RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5152
(161 letters)
>gnl|CDD|238046 cd00094, HX, Hemopexin-like repeats.; Hemopexin is a heme-binding
protein that transports heme to the liver.
Hemopexin-like repeats occur in vitronectin and some
matrix metalloproteinases family (matrixins). The HX
repeats of some matrixins bind tissue inhibitor of
metalloproteinases (TIMPs). This CD contains 4 instances
of the repeat.
Length = 194
Score = 169 bits (430), Expect = 3e-54
Identities = 73/152 (48%), Positives = 95/152 (62%), Gaps = 2/152 (1%)
Query: 2 HYWKLTDDGIAEGYPKLISKSWIGLPGQIDAAFTYSKNGKTYFFKGSKYWRYTGKSMDDG 61
++W+L G G P LIS W LP +DAAF GK YFFKG KYW YTGK+++ G
Sbjct: 26 YFWRL-SPGKPPGSPFLISSFWPSLPSPVDAAFERPDTGKIYFFKGDKYWVYTGKNLEPG 84
Query: 62 YPKDISE-GFTGIPDNIDAALVWSGNGKIYFFKGSKFWKFDPSSKPPVKSTYPKPTSNWE 120
YPK IS+ GF IDAAL W NGK YFFKG K+W++D ++ +++
Sbjct: 85 YPKPISDLGFPPTVKQIDAALRWPDNGKTYFFKGDKYWRYDEKTQKMDPGYPKLIETDFP 144
Query: 121 GIPDNIDAALHYTNGYTYFFKGSQYWRFNDKS 152
G+PD +DAA + +GY YFFKG QYWRF+ +S
Sbjct: 145 GVPDKVDAAFRWLDGYYYFFKGDQYWRFDPRS 176
Score = 110 bits (277), Expect = 4e-31
Identities = 55/107 (51%), Positives = 65/107 (60%), Gaps = 4/107 (3%)
Query: 2 HYWKLTDDGIAEGYPKLISK-SWIGLPGQIDAAFTYSKNGKTYFFKGSKYWRY--TGKSM 58
YW T + GYPK IS + QIDAA + NGKTYFFKG KYWRY + M
Sbjct: 72 KYWVYTGKNLEPGYPKPISDLGFPPTVKQIDAALRWPDNGKTYFFKGDKYWRYDEKTQKM 131
Query: 59 DDGYPKDISEGFTGIPDNIDAALVWSGNGKIYFFKGSKFWKFDPSSK 105
D GYPK I F G+PD +DAA W +G YFFKG ++W+FDP SK
Sbjct: 132 DPGYPKLIETDFPGVPDKVDAAFRWL-DGYYYFFKGDQYWRFDPRSK 177
Score = 105 bits (263), Expect = 5e-29
Identities = 52/126 (41%), Positives = 69/126 (54%), Gaps = 9/126 (7%)
Query: 30 IDAAFTYSKNGKTYFFKGSKYWRYTGKSMDDGYPKDISEGFTGIPDNIDAALVWSGNGKI 89
DA T G+ YFFKG +WR + G P IS + +P +DAA GKI
Sbjct: 9 FDAVTTLR--GELYFFKGRYFWRLSPGKP-PGSPFLISSFWPSLPSPVDAAFERPDTGKI 65
Query: 90 YFFKGSKFWKFDPSSKPPVKSTYPKPTSN--WEGIPDNIDAALHYT-NGYTYFFKGSQYW 146
YFFKG K+W + + P YPKP S+ + IDAAL + NG TYFFKG +YW
Sbjct: 66 YFFKGDKYWVYTGKNLEPG---YPKPISDLGFPPTVKQIDAALRWPDNGKTYFFKGDKYW 122
Query: 147 RFNDKS 152
R+++K+
Sbjct: 123 RYDEKT 128
Score = 67.0 bits (164), Expect = 2e-14
Identities = 29/80 (36%), Positives = 39/80 (48%), Gaps = 8/80 (10%)
Query: 74 PDNIDAALVWSGNGKIYFFKGSKFWKFDPSSKPPVKSTYPKPTSN-WEGIPDNIDAALHY 132
P + DA G ++YFFKG FW+ P P P S+ W +P +DAA
Sbjct: 6 PLSFDAVTTLRG--ELYFFKGRYFWRLSPGKPP----GSPFLISSFWPSLPSPVDAAFER 59
Query: 133 TN-GYTYFFKGSQYWRFNDK 151
+ G YFFKG +YW + K
Sbjct: 60 PDTGKIYFFKGDKYWVYTGK 79
Score = 28.4 bits (64), Expect = 1.3
Identities = 11/37 (29%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 123 PDNIDAALHYTNGYTYFFKGSQYWRFNDKSFSVNCRP 159
P + DA G YFFKG +WR + +
Sbjct: 6 PLSFDAVTT-LRGELYFFKGRYFWRLSPGKPPGSPFL 41
>gnl|CDD|214524 smart00120, HX, Hemopexin-like repeats. Hemopexin is a
heme-binding protein that transports heme to the liver.
