RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6125
(242 letters)
>gnl|CDD|227526 COG5199, SCP1, Calponin [Cytoskeleton].
Length = 178
Score = 114 bits (286), Expect = 1e-31
Identities = 60/180 (33%), Positives = 88/180 (48%), Gaps = 22/180 (12%)
Query: 55 SKYSEELAQECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKLVNDLKPNSVKKINVS 114
++ +E WI + GE + G+ +LKDG LC+++N+ P +K S
Sbjct: 8 CPGMDKQQKEVTLWIETVLGEKFEPPGD---LLSLLKDGVRLCRILNEASPLDIK-YKES 63
Query: 115 TMAFKCMENINCFLDVAREMGVPAQETFQTVDLWERQNLNSVVICLQSLGRKASINSRNF 174
M F MENI+ F++ +++ VP E FQT DL+E ++L VVICL SL R A R F
Sbjct: 64 KMPFVQMENISSFINGLKKLRVPEYELFQTNDLFEAKDLRQVVICLYSLSRYAQ-KERMF 122
Query: 175 NLKAISLLWELSGGNYGKPSIGPKEADKNVRHFT-EEQLKAGQTVISLQYGSNKGANQSG 233
+ P +GP A K R F+ +E L + I LQYG + + QS
Sbjct: 123 SG----------------PFLGPHLATKKPRVFSSQEVLDRSKGAIHLQYGYSDLSEQST 166
>gnl|CDD|237981 cd00014, CH, Calponin homology domain; actin-binding domain which
may be present as a single copy or in tandem repeats
(which increases binding affinity). The CH domain is
found in cytoskeletal and signal transduction proteins,
including actin-binding proteins like spectrin,
alpha-actinin, dystrophin, utrophin, and fimbrin,
proteins essential for regulation of cell shape
(cortexillins), and signaling proteins (Vav).
Length = 107
Score = 101 bits (254), Expect = 1e-27
Identities = 41/109 (37%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 60 ELAQECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKLVNDLKPNSVKKINV-STMAF 118
+E L WI ++ GE ++NF LKDG LCKL+N L P+ + K + F
Sbjct: 1 SQKEELLRWINKVLGEYGP--VTINNFSTDLKDGIALCKLLNSLSPDLIDKKKINPLSRF 58
Query: 119 KCMENINCFLDVAREMGVPAQETFQTVDLWERQNLNSVVICLQSLGRKA 167
K +ENIN L+ A ++GVP F DL E + V+ L SL RK
Sbjct: 59 KRLENINLALNFAEKLGVP-VVNFDAEDLVEDGDEKLVLGLLWSLIRKF 106
>gnl|CDD|214479 smart00033, CH, Calponin homology domain. Actin binding domains
present in duplicate at the N-termini of spectrin-like
proteins (including dystrophin, alpha-actinin). These
domains cross-link actin filaments into bundles and
networks. A calponin homology domain is predicted in
yeasst Cdc24p.
Length = 101
Score = 84.7 bits (210), Expect = 3e-21
Identities = 36/103 (34%), Positives = 46/103 (44%), Gaps = 6/103 (5%)
Query: 64 ECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKLVNDLKPNSVKKINVS--TMAFKCM 121
L W+ + E + NF LKDG LC L+N L P V K V+ FK +
Sbjct: 2 TLLRWVNSLLAEYDKP--PVTNFSSDLKDGVALCALLNSLSPGLVDKKKVAASLSRFKKI 59
Query: 122 ENINCFLDVAREMGVPAQETFQTVDLWERQNLN-SVVICLQSL 163
ENIN L A ++G F+ DL E L V+ L SL
Sbjct: 60 ENINLALSFAEKLGGKV-VLFEPEDLVEGPKLILGVIWTLISL 101
>gnl|CDD|215849 pfam00307, CH, Calponin homology (CH) domain. The CH domain is
found in both cytoskeletal proteins and signal
transduction proteins. The CH domain is involved in
actin binding in some members of the family. However in
calponins there is evidence that the CH domain is not
involved in its actin binding activity. Most member
proteins have from two to four copies of the CH domain,
however some proteins such as calponin have only a
single copy.
Length = 104
Score = 81.6 bits (202), Expect = 4e-20
Identities = 36/105 (34%), Positives = 55/105 (52%), Gaps = 5/105 (4%)
Query: 63 QECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKLVNDLKPNSVKKINVSTMAFKCME 122
+ L WI E+ GE + NF+E L+DG LC L+N L+P + V+ F +E
Sbjct: 2 KALLRWINEVLGEYGGL--PVTNFFEDLRDGLALCALLNKLRPGLIDLKKVNKNRFDKLE 59
Query: 123 NINCFLDVA-REMGVPAQETFQTVDLWERQNLNSVVICLQSLGRK 166
N+N L+ A +++GVP + + DL E N V+ L L R+
Sbjct: 60 NLNLALEFAEKKLGVP--KVLEPEDLVEDGNEKLVLTLLAQLFRR 102
>gnl|CDD|227586 COG5261, IQG1, Protein involved in regulation of cellular
morphogenesis/cytokinesis [Cell division and chromosome
partitioning / Signal transduction mechanisms].
