RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2677
(157 letters)
>gnl|CDD|185573 PTZ00356, PTZ00356, peptidyl-prolyl cis-trans isomerase (PPIase);
Provisional.
Length = 115
Score = 172 bits (438), Expect = 1e-56
Identities = 67/114 (58%), Positives = 85/114 (74%), Gaps = 1/114 (0%)
Query: 45 GPEQVQCSHLLVKHKESRKPYSWR-DDNITRSKEEAIELVKSYREQINTGKASFGELASK 103
+ V+ +HLL+KH SR P S R +TRSKEEAI+ + +REQI +G+ +F E+A +
Sbjct: 2 EGDTVRAAHLLIKHTGSRNPVSRRTGKPVTRSKEEAIKELAKWREQIVSGEKTFEEIARQ 61
Query: 104 FSDCSSAKRSGDLGPFGRGTMQKPFEDAAFSLKVGEMSEPVLTESGVHIILRTA 157
SDC SA + GDLG FGRG MQKPFEDAAF+LKVGE+S+ V T+SGVHIILR A
Sbjct: 62 RSDCGSAAKGGDLGFFGRGQMQKPFEDAAFALKVGEISDIVHTDSGVHIILRLA 115
>gnl|CDD|216038 pfam00639, Rotamase, PPIC-type PPIASE domain. Rotamases increase
the rate of protein folding by catalyzing the
interconversion of cis-proline and trans-proline.
Length = 94
Score = 106 bits (268), Expect = 5e-31
Identities = 45/106 (42%), Positives = 57/106 (53%), Gaps = 13/106 (12%)
Query: 53 HLLVKHKESRKPYSWRDDNITRSKEEAIELVKSYREQINTGKASFGELASKFS-DCSSAK 111
H+L+K ES + A + EQ+ +G+ +F ELA ++S DC SA
Sbjct: 1 HILIKPPESA------------DRAAAKAKAEEILEQLQSGEDTFAELAREYSDDCPSAA 48
Query: 112 RSGDLGPFGRGTMQKPFEDAAFSLKVGEMSEPVLTESGVHIILRTA 157
GDLG F RG + FEDAAFSLK GE+S PV T G HII T
Sbjct: 49 NGGDLGWFTRGQLPPEFEDAAFSLKEGEISGPVETPFGYHIIKVTD 94
>gnl|CDD|222266 pfam13616, Rotamase_3, PPIC-type PPIASE domain. Rotamases increase
the rate of protein folding by catalyzing the
interconversion of cis-proline and trans-proline.
Length = 114
Score = 74.2 bits (183), Expect = 5e-18
Identities = 42/110 (38%), Positives = 53/110 (48%), Gaps = 16/110 (14%)
Query: 46 PEQVQCSHLLVKHKESRKPYSWRDDNITRSKEEAIELVKSYREQINTGKASFGELASKFS 105
P+ V+ H+LV + ++ K EA L S + G A F LA K+S
Sbjct: 13 PDSVKVRHILVAYAGAQ------------RKAEAKALADSIYNALKGG-ADFAALAKKYS 59
Query: 106 -DCSSAKRSGDLGPFG-RGTMQKPFEDAAFSLKVGEMSEPVLTESGVHII 153
D S + GDLG F G M K F DA F+LKVGE+ V T G HII
Sbjct: 60 DDPGSKAQGGDLGWFTASGQMVKEFIDALFTLKVGEIG-VVETPFGYHII 108
>gnl|CDD|223831 COG0760, SurA, Parvulin-like peptidyl-prolyl isomerase
[Posttranslational modification, protein turnover,
chaperones].
Length = 320
Score = 75.1 bits (184), Expect = 7e-17
Identities = 41/144 (28%), Positives = 63/144 (43%), Gaps = 6/144 (4%)
Query: 11 EKRMSRSSGHHYYLNIYTKESQWDRPTKPAEASGGPEQVQCSHLLVKHKESRKPYSWRDD 70
EK + + Y K + T+ EA + L K + +
Sbjct: 119 EKPAFQDVEGKFDARAYLKRLRIKGLTEEQEA-----EALRDKLQNKQQGKKVTEVQARH 173
Query: 71 NITRSKEEAIELVKSYREQINTGKASFGELASKFSDCSSAKRSGDLGPFG-RGTMQKPFE 129
+ +++ +A E + ++ + KA F ELA K S+ S+K G L + +G + F
Sbjct: 174 ILVKAEAKAKEALALLKKGVREAKADFAELAKKQSEDPSSKNGGGLLGWNKKGQLVPEFR 233
Query: 130 DAAFSLKVGEMSEPVLTESGVHII 153
AAF LKVGE+S PV T G HII
Sbjct: 234 KAAFILKVGEVSAPVKTSFGYHII 257
>gnl|CDD|179537 PRK03095, prsA, peptidylprolyl isomerase; Reviewed.
