RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16713
(357 letters)
>gnl|CDD|238684 cd01388, SOX-TCF_HMG-box, SOX-TCF_HMG-box, class I member of the
HMG-box superfamily of DNA-binding proteins. These
proteins contain a single HMG box, and bind the minor
groove of DNA in a highly sequence-specific manner.
Members include SRY and its homologs in insects and
vertebrates, and transcription factor-like proteins,
TCF-1, -3, -4, and LEF-1. They appear to bind the minor
groove of the A/T C A A A G/C-motif.
Length = 72
Score = 130 bits (330), Expect = 3e-38
Identities = 41/72 (56%), Positives = 55/72 (76%)
Query: 69 RIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKE 128
I+RPMNAFM+FSKRHR KV Q +P ++NR +SKILG+ W +L EEKQ Y+E A ++KE
Sbjct: 1 HIKRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALSNEEKQPYYEEAKKLKE 60
Query: 129 AHFKAHPEWKWC 140
H K +P++KW
Sbjct: 61 LHMKLYPDYKWR 72
>gnl|CDD|238037 cd00084, HMG-box, High Mobility Group (HMG)-box is found in a
variety of eukaryotic chromosomal proteins and
transcription factors. HMGs bind to the minor groove of
DNA and have been classified by DNA binding preferences.
Two phylogenically distinct groups of Class I proteins
bind DNA in a sequence specific fashion and contain a
single HMG box. One group (SOX-TCF) includes
transcription factors, TCF-1, -3, -4; and also SRY and
LEF-1, which bind four-way DNA junctions and duplex DNA
targets. The second group (MATA) includes fungal mating
type gene products MC, MATA1 and Ste11. Class II and III
proteins (HMGB-UBF) bind DNA in a non-sequence specific
fashion and contain two or more tandem HMG boxes. Class
II members include non-histone chromosomal proteins,
HMG1 and HMG2, which bind to bent or distorted DNA such
as four-way DNA junctions, synthetic DNA cruciforms,
kinked cisplatin-modified DNA, DNA bulges, cross-overs
in supercoiled DNA, and can cause looping of linear DNA.
Class III members include nucleolar and mitochondrial
transcription factors, UBF and mtTF1, which bind
four-way DNA junctions.
Length = 66
Score = 86.9 bits (216), Expect = 1e-21
Identities = 30/66 (45%), Positives = 42/66 (63%)
Query: 70 IRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEA 129
+RP++A+ +FS+ HRA+V +P +SKILGE W SL EEK+KY E A + KE
Sbjct: 1 PKRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSEEEKKKYEEKAEKDKER 60
Query: 130 HFKAHP 135
+ K P
Sbjct: 61 YEKEMP 66
>gnl|CDD|189580 pfam00505, HMG_box, HMG (high mobility group) box.
Length = 69
Score = 78.0 bits (193), Expect = 2e-18
Identities = 30/69 (43%), Positives = 44/69 (63%)
Query: 70 IRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEA 129
+RP++AF +FS+ RAK+ +P N +SKILGE W +L EEK+ Y E A + K
Sbjct: 1 PKRPLSAFFLFSQEQRAKLKAENPGLKNAEISKILGEKWKNLSEEEKKPYEEKAEKEKAR 60
Query: 130 HFKAHPEWK 138
+ KA+P +K
Sbjct: 61 YEKAYPAYK 69
>gnl|CDD|197700 smart00398, HMG, high mobility group.
Length = 70
Score = 75.8 bits (187), Expect = 1e-17
Identities = 31/70 (44%), Positives = 45/70 (64%)
Query: 69 RIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKE 128
+ +RPM+AFM+FS+ +RAK+ +P+ N +SK LGE W L EEK Y E A + KE
Sbjct: 1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKE 60
Query: 129 AHFKAHPEWK 138
+ + PE+K
Sbjct: 61 RYEEEMPEYK 70
>gnl|CDD|238685 cd01389, MATA_HMG-box, MATA_HMG-box, class I member of the HMG-box
superfamily of DNA-binding proteins. These proteins
contain a single HMG box, and bind the minor groove of
DNA in a highly sequence-specific manner. Members
include the fungal mating type gene products MC, MATA1
and Ste11.
Length = 77
Score = 73.1 bits (180), Expect = 2e-16
Identities = 31/80 (38%), Positives = 47/80 (58%), Gaps = 3/80 (3%)
Query: 69 RIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKE 128
+I RP NAF+++ + A++ +P N +S+I+G W S PE K Y ELA E KE
Sbjct: 1 KIPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESPEVKAYYKELAEEEKE 60
Query: 129 AHFKAHPEWKWCSKDKRKSS 148
H + +P++K+ RKSS
Sbjct: 61 RHAREYPDYKY---TPRKSS 77
>gnl|CDD|238686 cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class II and III
members of the HMG-box superfamily of DNA-binding
proteins. These proteins bind the minor groove of DNA in
a non-sequence specific fashion and contain two or more
tandem HMG boxes. Class II members include non-histone
chromosomal proteins, HMG1 and HMG2, which bind to bent
or distorted DNA such as four-way DNA junctions,
synthetic DNA cruciforms, kinked cisplatin-modified DNA,
DNA bulges, cross-overs in supercoiled DNA, and can
cause looping of linear DNA. Class III members include
nucleolar and mitochondrial transcription factors, UBF
and mtTF1, which bind four-way DNA junctions.