Length = 1054
Score = 64.5 bits (157), Expect = 6e-12
Identities = 30/102 (29%), Positives = 50/102 (49%), Gaps = 5/102 (4%)
Query: 63 QECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKLVNDLKPNSVKKINV-STMAFKCM 121
E WI E+ E + F + L++G L KL P+ I + F+
Sbjct: 47 SEAKIWIEEVIEEALPEL----CFEDSLRNGVFLAKLTQRFNPDLTTVIFPADKLQFRHT 102
Query: 122 ENINCFLDVAREMGVPAQETFQTVDLWERQNLNSVVICLQSL 163
+NIN FLD+ +G+P F+ DL+E++N+ V+ C+ +L
Sbjct: 103 DNINAFLDLIEHVGLPESFHFELQDLYEKKNIPKVIYCIHAL 144
>gnl|CDD|221350 pfam11971, CAMSAP_CH, CAMSAP CH domain. This domain is the
N-terminal CH domain from the CAMSAP proteins.
Length = 85
Score = 32.3 bits (74), Expect = 0.035
Identities = 13/61 (21%), Positives = 22/61 (36%), Gaps = 4/61 (6%)
Query: 77 IDTSGNMDNFYEILKDGTLLCKLVNDLKPNSVKKINVS---TMA-FKCMENINCFLDVAR 132
S ++N DG L L++ P V ++ TM+ + NI +
Sbjct: 7 TPLSPPVENLTRDFSDGCALAALIHFYCPQLVPLHDICLKETMSVADSLYNIQLLQEFCE 66
Query: 133 E 133
E
Sbjct: 67 E 67
>gnl|CDD|109460 pfam00402, Calponin, Calponin family repeat.
Length = 26
Score = 30.5 bits (69), Expect = 0.053
Identities = 12/24 (50%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 219 ISLQYGSNKGANQSGIN-FGNTRH 241
+SLQ G+NKGA+Q G+ +G R
Sbjct: 1 LSLQMGTNKGASQKGMTAYGLPRQ 24
>gnl|CDD|227401 COG5069, SAC6, Ca2+-binding actin-bundling protein fimbrin/plastin
(EF-Hand superfamily) [Cytoskeleton].
Length = 612
Score = 33.8 bits (77), Expect = 0.073
Identities = 24/92 (26%), Positives = 41/92 (44%), Gaps = 8/92 (8%)
Query: 52 TINSKYSEELAQECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKLVNDLKPNSV--- 108
TIN + L W E TG + +F+ +DG L++D +P+++
Sbjct: 117 TINEEGELTKHINLLLWCDEDTG-GYKPEVDTFDFFRSWRDGLAFSALIHDSRPDTLDPN 175
Query: 109 ----KKINVSTMAFKCMENINCFLDVAREMGV 136
+K N + F+ EN N + +AR +GV
Sbjct: 176 VLDLQKKNKALNNFQAFENANKVIGIARLIGV 207
>gnl|CDD|225505 COG2957, COG2957, Peptidylarginine deiminase and related enzymes
[Amino acid transport and metabolism].
Length = 346
Score = 30.0 bits (68), Expect = 1.1
Identities = 28/118 (23%), Positives = 47/118 (39%), Gaps = 27/118 (22%)
Query: 3 DRINSKYSEELAQECLEWIREI-TGENIDTSGNMDNFYEILKDGTLL----C-------- 49
D++ SK +E L + L+ I G +I + G GTLL C
Sbjct: 131 DQVASKLAELLFKAPLKTDPFILEGGSIHSDGE----------GTLLTTEQCLLNDNRNP 180
Query: 50 ---KTTINSKYSEELAQECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKLVNDLK 104
+ I +K E L + + W+ E +N DT G++D + G ++ +D
Sbjct: 181 HLNQEGIENKLKEYLGAKKVLWL-EYGLKNDDTDGHIDTLARFVAPGEIVLSWCDDEN 237
>gnl|CDD|236858 PRK11142, PRK11142, ribokinase; Provisional.
Length = 306
Score = 29.5 bits (67), Expect = 1.4
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 7/32 (21%)
Query: 203 NVRHFTEEQLKAGQTVISLQYG---SNKGANQ 231
N+ F + G+T+ Y KGANQ
Sbjct: 18 NLESFP----RPGETLTGRHYQVAFGGKGANQ 45
>gnl|CDD|214963 smart00996, AdoHcyase, S-adenosyl-L-homocysteine hydrolase.
