RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17539
(443 letters)
>gnl|CDD|227409 COG5077, COG5077, Ubiquitin carboxyl-terminal hydrolase
[Posttranslational modification, protein turnover,
chaperones].
Length = 1089
Score = 64.9 bits (158), Expect = 4e-11
Identities = 51/237 (21%), Positives = 84/237 (35%), Gaps = 44/237 (18%)
Query: 94 YQKLSIPVVELINKRPFKVQAYK-----DTPGNPLPHNFEGTLKDILAPINKPKMPKKMH 148
Y L V ++ PF ++ K D + LK+ L+ ++ +
Sbjct: 814 YDDLCRNVSCKLHVTPFYLRGTKSTELEDRIRRVVGSKSIFLLKEALSSSSEFRQAPVDF 873
Query: 149 YQKLSIPVVELINKRPFKVR---------TQFLDEAKKDAAIQPELLGPDNGGSGLLRLL 199
Y+ L +P+ EL KR ++ +KD L
Sbjct: 874 YEVLDVPLSELERKRLIRLCFLSNGYQHVYLAEFYVEKDYTAVD--------------HL 919
Query: 200 EISNQKI--TAELDHSVSMDQLF------GMNATTKIYR--------LEEIPQDEVSLDP 243
I K+ T EL SV + ++ G + T I E P ++ L
Sbjct: 920 HIVVTKVGCTDELKKSVLVYEVVNLRPVRGHSLKTLIIDDNVRSTLYGEVFPLEQEQLTT 979
Query: 244 DELLIPVAHFQKDIHNIFGYPFLLRIKDNERFSKVKERLAKKLNIQEKEFEKVRVQD 300
+E+ + V HF KD+ G PF+ I E F K RL + + K F K+++
Sbjct: 980 NEMCVVVQHFFKDLIRTHGIPFMFVIVPFETFLDTKVRLVARFGYKYKLFSKIKLFV 1036
Score = 52.2 bits (125), Expect = 4e-07
Identities = 29/118 (24%), Positives = 47/118 (39%), Gaps = 10/118 (8%)
Query: 326 PDELLIPVAHFQKDIHNIFGYPFLLRIKDNERFSKVKERLAKKLNIQEKEFEKYKFGVIN 385
+E+ + V HF KD+ G PF+ I E F K RL + + K F K K V
Sbjct: 979 TNEMCVVVQHFFKDLIRTHGIPFMFVIVPFETFLDTKVRLVARFGYKYKLFSKIKLFVG- 1037
Query: 386 NNRITYIEEDSDCPVSINQFRSNISHQDYKVWLGLDHI--NKAPKRSRLNYLEKAIKI 441
D + ++ F N Y + LD+I + + + ++AI +
Sbjct: 1038 -----KSYTDGELDWPMSYF--NDEDILYDLIERLDYILLDHPDRLRSHSSYDRAIIM 1088
>gnl|CDD|234275 TIGR03599, YloV, DAK2 domain fusion protein YloV. This model
describes a protein family that contains an N-terminal
DAK2 domain (pfam02734), so named because of similarity
to the dihydroxyacetone kinase family family. The
GTP-binding protein CgtA (a member of the obg family) is
a bacterial GTPase associated with ribosome biogenesis,
and it has a characteristic extension (TIGR03595) in
certain lineages. This protein family described here was
found, by the method of partial phylognetic profiling,
to have a phylogenetic distribution strongly correlated
to that of TIGR03595. This correlation implies some form
of functional coupling.
Length = 530
Score = 37.2 bits (87), Expect = 0.016
Identities = 38/149 (25%), Positives = 60/149 (40%), Gaps = 44/149 (29%)
Query: 166 KVRTQFLDEAKKDAAIQPELLGP--------DNGGSGLLRLLEISNQKITAELDHSVSM- 216
+V ++ A+K A PELL P D+GG GL+ +LE M
Sbjct: 146 EVMEAAVEAAEKALARTPELL-PVLKEAGVVDSGGQGLVVILE--------------GML 190
Query: 217 DQLFGMNATTKIYRLEEIPQDEVSLDPDELLIPVAHFQKDIHNI-FGY--PFLLRIKDNE 273
L G Y+ E DE++ ++ H+I FGY FL+++KD
Sbjct: 191 AALTGEPIELAPYKPEPPEGDEIA-------------SEEHHDIEFGYCTEFLVKLKDKF 237
Query: 274 RFSKVKERLAKK----LNIQEKEFEKVRV 298
K ++ L K + + + + KV V
Sbjct: 238 DEEKFRKELEKLGDSLVVVGDDDLVKVHV 266
Score = 28.7 bits (65), Expect = 7.0
Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 3/53 (5%)
Query: 318 NAPPSKSNPDELLIPVAHFQKDIHNI-FGY--PFLLRIKDNERFSKVKERLAK 367
E ++ H+I FGY FL+++KD K ++ L K
Sbjct: 196 EPIELAPYKPEPPEGDEIASEEHHDIEFGYCTEFLVKLKDKFDEEKFRKELEK 248
>gnl|CDD|237476 PRK13696, PRK13696, hypothetical protein; Provisional.