Length = 66
Score = 63.8 bits (156), Expect = 3e-13
Identities = 25/59 (42%), Positives = 38/59 (64%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEA 129
+RP++A+ +FS+ R K+ + +P+ V+KILGE W L EEK+KY E A + KE
Sbjct: 2 KRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELSEEEKKKYEEKAEKDKER 60
>gnl|CDD|185511 PTZ00199, PTZ00199, high mobility group protein; Provisional.
Length = 94
Score = 41.0 bits (96), Expect = 6e-05
Identities = 22/59 (37%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPN--QDNRTVSKILGEWWYSLGPEEKQKYHELASEVK 127
+R ++A+M F+K RA++ +P +D V K++GE W L EEK Y + A E K
Sbjct: 24 KRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDK 82
>gnl|CDD|227935 COG5648, NHP6B, Chromatin-associated proteins containing the HMG
domain [Chromatin structure and dynamics].
Length = 211
Score = 43.3 bits (102), Expect = 7e-05
Identities = 18/58 (31%), Positives = 35/58 (60%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKE 128
+RP++A+ ++S +R ++ + +P V K+L E W L EEK+ Y++ A+ +E
Sbjct: 72 KRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELTDEEKEPYYKEANSDRE 129
>gnl|CDD|204115 pfam09011, DUF1898, Domain of unknown function (DUF1898). This
domain is predominantly found in Maelstrom homolog
proteins. It has no known function.
Length = 69
Score = 33.6 bits (77), Expect = 0.017
Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 7/65 (10%)
Query: 69 RIRRPMNAFMIFSK----RHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELAS 124
+ + NA+ F + + + Q+ + SK+ E W ++ EEK+KY E A
Sbjct: 3 KPKAKRNAYFFFVQTMRPELKREGPQVPGVAE---FSKLCSEKWKAMSEEEKEKYEEKAR 59
Query: 125 EVKEA 129
E K+
Sbjct: 60 EDKKR 64
>gnl|CDD|151935 pfam11498, Activator_LAG-3, Transcriptional activator LAG-3. The
C.elegans Notch pathway, involved in the control of
growth, differentiation and patterning in animal
development, relies on either of the receptors GLP-1 or
LIN-12. Both these receptors promote signalling by the
recruitment of LAG-3 to target promoters, where it then
acts as a transcriptional activator. LAG-3 works as a
ternary complex together with the DNA binding protein,
LAG-1.
Length = 476
Score = 34.9 bits (79), Expect = 0.052
Identities = 26/76 (34%), Positives = 37/76 (48%), Gaps = 6/76 (7%)
Query: 233 QSNIEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQN 292
Q N Q A+ A +A +QQ + EQ ++ QQQQ Q HQQ QQ QP+Q+
Sbjct: 386 QMNGGGQFATQAHQHAAYLQQMQHMRLQEQIQH------QQQQAQHHQQAQQQHQQPAQH 439
Query: 293 HQEQRHMDSGAPNVPY 308
Q + +G P +
Sbjct: 440 GQMGYGIPNGYPAHMH 455
Score = 32.6 bits (73), Expect = 0.32
Identities = 18/47 (38%), Positives = 26/47 (55%)
Query: 248 AELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQ 294
A+L QQ +K + +QQ+ + QQ+QQQ+ Q QQ Q Q Q
Sbjct: 323 AQLAQQQNKMRLLQQQEMEMQRIEQQRQQQIMHQHQQQQQQEHQQQQ 369
>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175).
Length = 820
Score = 34.5 bits (80), Expect = 0.10
Identities = 13/54 (24%), Positives = 19/54 (35%), Gaps = 2/54 (3%)
Query: 249 ELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQRHMDSG 302
L + +D ++Q Q QQ Q Q Q Q Q Q +Q+
Sbjct: 602 GLSDET--FRDLQEQFNAQRGEQQGQQGQGGQGQGQPGQQGQQGQGQQQGQQGQ 653
Score = 33.7 bits (78), Expect = 0.14
Identities = 15/81 (18%), Positives = 23/81 (28%), Gaps = 5/81 (6%)
Query: 249 ELMQQADKNKDS--EQQKYRN--FNLSQQQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAP 304
E+ Q + ++ EQQ + F Q+Q + +QQ Q Q
Sbjct: 585 EMQQAMEGLGETLREQQGLSDETFRDLQEQFNA-QRGEQQGQQGQGGQGQGQPGQQGQQG 643
Query: 305 NVPYQRSHEMDTSEPPGGGQE 325
Q G E
Sbjct: 644 QGQQQGQQGQGGQGGQGSLAE 664
Score = 31.4 bits (72), Expect = 0.89
Identities = 20/110 (18%), Positives = 35/110 (31%), Gaps = 21/110 (19%)
Query: 238 MQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQ-------------VHQQQQQ 284
M++ A A +L++Q QQ N ++Q Q ++QQ
Sbjct: 551 MESGRRAEA-QQLLEQL-------QQMMENLQVTQGGQGGQSEMQQAMEGLGETLREQQG 602
Query: 285 NSSQPSQNHQEQRHMDSGAPNVPYQRSHEMDTSEPPGGGQENKGTGPQTS 334
S + ++ QEQ + G + + G Q Q
Sbjct: 603 LSDETFRDLQEQFNAQRGEQQGQQGQGGQGQGQPGQQGQQGQGQQQGQQG 652
Score = 28.7 bits (65), Expect = 5.7
Identities = 18/86 (20%), Positives = 28/86 (32%), Gaps = 8/86 (9%)
Query: 251 MQQADKNKDSEQQKYRN--FNLSQQQQQ------QVHQQQQQNSSQPSQNHQEQRHMDSG 302
+ Q + SE Q+ ++QQ + Q+Q Q Q Q G
Sbjct: 575 VTQGGQGGQSEMQQAMEGLGETLREQQGLSDETFRDLQEQFNAQRGEQQGQQGQGGQGQG 634
Query: 303 APNVPYQRSHEMDTSEPPGGGQENKG 328
P Q+ + GGQ +G
Sbjct: 635 QPGQQGQQGQGQQQGQQGQGGQGGQG 660
Score = 28.3 bits (64), Expect = 6.9
Identities = 8/29 (27%), Positives = 10/29 (34%)
Query: 269 NLSQQQQQQVHQQQQQNSSQPSQNHQEQR 297
L + QQ QQQ Q + R
Sbjct: 734 ALGEAMAQQQGQQQGGQGQQQGRQGGNGR 762
>gnl|CDD|236795 PRK10920, PRK10920, putative uroporphyrinogen III
C-methyltransferase; Provisional.
