RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4022
(222 letters)
>gnl|CDD|223619 COG0545, FkpA, FKBP-type peptidyl-prolyl cis-trans isomerases 1
[Posttranslational modification, protein turnover,
chaperones].
Length = 205
Score = 117 bits (295), Expect = 8e-33
Identities = 49/88 (55%), Positives = 59/88 (67%), Gaps = 4/88 (4%)
Query: 48 KKESNISVYYVGKLKSNNKQFDSSTQ-GPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRIT 106
KK ++V+Y G L + FDSS G +F LG VI GWD GL GMKVGGKR++T
Sbjct: 117 KKGDTVTVHYTGTLI-DGTVFDSSYDRGQPAEFPLG--GVIPGWDEGLQGMKVGGKRKLT 173
Query: 107 IPAHMAYGNKGSPPAIPPNSTLVFDVEL 134
IP +AYG +G P IPPNSTLVF+VEL
Sbjct: 174 IPPELAYGERGVPGVIPPNSTLVFEVEL 201
Score = 115 bits (291), Expect = 2e-32
Identities = 48/89 (53%), Positives = 59/89 (66%), Gaps = 4/89 (4%)
Query: 135 KNISVYYVGKLKSNNQQFDSSTQ-GPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITIPA 193
++V+Y G L + FDSS G +F LG VI GWD GL GMKVGGKR++TIP
Sbjct: 120 DTVTVHYTGTLI-DGTVFDSSYDRGQPAEFPLG--GVIPGWDEGLQGMKVGGKRKLTIPP 176
Query: 194 HMAYGNKGSPPAIPPNSTLVFDVELKNVN 222
+AYG +G P IPPNSTLVF+VEL +V
Sbjct: 177 ELAYGERGVPGVIPPNSTLVFEVELLDVK 205
>gnl|CDD|215821 pfam00254, FKBP_C, FKBP-type peptidyl-prolyl cis-trans isomerase.
Length = 94
Score = 110 bits (278), Expect = 1e-31
Identities = 49/90 (54%), Positives = 63/90 (70%), Gaps = 3/90 (3%)
Query: 48 KKESNISVYYVGKLKSNNKQFDSS-TQGPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRIT 106
KK ++V+Y GKL+ + FDSS +G F+F LG G+VI GWD GL GMKVG KR++T
Sbjct: 6 KKGDTVTVHYTGKLE-DGTVFDSSKDRGKPFEFTLGSGQVIPGWDEGLLGMKVGEKRKLT 64
Query: 107 IPAHMAYGNKGS-PPAIPPNSTLVFDVELK 135
IP +AYG +G IPPN+TLVF+VEL
Sbjct: 65 IPPELAYGEEGLAGGVIPPNATLVFEVELL 94
Score = 109 bits (275), Expect = 3e-31
Identities = 47/85 (55%), Positives = 61/85 (71%), Gaps = 3/85 (3%)
Query: 137 ISVYYVGKLKSNNQQFDSS-TQGPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITIPAHM 195
++V+Y GKL+ + FDSS +G F+F LG G+VI GWD GL GMKVG KR++TIP +
Sbjct: 11 VTVHYTGKLE-DGTVFDSSKDRGKPFEFTLGSGQVIPGWDEGLLGMKVGEKRKLTIPPEL 69
Query: 196 AYGNKGS-PPAIPPNSTLVFDVELK 219
AYG +G IPPN+TLVF+VEL
Sbjct: 70 AYGEEGLAGGVIPPNATLVFEVELL 94
>gnl|CDD|236791 PRK10902, PRK10902, FKBP-type peptidyl-prolyl cis-trans isomerase;
Provisional.