Length = 287
Score = 66.6 bits (162), Expect = 7e-14
Identities = 42/108 (38%), Positives = 59/108 (54%), Gaps = 23/108 (21%)
Query: 47 EQVQCSHLLVKHKESRKPYSWRDDNITRSKEEAIELVKSYREQINTGKASFGELASKFS- 105
+++ SH+LVK + + K +E++ GK SF ELA ++S
Sbjct: 131 PEIKASHILVKDEAT---------------------AKKVKEELGQGK-SFEELAKQYSE 168
Query: 106 DCSSAKRSGDLGPFGRGTMQKPFEDAAFSLKVGEMSEPVLTESGVHII 153
D S ++ GDLG FG G M K FEDAA+ LK E+SEPV ++ G HII
Sbjct: 169 DTGSKEKGGDLGFFGAGKMVKEFEDAAYKLKKDEVSEPVKSQFGYHII 216
>gnl|CDD|131979 TIGR02933, nifM_nitrog, nitrogen fixation protein NifM. Members of
this protein family, found in a subset of
nitrogen-fixing bacteria, are the nitrogen fixation
protein NifM. NifM, homologous to peptidyl-prolyl
cis-trans isomerases, appears to be an accessory protein
for NifH, the Fe protein, also called component II or
dinitrogenase reductase, of nitrogenase [Central
intermediary metabolism, Nitrogen fixation].
Length = 256
Score = 61.8 bits (150), Expect = 3e-12
Identities = 33/109 (30%), Positives = 49/109 (44%), Gaps = 13/109 (11%)
Query: 46 PEQVQCSHLLVKHKESRKPYSWRDDNITRSKEEAIELVKSYREQINTGKASFGELASKFS 105
PEQ HLL+ E + R++ AI ++ A+F E A + S
Sbjct: 121 PEQRLTRHLLLTVNEDDRE-------AVRTRILAI------LRRLRGKPAAFAEQAMRHS 167
Query: 106 DCSSAKRSGDLGPFGRGTMQKPFEDAAFSLKVGEMSEPVLTESGVHIIL 154
C +A G LG RG + + A F L GE+S P+ +E G H++L
Sbjct: 168 HCPTAMEGGLLGWVSRGLLYPQLDAALFQLAEGELSPPIESEIGWHLLL 216
>gnl|CDD|101162 PRK03002, prsA, peptidylprolyl isomerase; Reviewed.
Length = 285
Score = 61.9 bits (150), Expect = 4e-12
Identities = 33/71 (46%), Positives = 46/71 (64%), Gaps = 2/71 (2%)
Query: 84 KSYREQINTGKASFGELASKFS-DCSSAKRSGDLGPFGRGTMQKPFEDAAFSLKVGEMSE 142
K +++++ G ASF ELA + S D S ++ GDLG F G M FE AA+ LKVG++S
Sbjct: 151 KEIKKKLDAG-ASFEELAKQESQDLLSKEKGGDLGYFNSGRMAPEFETAAYKLKVGQISN 209
Query: 143 PVLTESGVHII 153
PV + +G HII
Sbjct: 210 PVKSPNGYHII 220
>gnl|CDD|179522 PRK02998, prsA, peptidylprolyl isomerase; Reviewed.
Length = 283
Score = 59.6 bits (144), Expect = 3e-11
Identities = 34/107 (31%), Positives = 55/107 (51%), Gaps = 23/107 (21%)
Query: 48 QVQCSHLLVKHKESRKPYSWRDDNITRSKEEAIELVKSYREQINTGKASFGELASKFS-D 106
+++ SH+LVK +++ K +E++N G+ F LA ++S D
Sbjct: 134 EMKVSHILVKDEKT---------------------AKEVKEKVNNGE-DFAALAKQYSED 171
Query: 107 CSSAKRSGDLGPFGRGTMQKPFEDAAFSLKVGEMSEPVLTESGVHII 153
S ++ G++ F G K FE+AA+ L G++SEPV T G HII
Sbjct: 172 TGSKEQGGEISGFAPGQTVKEFEEAAYKLDAGQVSEPVKTTYGYHII 218
>gnl|CDD|185338 PRK15441, PRK15441, peptidyl-prolyl cis-trans isomerase C;
Provisional.