Length = 390
Score = 32.0 bits (73), Expect = 0.50
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 239 QNASVAAANAELMQQ-ADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQ 291
Q + A N L Q K E QK + +QQ + + Q +Q ++ Q
Sbjct: 61 QAQNQTATNDALANQLTALQKAQESQKQELEGILKQQAKALDQANRQQAALAKQ 114
>gnl|CDD|227911 COG5624, TAF61, Transcription initiation factor TFIID, subunit
TAF12 (also component of histone acetyltransferase SAGA)
[Transcription].
Length = 505
Score = 32.0 bits (72), Expect = 0.56
Identities = 12/66 (18%), Positives = 19/66 (28%), Gaps = 7/66 (10%)
Query: 239 QNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQRH 298
Q A + + + + Q Q+Q S Q H +R+
Sbjct: 206 QEMMGLGIMAGGVYGVHDGRSKRRL-------VDRYPQFQQGQKQVLSPQQRFLHGMERY 258
Query: 299 MDSGAP 304
SG P
Sbjct: 259 EASGMP 264
>gnl|CDD|217451 pfam03249, TSA, Type specific antigen. There are several antigenic
variants in Rickettsia tsutsugamushi, and a
type-specific antigen (TSA) of 56-kilodaltons located on
the rickettsial surface is responsible for the
variation. TSA proteins are probably integral membrane
proteins.
Length = 502
Score = 31.4 bits (71), Expect = 0.81
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 262 QQKYRNFNLSQQQQQQVHQQQQQ 284
Q NF + QQ QQQ QQQQ
Sbjct: 298 NQIQLNFVIPQQAQQQGQGQQQQ 320
>gnl|CDD|217902 pfam04111, APG6, Autophagy protein Apg6. In yeast, 15 Apg proteins
coordinate the formation of autophagosomes. Autophagy is
a bulk degradation process induced by starvation in
eukaryotic cells. Apg6/Vps30p has two distinct functions
in the autophagic process, either associated with the
membrane or in a retrieval step of the carboxypeptidase
Y sorting pathway.
Length = 356
Score = 31.0 bits (70), Expect = 0.84
Identities = 10/55 (18%), Positives = 26/55 (47%)
Query: 229 IVSKQSNIEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQ 283
++ + +E ++ + EL ++ ++ ++ E Q R +NL + Q+ Q
Sbjct: 82 LLDELEELEKEDDDLDGELVELQEEKEQLENEELQYLREYNLFDRNNLQLEDNLQ 136
>gnl|CDD|238218 cd00368, Molybdopterin-Binding, Molybdopterin-Binding (MopB)
domain of the MopB superfamily of proteins, a large,
diverse, heterogeneous superfamily of enzymes that, in
general, bind molybdopterin as a cofactor. The MopB
domain is found in a wide variety of molybdenum- and
tungsten-containing enzymes, including formate
dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms
of nitrate reductase (Nap, Nas, NarG),
dimethylsulfoxide reductase (DMSOR), thiosulfate
reductase, formylmethanofuran dehydrogenase, and
arsenite oxidase. Molybdenum is present in most of
these enzymes in the form of molybdopterin, a modified
pterin ring with a dithiolene side chain, which is
responsible for ligating the Mo. In many bacterial and
archaeal species, molybdopterin is in the form of a
dinucleotide, with two molybdopterin dinucleotide units
per molybdenum. These proteins can function as
monomers, heterodimers, or heterotrimers, depending on
the protein and organism. Also included in the MopB
superfamily is the eukaryotic/eubacterial protein
domain family of the 75-kDa subunit/Nad11/NuoG (second
domain) of respiratory complex 1/NADH-quinone
oxidoreductase which is postulated to have lost an
ancestral formate dehydrogenase activity and only
vestigial sequence evidence remains of a molybdopterin
binding site.
Length = 374
Score = 31.1 bits (71), Expect = 0.93
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 52 HLSLKGAGSATGLRSKDRIRRPM 74
L KG GL S DR++ P+
Sbjct: 37 RLCDKGRAGLDGLYSPDRLKYPL 59
>gnl|CDD|221625 pfam12533, Neuro_bHLH, Neuronal helix-loop-helix transcription
factor. This domain family is found in eukaryotes, and
is approximately 80 amino acids in length. The family is
found C-terminal to pfam00010. There is a single
completely conserved residue W that may be functionally
important. Neuronal basic helix-loop-helix (bHLH)
transcription factors such as neuroD and neurogenin have
been shown to play important roles in neuronal
development.
