RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6913
(380 letters)
>gnl|CDD|165115 PHA02748, PHA02748, viral inexin-like protein; Provisional.
Length = 360
Score = 389 bits (1002), Expect = e-135
Identities = 161/376 (42%), Positives = 239/376 (63%), Gaps = 24/376 (6%)
Query: 1 MLQVFSSLRSLLKLDQIAIDNTVFRLHYKVTVVILVTFSLIVTSRQYIGDPIDCIVDEIP 60
ML +FS+LR LLK+ ++IDN FRLHYK+TV+IL+ FSL+VTSRQY GDPIDC + P
Sbjct: 1 MLDLFSALRGLLKVQSVSIDNNFFRLHYKITVIILLAFSLLVTSRQYFGDPIDCDFPDYP 60
Query: 61 LNVMDTYCWIYSTFTLPNKLNGRVGKDVLQPGVASHVEGDQIKYHKYYQWVCFALFFQAM 120
++TYC++ STF + K+ V V PGV+ E D+++Y+ YYQWV LF QA+
Sbjct: 61 NGSLNTYCYVQSTFLVERKVTHTVNSTVPDPGVSGDTEEDELRYYGYYQWVFITLFLQAV 120
Query: 121 LFYIPRYLWKIWEGGRIRMIVQELNCPIIVGGKQGTKE-MEEKRKMIVDYFHNNLHLQEF 179
FYIP Y+WK WEGG+++M+ EL P+ +K+ +E+ + +VDYF NLH
Sbjct: 121 FFYIPHYIWKAWEGGKMKMLAVELASPV------LSKDCIEKNTQPLVDYFFMNLHSHNA 174
Query: 180 YAYRFILCEVLNLVNVIAQIYFMDYFLDGEFSNYGMEVWNFSEQDPDTRTDPMARVFPKL 239
YAY++ CE+LNL+N++ QI FM+ F+ +F YG+ V F+++ + T+PM R+FP +
Sbjct: 175 YAYKYFTCELLNLINIVGQIQFMNIFIGEDFQLYGIYVIFFNQEAGKSMTNPMERLFPTV 234
Query: 240 TKCTFHKYGPSGSVQKFDGLCVLPLNIVNEKIYIVLWFWFWILVVISVHSTSMVHQDLFR 299
TKCT+ KYGPSG+ + +G+C+L N +NEKIY+ LWFWF IL VIS
Sbjct: 235 TKCTYEKYGPSGTPENIEGICLLTQNSLNEKIYVFLWFWFHILAVISAFVV--------- 285
Query: 300 IVTTVCQLVYRVATIMMPNVRTKILRARCKFSFPNDIEAVSRAFSIGDWFVFNQVCKNVE 359
+YR+AT++ ++R + R+ + +DI V IGDWF+ + + KN+
Sbjct: 286 --------IYRIATLLSSSLRLYMFRSSSSLNRADDIAVVYNKLQIGDWFLLHMLRKNIN 337
Query: 360 PLIFREFVHDLAKRLE 375
PL ++E + LA+ +
Sbjct: 338 PLAYKELISRLAQHFD 353
>gnl|CDD|216168 pfam00876, Innexin, Innexin. This family includes the drosophila
proteins Ogre and shaking-B, and the C. elegans proteins
Unc-7 and Unc-9. Members of this family are integral
membrane proteins which are involved in the formation of
gap junctions. This family has been named the Innexins.