Length = 93
Score = 55.0 bits (132), Expect = 8e-11
Identities = 37/78 (47%), Positives = 44/78 (56%), Gaps = 3/78 (3%)
Query: 76 KEEAIELVKSYREQINTGKASFGELASKFSDCSSAKRSGDLGPFGRGTMQKPFEDAAFSL 135
KEE +L EQI G A FG+LA K S C S KR GDLG F +G M F+ FS
Sbjct: 13 KEE--KLALDLLEQIKNG-ADFGKLAKKHSICPSGKRGGDLGEFRQGQMVPAFDKVVFSC 69
Query: 136 KVGEMSEPVLTESGVHII 153
V E + P+ T+ G HII
Sbjct: 70 PVLEPTGPLHTQFGYHII 87
>gnl|CDD|234605 PRK00059, prsA, peptidylprolyl isomerase; Provisional.
Length = 336
Score = 54.7 bits (132), Expect = 2e-09
Identities = 35/111 (31%), Positives = 54/111 (48%), Gaps = 25/111 (22%)
Query: 46 PEQVQCSHLLVKHKESRKPYSWRDDNITRSKEEAIELVKSYREQINTGKASFGELASKFS 105
P + +H+LVK +++EA K +++++ G F ++A + S
Sbjct: 194 PNTMHLAHILVK-----------------TEDEA----KKVKKRLDKG-EDFAKVAKEVS 231
Query: 106 -DCSSAKRSGDLG--PFGRGTMQKPFEDAAFSLKVGEMSEPVLTESGVHII 153
D S + GDLG P+ K F D A +LK GE+S PV T+ G HII
Sbjct: 232 QDPGSKDKGGDLGDVPYSDSGYDKEFMDGAKALKEGEISAPVKTQFGYHII 282
>gnl|CDD|236758 PRK10770, PRK10770, peptidyl-prolyl cis-trans isomerase SurA;
Provisional.
Length = 413
Score = 54.7 bits (132), Expect = 2e-09
Identities = 35/107 (32%), Positives = 47/107 (43%), Gaps = 13/107 (12%)
Query: 48 QVQCSHLLVKHKESRKPYSWRDDNITRSKEEAIELVKSYREQINTGKASFGELASKFS-D 106
+V H+L+K P D R+K E I I +GK +F A +FS D
Sbjct: 266 EVHARHILLK------PSPIMTDEQARAKLEQI------AADIKSGKTTFAAAAKEFSQD 313
Query: 107 CSSAKRSGDLGPFGRGTMQKPFEDAAFSLKVGEMSEPVLTESGVHII 153
SA + GDLG F DA L G++S PV + G H+I
Sbjct: 314 PGSANQGGDLGWATPDIFDPAFRDALMRLNKGQISAPVHSSFGWHLI 360
Score = 32.0 bits (73), Expect = 0.12
Identities = 32/118 (27%), Positives = 53/118 (44%), Gaps = 19/118 (16%)
Query: 40 AEASGGPEQVQCSHLLVKHKESRKPYSWRDDNITRSK-EEAIELVKSYREQINTGKASFG 98
+ E + SH+L+ E N T+ + +EA +S +Q G A FG
Sbjct: 148 NQNDASTE-LNLSHILIPLPE----------NPTQDQVDEAESQARSIVDQARNG-ADFG 195
Query: 99 ELASKFSDCSSAKRSGDLGPFGRGTMQK-P--FEDAAFSLKVGEMSEPVLTESGVHII 153
+LA +S A + G + G G +Q+ P F A + K G++ P+ + G HI+
Sbjct: 196 KLAIAYSADQQALKGGQM---GWGRIQELPGLFAQALSTAKKGDIVGPIRSGVGFHIL 250
>gnl|CDD|215899 pfam00397, WW, WW domain. The WW domain is a protein module with
two highly conserved tryptophans that binds
proline-rich peptide motifs in vitro.
Length = 30
Score = 46.0 bits (110), Expect = 5e-08
Identities = 16/31 (51%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 6 LPAGWEKRMSRSSGHHYYLNIYTKESQWDRP 36
LP GWE+R + G YY N T E+QW+RP
Sbjct: 1 LPPGWEERTD-TDGRPYYYNHNTGETQWERP 30
>gnl|CDD|238122 cd00201, WW, Two conserved tryptophans domain; also known as the
WWP or rsp5 domain; around 40 amino acids; functions as
an interaction module in a diverse set of signalling
proteins; binds specific proline-rich sequences but at
low affinities compared to other peptide recognition
proteins such as antibodies and receptors; WW domains
have a single groove formed by a conserved Trp and Tyr
which recognizes a pair of residues of the sequence
X-Pro; variable loops and neighboring domains confer
specificity in this domain; there are five distinct
groups based on binding: 1) PPXY motifs 2) the PPLP
motif; 3) PGM motifs; 4) PSP or PTP motifs; 5) PR
motifs.
