RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11933
(79 letters)
>gnl|CDD|185219 PRK15319, PRK15319, AIDA autotransporter-like protein ShdA;
Provisional.
Length = 2039
Score = 28.9 bits (64), Expect = 0.21
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 1 MARGQQKLQSQAKAQEKQAKAKKQQGHSLLDQKKAAQKALVHACVVCKA 49
+ARG K+++Q A E + +K + ++ KA + AL AC V A
Sbjct: 11 LARGHSKVKAQVCASETHSPNQKSEYGQII---KATRAAL--ACAVAAA 54
>gnl|CDD|216209 pfam00946, Mononeg_RNA_pol, Mononegavirales RNA dependent RNA
polymerase. Members of the Mononegavirales including
the Paramyxoviridae, like other non-segmented negative
strand RNA viruses, have an RNA-dependent RNA polymerase
composed of two subunits, a large protein L and a
phosphoprotein P. This is a protein family of the L
protein. The L protein confers the RNA polymerase
activity on the complex. The P protein acts as a
transcription factor.
Length = 1065
Score = 28.4 bits (64), Expect = 0.32
Identities = 14/62 (22%), Positives = 23/62 (37%), Gaps = 18/62 (29%)
Query: 26 GHSLLDQKKAAQKALVHACVVCKAQMPDPKT------------YKQHFENKH---PKNDL 70
GH +LD ++AA K H +C ++ D +T + + P L
Sbjct: 352 GHPMLDAREAADKVREH---MCAPKVIDLETLLKLLAFFCGIIINGYRDKHGGAWPPVTL 408
Query: 71 PE 72
P
Sbjct: 409 PL 410
>gnl|CDD|236299 PRK08575, PRK08575,
5-methyltetrahydropteroyltriglutamate--homocysteine
methyltransferase; Provisional.
Length = 326
Score = 28.2 bits (63), Expect = 0.35
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 48 KAQMPDPKTYKQHFENKHPKN--DLPEDLKDV 77
KA +P P TY +N++ KN +L ED V
Sbjct: 131 KAVLPGPLTYAVLSDNEYYKNLIELMEDYASV 162
>gnl|CDD|205139 pfam12907, zf-met2, Zinc-binding. This is small family of
metazoan zinc-binding proteins.
Length = 40
Score = 25.5 bits (56), Expect = 0.81
Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 3/32 (9%)
Query: 44 CVVCKA---QMPDPKTYKQHFENKHPKNDLPE 72
C +C K +H ENKHPK D+
Sbjct: 4 CKICMQTFMCTTSEKLLTEHAENKHPKTDVEA 35
>gnl|CDD|225123 COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC
component [Carbohydrate transport and metabolism].
Length = 472
Score = 26.9 bits (60), Expect = 1.00
Identities = 10/43 (23%), Positives = 16/43 (37%), Gaps = 1/43 (2%)
Query: 9 QSQAKAQEKQAKAKKQQGHSLLDQKKAAQKALVHACVVCKAQM 51
+ AK +E + + K Q +L K + C A M
Sbjct: 348 AATAKMKEMKGE-SKGQSSALAADVKNDLSNVKKIIFACDAGM 389
>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 26.8 bits (60), Expect = 1.2
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 5 QQKLQSQAKAQEKQAKAKKQQGHSLLDQKKAAQKA 39
++L+ +A A EKQ K ++ + K AA KA
Sbjct: 243 AERLRQEAAAYEKQQKELAKEQEWIRRGKAAASKA 277
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 25.8 bits (58), Expect = 2.7
Identities = 10/34 (29%), Positives = 13/34 (38%), Gaps = 5/34 (14%)
Query: 6 QKLQSQAKAQEKQ-----AKAKKQQGHSLLDQKK 34
+ L + K EK+ AK LL Q K
Sbjct: 722 EALLEELKELEKELEQLKAKLAAAAAGDLLAQAK 755
>gnl|CDD|233085 TIGR00675, dcm, DNA-methyltransferase (dcm). All proteins in
this family for which functions are known are
DNA-cytosine methyltransferases. 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 = 315
Score = 25.7 bits (57), Expect = 2.8
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 4/27 (14%)
Query: 55 KTYKQHFENKHPKNDL----PEDLKDV 77
KTY+ +F NK P D+ P D+ D
Sbjct: 34 KTYEANFGNKVPFGDITKISPSDIPDF 60
>gnl|CDD|205121 pfam12874, zf-met, Zinc-finger of C2H2 type. This is a
zinc-finger domain with the CxxCx(12)Hx(6)H motif,
found in multiple copies in a wide range of proteins
from plants to metazoans. Some member proteins,
particularly those from plants, are annotated as being
RNA-binding.