Length = 120
Score = 29.2 bits (66), Expect = 1.2
Identities = 16/71 (22%), Positives = 19/71 (26%), Gaps = 16/71 (22%)
Query: 266 RNFNLSQQQQ--------QQVHQQQQQNSSQPSQNHQ--EQRHM------DSGAPNVPYQ 309
R QQQ H Q+ PS H H + P+
Sbjct: 34 RTLLPEQQQDYSHSGSSPFSQHPYPYQSPGLPSPPHGSMSSSHSLHLKPHGYCSAYEPFY 93
Query: 310 RSHEMDTSEPP 320
SH D PP
Sbjct: 94 ESHSPDCGSPP 104
>gnl|CDD|236154 PRK08119, PRK08119, flagellar motor switch protein; Validated.
Length = 382
Score = 30.6 bits (70), Expect = 1.3
Identities = 14/70 (20%), Positives = 22/70 (31%)
Query: 231 SKQSNIEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPS 290
+ E Q + A A K + + R + Q V Q Q+ P
Sbjct: 232 EEVEEEEAQASPAAEPATAQAAPAPKQEQQQAPPQRQEPEKEAQPVNVQPAQFQSFDPPP 291
Query: 291 QNHQEQRHMD 300
E R++D
Sbjct: 292 LATTEPRNLD 301
>gnl|CDD|234022 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid
synthase PfaA. Members of the seed for this alignment
are involved in omega-3 polyunsaturated fatty acid
biosynthesis, such as the protein PfaA from the
eicosapentaenoic acid biosynthesis operon in
Photobacterium profundum strain SS9. PfaA is encoded
together with PfaB, PfaC, and PfaD, and the functions of
the individual polypeptides have not yet been described.
More distant homologs of PfaA, also included with the
reach of this model, appear to be involved in
polyketide-like biosynthetic mechanisms of
polyunsaturated fatty acid biosynthesis, an alternative
to the more familiar iterated mechanism of chain
extension and desaturation, and in most cases are encoded
near genes for homologs of PfaB, PfaC, and/or PfaD.
Length = 2582
Score = 30.4 bits (68), Expect = 1.8
Identities = 27/96 (28%), Positives = 38/96 (39%), Gaps = 7/96 (7%)
Query: 225 TPTVIVSKQSNIEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQ--- 281
T V V S + A+ A + AD+ +S ++ F +QQQ +HQQ
Sbjct: 998 TADVKVFDGSVADGTVANGQAPAQVAVNTADQ-ANSIERSLSAFFDAQQQAANLHQQFLA 1056
Query: 282 -QQQNSSQPSQNHQEQRHMDSGAPNVP--YQRSHEM 314
QQ EQ M S +P QRS E+
Sbjct: 1057 IPQQYGDTFDALMSEQAKMASLGIAIPESLQRSMEL 1092
>gnl|CDD|191602 pfam06752, E_Pc_C, Enhancer of Polycomb C-terminus. This family
represents the C-terminus of eukaryotic enhancer of
polycomb proteins, which have roles in heterochromatin
formation. This family contains several conserved
motifs.
Length = 230
Score = 29.6 bits (66), Expect = 1.9
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 270 LSQQQQQQVHQQQQQNSSQPSQNHQ 294
+ +QQ Q+ QQQQQ +S + Q
Sbjct: 17 MQKQQLAQLQQQQQQQNSSAATAPQ 41
>gnl|CDD|221016 pfam11180, DUF2968, Protein of unknown function (DUF2968). This
family of proteins has no known function.
Length = 192
Score = 29.3 bits (66), Expect = 2.0
Identities = 17/72 (23%), Positives = 35/72 (48%), Gaps = 4/72 (5%)
Query: 234 SNIEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPS--- 290
+++E++ A + A A+L +Q ++ ++ + L+Q Q+QQV +QQQ +
Sbjct: 101 ADVEIRRAQLEAQKAQLERQIAASEARAERLQADLQLAQAQEQQVAARQQQARQEAVALE 160
Query: 291 -QNHQEQRHMDS 301
Q Q +
Sbjct: 161 AQRQAAQAQLRK 172
>gnl|CDD|213914 TIGR04301, ODC_inducible, ornithine decarboxylase SpeF. Members of
this family are known or trusted examples of ornithine
decarboxylase, all encoded in the immediate vicinity of
an ornithine-putrescine antiporter. Decarboxylation of
ornithine to putrescine, followed by exchange of a
putrescine for a new ornithine, is a proton-motive cycle
that can be induced by low pH and protect a bacterium
against transient exposure to acidic conditions.
Length = 719
Score = 30.1 bits (68), Expect = 2.0
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 276 QQVHQQQQQNSSQPSQNHQEQRHMDSGAPNVPYQR 310
Q VH+QQ SQ SQ H++ H+ A ++R
Sbjct: 351 QSVHKQQA-GFSQTSQIHKKDSHIKGQARYCNHKR 384
>gnl|CDD|180801 PRK07033, PRK07033, hypothetical protein; Provisional.
Length = 427
Score = 29.6 bits (67), Expect = 2.7
Identities = 14/40 (35%), Positives = 17/40 (42%), Gaps = 1/40 (2%)
Query: 267 NFNLSQQQQQQVHQQQQQNSSQPSQNHQEQR-HMDSGAPN 305
N+ LSQ + Q V QP + E R D APN
Sbjct: 366 NWELSQARAQAVRALLAARLGQPERVTAEGRGDSDPVAPN 405
>gnl|CDD|234937 PRK01294, PRK01294, lipase chaperone; Provisional.