Hemopexin-like repeats occur in vitronectin and some
matrix metalloproteinases family (matrixins). The HX
repeats of some matrixins bind tissue inhibitor of
metalloproteinases (TIMPs).
Length = 45
Score = 61.1 bits (149), Expect = 1e-13
Identities = 28/45 (62%), Positives = 32/45 (71%), Gaps = 1/45 (2%)
Query: 30 IDAAFTYSKNGKTYFFKGSKYWRYTGKSMDDGYPKDISEGFTGIP 74
IDAAF +GKTYFFKG KYWR+ K +D GYPK IS F G+P
Sbjct: 1 IDAAFELR-DGKTYFFKGDKYWRFDPKRVDPGYPKLISSFFPGLP 44
Score = 46.9 bits (112), Expect = 4e-08
Identities = 23/48 (47%), Positives = 29/48 (60%), Gaps = 5/48 (10%)
Query: 77 IDAALVWSGNGKIYFFKGSKFWKFDPSSKPPVKSTYPKPTSN-WEGIP 123
IDAA +GK YFFKG K+W+FDP V YPK S+ + G+P
Sbjct: 1 IDAA-FELRDGKTYFFKGDKYWRFDPKR---VDPGYPKLISSFFPGLP 44
Score = 42.6 bits (101), Expect = 2e-06
Identities = 16/27 (59%), Positives = 19/27 (70%)
Query: 126 IDAALHYTNGYTYFFKGSQYWRFNDKS 152
IDAA +G TYFFKG +YWRF+ K
Sbjct: 1 IDAAFELRDGKTYFFKGDKYWRFDPKR 27
Score = 30.7 bits (70), Expect = 0.040
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 2 HYWKLTDDGIAEGYPKLISKSWIGLPG 28
YW+ + GYPKLIS + GLP
Sbjct: 19 KYWRFDPKRVDPGYPKLISSFFPGLPC 45
>gnl|CDD|215676 pfam00045, Hemopexin, Hemopexin. Hemopexin is a heme-binding
protein that transports heme to the liver.
Hemopexin-like repeats occur in vitronectin and some
matrix metallopeptidases family (matrixins). The HX
repeats of some matrixins bind tissue inhibitor of
metallopeptidases (TIMPs).
Length = 45
Score = 60.7 bits (148), Expect = 2e-13
Identities = 25/45 (55%), Positives = 34/45 (75%), Gaps = 1/45 (2%)
Query: 30 IDAAFTYSKNGKTYFFKGSKYWRYTGKSMDDGYPKDISEGFTGIP 74
IDAAF ++GKTYFFKG KYWR+ + ++ GYPK IS+ + G+P
Sbjct: 1 IDAAFE-DRDGKTYFFKGRKYWRFDPQRVEPGYPKLISDFWPGLP 44
Score = 47.6 bits (114), Expect = 2e-08
Identities = 24/48 (50%), Positives = 29/48 (60%), Gaps = 5/48 (10%)
Query: 77 IDAALVWSGNGKIYFFKGSKFWKFDPSSKPPVKSTYPKPTSN-WEGIP 123
IDAA +GK YFFKG K+W+FDP P YPK S+ W G+P
Sbjct: 1 IDAAFED-RDGKTYFFKGRKYWRFDPQRVEPG---YPKLISDFWPGLP 44
Score = 41.8 bits (99), Expect = 3e-06
Identities = 15/27 (55%), Positives = 19/27 (70%)
Query: 126 IDAALHYTNGYTYFFKGSQYWRFNDKS 152
IDAA +G TYFFKG +YWRF+ +
Sbjct: 1 IDAAFEDRDGKTYFFKGRKYWRFDPQR 27
Score = 29.1 bits (66), Expect = 0.14
Identities = 13/26 (50%), Positives = 15/26 (57%)
Query: 2 HYWKLTDDGIAEGYPKLISKSWIGLP 27
YW+ + GYPKLIS W GLP
Sbjct: 19 KYWRFDPQRVEPGYPKLISDFWPGLP 44
>gnl|CDD|224713 COG1800, COG1800, Predicted transglutaminase-like proteases
[General function prediction only].