Length = 25
Score = 23.6 bits (52), Expect = 4.1
Identities = 6/23 (26%), Positives = 7/23 (30%), Gaps = 1/23 (4%)
Query: 44 CVVCKAQMPDPKTYKQHFE-NKH 65
C +C K H KH
Sbjct: 3 CELCNVTFTSESQLKSHLRGKKH 25
>gnl|CDD|218078 pfam04419, 4F5, 4F5 protein family. Members of this family are
short proteins that are rich in aspartate, glutamate,
lysine and arginine. Although the function of these
proteins is unknown, they are found to be ubiquitously
expressed.
Length = 38
Score = 23.3 bits (51), Expect = 5.2
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 1 MARGQQKLQSQAKAQEKQAKAKKQQGHSLLDQKKAAQKAL 40
MARG Q+ Q++ + +K A K++ Q KAA KAL
Sbjct: 1 MARGNQREQARERNAKKAA---KKKKKGAKSQLKAAAKAL 37
>gnl|CDD|236942 PRK11637, PRK11637, AmiB activator; Provisional.
Length = 428
Score = 24.7 bits (54), Expect = 7.0
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 6 QKLQSQAKAQEKQAKAKKQQGHSLLDQKKAAQKALVHA 43
+ +Q A+EK + ++QQ SLL Q K ++A+ A
Sbjct: 50 KSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQA 87
>gnl|CDD|236569 PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase;
Reviewed.
Length = 262
Score = 24.4 bits (54), Expect = 7.5
Identities = 11/42 (26%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 4 GQQKLQSQAKAQE--KQAKAKKQQGHSLLDQKKAAQKALVHA 43
G + +S + +Q KA+++ S+LD AL+ A
Sbjct: 106 GDVEAESSEEVLANWEQIKAEERAESSVLDGIPRGLPALMRA 147
>gnl|CDD|237478 PRK13709, PRK13709, conjugal transfer nickase/helicase TraI;
Provisional.
Length = 1747
Score = 24.4 bits (53), Expect = 7.6
Identities = 10/41 (24%), Positives = 17/41 (41%)
Query: 2 ARGQQKLQSQAKAQEKQAKAKKQQGHSLLDQKKAAQKALVH 42
R +KL + K + G + L+ + QKA +H
Sbjct: 820 TRTAEKLARHPSFTVVSEQIKARAGETDLETAISLQKAGLH 860
>gnl|CDD|201987 pfam01813, ATP-synt_D, ATP synthase subunit D. This is a family
of subunit D form various ATP synthases including
V-type H+ transporting and Na+ dependent. Subunit D is
suggested to be an integral part of the catalytic
sector of the V-ATPase.
Length = 191
Score = 24.1 bits (53), Expect = 8.4
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 4/26 (15%)
Query: 11 QAKAQEKQAKAKKQQGHSLLDQKKAA 36
+ K + K A Q+GH LL +K+ A
Sbjct: 4 RLKRRLKLA----QRGHKLLKKKRDA 25
>gnl|CDD|235461 PRK05431, PRK05431, seryl-tRNA synthetase; Provisional.
Length = 425
Score = 24.3 bits (54), Expect = 8.5
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 11 QAKAQEKQAKAKKQQGHSLLDQKKAAQKAL 40
QAK + + A+A + L ++ KA + L
Sbjct: 60 QAKRKGEDAEALIAEVKELKEEIKALEAEL 89
>gnl|CDD|235501 PRK05559, PRK05559, DNA topoisomerase IV subunit B; Reviewed.
Length = 631
Score = 24.3 bits (54), Expect = 9.7
Identities = 8/18 (44%), Positives = 9/18 (50%)
Query: 53 DPKTYKQHFENKHPKNDL 70
D K Y+Q FE P L
Sbjct: 139 DGKVYRQRFEGGDPVGPL 156
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 0.122 0.341
Gapped
Lambda K H
0.267 0.0759 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,613,590
Number of extensions: 255275
Number of successful extensions: 629
Number of sequences better than 10.0: 1
Number of HSP's gapped: 600
Number of HSP's successfully gapped: 98
Length of query: 79
Length of database: 10,937,602
Length adjustment: 48
Effective length of query: 31
Effective length of database: 8,808,610
Effective search space: 273066910
Effective search space used: 273066910
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: 53 (24.1 bits)