Length = 269
Score = 74.4 bits (183), Expect = 5e-16
Identities = 44/91 (48%), Positives = 57/91 (62%), Gaps = 6/91 (6%)
Query: 49 KESN-ISVYYVGKLKSNNKQFDSS-TQGPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRIT 106
K+S+ + V Y G L + K+FD+S T+G FRL VI GW GL +K GGK ++
Sbjct: 162 KDSDTVVVNYKGTL-IDGKEFDNSYTRGEPLSFRLDG--VIPGWTEGLKNIKKGGKIKLV 218
Query: 107 IPAHMAYGNKGSPPAIPPNSTLVFDVELKNI 137
IP +AYG K P IP NSTLVFDVEL ++
Sbjct: 219 IPPELAYG-KAGVPGIPANSTLVFDVELLDV 248
Score = 72.1 bits (177), Expect = 3e-15
Identities = 42/85 (49%), Positives = 52/85 (61%), Gaps = 5/85 (5%)
Query: 139 VYYVGKLKSNNQQFDSS-TQGPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITIPAHMAY 197
V Y G L + ++FD+S T+G FRL VI GW GL +K GGK ++ IP +AY
Sbjct: 169 VNYKGTL-IDGKEFDNSYTRGEPLSFRLDG--VIPGWTEGLKNIKKGGKIKLVIPPELAY 225
Query: 198 GNKGSPPAIPPNSTLVFDVELKNVN 222
G K P IP NSTLVFDVEL +V
Sbjct: 226 G-KAGVPGIPANSTLVFDVELLDVK 249
>gnl|CDD|183207 PRK11570, PRK11570, peptidyl-prolyl cis-trans isomerase;
Provisional.
Length = 206
Score = 70.6 bits (173), Expect = 4e-15
Identities = 39/90 (43%), Positives = 51/90 (56%), Gaps = 4/90 (4%)
Query: 49 KESNISVYYVGKLKSNNKQFDSSTQ-GPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITI 107
+ + V+Y GKL + FDSS G +F + VI GW L M VG K +TI
Sbjct: 119 RTDRVRVHYTGKL-IDGTVFDSSVARGEPAEFPVNG--VIPGWIEALTLMPVGSKWELTI 175
Query: 108 PAHMAYGNKGSPPAIPPNSTLVFDVELKNI 137
P +AYG +G+ +IPP STLVF+VEL I
Sbjct: 176 PHELAYGERGAGASIPPFSTLVFEVELLEI 205
Score = 69.4 bits (170), Expect = 1e-14
Identities = 38/83 (45%), Positives = 49/83 (59%), Gaps = 4/83 (4%)
Query: 137 ISVYYVGKLKSNNQQFDSSTQ-GPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITIPAHM 195
+ V+Y GKL + FDSS G +F + VI GW L M VG K +TIP +
Sbjct: 123 VRVHYTGKL-IDGTVFDSSVARGEPAEFPVNG--VIPGWIEALTLMPVGSKWELTIPHEL 179
Query: 196 AYGNKGSPPAIPPNSTLVFDVEL 218
AYG +G+ +IPP STLVF+VEL
Sbjct: 180 AYGERGAGASIPPFSTLVFEVEL 202
>gnl|CDD|223976 COG1047, SlpA, FKBP-type peptidyl-prolyl cis-trans isomerases 2
[Posttranslational modification, protein turnover,
chaperones].
Length = 174
Score = 46.9 bits (112), Expect = 1e-06
Identities = 20/69 (28%), Positives = 39/69 (56%), Gaps = 4/69 (5%)
Query: 48 KKESNISVYYVGKLKSNNKQFDSSTQ--GPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRI 105
+K +S++Y K++ + + D++ + GP F +G G++I G + L G +VG + +
Sbjct: 4 EKGDVVSLHYTLKVE-DGEVVDTTDENYGP-LTFIVGAGQLIPGLEEALLGKEVGEEFTV 61
Query: 106 TIPAHMAYG 114
IP A+G
Sbjct: 62 EIPPEDAFG 70
Score = 44.6 bits (106), Expect = 6e-06
Identities = 19/64 (29%), Positives = 37/64 (57%), Gaps = 4/64 (6%)
Query: 137 ISVYYVGKLKSNNQQFDSSTQ--GPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITIPAH 194
+S++Y K++ + + D++ + GP F +G G++I G + L G +VG + + IP
Sbjct: 9 VSLHYTLKVE-DGEVVDTTDENYGP-LTFIVGAGQLIPGLEEALLGKEVGEEFTVEIPPE 66
Query: 195 MAYG 198
A+G
Sbjct: 67 DAFG 70
>gnl|CDD|232831 TIGR00115, tig, trigger factor. Trigger factor is a
ribosome-associated molecular chaperone and is the first
chaperone to interact with nascent polypeptide. Trigger
factor can bind at the same time as the signal
recognition particle (SRP), but is excluded by the SRP
receptor (FtsY). The central domain of trigger factor
has peptidyl-prolyl cis/trans isomerase activity. This
protein is found in a single copy in virtually every
bacterial genome [Protein fate, Protein folding and
stabilization].