Length = 335
Score = 31.3 bits (71), Expect = 0.19
Identities = 20/102 (19%), Positives = 31/102 (30%), Gaps = 8/102 (7%)
Query: 38 KNGKTYFFKGSKYWR------YTGKSMDDGYPKDISEGFTGIPDNIDAALVWSGNGKIYF 91
N + K KY + G + + + I N+D + SG K +
Sbjct: 193 INIDQWLKKTLKYKKGKCVKIEKGLLIANEIKLPFNSSKGKIEHNLDRKELESGLLKAFI 252
Query: 92 FKGSKFWKFDPSSKPPVKSTYPKPTSNWEGIPDNIDAALHYT 133
K D ++K P K + I D H T
Sbjct: 253 DVNIKLDILDWNTKLPKFQEELKNVAIK--IEIREDEIYHIT 292
>gnl|CDD|227144 COG4807, COG4807, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 155
Score = 29.0 bits (65), Expect = 0.78
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 7/48 (14%)
Query: 64 KDISEGFTGIPDNIDAALVWSGNGKIYFFKGSKFWKFDPSSKPPVKST 111
K+ EGF PD + ++ + NG IY +G K + + P V+
Sbjct: 43 KEDEEGFQRCPDIVLSSFL---NGLIYQKRG----KDESAPAPEVERR 83
>gnl|CDD|173664 cd05573, STKc_ROCK_NDR_like, Catalytic domain of ROCK- and NDR
kinase-like Protein Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Rho-associated
coiled-coil containing protein kinase (ROCK) and Nuclear
Dbf2-Related (NDR)-like kinase subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The ROCK- and NDR-like
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. Members of this subfamily include ROCK and
ROCK-like proteins such as DMPK, MRCK, and CRIK, as well
as NDR and NDR-like proteins such as LATS, CBK1 and
Sid2p. ROCK and CRIK are effectors of the small GTPase
Rho, while MRCK is an effector of the small GTPase
Cdc42. NDR and NDR-like kinases contain an N-terminal
regulatory (NTR) domain and an insert within the
catalytic domain that contains an auto-inhibitory
sequence. Proteins in this subfamily are involved in
regulating many cellular functions including
contraction, motility, division, proliferation,
apoptosis, morphogenesis, and cytokinesis.
Length = 350
Score = 28.8 bits (65), Expect = 1.4
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 91 FFKGSKFWKFDPSSKPPV--KSTYPKPTSNWEGIPDNIDAALHYTNGYTYFFKGSQY 145
FFKG W+ +KPP + + P TSN++ D+ D + + + KG Q
Sbjct: 287 FFKGID-WENLRETKPPFVPELSSPLDTSNFDDFEDDKDLSDYLSQNSKKLNKGKQL 342
>gnl|CDD|182171 PRK09966, PRK09966, putative inner membrane diguanylate cyclase;
Provisional.
Length = 407
Score = 27.7 bits (61), Expect = 2.9
Identities = 13/51 (25%), Positives = 15/51 (29%), Gaps = 5/51 (9%)
Query: 24 IGLPGQIDAAFTYSKNGKTYFFKGSKYWRYTGKSMDDGYPKDISEGFTGIP 74
+G GQ A K W YT K D + IS P
Sbjct: 82 LGQQGQFSTAEVRDKQQNIL-----ASWHYTRKDPGDTFSNFISHWLFPAP 127
>gnl|CDD|227608 COG5283, COG5283, Phage-related tail protein [Function unknown].