Length = 336
Score = 29.3 bits (66), Expect = 3.0
Identities = 15/65 (23%), Positives = 28/65 (43%), Gaps = 11/65 (16%)
Query: 238 MQNASVAAANAELMQQADKNKDSEQQKYRNF-----------NLSQQQQQQVHQQQQQNS 286
M+ V A+ ++Q D+ + + QQ+Y ++ LS Q +Q Q +Q
Sbjct: 256 MRAQLVGPEAAQRLEQLDQQRAAWQQRYDDYLAQRAQILNAAGLSPQDRQAQIAQLRQQR 315
Query: 287 SQPSQ 291
P +
Sbjct: 316 FSPQE 320
>gnl|CDD|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex
non-fungal. The approx. 70 residue Med15 domain of the
ARC-Mediator co-activator is a three-helix bundle with
marked similarity to the KIX domain. The sterol
regulatory element binding protein (SREBP) family of
transcription activators use the ARC105 subunit to
activate target genes in the regulation of cholesterol
and fatty acid homeostasis. In addition, Med15 is a
critical transducer of gene activation signals that
control early metazoan development.
Length = 768
Score = 29.6 bits (66), Expect = 3.1
Identities = 15/58 (25%), Positives = 24/58 (41%)
Query: 239 QNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQ 296
Q + +QQ + +Q K + QQQ QQQQQ + P+ + Q+
Sbjct: 316 QRPGAVPQGGQAVQQGVMSAGQQQLKQMKLRNMRGQQQTQQQQQQQGGNHPAAHQQQM 373
Score = 28.8 bits (64), Expect = 5.7
Identities = 15/83 (18%), Positives = 21/83 (25%)
Query: 222 QPTTPTVIVSKQSNIEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQ 281
Q + +Q + Q + Q + Q QQQ+ Q
Sbjct: 174 QGQAGGMNQGQQGPVGQQQPPQMGQPGMPGGGGQGQMQQQGQPGGQQQQNPQMQQQLQNQ 233
Query: 282 QQQNSSQPSQNHQEQRHMDSGAP 304
QQQ Q Q M
Sbjct: 234 QQQQMDQQQGPADAQAQMGQQQQ 256
>gnl|CDD|236892 PRK11281, PRK11281, hypothetical protein; Provisional.
Length = 1113
Score = 29.5 bits (67), Expect = 3.2
Identities = 11/48 (22%), Positives = 20/48 (41%)
Query: 241 ASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQ 288
A + A AEL D N + ++ +L Q + + Q ++Q
Sbjct: 94 AKLRQAQAELEALKDDNDEETRETLSTLSLRQLESRLAQTLDQLQNAQ 141
>gnl|CDD|227361 COG5028, COG5028, Vesicle coat complex COPII, subunit SEC24/subunit
SFB2/subunit SFB3 [Intracellular trafficking and
secretion].
Length = 861
Score = 29.4 bits (66), Expect = 3.3
Identities = 20/83 (24%), Positives = 32/83 (38%), Gaps = 6/83 (7%)
Query: 273 QQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAPNVPYQRSHEMDTSEPPGGGQENKGTGPQ 332
QQQ +Q Q ++ + + P +S + +S P GG GT P+
Sbjct: 50 PLQQQSRRQIDQAATAMHNTGANNP---APSVMSPAFQSQQKFSS--PYGGSMADGTAPK 104
Query: 333 TSHFKKDKDLETE-PMAKSFLFS 354
++ DL + P S LF
Sbjct: 105 PTNPLVPVDLFEDQPPPISDLFL 127
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1. Members
of this family are necessary for accurate chromosome
transmission during cell division.
Length = 804
Score = 29.4 bits (66), Expect = 3.5
Identities = 16/137 (11%), Positives = 31/137 (22%), Gaps = 7/137 (5%)
Query: 195 HPTGRLSNIYSTGFQIPISSESLGNVKQPTTPTVIVSKQSNIEMQNASVAAANAELMQQA 254
T +LS P + + + QS E + +
Sbjct: 66 GETAKLSAAVRYNQNAPGAPSVGPDSDLSQKTSTFSPCQSGYEASTDPEYIPDLQPDPSL 125
Query: 255 DKNKDSEQQKYRNFNLSQQQQQQVHQQ-------QQQNSSQPSQNHQEQRHMDSGAPNVP 307
+ + SQ Q Q Q+ + Q + Q +P
Sbjct: 126 WGTAPKPEPQPPQAPESQPQPQTPAQKMLSLEEVEAQLQQRQQAPQLPQPPQQVLPQGMP 185
Query: 308 YQRSHEMDTSEPPGGGQ 324
+++ P
Sbjct: 186 PRQAAFPQQGPPEQPPG 202
Score = 29.0 bits (65), Expect = 5.0
Identities = 5/28 (17%), Positives = 8/28 (28%)
Query: 271 SQQQQQQVHQQQQQNSSQPSQNHQEQRH 298
QQ QQ+ + Q+
Sbjct: 304 LLPLVQQPQGQQRGPQFREQLVQLSQQQ 331
Score = 28.2 bits (63), Expect = 7.6
Identities = 18/87 (20%), Positives = 23/87 (26%), Gaps = 1/87 (1%)
Query: 249 ELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAPNVPY 308
+QQ S+Q QQQQQ Q Q H + P
Sbjct: 241 PPLQQPQFPGLSQQMPPPPPQPPQQQQQPPQPQAQPPPQNQPTPHPGLPQGQNAPLPPPQ 300
Query: 309 QRSHEMDTSEPPGGGQENKGTGPQTSH 335
Q + + P G Q Q
Sbjct: 301 Q-PQLLPLVQQPQGQQRGPQFREQLVQ 326
Score = 28.2 bits (63), Expect = 7.8
Identities = 15/77 (19%), Positives = 23/77 (29%)
Query: 222 QPTTPTVIVSKQSNIEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQ 281
QP P Q+ NA L Q+ + Q ++Q+ Q
Sbjct: 268 QPPQPQAQPPPQNQPTPHPGLPQGQNAPLPPPQQPQLLPLVQQPQGQQRGPQFREQLVQL 327
Query: 282 QQQNSSQPSQNHQEQRH 298
QQ SQ ++
Sbjct: 328 SQQQREALSQEEAKRAK 344
Score = 28.2 bits (63), Expect = 9.2
Identities = 11/62 (17%), Positives = 14/62 (22%)
Query: 271 SQQQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAPNVPYQRSHEMDTSEPPGGGQENKGTG 330
Q Q QQ P Q Q+ P P + +P
Sbjct: 168 QAPQLPQPPQQVLPQGMPPRQAAFPQQGPPEQPPGYPQPPQGHPEQVQPQQFLPAPSQAP 227
Query: 331 PQ 332
Q
Sbjct: 228 AQ 229
>gnl|CDD|226203 COG3678, CpxP, P pilus assembly/Cpx signaling pathway, periplasmic
inhibitor/zinc-resistance associated protein
[Intracellular trafficking and secretion / Cell motility
and secretio / Signal transduction mechanisms /
Inorganic ion transport and metabolism].