Length = 408
Score = 36.4 bits (85), Expect = 0.008
Identities = 19/86 (22%), Positives = 33/86 (38%), Gaps = 14/86 (16%)
Query: 57 YVGKLKSNNKQFDSSTQGPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITIPAHMAYGNK 116
+ G + + + F+ F LG G+ I G++ L GMK G ++ I + Y +
Sbjct: 157 FEGFI--DGEAFEGGK-AENFSLELGSGQFIPGFEEQLVGMKAGEEKEIKVTFPEDYHAE 213
Query: 117 ---GSPPAIPPNSTLVFDVELKNISV 139
G F V +K +
Sbjct: 214 ELAG--------KEATFKVTVKEVKE 231
Score = 36.0 bits (84), Expect = 0.012
Identities = 20/84 (23%), Positives = 33/84 (39%), Gaps = 14/84 (16%)
Query: 141 YVGKLKSNNQQFDSSTQGPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITIPAHMAYGNK 200
+ G + + + F+ F LG G+ I G++ L GMK G ++ I + Y +
Sbjct: 157 FEGFI--DGEAFEGGK-AENFSLELGSGQFIPGFEEQLVGMKAGEEKEIKVTFPEDYHAE 213
Query: 201 ---GSPPAIPPNSTLVFDVELKNV 221
G F V +K V
Sbjct: 214 ELAG--------KEATFKVTVKEV 229
>gnl|CDD|132555 TIGR03516, ppisom_GldI, peptidyl-prolyl isomerase, gliding
motility-associated. Members of this protein family are
exclusive to the Bacteroidetes phylum (previously
Cytophaga-Flavobacteria-Bacteroides). GldI is a
FKBP-type peptidyl-prolyl cis-trans isomerase
(pfam00254) linked to a type of rapid surface gliding
motility found in certain Bacteroidetes, such as
Flavobacterium johnsoniae and Cytophaga hutchinsonii.
Knockout of this gene abolishes the gliding phenotype.
Gliding motility appears closely linked to chitin
utilization in the model species Flavobacterium
johnsoniae. This family is only found in Bacteroidetes
containing the suite of genes proposed to confer the
gliding motility phenotype.
Length = 177
Score = 35.1 bits (81), Expect = 0.011
Identities = 20/74 (27%), Positives = 31/74 (41%)
Query: 64 NNKQFDSSTQGPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITIPAHMAYGNKGSPPAIP 123
+ S + +++ + ++ G GL MK G P+H AYG G I
Sbjct: 102 DGDVIYSEEELGPQTYKVDQQDLFSGLRDGLKLMKEGETATFLFPSHKAYGYYGDQNKIG 161
Query: 124 PNSTLVFDVELKNI 137
PN ++ V L NI
Sbjct: 162 PNLPIISTVTLLNI 175
Score = 34.4 bits (79), Expect = 0.019
Identities = 18/56 (32%), Positives = 25/56 (44%)
Query: 167 KGEVIKGWDVGLNGMKVGGKRRITIPAHMAYGNKGSPPAIPPNSTLVFDVELKNVN 222
+ ++ G GL MK G P+H AYG G I PN ++ V L N+
Sbjct: 121 QQDLFSGLRDGLKLMKEGETATFLFPSHKAYGYYGDQNKIGPNLPIISTVTLLNIK 176
>gnl|CDD|223618 COG0544, Tig, FKBP-type peptidyl-prolyl cis-trans isomerase
(trigger factor) [Posttranslational modification,
protein turnover, chaperones].
