RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4120
(95 letters)
>3e0o_A Peptide methionine sulfoxide reductase MSRB; oxidoreductase; 2.60A
{Bacillus subtilis} PDB: 1xm0_A 2kzn_A
Length = 144
Score = 128 bits (325), Expect = 3e-40
Identities = 45/124 (36%), Positives = 52/124 (41%), Gaps = 43/124 (34%)
Query: 11 KIDKEELKKRLTPMQYHVTQEKGTER--------------Y--IGSNLLL---------- 44
+KEE K L MQY VTQ GTE Y I S L
Sbjct: 3 AYNKEEKIKSLNRMQYEVTQNNGTEPPFQNEYWDHKEEGLYVDIVSGKPLFTSKDKFDSQ 62
Query: 45 -------------LITNPD----MVRTEVTCSKCDAHLGHVFNDGPAPTRRRFCINSASV 87
+ D M+RTEV D+HLGHVFNDGP P R+CINSA++
Sbjct: 63 CGWPSFTKPIEEEVEEKLDTSHGMIRTEVRSRTADSHLGHVFNDGPGPNGLRYCINSAAL 122
Query: 88 DFVP 91
FVP
Sbjct: 123 RFVP 126
>3hcj_A MSRB, peptide methionine sulfoxide reductase; methionine sulfoxide
reductase B, oxidized form, oxidoreductase; 1.66A
{Xanthomonas campestris PV} PDB: 3hci_A*
Length = 154
Score = 125 bits (316), Expect = 9e-39
Identities = 36/136 (26%), Positives = 49/136 (36%), Gaps = 44/136 (32%)
Query: 1 MCDNNNAGGCKIDKEELKKRLTPMQYHVTQEKGTER--------------Y--IGSNLLL 44
M + ++ L L+ + V GTE Y L L
Sbjct: 1 MSQFDLTPPSPAQRDALIAGLSDEEQRVLLHHGTEAPFCGVFLDNKLDGVYTCRLCGLPL 60
Query: 45 ------------------------LITNPD----MVRTEVTCSKCDAHLGHVFNDGPAPT 76
+ D M+RTE+ C++CD+HLGHVF DGP PT
Sbjct: 61 FRSNAKFDSGTGWPSFFAPYDPAHVREIRDTSYGMIRTEIVCARCDSHLGHVFPDGPPPT 120
Query: 77 RRRFCINSASVDFVPD 92
R C+NS S+ F D
Sbjct: 121 GERHCLNSVSLAFTED 136
>3hcg_A Peptide methionine sulfoxide reductase MSRA/MSRB; PILB, methionine
sulfoxide reductase B, reduced form, disulfide bond;
1.82A {Neisseria meningitidis serogroup A} PDB: 3hch_A*
1l1d_A
Length = 146
Score = 123 bits (312), Expect = 3e-38
Identities = 40/126 (31%), Positives = 48/126 (38%), Gaps = 45/126 (35%)
Query: 11 KIDKEELKKRLTPMQYHVTQEKGTER--------------Y--IGSNLLL---------- 44
K ELK+ LT QY VTQ TE Y + S L
Sbjct: 4 KPSDAELKRTLTEEQYQVTQNSATEYAFSHEYDHLFKPGIYVDVVSGEPLFSSADKYDSG 63
Query: 45 --------------LITNPD----MVRTEVTCSKCDAHLGHVFNDGPAPTR-RRFCINSA 85
+ + D M RTEV D+HLGHVF DGP R+CIN A
Sbjct: 64 CGWPSFTRPIDAKSVTEHDDFSYNMRRTEVRSHAADSHLGHVFPDGPRDKGGLRYCINGA 123
Query: 86 SVDFVP 91
S+ F+P
Sbjct: 124 SLKFIP 129
>2k8d_A Peptide methionine sulfoxide reductase MSRB; thermophilic, Zn
binding, metal-binding, oxidoreductase; NMR
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 151
Score = 122 bits (309), Expect = 9e-38
Identities = 40/138 (28%), Positives = 59/138 (42%), Gaps = 46/138 (33%)
Query: 1 MCDNNNAGGCKIDK--EELKKRLTPMQYHVTQEKGTER--------------Y--IGSNL 42
+ N +I+ +E ++ L P + V ++ GTE Y I
Sbjct: 10 VAKNRVEMVERIELSDDEWREILDPEAFRVARKAGTEPPFTGKYHDLHDDGIYRCICCGT 69
Query: 43 LL------------------------LITNPD----MVRTEVTCSKCDAHLGHVFNDGPA 74
L + D MVR EV C++CDAHLGHVF+DGP
Sbjct: 70 DLFDSETKFDSGTGWPSFYDVVSEHNIKLREDRSLGMVRCEVLCARCDAHLGHVFDDGPR 129
Query: 75 PTRRRFCINSASVDFVPD 92
PT +R+C+NSA++ F+P
Sbjct: 130 PTGKRYCMNSAALKFIPR 147
>3cxk_A Methionine-R-sulfoxide reductase; structural genomics, MSRB,
oxidoreductase, MIC labcard, PSI-2, protein structure
initiative; 1.70A {Burkholderia pseudomallei strain}