Length = 160
Score = 28.5 bits (64), Expect = 3.9
Identities = 14/70 (20%), Positives = 29/70 (41%), Gaps = 4/70 (5%)
Query: 234 SNIEMQNASVAAAN---AELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQ-QQQQNSSQP 289
S + A+ AA A+ + ++ +L++ Q+QQ+ Q Q +Q
Sbjct: 19 SALAHAAATAAAPPLPMADAHHGGQFGPRHQGGMFKGLDLTRAQRQQIRDLMQAQRRAQR 78
Query: 290 SQNHQEQRHM 299
Q ++R +
Sbjct: 79 EQLRSKRRAL 88
>gnl|CDD|215544 PLN03029, PLN03029, type-a response regulator protein; Provisional.
Length = 222
Score = 28.8 bits (64), Expect = 4.1
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 250 LMQQADKN-KDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQR 297
+M+ KN K Q+K S+ Q ++ Q QQ SQP Q Q+
Sbjct: 145 MMKTKSKNQKQENQEKQEKLEESEIQSEKQEQPSQQPQSQPQPQQQPQQ 193
>gnl|CDD|219533 pfam07718, Coatamer_beta_C, Coatamer beta C-terminal region. This
family is found at the N-terminus of the coatamer beta
subunit proteins (Beta-coat proteins). This C-terminal
domain probably adapts the function of the N-terminal
pfam01602 domain.
Length = 279
Score = 28.5 bits (64), Expect = 4.5
Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 5/79 (6%)
Query: 173 EHFENSLEMVTSSNETTVQYLLHPTGRLSNIYS-TGFQIPISSESLGNVKQ-PTTPTVIV 230
+ F +SL E+ + +L + TGF P+ E+ V Q V+V
Sbjct: 25 DRFPSSLAAALGGEESAASS---TSSKLHKVTQLTGFSDPVYVEAYVTVNQYDIVLDVLV 81
Query: 231 SKQSNIEMQNASVAAANAE 249
Q+ +QNA++ A
Sbjct: 82 VNQTKDTLQNATLELATLG 100
>gnl|CDD|113452 pfam04684, BAF1_ABF1, BAF1 / ABF1 chromatin reorganising factor.
ABF1 is a sequence-specific DNA binding protein involved
in transcription activation, gene silencing and
initiation of DNA replication. ABF1 is known to remodel
chromatin, and it is proposed that it mediates its
effects on transcription and gene expression by
modifying local chromatin architecture. These functions
require a conserved stretch of 20 amino acids in the
C-terminal region of ABF1 (amino acids 639 to 662 S.
cerevisiae). The N-terminal two thirds of the protein
are necessary for DNA binding, and the N-terminus (amino
acids 9 to 91 in S. cerevisiae) is thought to contain a
novel zinc-finger motif which may stabilise the protein
structure.
Length = 508
Score = 28.9 bits (64), Expect = 4.5
Identities = 13/60 (21%), Positives = 22/60 (36%), Gaps = 3/60 (5%)
Query: 243 VAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQRHMDSG 302
++ A+ Q +++ Q Q HQ QQQ Q Q+H+D+
Sbjct: 286 ISGADHHQHQHHHHPSIPAHHQHQLPEGHQHDHQHHHQHQQQ---DLQHQEQHQQHVDND 342
>gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 484
Score = 28.8 bits (64), Expect = 4.8
Identities = 20/72 (27%), Positives = 29/72 (40%), Gaps = 2/72 (2%)
Query: 250 LMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQ-EQRHMDSGAPNVPY 308
LM Q KN + + + + QQ+ +++ +S N Q E DS N P
Sbjct: 387 LMVQGSKNIPEDVEPVKKISTPPPLQQEASKKKDPTTSDQKLNSQFESNQQDSNLDNNPL 446
Query: 309 QRSHEMDTSEPP 320
E SEPP
Sbjct: 447 PSKSES-QSEPP 457
>gnl|CDD|236797 PRK10927, PRK10927, essential cell division protein FtsN;
Provisional.