Length = 341
Score = 356 bits (917), Expect = e-122
Identities = 142/374 (37%), Positives = 206/374 (55%), Gaps = 49/374 (13%)
Query: 20 DNTVFRLHYKVTVVILVTFSLIVTSRQYIGDPIDCIV-DEIP---LNVMDTYCWIYSTFT 75
D+ V RLHYK TV+IL+ FSL+V+++QY GDPI+C V E P + YCW+ +T+
Sbjct: 1 DDFVDRLHYKYTVIILLAFSLLVSAKQYFGDPIECWVPAEFPGSWEEYANNYCWVQNTYF 60
Query: 76 LPNKLNGRVGKDVLQPGVASHVEGDQIKYHKYYQWVCFALFFQAMLFYIPRYLWKI---W 132
LP +G++V E + KY YYQWV F LF QA+LFYIP Y+WK+ W
Sbjct: 61 LP------LGEEVPGTDPEEDRE-RERKYITYYQWVPFVLFLQALLFYIPHYIWKLLSSW 113
Query: 133 EGGRIRMIVQELNCPIIVGGKQGTKEMEEKRKMIVDYFHNNLHLQ-----EFYAYRFILC 187
EGGR++ +V ELN I E +++ K + Y +NLH + AY + C
Sbjct: 114 EGGRLKALVDELNSAI----LSEPDERKKRIKPLARYLDDNLHSHNRYYGNYLAYLYFFC 169
Query: 188 EVLNLVNVIAQIYFMDYFLDGEFSNYGMEVWNFSEQDPDTRTDPMARVFPKLTKCTFHKY 247
++LNL+NVI QI+ ++ FL G+F YG++V + + TD VFP++TKC F
Sbjct: 170 KLLNLINVIGQIFLLNRFLGGDFHFYGIDVLADL-LNGEDWTDSG--VFPRVTKCDFEIR 226
Query: 248 GPSGSVQKFDGLCVLPLNIVNEKIYIVLWFWFWILVVISVHSTSMVHQDLFRIVTTVCQL 307
GSVQ + CVLP+NI NEKI+I LWFWF L +I +V L
Sbjct: 227 KLGGSVQNYTVQCVLPINIFNEKIFIFLWFWFVFLAII-----------------SVLSL 269
Query: 308 VYRVATIMMPNVRT----KILRARCKFSFPNDIEAVSRAFSIGDWFVFNQVCKNVEPLIF 363
+Y +AT++ P+ R K+LRA K + + V I WF+ + KN+ L++
Sbjct: 270 LYWIATLLSPSRRVSFRKKLLRASSKLNPLDKF--VRDYLRIDGWFLLRMLAKNLGDLVY 327
Query: 364 REFVHDLAKRLEGK 377
+E + +L +R K
Sbjct: 328 KELIEELWQRFREK 341
>gnl|CDD|233365 TIGR01347, sucB, 2-oxoglutarate dehydrogenase complex
dihydrolipoamide succinyltransferase (E2 component).
This model describes the TCA cycle 2-oxoglutarate system
E2 component, dihydrolipoamide succinyltransferase. It
is closely related to the pyruvate dehydrogenase E2
component, dihydrolipoamide acetyltransferase. The seed
for this model includes mitochondrial and Gram-negative
bacterial forms. Mycobacterial candidates are highly
derived, differ in having and extra copy of the
lipoyl-binding domain at the N-terminus. They score
below the trusted cutoff, but above the noise cutoff and
above all examples of dihydrolipoamide acetyltransferase
[Energy metabolism, TCA cycle].
Length = 403
Score = 28.9 bits (65), Expect = 4.5
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 90 QPGVASHVEGDQIKYHKYY 108
P V + ++GD I Y YY
Sbjct: 247 FPEVNAEIDGDDIVYKDYY 265
>gnl|CDD|153116 cd01058, AAMH_B, Aromatic and Alkene Monooxygenase Hydroxylase,
subunit B, ferritin-like diiron-binding domain.
Aromatic and Alkene Monooxygenase Hydroxylases, subunit
B (AAMH_B). Subunit B (beta) of the soluble hydroxylase
of multicomponent, aromatic and alkene monooxygenases
are members of a superfamily of ferritin-like
iron-storage proteins. AAMH exists as a hexamer (an
alpha2-beta2-gamma2 homodimer) with each alpha-subunit
housing one nonheme diiron center embedded in a
four-helix bundle. The N-terminal domain of the alpha-
and noncatalytic beta-subunits possess nearly identical
folds; the beta-subunit lacks the C-terminal domain
found in the alpha-subunit. Methane monooxygenase is a
multicomponent enzyme found in methanotrophic bacteria
that catalyzes the hydroxylation of methane and higher
alkenes (as large as octane). Phenol monooxygenase,
found in a diverse group of bacteria, catalyses the
hydroxylation of phenol, chloro- and methyl-phenol and
naphthol. Both enzyme systems consist of three
components: the hydroxylase, a coupling protein and a
reductase. In the MMO hydroxylase, dioxygen and
substrate interact with the diiron center in a
hydrophobic cavity at the active site. The reductase
component and protein coupling factor provide electrons
from NADH for reducing the oxidized binuclear iron-oxo
cluster to its reduced form. Reaction with dioxygen
produces a peroxy-bridged complex and dehydration leads
to the formation of complex Q, which is thought to be
the oxygenating species that carries out the insertion
of an oxygen atom into a C-H bond of the substrate. The
toluene monooxygenase systems, toluene 2-, 3-, and
4-monooxygenase, are similar to MMO but with an
additional component, a Rieske-type ferredoxin. The
alkene monooxygenase from Xanthobacter strain Py2 is
closely related to aromatic monooxygenases and catalyzes
aromatic monohydroxylation of benzene, toluene, and
phenol. Alkane omega-hydroxylase (AlkB) and xylene
monooxygenase are members of a distinct class of
integral membrane diiron proteins and are not included
in this CD.