PDB: 3cez_A
Length = 164
Score = 119 bits (301), Expect = 2e-36
Identities = 42/124 (33%), Positives = 52/124 (41%), Gaps = 45/124 (36%)
Query: 13 DKEELKKRLTPMQYHVTQEKGTER--------------Y--IGSNLLL------------ 44
D EL++RLTPMQY VTQ TE Y + L
Sbjct: 36 DDAELRRRLTPMQYEVTQHAATEPPFTGEYTDTEDAGIYHCVVCGTALFESGAKYHSGCG 95
Query: 45 ------------LITNPD----MVRTEVTCSKCDAHLGHVFNDGPA-PTRRRFCINSASV 87
+ D M R EV C++C AHLGHVF DGP T R+CINSA++
Sbjct: 96 WPSYFKPIDGEVIDEKMDYTHGMTRVEVRCNQCGAHLGHVFEDGPRDKTGLRYCINSAAL 155
Query: 88 DFVP 91
+F
Sbjct: 156 NFEA 159
>2l1u_A MSRB2, methionine-R-sulfoxide reductase B2, mitochondria;
methionine sulfoxide reductase, oxidoreductase; NMR {Mus
musculus}
Length = 143
Score = 118 bits (299), Expect = 3e-36
Identities = 40/128 (31%), Positives = 55/128 (42%), Gaps = 51/128 (39%)
Query: 16 ELKKRLTPMQYHVTQEKGTER--------------Y--IGSNLLL--------------- 44
+ +K+LTP Q++VT+EKGTE Y + + L
Sbjct: 3 DWQKKLTPEQFYVTREKGTEAPFSGMYLNNKETGMYHCVCCDSPLFSSEKKYCSGTGWPS 62
Query: 45 ----------------LITNPD----MVRTEVTCSKCDAHLGHVFNDGPAPTRRRFCINS 84
++ D R EV C +C+AHLGHVF DGP PT +RFCINS
Sbjct: 63 FSEAYGSKGSDESHTGILRRLDTSLGCPRMEVVCKQCEAHLGHVFPDGPKPTGQRFCINS 122
Query: 85 ASVDFVPD 92
++ F P
Sbjct: 123 VALKFKPS 130
>2kao_A Methionine-R-sulfoxide reductase B1; mouse reduced methionine
sulfoxide reductase B1 (MSRB1) (SEC95Cys mutant,
selenocysteine; NMR {Mus musculus} PDB: 2kv1_A
Length = 124
Score = 90.7 bits (226), Expect = 2e-25
Identities = 21/43 (48%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 51 MVRTEVTCSKCDAHLGHVF-NDGPAPTRRRFCINSASVDFVPD 92
+V+C KC LGH F NDGP + RFCI S+S+ FVP
Sbjct: 64 PEALKVSCGKCGNGLGHEFLNDGPKRGQSRFCIFSSSLKFVPK 106
>3mao_A Methionine-R-sulfoxide reductase B1; oxidoreductase, structural
genomics consortium, SGC, cytoplasm, metal-binding,
nucleus, selenocysteine, zinc; HET: MLI; 1.42A {Homo
sapiens}
Length = 105
Score = 89.9 bits (224), Expect = 2e-25
Identities = 21/43 (48%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 51 MVRTEVTCSKCDAHLGHVF-NDGPAPTRRRFCINSASVDFVPD 92
+V+C KC LGH F NDGP P + RF I S+S+ FVP
Sbjct: 57 SEALKVSCGKCGNGLGHEFLNDGPKPGQSRFSIFSSSLKFVPK 99
>3e0m_A Peptide methionine sulfoxide reductase MSRA/MSRB 1; fusion, msrab,
linker, hinge, cell membrane, membrane, multifunctional
enzyme, oxidoreductase; 2.40A {Streptococcus pneumoniae}
Length = 313
Score = 84.3 bits (209), Expect = 2e-21
Identities = 38/124 (30%), Positives = 44/124 (35%), Gaps = 45/124 (36%)
Query: 13 DKEELKKRLTPMQYHVTQEKGTER--------------Y--IGSNLLL------------ 44
+E LK L+ Y VTQE TE Y I + L
Sbjct: 172 SQEVLKASLSEESYRVTQEAATEAPFTNAYDQTFEEGIYVDITTGEPLFFAKDKFASGCG 231
Query: 45 ------------LITNPD----MVRTEVTCSKCDAHLGHVFNDGPAPTR-RRFCINSASV 87
+ D M R EV AHLGHVF DGP R+CINSAS+
Sbjct: 232 WPSFSRPLSKELIHYYKDLSHGMERIEVRSRSGSAHLGHVFTDGPRELGGLRYCINSASL 291
Query: 88 DFVP 91
FV
Sbjct: 292 RFVA 295
>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition,
kinase-INH complex, rubredoxin fold, TPR domain,
transferase; HET: AXX; 2.40A {Mycobacterium
tuberculosis}
Length = 681
Score = 27.5 bits (61), Expect = 0.64
Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 44 LLITNPDMVRTEVTCSKCDAHLGHVFNDGPAPTRRRFCIN-SASVDFVPD 92
L+TNP + ++ C C +G ++ + +C + F+P
Sbjct: 23 ALMTNPVVPESKRFCWNCGRPVGRSDSETKGAS-EGWCPYCGSPYSFLPQ 71
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 0.72
Identities = 11/76 (14%), Positives = 18/76 (23%), Gaps = 46/76 (60%)
Query: 13 DKEELKKRLTPMQYHVTQEKGTERYIGSNLLLLITNPDMVRTEVTCSKCDAHLGHVFNDG 72
+K+ LKK L + + Y D
Sbjct: 18 EKQALKK-L---------QASLKLY----------ADD--------------------SA 37
Query: 73 PAPTRRRFCINSASVD 88
PA I A+++
Sbjct: 38 PA-----LAIK-ATME 47
>1sqw_A Saccharomyces cerevisiae NIP7P homolog; PUA, unknown function;
1.90A {Homo sapiens} SCOP: b.122.1.1 d.17.6.3 PDB:
1t5y_A
Length = 188
Score = 25.7 bits (56), Expect = 2.8
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 19 KRLTPMQYHVTQEKGTERYIGSNLLLLITNPD 50
+ LT + V EK +YIG NL LL+ PD
Sbjct: 2 RPLTEEETRVMFEK-IAKYIGENLQLLVDRPD 32
>2cxi_A Phenylalanyl-tRNA synthetase beta chain; aminoacyl-tRNA synthetase,
ligase, structural genomics; HET: MSE; 1.94A {Pyrococcus
horikoshii}
Length = 348
Score = 25.6 bits (56), Expect = 3.2
Identities = 8/30 (26%), Positives = 14/30 (46%)
Query: 5 NNAGGCKIDKEELKKRLTPMQYHVTQEKGT 34
G +++ E+K+ L M Y V +G
Sbjct: 291 RKLSGLELNDGEIKELLEKMMYEVEISRGR 320
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 25.6 bits (55), Expect = 3.2
Identities = 13/85 (15%), Positives = 29/85 (34%), Gaps = 25/85 (29%)
Query: 26 YHVTQEKGTERYIGSNLLLLITNPDM------VRTEVTCSKCDAHL-----------GHV 68
+H+ + ER ++ L D +R + T + ++
Sbjct: 479 HHLKNIEHPERMTLFRMVFL----DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYI 534
Query: 69 FNDGPAPTRRRFCINSASVDFVPDH 93
++ P R +N+ +DF+P
Sbjct: 535 CDNDPKYERL---VNAI-LDFLPKI 555
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 25.4 bits (55), Expect = 3.5
Identities = 6/40 (15%), Positives = 11/40 (27%), Gaps = 11/40 (27%)
Query: 39 GSNLLLLITNPDMVRTEVTCSKCDAHLGHVFND-----GP 73
++ +V C+ C G V +D
Sbjct: 28 KVYPPKIVE--RFSEGDVVCALC----GLVLSDKLVDTRS 61
>1auk_A Arylsulfatase A; cerebroside-3-sulfate hydrolysis, lysosomal
enzyme, hydrolas; HET: NDG NAG; 2.10A {Homo sapiens}
SCOP: c.76.1.2 PDB: 1n2k_A* 1n2l_A* 1e1z_P* 1e2s_P*
1e3c_P* 1e33_P*
Length = 489
Score = 25.4 bits (56), Expect = 4.0
Identities = 9/35 (25%), Positives = 10/35 (28%), Gaps = 3/35 (8%)
Query: 64 HLGHVFNDGPAPTRR---RFCINSASVDFVPDHPQ 95
HLG P + RF S D P
Sbjct: 107 HLGVGPEGAFLPPHQGFHRFLGIPYSHDQGPCQNL 141
>3li6_A Calcium-binding protein; calcium signaling protein, assemble free
energy, dynamic behaviour, cytoskeleton, metal binding;
2.50A {Entamoeba histolytica}
Length = 66
Score = 24.1 bits (53), Expect = 4.1
Identities = 6/32 (18%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 1 MCDNNNAGGCKIDKEELKKRLTPMQYHVTQEK 32
D N G + EE+K ++ + ++
Sbjct: 8 EIDVNGDG--AVSYEEVKAFVSKKRAIKNEQL 37
>2pw4_A Uncharacterized protein DUF1470; YP_510353.1, protein of unknown
function DUF1470, structural genomics, joint center for
structural genomics, JCSG; HET: MSE; 1.45A {Jannaschia
SP} SCOP: d.380.1.1 PDB: 3h0n_A*
Length = 188
