RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6796
(123 letters)
>gnl|CDD|215236 PLN02428, PLN02428, lipoic acid synthase.
Length = 349
Score = 96.7 bits (241), Expect = 3e-25
Identities = 36/55 (65%), Positives = 41/55 (74%)
Query: 64 VVEYVTPEKYAHWEKVGNSMGFLYTASGPLVRSSYKAGEFFIGSVLRNRKAAAEA 118
V EYVTPEK+ W + G MGF Y ASGPLVRSSYKAGEFFI S++R +A A A
Sbjct: 294 VKEYVTPEKFEFWREYGEEMGFRYVASGPLVRSSYKAGEFFIKSMIREDRAKAAA 348
>gnl|CDD|240408 PTZ00413, PTZ00413, lipoate synthase; Provisional.
Length = 398
Score = 83.3 bits (206), Expect = 4e-20
Identities = 27/54 (50%), Positives = 39/54 (72%)
Query: 63 KVVEYVTPEKYAHWEKVGNSMGFLYTASGPLVRSSYKAGEFFIGSVLRNRKAAA 116
KV Y P+++ WE+ MGFLY ASGPLVRSSY+AGE++I ++++ R+ A
Sbjct: 341 KVSRYAHPKEFEMWEEEAMKMGFLYCASGPLVRSSYRAGEYYIKNLVKQRRKAK 394
>gnl|CDD|223397 COG0320, LipA, Lipoate synthase [Coenzyme metabolism].
Length = 306
Score = 76.5 bits (189), Expect = 8e-18
Identities = 27/59 (45%), Positives = 36/59 (61%), Gaps = 2/59 (3%)
Query: 52 YVTPEKYAHWEKVVEYVTPEKYAHWEKVGNSMGFLYTASGPLVRSSYKAGEFFIGSVLR 110
Y+ P + V YVTPE++ E+V MGFL+ ASGPLVRSSY A E F + ++
Sbjct: 250 YLQPSRKHL--PVQRYVTPEEFDELEEVAEEMGFLHVASGPLVRSSYHADEQFAEAEVK 306
>gnl|CDD|235493 PRK05481, PRK05481, lipoyl synthase; Provisional.
Length = 289
Score = 75.1 bits (186), Expect = 2e-17
Identities = 22/45 (48%), Positives = 30/45 (66%), Gaps = 1/45 (2%)
Query: 60 HWEKVVEYVTPEKYAHWEKVGNSMGFLYTASGPLVRSSYKAGEFF 104
H V YVTPE++ ++++ +GFL+ ASGPLVRSSY A E
Sbjct: 240 HLP-VERYVTPEEFDEYKEIALELGFLHVASGPLVRSSYHADEQA 283
>gnl|CDD|233002 TIGR00510, lipA, lipoate synthase. This enzyme is an iron-sulfur
protein. It is localized to mitochondria in yeast and
Arabidopsis. It generates lipoic acid, a thiol
antioxidant that is linked to a specific Lys as
prosthetic group for the pyruvate and
alpha-ketoglutarate dehydrogenase complexes and the
glycine-cleavage system. The family shows strong
sequence conservation [Biosynthesis of cofactors,
prosthetic groups, and carriers, Lipoate].
Length = 302
Score = 73.7 bits (181), Expect = 9e-17
Identities = 23/60 (38%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 51 EYVTPEKYAHWEKVVEYVTPEKYAHWEKVGNSMGFLYTASGPLVRSSYKAGEFFIGSVLR 110
+Y+ P + V YV+PE++ ++ V MGFL+ A GP VRSSY A F L
Sbjct: 243 QYLRPSR--RHLPVKRYVSPEEFDYYRSVALEMGFLHAACGPFVRSSYHADSLFAAGRLV 300
>gnl|CDD|237261 PRK12928, PRK12928, lipoyl synthase; Provisional.
Length = 290
Score = 61.9 bits (151), Expect = 2e-12
Identities = 19/39 (48%), Positives = 25/39 (64%)
Query: 64 VVEYVTPEKYAHWEKVGNSMGFLYTASGPLVRSSYKAGE 102
V Y TPE++ ++ +GF + SGPLVRSSY AGE
Sbjct: 251 VQRYWTPEEFEALGQIARELGFSHVRSGPLVRSSYHAGE 289
>gnl|CDD|132778 cd06868, PX_HS1BP3, The phosphoinositide binding Phox Homology
domain of HS1BP3. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions such as cell signaling, vesicular
trafficking, protein sorting, and lipid modification,
among others. Hematopoietic lineage cell-specific
protein-1 (HS1) binding protein 3 (HS1BP3) associates
with HS1 proteins through their SH3 domains, suggesting
a role in mediating signaling. It has been reported that
HS1BP3 might affect the IL-2 signaling pathway in
hematopoietic lineage cells. Mutations in HS1BP3 may
also be associated with familial Parkinson disease and
essential tremor. HS1BP3 contains a PX domain, a leucine
zipper, motifs similar to immunoreceptor tyrosine-based
inhibitory motif and proline-rich regions. The PX domain
interacts with PIs and plays a role in targeting
proteins to PI-enriched membranes.