Length = 319
Score = 28.5 bits (63), Expect = 4.9
Identities = 24/111 (21%), Positives = 46/111 (41%), Gaps = 11/111 (9%)
Query: 220 VKQPTTPTV---IVSKQSNIEMQNASVAAANAELMQQADK------NKDSEQQKYRNFNL 270
V+ PT P+ + + + Q + A++ QQ + N+ + +Q+ +
Sbjct: 96 VRAPTEPSAGGEVKTPEQLTPEQRQLLEQMQADMRQQPTQLVEVPWNEQTPEQRQQTLQR 155
Query: 271 SQQQQQQVHQQQ-QQNSSQPSQNHQEQ-RHMDSGAPNVPYQRSHEMDTSEP 319
+Q QQ QQ+ Q S Q+ Q+Q R + ++S T +P
Sbjct: 156 QRQAQQLAEQQRLAQQSRTTEQSWQQQTRTSQAAPVQAQPRQSKPASTQQP 206
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB [Transport and binding proteins, Other,
Cellular processes, Pathogenesis].
Length = 346
Score = 28.6 bits (64), Expect = 5.1
Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 5/59 (8%)
Query: 239 QNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQR 297
+VA + QQ EQ++ + +QQ ++Q+ + Q Q EQR
Sbjct: 44 DPGAVAQQANRIQQQKKPAAKKEQER-----QKKLEQQAEEAEKQRAAEQARQKELEQR 97
>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584). This
protein is found in bacteria and eukaryotes. Proteins in
this family are typically between 943 to 1234 amino
acids in length. This family contains a P-loop motif
suggesting it is a nucleotide binding protein. It may be
involved in replication.
Length = 1198
Score = 28.9 bits (65), Expect = 5.1
Identities = 14/58 (24%), Positives = 24/58 (41%), Gaps = 2/58 (3%)
Query: 233 QSNIEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLS-QQQQQQVHQQQQQNSSQP 289
Q E A+V +EL +Q K +D + + Q +Q + + + Q S Q
Sbjct: 482 QEEQEQAEANVEQLQSEL-RQLRKRRDEALEALQRAERRLLQLRQALDELELQLSPQA 538
>gnl|CDD|213398 cd12191, gal11_coact, gall11 coactivator domain. Gall11/MED15 acts
in the general regulation of GAL structural genes and is
required for full expression for several genes in this
pathway, including GALs 1,7, and 10 in Saccharomyces
cerevisiae. GAL11 function is dependent on GCN4
functionality and binds GCN4 in a degenerate manner with
multiple orientations found at the GCN4-Gal11 interface.
Length = 90
Score = 26.9 bits (60), Expect = 5.3
Identities = 13/29 (44%), Positives = 14/29 (48%)
Query: 272 QQQQQQVHQQQQQNSSQPSQNHQEQRHMD 300
QQQQQ QQQQQ Q Q +M
Sbjct: 1 PQQQQQPQQQQQQQMPQNPQLVNMMDNMP 29
>gnl|CDD|215106 PLN00212, PLN00212, glutelin; Provisional.
Length = 493
Score = 28.6 bits (64), Expect = 5.3
Identities = 15/34 (44%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 273 QQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAPNV 306
QQQ+ QQQQQ Q Q Q Q+ SG N
Sbjct: 271 TQQQEQAQQQQQRLYQQVQYQQSQQT--SGRWNG 302
>gnl|CDD|204565 pfam10956, DUF2756, Protein of unknown function (DUF2756). Some
members in this family of proteins are annotated yhhA
however currently no function is known. The family
appears to be restricted to Enterobacteriaceae.
Length = 104
Score = 27.3 bits (60), Expect = 5.5
Identities = 18/58 (31%), Positives = 25/58 (43%)
Query: 252 QQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAPNVPYQ 309
QQ + + QQ + L+QQ Q Q QQQ +Q + N Q + G N Q
Sbjct: 36 QQRMQTQMQTQQIQQKGMLNQQLQTQTRLQQQHLQNQLNNNQQRVQQGQPGNLNARQQ 93
>gnl|CDD|185757 cd09218, TLP-PA, allergenic/antifungal thaumatin-like proteins:
plant and animal homologs. This subfamily is
represented by the thaumatin-like proteins (TLPs),
Cherry Allergen Pru Av 2 TLP, Peach PpAZ44 TLP (a
propylene-induced TLP in abscission), the
Caenorhabditis elegans thaumatin family member (thn-6),
and other plant and animal homologs. TLPs are involved
in host defense and a wide range of developmental
processes in fungi, plants, and animals. Due to their
inducible expression by environmental stresses such as
pathogen/pest attack, drought and cold, plant TLPs are
classified as the pathogenesis-related (PR) protein
family 5 (PR5). Several members of the plant TLP family
have been reported as food allergens from fruits (i.e.,
cherry, Pru av 2; bell pepper, Cap a1; tomatoes, Lyc e
NP24) and pollen allergens from conifers (i.e.,
mountain cedar, Jun a 3; Arizona cypress, Cup a3;
Japanese cedar, Cry j3). TLPs are three-domain,
crescent-fold structures with either an
electronegative, electropositive, or neutral cleft
occurring between domains I and II. It has been
proposed that the antifungal activity of plant PR5
proteins relies on the strong electronegative character
of this cleft. Some TLPs hydrolyze the beta-1,3-glucans
of the type commonly found in fungal walls. TLPs within
this subfamily contain 16 conserved Cys residues.
Length = 219
Score = 28.4 bits (64), Expect = 5.7
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 5/49 (10%)
Query: 15 VTTPTGIRKKFNGKQW-RRLCSKDGCSKESQRRGYCSRHLSLKGAGSAT 62
+ P+G ++G+ W R CS D K S G C L GAG A
Sbjct: 40 IDAPSG----WSGRFWGRTGCSFDSSGKGSCATGDCGGGLECNGAGGAP 84
>gnl|CDD|151422 pfam10975, DUF2802, Protein of unknown function (DUF2802). This
bacterial family of proteins has no known function.