Length = 441
Score = 33.8 bits (78), Expect = 0.066
Identities = 19/94 (20%), Positives = 38/94 (40%), Gaps = 14/94 (14%)
Query: 48 KKESNISVYYVGKLKSNNKQFDSSTQGPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITI 107
+ +++ + G + ++F+ + F LG G I G++ L GMK G ++ I +
Sbjct: 159 ENGDRVTIDFEGSVD--GEEFEG-GKAENFSLELGSGRFIPGFEDQLVGMKAGEEKDIKV 215
Query: 108 PAHMAYGNK---GSPPAIPPNSTLVFDVELKNIS 138
Y + G F V++K +
Sbjct: 216 TFPEDYHAEELAGKE--------ATFKVKVKEVK 241
Score = 32.3 bits (74), Expect = 0.18
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 14/88 (15%)
Query: 137 ISVYYVGKLKSNNQQFDSSTQGPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITIPAHMA 196
+++ + G + ++F+ + F LG G I G++ L GMK G ++ I +
Sbjct: 164 VTIDFEGSVD--GEEFEG-GKAENFSLELGSGRFIPGFEDQLVGMKAGEEKDIKVTFPED 220
Query: 197 YGNK---GSPPAIPPNSTLVFDVELKNV 221
Y + G F V++K V
Sbjct: 221 YHAEELAGKE--------ATFKVKVKEV 240
>gnl|CDD|237908 PRK15095, PRK15095, FKBP-type peptidyl-prolyl cis-trans isomerase;
Provisional.
Length = 156
Score = 32.4 bits (74), Expect = 0.10
Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 1/80 (1%)
Query: 43 LSLSYKKESNISVYYVGKLKSNNKQFDSSTQGPGFKFRLGKGEVIKGWDVGLNGMKVGGK 102
+S S + S + V++ KL + + G FRLG G + +G + L G+KVG K
Sbjct: 1 MSESVQSNSAVLVHFTLKLDDGSTAESTRNNGKPALFRLGDGSLSEGLEQQLLGLKVGDK 60
Query: 103 RRITIPAHMAYGNKGSPPAI 122
+ ++ A+G SP I
Sbjct: 61 KTFSLEPEAAFG-VPSPDLI 79
Score = 31.2 bits (71), Expect = 0.25
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 163 FRLGKGEVIKGWDVGLNGMKVGGKRRITIPAHMAYGNKGSPPAI 206
FRLG G + +G + L G+KVG K+ ++ A+G SP I
Sbjct: 37 FRLGDGSLSEGLEQQLLGLKVGDKKTFSLEPEAAFG-VPSPDLI 79
>gnl|CDD|114269 pfam05538, Campylo_MOMP, Campylobacter major outer membrane
protein. This family consists of Campylobacter major
outer membrane proteins. The major outer membrane
protein (MOMP), a putative porin and a multifunction
surface protein of Campylobacter jejuni, may play an
important role in the adaptation of the organism to
various host environments.
Length = 437
Score = 30.0 bits (67), Expect = 1.0
Identities = 23/78 (29%), Positives = 33/78 (42%), Gaps = 3/78 (3%)
Query: 126 STLVFDVELKNISVYYVGKLKSNNQQFDSSTQGPGFKFRLGKGEV-IKGWDVGLNGMKVG 184
ST +FD I Y+G S + + D F KG + + GWD L G+ G
Sbjct: 252 STTIFDGINWTIEGAYLGN--SLDNELDDKLDAANGNFFALKGSIEVNGWDASLGGLYYG 309
Query: 185 GKRRITIPAHMAYGNKGS 202
K + ++ GN GS
Sbjct: 310 DKDKASLTTIEDQGNLGS 327
Score = 27.3 bits (60), Expect = 7.4
Identities = 16/55 (29%), Positives = 23/55 (41%)
Query: 64 NNKQFDSSTQGPGFKFRLGKGEVIKGWDVGLNGMKVGGKRRITIPAHMAYGNKGS 118
+N+ D G F L + GWD L G+ G K + ++ GN GS
Sbjct: 273 DNELDDKLDAANGNFFALKGSIEVNGWDASLGGLYYGDKDKASLTTIEDQGNLGS 327
>gnl|CDD|234956 PRK01490, tig, trigger factor; Provisional.