Length = 120
Score = 27.8 bits (62), Expect = 0.81
Identities = 20/80 (25%), Positives = 33/80 (41%), Gaps = 15/80 (18%)
Query: 50 VEY----VTPEKYA-----HWEKVVEYVTPEKYAHWEKVGNSMGFLYTASG--PLVRSSY 98
V Y VT E VV+++ +KY+ +E++ + Y + PL R +
Sbjct: 21 VLYQIVVVTRLAAFKSAKHKEEDVVQFMVSKKYSEFEELYKKLSEKYPGTILPPLPRKAL 80
Query: 99 KAGEFFIGSVLRNRKAAAEA 118
E S +R R+AA
Sbjct: 81 FVSE----SDIRERRAAFND 96
>gnl|CDD|180578 PRK06466, PRK06466, acetolactate synthase 3 catalytic subunit;
Validated.
Length = 574
Score = 28.6 bits (64), Expect = 0.83
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 28 GGLSSMGSKLAYSMGFALNCP 48
GGL +MG L +MG L P
Sbjct: 420 GGLGTMGFGLPAAMGVKLAFP 440
>gnl|CDD|222802 PHA00497, pol, RNA-dependent RNA polymerase.
Length = 673
Score = 28.6 bits (64), Expect = 0.83
Identities = 10/41 (24%), Positives = 19/41 (46%)
Query: 23 GLNCPGGLSSMGSKLAYSMGFALNCPVVEYVTPEKYAHWEK 63
G P G +M + A + F +N P+ + + A +E+
Sbjct: 281 GSQVPDGFFAMRRRTAMAGPFTINAPIQCFAQGCRNAMYER 321
>gnl|CDD|221902 pfam13028, DUF3889, Protein of unknown function (DUF3889). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are approximately 110 amino acids in
length. There are two completely conserved residues (A
and Y) that may be functionally important.
Length = 96
Score = 26.9 bits (60), Expect = 1.4
Identities = 10/37 (27%), Positives = 13/37 (35%)
Query: 37 LAYSMGFALNCPVVEYVTPEKYAHWEKVVEYVTPEKY 73
L + A E YA W ++ T EKY
Sbjct: 1 LLFGTLLAALAAPPALAQAEAYAKWGRLAVEETKEKY 37
>gnl|CDD|147038 pfam04682, Herpes_BTRF1, Herpesvirus BTRF1 protein conserved
region. Herpesvirus protein.
Length = 256
Score = 27.7 bits (62), Expect = 1.6
Identities = 11/37 (29%), Positives = 18/37 (48%)
Query: 30 LSSMGSKLAYSMGFALNCPVVEYVTPEKYAHWEKVVE 66
L MG + L PV+ V+ ++ +EK+VE
Sbjct: 119 LYRMGLENCVQDFEQLYGPVLPPVSEDQVEFFEKLVE 155
>gnl|CDD|184995 PRK15035, PRK15035, cytochrome bd-II oxidase subunit 1;
Provisional.
Length = 514
Score = 27.3 bits (60), Expect = 2.3
Identities = 13/52 (25%), Positives = 23/52 (44%)
Query: 7 GTVEFLLWDEVWQGSMGLNCPGGLSSMGSKLAYSMGFALNCPVVEYVTPEKY 58
G + +LL E+ QG+ + + L Y M + P + +VT +Y
Sbjct: 321 GRMAWLLMQEISQGNREPHVLQAFRELEGDLGYGMLLSRYAPDMNHVTAAQY 372
>gnl|CDD|149793 pfam08847, DUF1817, Domain of unknown function (DUF1817). Members
of this family are functionally uncharacterized.
Length = 150
Score = 26.0 bits (58), Expect = 4.8
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 11 FLLWDEVWQGSMGLNCPGGLSSMGSKLAY 39
F+L D W GL+ G L M + L Y
Sbjct: 114 FVLDD--WLKQQGLSSRGRLKQMAAMLGY 140
>gnl|CDD|234569 PRK00007, PRK00007, elongation factor G; Reviewed.
Length = 693
Score = 26.2 bits (59), Expect = 5.2
Identities = 17/39 (43%), Positives = 19/39 (48%), Gaps = 11/39 (28%)
Query: 31 SSMGSKLAYSMGF---ALNC-PV-------VEYVTPEKY 58
S M K+A SM F A PV VE VTPE+Y
Sbjct: 578 SEMAFKIAGSMAFKEAAKKANPVLLEPIMKVEVVTPEEY 616
>gnl|CDD|180780 PRK06965, PRK06965, acetolactate synthase 3 catalytic subunit;
Validated.