Length = 1213
Score = 27.6 bits (61), Expect = 3.7
Identities = 11/43 (25%), Positives = 13/43 (30%), Gaps = 4/43 (9%)
Query: 55 GKSMDDGYPKDISEGFTGIPDNIDAALVWSG-NGKIYFFKGSK 96
GK DD D GF I+ N I + K
Sbjct: 986 GKGRDDLLQTDYKTGFINAQGYINK---IDQINKVITEAQTRK 1025
>gnl|CDD|215090 PLN00176, PLN00176, galactinol synthase.
Length = 333
Score = 27.0 bits (60), Expect = 4.9
Identities = 12/19 (63%), Positives = 13/19 (68%), Gaps = 2/19 (10%)
Query: 43 YFFKGSKYWRYTGK--SMD 59
Y GSK WRYTGK +MD
Sbjct: 258 YCAAGSKPWRYTGKEENMD 276
>gnl|CDD|213796 TIGR03316, ygeW, probable carbamoyltransferase YgeW. Members of
this protein family include the ygeW gene product of
Escherichia coli. The function is unknown. Members show
homology to ornithine carbamoyltransferase (TIGR00658)
and aspartate carbamoyltransferase
(carbamoyltransferase), and therefore may belong to the
carbamoyltransferases in function. Members often are
found in a large, conserved genomic region associated
with purine catabolism.
Length = 357
Score = 26.5 bits (58), Expect = 7.9
Identities = 26/95 (27%), Positives = 35/95 (36%), Gaps = 22/95 (23%)
Query: 42 TYFFKGSKYWRYTGKSMDDGYPKDISEGFTGI---------PDNIDAALVWSGN--GKIY 90
Y G+ Y R G ++DDGY + + + P A L W G +
Sbjct: 107 MYLGAGNAYMREVGAALDDGYKQGVLPQRPALVNLQCDIDHPTQAMADLAWLREHFGSLE 166
Query: 91 FFKGSKF---WKFDPSSKPPVKSTYPKPTSNWEGI 122
KG K W + PS Y KP S +GI
Sbjct: 167 NLKGKKIAMTWAYSPS--------YGKPLSVPQGI 193
>gnl|CDD|225886 COG3350, COG3350, Uncharacterized conserved protein [Function
unknown].
Length = 53
Score = 24.7 bits (54), Expect = 8.0
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 32 AAFTYSKNGKTYFF 45
A + S GKTY+F
Sbjct: 17 AEYKSSYGGKTYYF 30
>gnl|CDD|162434 TIGR01580, narG, respiratory nitrate reductase, alpha subunit. The
Nitrate reductase enzyme complex allows bacteria to use
nitrate as an electron acceptor during anaerobic growth.
The enzyme complex consists of a tetramer that has an
alpha, beta and 2 gamma subunits. The alpha and beta
subunits have catalytic activity and the gamma subunits
attach the enzyme to the membrane and is a b-type
cytochrome that receives electrons from the quinone pool
and transfers them to the beta subunit. This model is
specific for the alpha subunit for nitrate reductase I
(narG) and nitrate reductase II (narZ) for gram positive
and gram negative bacteria.A few thermophiles and
archaea also match the model The seed members used to
make the model include Nitrate reductases from
Pseudomonas fluorescens (GP:11344601), E.coli and
B.subtilis. All seed members are experimentally
characterized. Some unpublished nitrate reductases, that
are shorter sequences, and probably fragments fall in
between the noise and trusted cutoffs. Pfam models
pfam00384 (Molybdopterin oxidoreductase) and
pfam01568(Molydopterin dinucleotide binding domain) will
also match the nitrate reductase, alpha subunit [Energy
metabolism, Anaerobic].
Length = 1235
Score = 26.5 bits (58), Expect = 9.5
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 9/50 (18%)
Query: 12 AEGY-PKLISKSWIGLPGQIDAAFTYSKNGKTYFFKGSKYWRYTGKSMDD 60
G+ P + W P + NG ++F+ S WRY + +D
Sbjct: 586 QTGWQPLAFALDWQRPPRHM--------NGTSFFYNHSSQWRYETVTAED 627
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
0.318 0.139 0.467
Gapped
Lambda K H
0.267 0.0764 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,673,392
Number of extensions: 779072
Number of successful extensions: 687
Number of sequences better than 10.0: 1
Number of HSP's gapped: 674
Number of HSP's successfully gapped: 48
Length of query: 161
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 72
Effective length of database: 6,990,096
Effective search space: 503286912
Effective search space used: 503286912
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 (24.9 bits)