Length = 435
Score = 29.4 bits (67), Expect = 1.7
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 76 GFKFRLGKGEVIKGWDVGLNGMKVGGKRRITI 107
F LG G I G++ L GMK G ++ I +
Sbjct: 184 DFSLELGSGRFIPGFEEQLVGMKAGEEKTIDV 215
Score = 29.4 bits (67), Expect = 1.7
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 160 GFKFRLGKGEVIKGWDVGLNGMKVGGKRRITI 191
F LG G I G++ L GMK G ++ I +
Sbjct: 184 DFSLELGSGRFIPGFEEQLVGMKAGEEKTIDV 215
>gnl|CDD|236748 PRK10737, PRK10737, FKBP-type peptidyl-prolyl cis-trans isomerase;
Provisional.
Length = 196
Score = 27.6 bits (61), Expect = 4.4
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 82 GKGEVIKGWDVGLNGMKVGGKRRITIPAHMAYGN 115
G G +I G + L G +VG K + + A+ AYG
Sbjct: 37 GHGSLISGLETALEGHEVGDKFDVAVGANDAYGQ 70
Score = 27.6 bits (61), Expect = 4.4
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 166 GKGEVIKGWDVGLNGMKVGGKRRITIPAHMAYGN 199
G G +I G + L G +VG K + + A+ AYG
Sbjct: 37 GHGSLISGLETALEGHEVGDKFDVAVGANDAYGQ 70
>gnl|CDD|226106 COG3577, COG3577, Predicted aspartyl protease [General function
prediction only].
Length = 215
Score = 26.9 bits (60), Expect = 7.8
Identities = 7/32 (21%), Positives = 14/32 (43%)
Query: 87 IKGWDVGLNGMKVGGKRRITIPAHMAYGNKGS 118
+ V L+ +++GG R + A +A
Sbjct: 158 ARAAPVTLDRVQIGGIRVKNVDAMVAEDGALD 189
Score = 26.9 bits (60), Expect = 7.8
Identities = 7/32 (21%), Positives = 14/32 (43%)
Query: 171 IKGWDVGLNGMKVGGKRRITIPAHMAYGNKGS 202
+ V L+ +++GG R + A +A
Sbjct: 158 ARAAPVTLDRVQIGGIRVKNVDAMVAEDGALD 189
>gnl|CDD|236222 PRK08292, PRK08292, AMP nucleosidase; Provisional.
Length = 489
Score = 27.1 bits (61), Expect = 8.1
Identities = 9/18 (50%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 3 WGFVLEPKKRYNTTVTKP 20
+G V P Y+TTVT+P
Sbjct: 76 YGRVAHPG-VYSTTVTRP 92
>gnl|CDD|106077 PRK13040, PRK13040, superantigen-like protein; Reviewed.
Length = 231
Score = 27.0 bits (59), Expect = 8.1
Identities = 9/47 (19%), Positives = 20/47 (42%)
Query: 135 KNISVYYVGKLKSNNQQFDSSTQGPGFKFRLGKGEVIKGWDVGLNGM 181
K+ Y+VG L + +++ F + + E + G + G+
Sbjct: 74 KDRKDYFVGLLGKDIEKYPQGEHDKQDAFLVIEEETVNGRQYSIGGL 120
>gnl|CDD|176203 cd08241, QOR1, Quinone oxidoreductase (QOR). QOR catalyzes the
conversion of a quinone + NAD(P)H to a hydroquinone +
NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR acts in the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 27.1 bits (61), Expect = 8.3
Identities = 12/23 (52%), Positives = 12/23 (52%), Gaps = 5/23 (21%)
Query: 117 GSPPAIPPNSTLVFDVELKNISV 139
G P IP N L LKNISV
Sbjct: 242 GEIPQIPANLLL-----LKNISV 259
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 0.138 0.416
Gapped
Lambda K H
0.267 0.0540 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,297,502
Number of extensions: 1033210
Number of successful extensions: 757
Number of sequences better than 10.0: 1
Number of HSP's gapped: 753
Number of HSP's successfully gapped: 37
Length of query: 222
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 129
Effective length of database: 6,812,680
Effective search space: 878835720
Effective search space used: 878835720
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: 57 (26.2 bits)