Length = 70
Score = 26.4 bits (59), Expect = 5.8
Identities = 7/43 (16%), Positives = 17/43 (39%), Gaps = 5/43 (11%)
Query: 273 QQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAPN-VPYQRSHEM 314
Q++ + +QQ + Q ++ P Y R+ ++
Sbjct: 2 GMGQRLAELEQQLKELQDR----QEELEQQDPQSRLYSRAAKL 40
>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional.
Length = 1355
Score = 28.5 bits (63), Expect = 6.6
Identities = 15/76 (19%), Positives = 26/76 (34%)
Query: 271 SQQQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAPNVPYQRSHEMDTSEPPGGGQENKGTG 330
Q QQ QQQ Q QP + + P + + + P Q +
Sbjct: 753 QQPQQPVAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVA 812
Query: 331 PQTSHFKKDKDLETEP 346
PQ + + + + +P
Sbjct: 813 PQPQYQQPQQPVAPQP 828
Score = 28.1 bits (62), Expect = 8.7
Identities = 20/100 (20%), Positives = 33/100 (33%), Gaps = 5/100 (5%)
Query: 236 IEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQE 295
+E + Q + + Q +Y+ Q Q Q QQ + QP +
Sbjct: 749 VEPVQQPQQPVAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQ 808
Query: 296 QRHMDSGAPNVPYQRSHEMDTSEPP-GGGQENKGTGPQTS 334
Q AP YQ+ + +P Q+ PQ +
Sbjct: 809 QPV----APQPQYQQPQQPVAPQPQYQQPQQPVAPQPQDT 844
>gnl|CDD|222095 pfam13388, DUF4106, Protein of unknown function (DUF4106). This
family of proteins are found in large numbers in the
Trichomonas vaginalis proteome. The function of this
protein is unknown.
Length = 422
Score = 28.5 bits (63), Expect = 6.7
Identities = 12/46 (26%), Positives = 16/46 (34%)
Query: 252 QQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQR 297
Q +N + Q+ Q QQ Q Q Q Q H+ R
Sbjct: 215 QPTVQNPAQQPQQQPQQQPVQPAQQPTPQNPAQQPPQTEQGHKRSR 260
>gnl|CDD|220815 pfam10577, UPF0560, Uncharacterized protein family UPF0560. This
family of proteins has no known function.
Length = 805
Score = 28.3 bits (63), Expect = 7.2
Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 8/64 (12%)
Query: 250 LMQQADKNKDSEQ-QKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQE-----QRHMDSGA 303
LM+ AD+ + Q + + +Q Q Q+ QQ S Q SQ+ + Q S +
Sbjct: 532 LMEPADQQSEIGTLQAELSHSHAQPQGQR--LSAQQISGQHSQDSEGEGWSSQSASLSES 589
Query: 304 PNVP 307
++P
Sbjct: 590 VSIP 593
>gnl|CDD|217803 pfam03938, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a molecular
chaperone that interacts with unfolded proteins as they
emerge in the periplasm from the Sec translocation
machinery.
Length = 157
Score = 27.2 bits (61), Expect = 8.3
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 2/46 (4%)
Query: 246 ANAELMQQADKNKDSE--QQKYRNFNLSQQQQQQVHQQQQQNSSQP 289
A + + + + QQK + QQ QQ QQ+QQ QP
Sbjct: 67 KQAATLSEEARKAKQQELQQKQQELQQKQQAAQQELQQKQQELLQP 112
>gnl|CDD|176253 cd08293, PTGR2, Prostaglandin reductase. Prostaglandins and
related eicosanoids are metabolized by the oxidation of
the 15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto-13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. These 15-PGDH and
related enzymes are members of the medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 345
Score = 28.1 bits (63), Expect = 8.5
Identities = 24/82 (29%), Positives = 31/82 (37%), Gaps = 15/82 (18%)
Query: 7 HKYKKGDIVTTPTGIRKKFNGKQWRRLCSKDGCSKESQRRGYCSRHLS-------LKGAG 59
K+ GDIVT+ FN W+ DG S E HLS L G
Sbjct: 88 QKFAVGDIVTS-------FNWP-WQTYAVLDGSSLEKVDPQLVDGHLSYFLGAVGLPGLT 139
Query: 60 SATGLRSKDRIRRPMNAFMIFS 81
+ G++ K I N M+ S
Sbjct: 140 ALIGIQEKGHITPGANQTMVVS 161
>gnl|CDD|224241 COG1322, COG1322, Predicted nuclease of restriction
endonuclease-like fold, RmuC family [General function
prediction only].
Length = 448
Score = 28.1 bits (63), Expect = 8.5
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 239 QNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQ 288
S+ A N EL+Q+ ++ K QQ+ S++Q Q + + Q SS+
Sbjct: 60 FARSLQALNLELIQELNELKARLQQQL---LQSREQLQLLIESLAQLSSE 106
>gnl|CDD|237434 PRK13578, PRK13578, ornithine decarboxylase; Provisional.
Length = 720
Score = 28.0 bits (63), Expect = 9.8
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 276 QQVHQQQQQNSSQPSQNHQEQRHMDSGAPNVPYQR 310
Q VH+QQ SQ SQ H++ H+ A P++R
Sbjct: 351 QSVHKQQA-GFSQTSQIHKKDNHIKGQARYCPHKR 384
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
0.310 0.125 0.366
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,103,659
Number of extensions: 1534111
Number of successful extensions: 2569
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2010
Number of HSP's successfully gapped: 164
Length of query: 357
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 259
Effective length of database: 6,590,910
Effective search space: 1707045690
Effective search space used: 1707045690
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 60 (26.8 bits)