADLL 201
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
0.325 0.140 0.457
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,887,161
Number of extensions: 1924382
Number of successful extensions: 2056
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2050
Number of HSP's successfully gapped: 12
Length of query: 381
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 282
Effective length of database: 6,546,556
Effective search space: 1846128792
Effective search space used: 1846128792
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 60 (26.8 bits)