Length = 426
Score = 29.8 bits (68), Expect = 1.5
Identities = 32/106 (30%), Positives = 45/106 (42%), Gaps = 29/106 (27%)
Query: 10 SEELAQECLEWIREITGENIDTSGNMDNFYEILKDG---TLLCKTTINSKYSEELAQECL 66
+ E C+E + +T + NM IL DG TLL ++ KY L +
Sbjct: 99 TLEEYWWCIE--QTLTWPD-GWGPNM-----ILDDGGDATLL----VHKKYPRMLKK--- 143
Query: 67 EWIREITGENIDTSGNMDNFYEILKDGTLLCKL--VNDLKPNSVKK 110
IR ++ E T+G Y++ K G LL VND SV K
Sbjct: 144 --IRGVSEET--TTGVH-RLYQMAKKGKLLFPAINVND----SVTK 180
>gnl|CDD|232933 TIGR00348, hsdR, type I site-specific deoxyribonuclease, HsdR
family. This gene is part of the type I restriction and
modification system which is composed of three
polypeptides R (restriction endonuclease), M
(modification) and S (specificity). This group of
enzymes recognize specific short DNA sequences and have
an absolute requirement for ATP (or dATP) and
S-adenosyl-L-methionine. They also catalyse the
reactions of EC 2.1.1.72 and EC 2.1.1.73, with similar
site specificity.(J. Mol. Biol. 271 (3), 342-348
(1997)). Members of this family are assumed to differ
from each other in DNA site specificity [DNA metabolism,
Restriction/modification].
Length = 667
Score = 29.3 bits (66), Expect = 2.0
Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 4/59 (6%)
Query: 53 INSKYSEELAQECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKLVNDLKPNSVKKI 111
IN E E + +IT + FY+ +K+G + + K VK I
Sbjct: 42 INDHIEPERWDEVYK---KITNKGDLYETRK-IFYDYIKNGVKIKESQKGEKKRIVKLI 96
>gnl|CDD|218048 pfam04371, PAD_porph, Porphyromonas-type peptidyl-arginine
deiminase. Peptidyl-arginine deiminase (PAD) enzymes
catalyze the deimination of the guanidino group from
carboxy-terminal arginine residues of various peptides
to produce ammonia. PAD from Porphyromonas gingivalis
(PPAD) appears to be evolutionarily unrelated to
mammalian PAD (pfam03068), which is a metalloenzyme.
PPAD is thought to belong to the same superfamily as
aminotransferase and arginine deiminase, and to form an
alpha/beta propeller structure. This family has
previously been named PPADH (Porphyromonas
peptidyl-arginine deiminase homologues). The predicted
catalytic residues in PPAD are Asp130, Asp187, His236,
Asp238 and Cys351. These are absolutely conserved with
the exception of Asp187 which is absent in two family
members. PPAD is also able to catalyze the deimination
of free L-arginine, but has primarily peptidyl-arginine
specificity. It may have a FMN cofactor.
Length = 329
Score = 28.8 bits (65), Expect = 2.5
Identities = 15/55 (27%), Positives = 26/55 (47%)
Query: 48 LCKTTINSKYSEELAQECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKLVND 102
L K I +K + L E + W+ + DT G++DN + GT++ +D
Sbjct: 166 LSKAEIEAKLKDYLGVEKVLWLPHGYLPDDDTDGHVDNLARFVAPGTVVLSWTDD 220
>gnl|CDD|234880 PRK00971, PRK00971, glutaminase; Provisional.
Length = 307
Score = 28.6 bits (65), Expect = 3.1
Identities = 8/25 (32%), Positives = 16/25 (64%)
Query: 2 SDRINSKYSEELAQECLEWIREITG 26
+D + + SEE + LE++R++ G
Sbjct: 122 TDLLQGRLSEEPCERLLEFVRQLAG 146
>gnl|CDD|235330 PRK05015, PRK05015, aminopeptidase B; Provisional.
