RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12238
(166 letters)
>gnl|CDD|147609 pfam05517, p25-alpha, p25-alpha. This family encodes a 25 kDa
protein that is phosphorylated by a Ser/Thr-Pro kinase.
It has been described as a brain specific protein, but
it is found in Tetrahymena thermophila.
Length = 151
Score = 107 bits (268), Expect = 3e-30
Identities = 51/157 (32%), Positives = 73/157 (46%), Gaps = 16/157 (10%)
Query: 20 FSSNFKLFSKFGDTKSDGKLLTLSQSDKWMKQAKVIDGKKVTTTDTGIHFKKFKS---LK 76
+ FK F+ FG + GK + K +K KVID KKVT TD I F K K+ +
Sbjct: 1 LEAAFKKFASFG--TASGKEMDGKTFAKMLKDCKVID-KKVTATDVDIIFSKVKAKSARR 57
Query: 77 IGLSDYQKFIESLAKHKSVPEYDV-------WASKNSEAQIQNTISRLTDPSRYTGSHKL 129
I ++K + LA K ++ + A + + LTD S+YTG HK
Sbjct: 58 ITYEQFEKALSELAAKKKKEADEIIEKLCAGKSPAVGGATKADAVRFLTDKSKYTGVHKE 117
Query: 130 RFDEAGKGKGLAGRKDSVEAAGYVQGYQNRNSYDKTH 166
RFD G GKG++GR D V+ + Y+ +Y
Sbjct: 118 RFDSTGDGKGISGRSDLVDRSSG---YKGAGTYGVKK 151
>gnl|CDD|220731 pfam10397, ADSL_C, Adenylosuccinate lyase C-terminus. This is the
C-terminal seven alpha helices of the structure whose
full length represents the enzyme adenylosuccinate
lyase. This sequence lies C-terminal to the conserved
motif necessary for beta-elimination reactions,
Adenylosuccinate lyase catalyzes two steps in the
synthesis of purine nucleotides: the conversion of
succinylaminoimidazole-carboxamide ribotide into
aminoimidazole-carboxamide ribotide, the eighth step of
the de novo pathway, and the formation of adenosine
monophosphate (AMP) from adenylosuccinate, the second
step in the conversion of inosine monophosphate into
AMP.
Length = 80
Score = 29.3 bits (67), Expect = 0.24
Identities = 12/51 (23%), Positives = 15/51 (29%), Gaps = 10/51 (19%)
Query: 85 FIESLAKHKSVPEYDVWASKNSEAQIQNTISRLTDPSRYTGSHKLRFDEAG 135
E L V Y SE ++ L DP+ Y G D
Sbjct: 40 LREVLLADPEVAAY------LSEEELD----ALFDPAYYLGHADAIVDRVL 80
>gnl|CDD|179366 PRK02102, PRK02102, ornithine carbamoyltransferase; Validated.
Length = 331
Score = 29.5 bits (67), Expect = 0.78
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 21/54 (38%)
Query: 57 GKKVTTTDT---------GIHFKKFKSLKIGLSDYQKFIESLAKHKSVPEYDVW 101
GKK + DT GI ++ FK Q+ +E LAK+ VP VW
Sbjct: 86 GKKESIEDTARVLGRMYDGIEYRGFK---------QEIVEELAKYSGVP---VW 127
>gnl|CDD|198066 smart00998, ADSL_C, Adenylosuccinate lyase C-terminus.
Adenylosuccinate lyase catalyses two steps in the
synthesis of purine nucleotides: the conversion of
succinylaminoimidazole-carboxamide ribotide into
aminoimidazole-carboxamide ribotide (the fifth step of
de novo IMP biosynthesis); the formation of adenosine
monophosphate (AMP) from adenylosuccinate (the final
step in the synthesis of AMP from IMP). This entry
represents the C-terminal, seven alpha-helical, domain
of adenylosuccinate lyase.
Length = 81
Score = 27.8 bits (63), Expect = 0.87
Identities = 12/51 (23%), Positives = 15/51 (29%), Gaps = 10/51 (19%)
Query: 85 FIESLAKHKSVPEYDVWASKNSEAQIQNTISRLTDPSRYTGSHKLRFDEAG 135
E L V Y SE +++ L DP Y G D
Sbjct: 41 LRELLLADPEVTAYL------SEEELE----ELFDPEYYLGHADAIVDRVL 81
>gnl|CDD|233056 TIGR00619, sbcd, exonuclease SbcD. All proteins in this family for
which functions are known are double-stranded DNA
exonuclease (as part of a complex with SbcC homologs).
