RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 004366
(759 letters)
>d1riqa2 d.104.1.1 (A:1-236) Alanyl-tRNA synthetase (AlaRS) {Aquifex
aeolicus [TaxId: 63363]}
Length = 236
Score = 295 bits (756), Expect = 7e-96
Identities = 129/241 (53%), Positives = 165/241 (68%), Gaps = 12/241 (4%)
Query: 49 SGDSIRKRFLDFYASRGHKVLPSASLVPE-DPTVLLTIAGMLQFKPIFLGKVPRQVPRAA 107
S IR+ FL F+ +GH + SA LVPE DPT+L AGM+ FK +FLG R RA
Sbjct: 3 SAHEIRELFLSFFEKKGHTRVKSAPLVPENDPTLLFVNAGMVPFKNVFLGLEKRPYKRAT 62
Query: 108 TSQRCIRT----NDVENVGRTSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPA 163
+ Q+C+R ND+E VG TSRHHTFFEMLGNFSFGDYFKKEAI++AWEF T LP
Sbjct: 63 SCQKCLRVSGKHNDLEQVGYTSRHHTFFEMLGNFSFGDYFKKEAIEYAWEFVTEVLKLPK 122
Query: 164 NRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSGATGPCGPCSEIYYDFHPD 223
+L++SVY+DD+EA+ IWN+ +G+P E I R+G +DNFW G GPCGP SEIY D +
Sbjct: 123 EKLYVSVYKDDEEAYRIWNEHIGIPSERIWRLGEEDNFWQMGDVGPCGPSSEIYVDRGEE 182
Query: 224 RGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNN 283
+ R++E +NLVFMQYN+ ++G L PL NIDTG+GLERIA +LQ +N
Sbjct: 183 YEGDE-------RYLEIWNLVFMQYNRDENGVLTPLPHPNIDTGMGLERIASVLQGKNSN 235
Query: 284 Y 284
+
Sbjct: 236 F 236
>d1riqa1 a.203.1.1 (A:237-457) Putative anticodon-binding domain of
alanyl-tRNA synthetase (AlaRS) {Aquifex aeolicus [TaxId:
63363]}
Length = 221
Score = 168 bits (427), Expect = 1e-48
Identities = 79/235 (33%), Positives = 133/235 (56%), Gaps = 15/235 (6%)
Query: 285 ETDLIFPIIKKASELANVSYAQSNDRTNLNLKIIGDHLRAIVYLLSDGVFPSNIGRGYVV 344
E D+IFP+I+ E++ Y + T++ L++I DHLRAI + +SDGV PSN GRGYV+
Sbjct: 1 EIDIIFPLIQFGEEVSGKKYGE-KFETDVALRVIADHLRAITFAISDGVIPSNEGRGYVI 59
Query: 345 RRLIRRAVRTGRLLGIKGDGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKR 404
RR++RRA+R G LGI+ FL + +++ +++ + + +K
Sbjct: 60 RRILRRAMRFGYKLGIE--------NPFLYKGVDLVVDIMKEPYPELELSREFVKGIVKG 111
Query: 405 EELRFVQTLERGEKLLDQMLADALSRTRESGSVPRLSGQDAFLLYDTFGFPVEITKEVAE 464
EE RF++TL+ G + + +++ AL R++ SG++ F YDT+GFPV++ E+A
Sbjct: 112 EEKRFIKTLKAGMEYIQEVIQKALEEGRKTL-----SGKEVFTAYDTYGFPVDLIDEIAR 166
Query: 465 EHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVDDS-ADLAEKIPDTEFLGYDTL 518
E G+ +D++GF E+E QR +++ V + L E + F+G L
Sbjct: 167 EKGLGIDLEGFQCELEEQRERARKHFKVEAKKVKPVYSHLKELGKTSAFVGAAAL 221
>d2e1ba1 b.43.3.6 (A:1-87) AlaX-M trans-editing enzyme, N-terminal
domain {Pyrococcus horikoshii [TaxId: 53953]}
Length = 87
Score = 62.6 bits (152), Expect = 8e-13
Identities = 24/78 (30%), Positives = 32/78 (41%), Gaps = 11/78 (14%)
Query: 536 KVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLGSVFVHK 595
+V + D +LL++T FY GGQ D G + VEV DV K H
Sbjct: 21 RVLEIRDNAILLDQTIFYPTGGGQPHDRGTI----------NGVEVLDVYKDEEGNVWHV 70
Query: 596 GTIREGVLEVGREVEAIV 613
+VG EVE +
Sbjct: 71 V-KEPEKFKVGDEVELKI 87
>d1v4pa_ d.67.1.2 (A:) Hypothetical protein PH0574 {Archaeon
Pyrococcus horikoshii [TaxId: 53953]}
Length = 151
Score = 61.4 bits (148), Expect = 1e-11
Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 6/97 (6%)
Query: 624 HHTATHLLQAALKKVIGQETSQAGS-LVAFDRLRFDFNFHRPLLDTELEEIERLINGWIG 682
H+A H+++ A+ KV+G E S V ++ F R D E+ EIERL N +
Sbjct: 8 THSALHVVKGAVVKVLGSEAKWTYSTYVKGNKGVLIVKFDRKPSDEEIREIERLANEKVK 67
Query: 683 DANLLQTKVMALDDAKRAGAIAMFGEKYGEQVKISSK 719