Length = 587
Score = 26.3 bits (58), Expect = 5.5
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 28 GGLSSMGSKLAYSMGFALNCPVVEYVT 54
GGL +MG L Y+MG + P + V
Sbjct: 434 GGLGTMGVGLPYAMGIKMAHPDDDVVC 460
>gnl|CDD|223100 COG0021, TktA, Transketolase [Carbohydrate transport and
metabolism].
Length = 663
Score = 26.0 bits (58), Expect = 6.5
Identities = 8/24 (33%), Positives = 9/24 (37%)
Query: 57 KYAHWEKVVEYVTPEKYAHWEKVG 80
K WE V E YA + V
Sbjct: 277 KALGWEPEPFEVPEEVYAAFRAVE 300
>gnl|CDD|178642 PLN03094, PLN03094, Substrate binding subunit of ER-derived-lipid
transporter; Provisional.
Length = 370
Score = 25.9 bits (57), Expect = 7.5
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 17 VWQGSMGLNCPGGLSSMGSKLAYSMGFAL 45
VW+G +GL G + + LA+ GF L
Sbjct: 83 VWEGGVGLFLLSGAALLALTLAWLRGFQL 111
>gnl|CDD|223001 PHA03148, PHA03148, hypothetical protein; Provisional.
Length = 289
Score = 25.4 bits (56), Expect = 8.3
Identities = 12/37 (32%), Positives = 19/37 (51%)
Query: 30 LSSMGSKLAYSMGFALNCPVVEYVTPEKYAHWEKVVE 66
L +G + AL V+ V+PE+ +EK+VE
Sbjct: 152 LKRLGLENIVQDFEALYGSVLPPVSPEQIESFEKLVE 188
>gnl|CDD|234225 TIGR03480, HpnN, hopanoid biosynthesis associated RND transporter
like protein HpnN. The genomes containing members of
this family share the machinery for the biosynthesis of
hopanoid lipids. Furthermore, the genes of this family
are usually located proximal to other components of this
biological process. The proteins appear to be related to
the RND family of export proteins, particularly the
hydrophobe/amphiphile efflux-3 (HAE3) family represented
by TIGR00921.
Length = 862
Score = 25.7 bits (57), Expect = 8.5
Identities = 10/31 (32%), Positives = 18/31 (58%)
Query: 20 GSMGLNCPGGLSSMGSKLAYSMGFALNCPVV 50
GS+ ++ G +SMG L+ +G L C ++
Sbjct: 820 GSLAVSSHPGTASMGILLSLGLGLTLLCTLI 850
>gnl|CDD|145259 pfam01982, CTP-dep_RFKase, Domain of unknown function DUF120. This
domain is a CTP-dependent riboflavin kinase (RFK), found
in archaea, that catalyzes the phosphorylation of
riboflavin to form flavin mononucleotide in riboflavin
biosynthesis EC:2.7.1.26. Its structure resembles a RIFT
barrel, structurally similar to but topologically
distinct from bacterial and eukaryotic examples. The
N-terminal is a winged helix-turn-helix DNA-binding
domain, and the C-terminal half is most similar in
sequence to a group of cradle-loop barrels.
Archaeoglobus fulgidus ribovlavin kinase has this domain
attached to pfam00325.
Length = 121
Score = 24.8 bits (55), Expect = 9.4
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 53 VTPEKYAHWEKVVEYVTPEK 72
V PE+ H V+E + P K
Sbjct: 85 VFPERTHHPPDVLEIIAPVK 104
>gnl|CDD|222790 PHA00430, PHA00430, tail fiber protein.
Length = 568
Score = 25.6 bits (56), Expect = 9.7
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 14 WDEVWQGSMGLNCPGGLSSMG 34
W +VW S G+ GG S
Sbjct: 480 WTQVWTASAGMYLIGGGVSDT 500
>gnl|CDD|180570 PRK06457, PRK06457, pyruvate dehydrogenase; Provisional.
Length = 549
Score = 25.6 bits (56), Expect = 9.8
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 16/61 (26%)
Query: 18 WQGSMGLNCPGGLSSMGSKLAYSM-----------GFALNCPVVEYVTPEKYAHWEKVVE 66
W GSMG+ PG S+G+ A GF + ++E +T +KY K++
Sbjct: 394 WLGSMGIGVPG---SVGASFAVENKRQVISFVGDGGFTMT--MMELITAKKYDLPVKIII 448
Query: 67 Y 67
Y
Sbjct: 449 Y 449
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
0.317 0.133 0.420
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,234,336
Number of extensions: 518112
Number of successful extensions: 420
Number of sequences better than 10.0: 1
Number of HSP's gapped: 420
Number of HSP's successfully gapped: 28
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
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 (21.6 bits)
S2: 53 (24.2 bits)