This complex functions in the initiation of
recombination and recombinational repair and is
particularly important in regulating the stability of
DNA sections that can form secondary structures. This
family is likely homologous to the MRE11 family. This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 253
Score = 28.9 bits (65), Expect = 0.97
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 111 QNTISRLTDPSRYTGS-HKLRFDEAGKGKG 139
+ IS+ + RY+GS L FDEAG+ KG
Sbjct: 224 IHKISKGRERVRYSGSPFPLSFDEAGEDKG 253
>gnl|CDD|221168 pfam11694, DUF3290, Protein of unknown function (DUF3290). This
family of proteins with unknown function appears to be
restricted to Firmicutes.
Length = 149
Score = 28.5 bits (64), Expect = 1.0
Identities = 17/71 (23%), Positives = 33/71 (46%), Gaps = 11/71 (15%)
Query: 65 TGIHFKKFKSLKIGLSDYQK---FIESLAKHKSVPEYDVWASKNSEA-----QIQNTISR 116
GI +++ + + Q+ FIES+AK V + +V+ + ++ +I R
Sbjct: 61 IGIQISNYQTNQSSKNQSQQIVHFIESVAKDLGVDKSEVYVNTSALTDGMIVKIGKNYYR 120
Query: 117 L---TDPSRYT 124
+ TD + YT
Sbjct: 121 VNLNTDNNSYT 131
>gnl|CDD|226182 COG3656, COG3656, Predicted periplasmic protein [Function unknown].
Length = 172
Score = 27.7 bits (61), Expect = 2.4
Identities = 21/79 (26%), Positives = 31/79 (39%), Gaps = 4/79 (5%)
Query: 82 YQKFIESLAKHKSVPEYDVWASKNSEAQIQNTISRLTDPSRYTGSHKLRFDEAGKGKGLA 141
YQ+ L K + E W KN + I ++ +R G++ L +D L
Sbjct: 62 YQQNGRRLNGPKWLEELRQWWRKNGR-LVSTPIDGVSGATRNPGTYALAWDGKKDKLKLL 120
Query: 142 GRKD---SVEAAGYVQGYQ 157
D VEA V GY+
Sbjct: 121 PPGDYYLVVEAGREVGGYE 139
>gnl|CDD|215557 PLN03069, PLN03069, magnesiumprotoporphyrin-IX chelatase subunit H;
Provisional.
Length = 1220
Score = 28.2 bits (63), Expect = 2.6
Identities = 27/84 (32%), Positives = 41/84 (48%), Gaps = 16/84 (19%)
Query: 58 KKVTTTDTGIHFKKFKSL------KIGLSDYQKFIESLAKHKSVPEYDVWASKN-SEAQI 110
+K+ D +HF SL ++G+SD + +SL ++P +A+ N SEA I
Sbjct: 599 EKIFKADAVLHFGTHGSLEFMPGKQVGMSD-ACYPDSLIG--NIPNVYYYAANNPSEATI 655
Query: 111 ------QNTISRLTDPSRYTGSHK 128
NTIS LT P+ G +K
Sbjct: 656 AKRRSYANTISYLTPPAENAGLYK 679
>gnl|CDD|224249 COG1330, RecC, Exonuclease V gamma subunit [DNA replication,
recombination, and repair].
Length = 1078
Score = 28.1 bits (63), Expect = 2.7
Identities = 9/42 (21%), Positives = 15/42 (35%)
Query: 81 DYQKFIESLAKHKSVPEYDVWASKNSEAQIQNTISRLTDPSR 122
D+ + L + + + + QIQ I L SR
Sbjct: 288 DFYYLLLDLEIEQEIDAFKEIEPDSLLHQIQADILHLEPFSR 329
>gnl|CDD|235269 PRK04284, PRK04284, ornithine carbamoyltransferase; Provisional.
Length = 332
Score = 27.4 bits (61), Expect = 3.6
Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 18/52 (34%)
Query: 57 GKKVTTTDT---------GIHFKKFKSLKIGLSDYQKFIESLAKHKSVPEYD 99
GKK +T DT GI ++ F Q+ +E+LA++ VP ++
Sbjct: 85 GKKESTKDTARVLGGMYDGIEYRGFS---------QRTVETLAEYSGVPVWN 127
>gnl|CDD|183043 PRK11230, PRK11230, glycolate oxidase subunit GlcD; Provisional.