+ ++ + ++A++ MFGE + +
Sbjct: 68 ENAPIKIYELPREEAEK-----MFGEDMYDLFPVPED 99
>d2e1ba2 d.67.1.2 (A:88-216) AlaX-M trans-editing enzyme, C-terminal
domain {Pyrococcus horikoshii [TaxId: 53953]}
Length = 129
Score = 57.4 bits (138), Expect = 1e-10
Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
Query: 614 DPKLRQRAKVHHTATHLLQAALKKVIG-QETSQAGSLVAFDRLRFDFNFHRPLLDTELEE 672
D R + HT HLL+ L +V+G GS ++ ++ R+D + L E+
Sbjct: 1 DWDYRYKLMRIHTGLHLLEHVLNEVLGEGNWQLVGSGMSVEKGRYDIAYPENLNK-YKEQ 59
Query: 673 IERLINGWI 681
I L N ++
Sbjct: 60 IISLFNKYV 68
>d1nyra3 d.67.1.1 (A:63-241) Threonyl-tRNA synthetase (ThrRS),
second 'additional' domain {Staphylococcus aureus
[TaxId: 1280]}
Length = 179
Score = 53.6 bits (128), Expect = 7e-09
Identities = 18/96 (18%), Positives = 41/96 (42%), Gaps = 6/96 (6%)
Query: 625 HTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDA 684
H+ HL+ A+K++ G V +DF+ + + + E+IE+ + + +
Sbjct: 13 HSTAHLMAHAIKRLYG-NVKFGVGPVIEGGFYYDFDIDQNISSDDFEQIEKTMKQIVNEN 71
Query: 685 NLLQTKVMALDDAKRAGAIAMFGEKYGEQVKISSKM 720
++ KV++ D+ A +F + I +
Sbjct: 72 MKIERKVVSRDE-----AKELFSNDEYKLELIDAIP 102
>d1tkea2 d.67.1.1 (A:63-224) Threonyl-tRNA synthetase (ThrRS),
second 'additional' domain {Escherichia coli [TaxId:
562]}
Length = 162
Score = 42.9 bits (100), Expect = 3e-05
Identities = 18/98 (18%), Positives = 38/98 (38%), Gaps = 1/98 (1%)
Query: 625 HTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDA 684
H+ HLL A+K+ + T A V + +D + R L ++E +E+ ++
Sbjct: 11 HSCAHLLGHAIKQ-LWPHTKMAIGPVIDNGFYYDVDLDRTLTQEDVEALEKRMHELAEKN 69
Query: 685 NLLQTKVMALDDAKRAGAIAMFGEKYGEQVKISSKMYV 722
+ K ++ +A+ A K + +
Sbjct: 70 YDVIKKKVSWHEARETFANRGESYKVSILDENIAHDDK 107
>d1on3a2 c.14.1.4 (A:261-524) Methylmalonyl-CoA carboxyltransferase
(transcarboxylase 12S) {Propionibacterium freudenreichii
[TaxId: 1744]}
Length = 264
Score = 30.1 bits (67), Expect = 0.89
Identities = 14/42 (33%), Positives = 20/42 (47%)
Query: 331 DGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGDGRGNLEGAF 372
+ P + +GY VR +I + V G L +K NL AF
Sbjct: 20 RDIVPIDGKKGYDVRDVIAKIVDWGDYLEVKAGYATNLVTAF 61
>d1c0aa3 d.104.1.1 (A:107-287,A:421-585) Aspartyl-tRNA synthetase
(AspRS) {Escherichia coli [TaxId: 562]}
Length = 346
Score = 30.1 bits (67), Expect = 1.1
Identities = 30/201 (14%), Positives = 61/201 (30%), Gaps = 18/201 (8%)
Query: 131 FEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVE 190
+ + GD+ + + + + L W ++ D FE + E G+
Sbjct: 150 WLEVKGVDLGDFPVMTFAEAERRYGSDKPDLRDESKWAPLWVIDFPMFE-DDGEGGLTAM 208
Query: 191 HIKRMGADDNFWNSGATGPCGPCSEIYYDFHPDR----GCSDVDLGDDT-RFIEFYNLVF 245
H D P + Y G + GD +
Sbjct: 209 HHPFTSPKDMTAAELKAAPENAVANAYDMVINGYEVGGGSVRIHNGDMQQTVFGILGINE 268
Query: 246 MQYNKKDDGSLEPLKQKNIDT---GLGLERIARILQKVPNNYETDLIFPIIKKASEL--- 299
+ +K L+ LK GL+R+ +L N + + FP A+ L
Sbjct: 269 EEQREKFGFLLDALKYGTPPHAGLAFGLDRLTMLLTGTDNIRDV-IAFPKTTAAACLMTE 327
Query: 300 --ANVSYAQSNDRTNLNLKII 318
+ + + L+++++
Sbjct: 328 APSFANPTALAE---LSIQVV 345
>d1jjca_ d.104.1.1 (A:) Phenyl-tRNA synthetase (PheRS) alpha
subunit, PheS {Thermus thermophilus [TaxId: 274]}
Length = 266
Score = 28.1 bits (62), Expect = 3.9
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 267 GLGLERIARILQKVPN---NYETDLIF 290
GLG+ER+A + +P+ + L F