Length = 62
Score = 30.4 bits (69), Expect = 0.19
Identities = 13/51 (25%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 346 YPFLLRIKDNERFSKVKERLAKKLNIQEKEFEKYKFGVINNNRITYIEEDS 396
Y LL IK ++ FS+V L +K + K FG+++ ++++
Sbjct: 13 YEKLLEIKGDKSFSEVIRELIEKKKGNLDKLMKA-FGILSEEEAEELKKEL 62
Score = 26.9 bits (60), Expect = 4.0
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 263 YPFLLRIKDNERFSKVKERLAKKLNIQEKEFEKV 296
Y LL IK ++ FS+V L +K + K
Sbjct: 13 YEKLLEIKGDKSFSEVIRELIEKKKGNLDKLMKA 46
>gnl|CDD|182521 PRK10528, PRK10528, multifunctional acyl-CoA thioesterase I and
protease I and lysophospholipase L1; Provisional.
Length = 191
Score = 31.3 bits (71), Expect = 0.68
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 8/55 (14%)
Query: 272 NERFSKVKERLAKKLNIQEKEF--EKVRV------QDKIHPGRESNPWPSAYMAN 318
NE FS + +LAK+ +I F E+V + D IHP R++ P+ + +MA
Sbjct: 127 NEAFSAIYPKLAKEFDIPLLPFFMEEVYLKPQWMQDDGIHPNRDAQPFIADWMAK 181
>gnl|CDD|237524 PRK13826, PRK13826, Dtr system oriT relaxase; Provisional.
Length = 1102
Score = 29.4 bits (66), Expect = 4.5
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 8/50 (16%)
Query: 25 TLELSLKMTYEQLVAL----VAQHLNTDKKLIQMFKVQAYKDTPGNPLPH 70
T+ L L++T EQ +AL V +H+ K M Y D PGNP H
Sbjct: 99 TIALPLELTAEQNIALVRDFVEKHI-LAKG---MVADWVYHDAPGNPHVH 144
>gnl|CDD|112098 pfam03268, DUF267, Caenorhabditis protein of unknown function,
DUF267.
Length = 353
Score = 28.9 bits (65), Expect = 4.9
Identities = 17/74 (22%), Positives = 28/74 (37%), Gaps = 15/74 (20%)
Query: 259 NIFGYP---------FLLRIKDNERFSKVKERLAKKLNIQEKEFEKVRVQDKIHPGRE-- 307
N+FG+ L N K +RL ++ K ++ K+H +
Sbjct: 61 NMFGFMGLQSFVCALCLFGWTKNGFIPKHLKRLENVRLLRVKPNHEIDNYSKLH--IKAF 118
Query: 308 --SNPWPSAYMANA 319
S PW A+M+ A
Sbjct: 119 IFSIPWLVAFMSTA 132
>gnl|CDD|220855 pfam10711, DUF2513, Hypothetical protein (DUF2513). This family is
found in bacteria. The function is not known.
Length = 102
Score = 27.3 bits (61), Expect = 7.1
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 262 GYPFLLRIKDNERFSKVKERLAKK 285
G+ FL ++D ++K K++ A+K
Sbjct: 73 GHEFLDAVRDPTVWNKTKDKAAEK 96
Score = 27.3 bits (61), Expect = 7.1
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 345 GYPFLLRIKDNERFSKVKERLAKK 368
G+ FL ++D ++K K++ A+K
Sbjct: 73 GHEFLDAVRDPTVWNKTKDKAAEK 96
>gnl|CDD|99808 cd06212, monooxygenase_like, The oxygenase reductase FAD/NADH
binding domain acts as part of the multi-component
bacterial oxygenases which oxidize hydrocarbons. These
flavoprotein monooxygenases use molecular oxygen as a
substrate and require reduced FAD. One atom of oxygen is
incorportated into the aromatic compond, while the other
is used to form a molecule of water. In contrast
dioxygenases add both atoms of oxygen to the substrate.
Length = 232
Score = 28.5 bits (64), Expect = 7.2
Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 3/60 (5%)
Query: 191 GGSGLLRLLEISNQKITAELDHSVSMDQLFGMNATTKIYRLEEIPQDEVSLDPDELLIPV 250
GGSG+ LL + + D V +G ++ LEEI + PD IP
Sbjct: 111 GGSGMAPLLSLLRDMAASGSDRPVRF--FYGARTARDLFYLEEIAALGEKI-PDFTFIPA 167
>gnl|CDD|99982 cd03811, GT1_WabH_like, This family is most closely related to the
GT1 family of glycosyltransferases. WabH in Klebsiella
pneumoniae has been shown to transfer a GlcNAc residue
from UDP-GlcNAc onto the acceptor GalUA residue in the
cellular outer core.
Length = 353
Score = 28.5 bits (64), Expect = 7.7
Identities = 14/40 (35%), Positives = 20/40 (50%), Gaps = 11/40 (27%)
Query: 280 ERLAKKLNIQEKEFEKVRVQDKIHPGRESNPWPSAYMANA 319
E LAK+L + + RV G +SNP+P Y+ A
Sbjct: 236 EALAKELGLAD------RV---HFLGFQSNPYP--YLKAA 264
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
0.318 0.137 0.400
Gapped
Lambda K H
0.267 0.0726 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,287,012
Number of extensions: 2344033
Number of successful extensions: 2296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2289
Number of HSP's successfully gapped: 25
Length of query: 443
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 343
Effective length of database: 6,502,202
Effective search space: 2230255286
Effective search space used: 2230255286
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 (21.7 bits)
S2: 61 (27.3 bits)