Length = 499
Score = 27.4 bits (61), Expect = 3.9
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 107 EAQIQNTISRLTDPSRYTGSHKLRF--DEAGKGKGLAGRKDSVEAAG 151
E+ +Q R+ D G+ +R DEA + + AGRK++ A G
Sbjct: 299 ESDVQEDCERVNDILLKAGATDVRLAQDEAERVRFWAGRKNAFPAVG 345
>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation
factor [Translation, ribosomal structure and
biogenesis].
Length = 447
Score = 27.4 bits (61), Expect = 4.1
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 57 GKKVTTTDTGIHFKKFKSLKIGLSD---YQKFIESLA 90
K+ T D G +++K + +G D + FI +L
Sbjct: 32 KKRGITIDLGFYYRKLEDGVMGFIDVPGHPDFISNLL 68
>gnl|CDD|235083 PRK02889, tolB, translocation protein TolB; Provisional.
Length = 427
Score = 27.3 bits (61), Expect = 4.2
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 94 SVPEYDVWASKNSEAQIQNTISRLTDPSRYTGSHKLRFDEAGKGKGLAG 142
+ + W +K ++A + +++RL D RY +L +D KG+ L G
Sbjct: 85 ASVDLGAWKAKGADALVAGSVTRLAD-GRYDVRFRL-YDTV-KGQSLGG 130
>gnl|CDD|220425 pfam09822, ABC_transp_aux, ABC-type uncharacterized transport
system. This domain is found in various eukaryotic and
prokaryotic intra-flagellar transport proteins involved
in gliding motility, as well as in several hypothetical
proteins.
Length = 268
Score = 27.3 bits (61), Expect = 4.3
Identities = 19/71 (26%), Positives = 33/71 (46%), Gaps = 5/71 (7%)
Query: 86 IESLAKHKSVPEYDVWASKNSEAQIQNTISRLTDPSR----YTGSHKLRFDEAGKGKGLA 141
+E K + +P D + +N E ++ I ++T P + + H DE G G+ L+
Sbjct: 109 VEYGDKREVIPFLDNVSLQNLEYELTRAIQKVTRPKKPKVYFLSGHGELPDEGG-GESLS 167
Query: 142 GRKDSVEAAGY 152
D +E GY
Sbjct: 168 TLIDELEKEGY 178
>gnl|CDD|205922 pfam13748, ABC_membrane_3, ABC transporter transmembrane region.
This family represents a unit of six transmembrane
helices.
Length = 237
Score = 26.4 bits (59), Expect = 6.3
Identities = 16/77 (20%), Positives = 30/77 (38%), Gaps = 16/77 (20%)
Query: 5 MLVILAHFLCKYFLGFSSNFKLFSKFGDTKSDGKLLTLSQSDKWMKQAKVIDGKKVTTTD 64
L+IL L L N +L + + + +K + +I+ +K +
Sbjct: 144 ALLILLVMLLILPLFARRNERLNGRLNN-----------RLEK---EVGLIERRKPSALR 189
Query: 65 TGIHFKKFKSLKIGLSD 81
H++ L+I LSD
Sbjct: 190 R--HYRALSRLRIRLSD 204
>gnl|CDD|240345 PTZ00287, PTZ00287, 6-phosphofructokinase; Provisional.
Length = 1419
Score = 26.9 bits (59), Expect = 6.9
Identities = 14/46 (30%), Positives = 24/46 (52%)
Query: 38 KLLTLSQSDKWMKQAKVIDGKKVTTTDTGIHFKKFKSLKIGLSDYQ 83
K+L Q K++K A D + + ++ K ++SLKI L +Q
Sbjct: 1271 KILPRGQGSKYLKSASKGDLPVIPSAPVDLNGKAYRSLKIALQKWQ 1316
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
0.316 0.132 0.384
Gapped
Lambda K H
0.267 0.0865 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,048,047
Number of extensions: 686645
Number of successful extensions: 616
Number of sequences better than 10.0: 1
Number of HSP's gapped: 613
Number of HSP's successfully gapped: 27
Length of query: 166
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 76
Effective length of database: 6,945,742
Effective search space: 527876392
Effective search space used: 527876392
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: 55 (24.7 bits)