Length = 304
Score = 28.8 bits (65), Expect = 4.8
Identities = 11/41 (26%), Positives = 13/41 (31%), Gaps = 5/41 (12%)
Query: 337 EAVSRAFSIGDWF----VFNQVCKN-VEPLIFREFVHDLAK 372
E V + DW N V V L+ RE A
Sbjct: 183 ELVEKLLVTYDWGEAFVAQNLVFDPLVGELVRRELDRLAAS 223
>gnl|CDD|237738 PRK14508, PRK14508, 4-alpha-glucanotransferase; Provisional.
Length = 497
Score = 28.6 bits (65), Expect = 5.6
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 100 DQIKYHKYYQWVCF 113
D+I YHK+ Q++ F
Sbjct: 184 DEILYHKFLQYLFF 197
>gnl|CDD|226065 COG3535, COG3535, Uncharacterized conserved protein [Function
unknown].
Length = 357
Score = 28.5 bits (64), Expect = 5.7
Identities = 17/54 (31%), Positives = 21/54 (38%), Gaps = 15/54 (27%)
Query: 230 DPMARVFPKLTKCTFHKYGPSGSVQKFDGLCVLPLNIVNEK-----IYIVLWFW 278
D M R FP+L TF+ GL PL I +E+ I V W
Sbjct: 127 DGMGRAFPELQMTTFY----------LHGLPATPLVICDERGNRVIIETVSNKW 170
>gnl|CDD|218864 pfam06032, DUF917, Protein of unknown function (DUF917). This
family consists of hypothetical bacterial and archaeal
proteins of unknown function.
Length = 349
Score = 28.3 bits (64), Expect = 7.3
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 230 DPMARVFPKLTKCTFHKYG 248
D M R FP+L TF+ YG
Sbjct: 123 DGMGRAFPELQMTTFYIYG 141
>gnl|CDD|223492 COG0415, PhrB, Deoxyribodipyrimidine photolyase [DNA replication,
recombination, and repair].
Length = 461
Score = 28.1 bits (63), Expect = 8.1
Identities = 23/76 (30%), Positives = 32/76 (42%), Gaps = 12/76 (15%)
Query: 199 IYFMDYFLDGEF-SNYGMEVWNFSEQDPDTRTDPMA--RVFPKLTKCTFHKYGPSGSVQK 255
YFM +DG+ SN G W S T TD R+F +T+ K+ P G +
Sbjct: 358 KYFMRQLIDGDPASNNGGWQWAAS-----TGTDAAPYFRIFNPVTQ--AEKFDPDGEFIR 410
Query: 256 --FDGLCVLPLNIVNE 269
L LP ++E
Sbjct: 411 RWVPELRNLPDKYIHE 426
>gnl|CDD|148602 pfam07088, GvpD, GvpD gas vesicle protein. This family consists of
several archaeal GvpD gas vesicle proteins. GvpD is
thought to be involved in the regulation of gas vesicle
formation.
Length = 484
Score = 28.0 bits (62), Expect = 9.0
Identities = 16/66 (24%), Positives = 25/66 (37%), Gaps = 19/66 (28%)
Query: 63 VMDTYCWIYSTFTLPNKLNGRVGK-----------DVLQPG------VASHVEGDQIKYH 105
V DT C ++ T+ P K GK D + P +EG ++KY
Sbjct: 317 VFDTTCHVFETYAGPLK--SLAGKYLNNYITTSKSDAINPDRVPGHDYVIPLEGGRLKYD 374
Query: 106 KYYQWV 111
Y + +
Sbjct: 375 PYREII 380
>gnl|CDD|140293 PTZ00267, PTZ00267, NIMA-related protein kinase; Provisional.
Length = 478
Score = 28.1 bits (62), Expect = 9.5
Identities = 11/54 (20%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 289 STSMVHQDLFRIVTTVCQLVYRVATIMMPNVRTKILR----ARCKFSFPNDIEA 338
+ ++H + + V + Q + R + + P+ R +ILR + + P+ I
Sbjct: 317 TQQLLHTEFLKYVANLFQDIVRHSETISPHDREEILRQLQESGERAPPPSSIRY 370
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
0.329 0.143 0.458
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,756,115
Number of extensions: 1920905
Number of successful extensions: 2112
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2100
Number of HSP's successfully gapped: 19
Length of query: 380
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 281
Effective length of database: 6,546,556
Effective search space: 1839582236
Effective search space used: 1839582236
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 60 (26.9 bits)