Sbjct: 232 GLGVERLAMLRYGIPDIRYFFGGRLKF 258
>d1kk1a1 b.43.3.1 (A:201-321) Initiation factor eIF2 gamma subunit,
domain II {Archaeon Pyrococcus abyssi [TaxId: 29292]}
Length = 121
Score = 27.0 bits (59), Expect = 4.1
Identities = 19/79 (24%), Positives = 30/79 (37%), Gaps = 8/79 (10%)
Query: 589 GSVFVHKGTIREGVLEVGREVEA----IVDPKLRQRAKVHHTATHLLQAALKKVIGQETS 644
V G+I +G L+VG E+E + R + + T LQA + E +
Sbjct: 29 LVGGVLDGSIVQGKLKVGDEIEIRPGVPYEEHGRIKYEPITTEIVSLQAGGQF---VEEA 85
Query: 645 QAGSLVAFDRLRFDFNFHR 663
G LV + D +
Sbjct: 86 YPGGLVGV-GTKLDPYLTK 103
>d1v4ra1 a.4.5.6 (A:1-100) Transcriptional repressor TraR,
N-terminal domain {Streptomyces sp. [TaxId: 1931]}
Length = 100
Score = 26.4 bits (58), Expect = 5.3
Identities = 13/48 (27%), Positives = 20/48 (41%)
Query: 323 RAIVYLLSDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGDGRGNLEG 370
RA+ L S+G+ S G VV + RL ++ +G G
Sbjct: 52 RALAVLKSEGLVSSRGALGTVVEKNPIVITGADRLKRMEKNGMRYAPG 99
>d1sjpa3 d.56.1.1 (A:135-188,A:373-407) GroEL, I domain
{Mycobacterium tuberculosis, GroEL2 [TaxId: 1773]}
Length = 89
Score = 25.8 bits (57), Expect = 6.0
Identities = 15/96 (15%), Positives = 44/96 (45%), Gaps = 12/96 (12%)
Query: 404 REELRFVQTLERGEKLLDQMLADALSRTRESGSVPRLSGQDAFLLYDTFGFPVEITKEVA 463
+E++ + G++ + ++A+A+ + G + TFG +E+T+
Sbjct: 5 KEQIAATAAISAGDQSIGDLIAEAMDKVGNEGVITVEESN-------TFGLQLELTEVAV 57
Query: 464 EEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVDD 499
+ G + ++ E++ ++ + + A K +V++
Sbjct: 58 IKAGAATEV-----ELKERKHRIEDAVRNAKAAVEE 88
>d1efca1 b.43.3.1 (A:205-296) Elongation factor Tu (EF-Tu), domain 2
{Escherichia coli [TaxId: 562]}
Length = 92
Score = 25.9 bits (57), Expect = 6.8
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 581 VKDVKKSLGSVFVHKGTIREGVLEVGREVEAIVDPKLRQRAKV 623
++DV G V G + G+++VG EVE IV K Q++
Sbjct: 10 IEDVFSISGRGTVVTGRVERGIIKVGEEVE-IVGIKETQKSTC 51
>d1pixa3 c.14.1.4 (A:288-586) Glutaconyl-CoA decarboxylase A subunit
{Acidaminococcus fermentans [TaxId: 905]}
Length = 299
Score = 27.1 bits (59), Expect = 9.0
Identities = 8/33 (24%), Positives = 11/33 (33%)
Query: 331 DGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGD 363
+ P N R Y + +I R L K
Sbjct: 22 YSMVPLNDKRAYDIYNVIARLFDNSELHEYKKG 54
>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK,
N-terminal domain {Archaeon Thermococcus litoralis
[TaxId: 2265]}
Length = 240
Score = 26.8 bits (59), Expect = 9.1
Identities = 10/42 (23%), Positives = 17/42 (40%), Gaps = 9/42 (21%)
Query: 577 AVVEVKDVKKSLGSVFVHKG---TIREGVLEVGREVEAIVDP 615
A V + DV K G V + +++G E ++ P
Sbjct: 2 AGVRLVDVWKVFGEVTAVREMSLEVKDG------EFMILLGP 37
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.319 0.137 0.399
Gapped
Lambda K H
0.267 0.0511 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,843,721
Number of extensions: 139090
Number of successful extensions: 407
Number of sequences better than 10.0: 1
Number of HSP's gapped: 397
Number of HSP's successfully gapped: 22
Length of query: 759
Length of database: 2,407,596
Length adjustment: 92
Effective length of query: 667
Effective length of database: 1,144,436
Effective search space: 763338812
Effective search space used: 763338812
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 (21.7 bits)
S2: 57 (26.2 bits)