RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 043842
(129 letters)
>gnl|CDD|202823 pfam03947, Ribosomal_L2_C, Ribosomal Proteins L2, C-terminal
domain.
Length = 130
Score = 98.0 bits (245), Expect = 2e-27
Identities = 43/89 (48%), Positives = 50/89 (56%), Gaps = 12/89 (13%)
Query: 42 YCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDH 101
Y ++L G +++ CRATIG VSN H K L KAG+ WLG R VRGVAM PVDH
Sbjct: 48 YVTLKLPSGEVRLVSSNCRATIGVVSNIDHNNKPLGKAGRSRWLGIRPTVRGVAMNPVDH 107
Query: 102 PHVERSKSSGNNGRCSF------TPWGKP 124
PH G GR S +PWGKP
Sbjct: 108 PH------GGGEGRTSIGRPPPVSPWGKP 130
>gnl|CDD|236488 PRK09374, rplB, 50S ribosomal protein L2; Validated.
Length = 276
Score = 100 bits (251), Expect = 7e-27
Identities = 45/87 (51%), Positives = 51/87 (58%), Gaps = 5/87 (5%)
Query: 42 YCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDH 101
Y +RL G + + CRATIG V N H L KAG+ WLG R VRGVAM PVDH
Sbjct: 171 YATLRLPSGEVRKVLAECRATIGEVGNEEHSNISLGKAGRSRWLGIRPTVRGVAMNPVDH 230
Query: 102 PH--VERSKSSGNNGRCSFTPWGKPCK 126
PH E ++SG GR TPWGKP K
Sbjct: 231 PHGGGE-GRTSG--GRHPVTPWGKPTK 254
>gnl|CDD|223168 COG0090, RplB, Ribosomal protein L2 [Translation, ribosomal
structure and biogenesis].
Length = 275
Score = 95.4 bits (238), Expect = 4e-25
Identities = 40/90 (44%), Positives = 47/90 (52%), Gaps = 11/90 (12%)
Query: 42 YCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDH 101
Y +VRL G + + CRATIG V+N H K L KAG+ G+R VRGVAM PVDH
Sbjct: 171 YVIVRLPSGEMRKVLSECRATIGVVANGGHILKPLGKAGRARHKGKRPTVRGVAMNPVDH 230
Query: 102 PHVERSKSSGNNGRCSF-----TPWGKPCK 126
PH G G+ PWGKP
Sbjct: 231 PH------GGGEGQHPGGKPPTVPWGKPTP 254
>gnl|CDD|162234 TIGR01171, rplB_bact, ribosomal protein L2, bacterial/organellar.
This model distinguishes bacterial and organellar
ribosomal protein L2 from its counterparts in the
archaea nad in the eukaryotic cytosol. Plant
mitochondrial examples tend to have long, variable
inserts [Protein synthesis, Ribosomal proteins:
synthesis and modification].
Length = 273
Score = 93.1 bits (232), Expect = 3e-24
Identities = 42/85 (49%), Positives = 48/85 (56%), Gaps = 1/85 (1%)
Query: 42 YCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDH 101
Y +RL G +++ CRATIG V N H L KAG+ WLG R VRGVAM PVDH
Sbjct: 169 YVTLRLPSGEMRMVLKECRATIGEVGNEDHNNIVLGKAGRSRWLGIRPTVRGVAMNPVDH 228
Query: 102 PHVERSKSSGNNGRCSFTPWGKPCK 126
PH + GR TPWGKP K
Sbjct: 229 PH-GGGEGRTPGGRHPVTPWGKPTK 252
>gnl|CDD|176993 CHL00052, rpl2, ribosomal protein L2.
Length = 273
Score = 84.9 bits (211), Expect = 4e-21
Identities = 39/92 (42%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 41 RYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVD 100
+ ++L G ++I C ATIG V N K L KAG + WLG+R VRGV M PVD
Sbjct: 168 KSATLKLPSGEVRLISKNCSATIGQVGNVDVNNKSLGKAGSKRWLGKRPKVRGVVMNPVD 227
Query: 101 HPHVERSKSSGNNGRCS------FTPWGKPCK 126
HPH G GR TPWGKP
Sbjct: 228 HPH------GGGEGRAPIGRKKPVTPWGKPAL 253
>gnl|CDD|173329 PTZ00031, PTZ00031, ribosomal protein L2; Provisional.
Length = 317
Score = 65.6 bits (160), Expect = 1e-13
Identities = 36/71 (50%), Positives = 40/71 (56%), Gaps = 4/71 (5%)
Query: 59 CRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDHPH-VERSKSSGNNGRCS 117
C ATIG VSN H + L KAG WLG+R VVRGVAM P HPH SK +CS
Sbjct: 219 CWATIGQVSNLEHHMRILGKAGVNRWLGKRPVVRGVAMNPSKHPHGGGTSKKGTKRPKCS 278
Query: 118 FTPWGKPCKSG 128
WG C+ G
Sbjct: 279 L--WGI-CRDG 286
>gnl|CDD|236589 PRK09612, rpl2p, 50S ribosomal protein L2P; Validated.