Length = 424
Score = 28.3 bits (64), Expect = 3.4
Identities = 14/88 (15%), Positives = 28/88 (31%), Gaps = 34/88 (38%)
Query: 11 EELAQ--ECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKTTINSKYSEELAQECLEW 68
+EL + ++W+R+ + + E+LAQ +
Sbjct: 94 QELDARLKIIDWVRDTINA---PAEEL---------------------GPEQLAQRAADL 129
Query: 69 IREITGENIDTSGNMDNFYEILKDGTLL 96
I + G+ + Y I+K L
Sbjct: 130 ICSVAGDAVS--------YRIIKGEDLR 149
Score = 27.9 bits (63), Expect = 5.1
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 8/40 (20%)
Query: 9 YSEELAQECLEWIREITGENIDTSGNMDNFYEILKDGTLL 48
E+LAQ + I + G+ + Y I+K L
Sbjct: 118 GPEQLAQRAADLICSVAGDAVS--------YRIIKGEDLR 149
>gnl|CDD|226565 COG4079, COG4079, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 293
Score = 28.3 bits (63), Expect = 3.9
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 7/43 (16%)
Query: 31 TSGNMDNFYEIL-KDGTLLCKTTINSKYSEELAQECLEWIREI 72
S N+D ++ KD L K+ LA+E L+ IRE
Sbjct: 178 VSSNVDPVLRLVKKDIETL------RKHRRRLAEEMLDHIREG 214
>gnl|CDD|236228 PRK08301, PRK08301, sporulation sigma factor SigE; Reviewed.
Length = 234
Score = 27.9 bits (63), Expect = 4.6
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 3/32 (9%)
Query: 93 GTL-LCKLVNDLKPNSVKKINVSTMAFKCMEN 123
GT+ L K VN P KKI ++T A +C+EN
Sbjct: 86 GTIGLIKAVNTFNPE--KKIKLATYASRCIEN 115
>gnl|CDD|219971 pfam08690, GET2, GET complex subunit GET2. This family corresponds
to the GET complex subunit GET2. The GET complex is
involved in the retrieval of ER resident proteins from
the Golgi.
Length = 298
Score = 27.4 bits (61), Expect = 7.8
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 160 LQSLGRKASINSRNFNLKAISLL 182
L+ L R +NS F LK +S+
Sbjct: 230 LKKLERFNKVNSLQFTLKLVSMG 252
>gnl|CDD|187841 cd09710, Cas3_I-D, CRISPR/Cas system-associated protein Cas3;
Distinct diverged subfamily of Cas3 helicase domain.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Diverged DNA helicase Cas3'; signature gene for Type I
and subtype I-D.
Length = 353
Score = 27.1 bits (60), Expect = 7.9
Identities = 10/47 (21%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 50 KTTINSKYSEELAQECLEWIREITGEN----IDTSGNMDNFYEILKD 92
++ ELA E +E R++ GE +D+ ++ ++L+
Sbjct: 244 APDFKEEWLAELAAEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQ 290
>gnl|CDD|234362 TIGR03814, Gln_ase, glutaminase A. This family describes the
enzyme glutaminase, from a larger family that includes
serine-dependent beta-lactamases and penicillin-binding
proteins. Many bacteria have two isozymes. This model is
based on selected known glutaminases and their homologs
within prokaryotes, with the exclusion of highly-derived
(long branch) and architecturally varied homologs, so as
to achieve conservative assignments. A sharp drop in
scores occurs below 250, and cutoffs are set
accordingly. The enzyme converts glutamine to glutamate,
with the release of ammonia. Members tend to be
described as glutaminase A (glsA), where B (glsB) is
unknown and may not be homologous (as in Rhizobium
etli). Some species have two isozymes that may both be
designated A (GlsA1 and GlsA2) [Energy metabolism, Amino
acids and amines].
Length = 300
Score = 27.1 bits (61), Expect = 8.6
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 1 MSDRINSKYSEELAQECLEWIREITGE 27
++ + + SEE + LE++R++ G
Sbjct: 114 VTSLLPGRTSEEKLERILEFVRKLAGN 140
>gnl|CDD|215304 PLN02554, PLN02554, UDP-glycosyltransferase family protein.
Length = 481
Score = 27.1 bits (60), Expect = 9.1
Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 6/95 (6%)
Query: 44 DGTLLCKTTINSKYSEELAQECLEWIREITGENIDTSGNMDNFYEILKDGTLLCKLVNDL 103
+ ++++ + L E + + T E+ +DN ++D KLV+D
Sbjct: 48 ASSSAYIASLSASSEDRLRYEVISAGDQPTTEDPTFQSYIDNQKPKVRDAVA--KLVDDS 105
Query: 104 KPNSVKKINVSTMAFKCMENINCFLDVAREMGVPA 138
S ++ + C I DVA E GVP+
Sbjct: 106 STPSSPRLAGFVVDMFCTSMI----DVANEFGVPS 136
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
0.315 0.132 0.384
Gapped
Lambda K H
0.267 0.0810 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,845,103
Number of extensions: 1081538
Number of successful extensions: 931
Number of sequences better than 10.0: 1
Number of HSP's gapped: 918
Number of HSP's successfully gapped: 39
Length of query: 242
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 148
Effective length of database: 6,768,326
Effective search space: 1001712248
Effective search space used: 1001712248
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: 42 (22.0 bits)
S2: 58 (26.0 bits)