Length = 31
Score = 46.0 bits (110), Expect = 6e-08
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 7 PAGWEKRMSRSSGHHYYLNIYTKESQWDRPT 37
P GWE+R G YY N TKE+QW+ P
Sbjct: 1 PPGWEERWDPD-GRVYYYNHNTKETQWEDPR 30
>gnl|CDD|197736 smart00456, WW, Domain with 2 conserved Trp (W) residues. Also
known as the WWP or rsp5 domain. Binds proline-rich
polypeptides.
Length = 33
Score = 44.1 bits (105), Expect = 3e-07
Identities = 16/32 (50%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 6 LPAGWEKRMSRSSGHHYYLNIYTKESQWDRPT 37
LP GWE+R G YY N TKE+QW++P
Sbjct: 2 LPPGWEERKDPD-GRPYYYNHETKETQWEKPR 32
>gnl|CDD|235295 PRK04405, prsA, peptidylprolyl isomerase; Provisional.
Length = 298
Score = 43.2 bits (102), Expect = 1e-05
Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 88 EQINTGKASFGELASKFS-DCSSAKRSGDLGPFGR--GTMQKPFEDAAFSLKVGEM-SEP 143
+++ GK F +LA K+S D ++ + G L F T+ F+ AAF LK GE + P
Sbjct: 163 KKLKDGK-DFAKLAKKYSTDTATKNKGGKLSAFDSTDTTLDSTFKTAAFKLKNGEYTTTP 221
Query: 144 VLTESGVHII 153
V T G +I
Sbjct: 222 VKTTYGYEVI 231
>gnl|CDD|221934 pfam13145, Rotamase_2, PPIC-type PPIASE domain.
Length = 121
Score = 34.3 bits (79), Expect = 0.007
Identities = 9/31 (29%), Positives = 21/31 (67%)
Query: 123 TMQKPFEDAAFSLKVGEMSEPVLTESGVHII 153
+ + +A F+LK GE+S P+ +++G +++
Sbjct: 73 DLPEELAEALFALKPGEVSGPIESDNGYYLV 103
>gnl|CDD|192410 pfam09912, DUF2141, Uncharacterized protein conserved in bacteria
(DUF2141). This domain, found in various hypothetical
prokaryotic proteins, has no known function.
Length = 112
Score = 27.5 bits (62), Expect = 1.4
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 6/30 (20%)
Query: 118 PFG-----RGTMQKP-FEDAAFSLKVGEMS 141
+G +G P F+DAAF++ G+
Sbjct: 80 GYGFSNNPKGRFGPPSFDDAAFTVGGGDTE 109
>gnl|CDD|220200 pfam09357, RteC, RteC protein. Human colonic Bacteroides species
harbor a family of large conjugative transposons, called
tetracycline resistance (Tcr) elements. Activities of
these elements are enhanced by pregrowth of bacteria in
medium containing tetracycline, indicating that at least
some Tcr element genes are regulated by tetracycline. An
insertional disruption in the rteC gene abolished
self-transfer of the Tcr element to Bacteroides
recipients, indicating that the gene was essential for
self-transfer.
Length = 218
Score = 27.7 bits (62), Expect = 2.3
Identities = 17/60 (28%), Positives = 23/60 (38%), Gaps = 7/60 (11%)
Query: 47 EQVQCSHLLVKHKESRKPYSWRDDNITRSKEEAIELVKSYREQ--INTGKASFGELASKF 104
E + E +KP W T SK +EL+ + IN G ELA+ F
Sbjct: 120 EALLNKENEKSSIEPKKPLRW-----TGSKIALVELIYALYASGVINNGNVDIKELAAYF 174
>gnl|CDD|172308 PRK13770, PRK13770, histidinol dehydrogenase; Provisional.
Length = 416
Score = 27.1 bits (60), Expect = 4.2
Identities = 9/44 (20%), Positives = 25/44 (56%)
Query: 47 EQVQCSHLLVKHKESRKPYSWRDDNITRSKEEAIELVKSYREQI 90
+ + HL + H++ + + D+ ++ +++ E +K+Y+E I
Sbjct: 48 DHTKTDHLEISHEQIKAAFDTLDEKTKQALQQSYERIKAYQESI 91
>gnl|CDD|227435 COG5104, PRP40, Splicing factor [RNA processing and modification].