Length = 238
Score = 57.9 bits (141), Expect = 3e-11
Identities = 29/65 (44%), Positives = 38/65 (58%), Gaps = 5/65 (7%)
Query: 44 LVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGR-RA----VVRGVAMIP 98
+V+L G K ++PRCRATIG V+ K KAG++ + +A VRGVAM
Sbjct: 138 IVQLPSGKIKELNPRCRATIGVVAGGGRKEKPFLKAGKKYHKMKAKAKKWPRVRGVAMNA 197
Query: 99 VDHPH 103
VDHPH
Sbjct: 198 VDHPH 202
>gnl|CDD|173464 PTZ00180, PTZ00180, 60S ribosomal protein L8; Provisional.
Length = 260
Score = 48.2 bits (115), Expect = 1e-07
Identities = 25/64 (39%), Positives = 31/64 (48%), Gaps = 5/64 (7%)
Query: 45 VRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRA-----VVRGVAMIPV 99
+RL G +K + RA IG V+ K + KAG R VRGVAM PV
Sbjct: 148 IRLPSGQKKTVSSLSRAMIGIVAGGGRIDKPVLKAGNAFHKYRGKRNCWPKVRGVAMNPV 207
Query: 100 DHPH 103
+HPH
Sbjct: 208 EHPH 211
>gnl|CDD|235918 PRK07048, PRK07048, serine/threonine dehydratase; Validated.
Length = 321
Score = 28.1 bits (63), Expect = 1.3
Identities = 14/25 (56%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 82 RSWLGRR-AVVRGVAMIP-VDHPHV 104
R +GRR A RG+ +IP DHPHV
Sbjct: 131 REEIGRRLAEERGLTLIPPYDHPHV 155
>gnl|CDD|234234 TIGR03502, lipase_Pla1_cef, extracellular lipase, Pla-1/cef family.
Members of this protein family are bacterial
lipoproteins largely from the Gammaproteobacteria.
Characterized members are expressed extracellularly and
have esterase activity. Members include the lipase Pla-1
from Aeromonas hydrophila (AF092033) and CHO cell
elongation factor (cef) from Vibrio hollisae.
Length = 792
Score = 28.2 bits (63), Expect = 1.3
Identities = 10/19 (52%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 90 VVRGVAMIPVDHP-HVERS 107
GVA I +DHP H RS
Sbjct: 473 AAAGVATIAIDHPLHGARS 491
>gnl|CDD|107302 cd06307, PBP1_uncharacterized_sugar_binding, Periplasmic
sugar-binding domain of uncharacterized transport
systems. Periplasmic sugar-binding domain of
uncharacterized transport systems that share homology
with a family of pentose/hexose sugar-binding proteins
of the type I periplasmic binding protein (PBP1)
superfamily. The members of this group are predicted to
be involved in the transport of sugar-containing
molecules across cellular and organellar membranes.
Length = 275
Score = 27.1 bits (61), Expect = 2.5
Identities = 17/51 (33%), Positives = 21/51 (41%), Gaps = 10/51 (19%)
Query: 56 DPRCRATIGTVSNPSHG--AKKLSKAGQRSWLGRRAVVRGVAMIPVDHPHV 104
D R R I V + A L + G RS GVA++ DHP V
Sbjct: 30 DARIRVRIHFVESFDPAALAAALLRLGARS--------DGVALVAPDHPQV 72
>gnl|CDD|234815 PRK00701, PRK00701, manganese transport protein MntH; Reviewed.
Length = 439
Score = 27.1 bits (61), Expect = 2.5
Identities = 8/16 (50%), Positives = 12/16 (75%), Gaps = 1/16 (6%)
Query: 84 WLGRRAVVRGVAMIPV 99
W+ RR + RG+AM+P
Sbjct: 346 WV-RRLITRGLAMVPA 360
>gnl|CDD|182971 PRK11112, PRK11112, tRNA pseudouridine synthase C; Provisional.
Length = 257
Score = 26.2 bits (58), Expect = 4.8
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 36 KEPTSRYCLVRL 47
+ PT+RY LV L
Sbjct: 143 RYPTTRYSLVEL 154
>gnl|CDD|224126 COG1205, COG1205, Distinct helicase family with a unique C-terminal
domain including a metal-binding cysteine cluster
[General function prediction only].
Length = 851
Score = 25.8 bits (57), Expect = 8.0
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 3/34 (8%)
Query: 46 RLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKA 79
RLR + T T++NP A++L
Sbjct: 225 RLRRYGS---PLQIICTSATLANPGEFAEELFGR 255
>gnl|CDD|236584 PRK09602, PRK09602, translation-associated GTPase; Reviewed.
Length = 396
Score = 25.9 bits (58), Expect = 8.3
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 92 RGVAMIPVDHPHVERS-KSSGNNGRC 116
GVA + V+ P E K + NG+C
Sbjct: 40 VGVAYVRVECPCKELGVKCNPRNGKC 65
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
0.319 0.133 0.438
Gapped
Lambda K H
0.267 0.0685 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,304,089
Number of extensions: 511938
Number of successful extensions: 338
Number of sequences better than 10.0: 1
Number of HSP's gapped: 331
Number of HSP's successfully gapped: 18
Length of query: 129
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 43
Effective length of database: 7,123,158
Effective search space: 306295794
Effective search space used: 306295794
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.3 bits)