Score = 25.1 bits (54), Expect = 4.2
Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 5/41 (12%)
Query: 42 LLLLITNPDMVRTEVTCSKCDAHL-GHVFNDGPAPTRRRFC 81
L I + ++ R C+AH V+ D R++C
Sbjct: 133 LAREIGHQNVRR----FGICNAHRCDRVYFDTSRNGTRQYC 169
>3fpn_B Geobacillus stearothermophilus UVRB interaction domain; UVRA,
nucleotide excision repair, DNA repair, DNA binding
protein; 1.80A {Geobacillus stearothermophilus}
Length = 106
Score = 24.0 bits (53), Expect = 7.2
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 9 GCKIDKEELKKRLTPMQY 26
G +I++ L +RL +QY
Sbjct: 20 GMEIERNALLRRLVDIQY 37
>3sjs_A URE3-BP sequence specific DNA binding protein; EF-hand, structural
genomics, seattle S genomics center for infectious
disease, ssgcid; 1.90A {Entamoeba histolytica} PDB:
3sia_A 3sib_A
Length = 220
Score = 24.4 bits (53), Expect = 7.7
Identities = 5/31 (16%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 1 MCDNNNAGGCKIDKEELKKRLTPMQYHVTQE 31
M +G ++ E+ L + +++ Q
Sbjct: 125 MNARARSG--TLEPHEILPALQQLGFYINQR 153
>2nyy_A Botulinum neurotoxin type A; neurotoxin, FAB, protein antibody
complex, toxin- system complex; 2.61A {Clostridium
botulinum} PDB: 2nz9_A 3bta_A 3v0a_A* 3v0b_A 3v0c_A
3zus_A 3zur_A
Length = 1295
Score = 24.4 bits (52), Expect = 8.0
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 8 GGCKIDKEELKKRLTPMQYHVTQEKGTERYIGSNLLLLITNPDMVRTEVTCSKCDAH 64
GG ID E K + +V Q G+ R NL+++ + D+++ E +
Sbjct: 118 GGSTIDTE--LKVIDTNCINVIQPDGSYRSEELNLVIIGPSADIIQFECKSFGHEVL 172
>3rm1_A Protein S100-B; alpha-helical, EF hand, metal binding
protein-protein bindin; 1.24A {Bos taurus} PDB: 3rlz_A
1cfp_A 3cr2_A 3cr4_X* 3cr5_X* 3gk1_A* 3gk2_A* 3gk4_X*
3iqo_A 3iqq_A 3lle_A* 1psb_A 3czt_X 2h61_A 3d0y_A*
3d10_A* 3hcm_A* 3lk1_A* 3lk0_A* 1b4c_A ...
Length = 92
Score = 23.6 bits (51), Expect = 8.4
Identities = 10/41 (24%), Positives = 18/41 (43%)
Query: 10 CKIDKEELKKRLTPMQYHVTQEKGTERYIGSNLLLLITNPD 50
K+ K ELK+ + H +E + + + L +N D
Sbjct: 26 HKLKKSELKELINNELSHFLEEIKEQEVVDKVMETLDSNGD 66
>2a97_A BONT/F, botulinum neurotoxin type F, bontoxilysin F; clostridium
botulinum neurotoxin serotype F, light chain, catalytic
domain, X-RAY,; 1.80A {Clostridium botulinum} PDB:
2a8a_A 3fie_A 3fii_A
Length = 439
Score = 24.0 bits (51), Expect = 9.9
Identities = 8/47 (17%), Positives = 17/47 (36%)
Query: 25 QYHVTQEKGTERYIGSNLLLLITNPDMVRTEVTCSKCDAHLGHVFND 71
++ E + NLL+L PD+ + + V++
Sbjct: 136 SVNIKLSTNVESSMLLNLLVLGAGPDIFESCCYPVRKLIDPDVVYDP 182
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.136 0.427
Gapped
Lambda K H
0.267 0.0611 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,469,624
Number of extensions: 71236
Number of successful extensions: 193
Number of sequences better than 10.0: 1
Number of HSP's gapped: 188
Number of HSP's successfully gapped: 36
Length of query: 95
Length of database: 6,701,793
Length adjustment: 62
Effective length of query: 33
Effective length of database: 4,970,691
Effective search space: 164032803
Effective search space used: 164032803
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: 51 (23.7 bits)