Length = 590
Score = 27.4 bits (60), Expect = 4.2
Identities = 13/50 (26%), Positives = 17/50 (34%), Gaps = 4/50 (8%)
Query: 9 GWEKRMSRSSGHHYYLNIYTKESQWDRPTKPAEASGGPEQVQCSHLLVKH 58
W K + G YY N T+ES+W P E + H
Sbjct: 57 PW-KECRTADGKVYYYNSITRESRWKI---PPERKKVEPIAEQKHDERSM 102
>gnl|CDD|183452 PRK12337, PRK12337, 2-phosphoglycerate kinase; Provisional.
Length = 475
Score = 27.0 bits (60), Expect = 5.0
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 5/38 (13%)
Query: 118 PFGRGTMQKPFEDAAFSLKVGEMSEPVLTESGVHIILR 155
PF RG + + EDA FS + E S V + LR
Sbjct: 93 PFSRGVLARSLEDAGFSPR-----EAYELASAVELRLR 125
>gnl|CDD|132415 TIGR03372, putres_am_tran, putrescine aminotransferase. Members of
this family are putrescine aminotransferase, as found in
Escherichia coli, Erwinia carotovora subsp. atroseptica,
and closely related species. This pyridoxal phosphate
enzyme, as characterized in E. coli, can act also on
cadaverine and, more weakly, spermidine [Central
intermediary metabolism, Polyamine biosynthesis].
Length = 442
Score = 26.9 bits (59), Expect = 5.0
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 6/64 (9%)
Query: 65 YSWRDDNITRSKEEAIELVKSYREQINTGKASFGELASKFSDCSSAKRSGDLGPFGRGTM 124
YS+ ++ T S E A++L K+Y Q GK +F + F K G L +
Sbjct: 136 YSFFCNSGTESVEAALKLAKAY--QSPRGKFTFIAASGAF----HGKSLGALSATAKPAF 189
Query: 125 QKPF 128
+KPF
Sbjct: 190 RKPF 193
>gnl|CDD|233853 TIGR02407, ectoine_ectB, diaminobutyrate--2-oxoglutarate
aminotransferase. Members of this family of class III
pyridoxal-phosphate-dependent aminotransferases are
diaminobutyrate--2-oxoglutarate aminotransferase (EC
2.6.1.76) that catalyze the first step in ectoine
biosynthesis from L-aspartate beta-semialdehyde. This
family is readily separated phylogenetically from
enzymes with the same substrate and product but involved
in other process such as siderophore (SP|Q9Z3R2) or
1,3-diaminopropane (SP|P44951) biosynthesis. The family
TIGR00709 previously included both groups but has now
been revised to exclude the ectoine biosynthesis
proteins of this family. Ectoine is a compatible solute
particularly effective in conferring salt tolerance
[Cellular processes, Adaptations to atypical
conditions].
Length = 412
Score = 26.5 bits (59), Expect = 6.9
Identities = 11/61 (18%), Positives = 22/61 (36%), Gaps = 17/61 (27%)
Query: 65 YSWRDDNITRSKEEAIELVKSYREQINTGKASFGELASKFSDCSSAKRSGDLGPFGRGTM 124
Y W DD ++ + E+++ + +++ + R GRG M
Sbjct: 309 YYWSDDAFEKAVQRKSEIIQER----------LDRIVAEYPELIKQVR-------GRGLM 351
Query: 125 Q 125
Q
Sbjct: 352 Q 352
>gnl|CDD|180746 PRK06916, PRK06916, adenosylmethionine--8-amino-7-oxononanoate
transaminase; Provisional.
Length = 460
Score = 26.6 bits (59), Expect = 7.5
Identities = 7/13 (53%), Positives = 12/13 (92%)
Query: 55 LVKHKESRKPYSW 67
LVK+KE+++P+ W
Sbjct: 391 LVKNKETKEPFEW 403
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
0.311 0.129 0.380
Gapped
Lambda K H
0.267 0.0779 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,713,189
Number of extensions: 645351
Number of successful extensions: 503
Number of sequences better than 10.0: 1
Number of HSP's gapped: 492
Number of HSP's successfully gapped: 32
Length of query: 157
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 68
Effective length of database: 6,990,096
Effective search space: 475326528
Effective search space used: 475326528
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: 55 (24.9 bits)