RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1582
(129 letters)
>2w40_A Glycerol kinase, putative; closed conformation, malaria,
transferase, sugar kinase/HSP70/actin superfamily, open
conformation; 1.49A {Plasmodium falciparum} PDB: 2w41_A*
Length = 503
Score = 109 bits (276), Expect = 2e-29
Identities = 32/90 (35%), Positives = 49/90 (54%), Gaps = 2/90 (2%)
Query: 25 SRVLIISALTQEEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSR 84
++V V S++++ + GW E DP+EI+ + M+ I+ L +
Sbjct: 16 TKVFFYDE-ELNIVHSNNLNHEQKCLKPGWYEHDPIEIMTNLYNLMNEGIKVLKD-KYTS 73
Query: 85 DDIVTLGITNQRETTVVWDLNTGEPLYNAI 114
I +GITNQRET ++WD TG+PLYNAI
Sbjct: 74 VIIKCIGITNQRETVIIWDRITGKPLYNAI 103
>2d4w_A Glycerol kinase; alpha and beta protein, ribonuclease H-like motif,
actin- like ATPase domain, transferase; 2.30A
{Cellulomonas SP}
Length = 504
Score = 103 bits (260), Expect = 3e-27
Identities = 31/67 (46%), Positives = 43/67 (64%), Gaps = 3/67 (4%)
Query: 48 ISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVTLGITNQRETTVVWDLNTG 107
I P+ GW E +P +I V+ + A+ + L+ +DI +GITNQRET VVWD TG
Sbjct: 36 IFPRAGWVEHNPEQIWNNVREVVGLALTR---GNLTHEDIAAVGITNQRETAVVWDKTTG 92
Query: 108 EPLYNAI 114
+P+YNAI
Sbjct: 93 KPVYNAI 99
>3h3n_X Glycerol kinase; ATP-binding, glycerol metabolism, nucleoti
binding, phosphoprotein, transferase; 1.73A
{Enterococcus casseliflavus} PDB: 3h3o_O 3flc_O 3h46_X
3h45_X 3d7e_O 1r59_O 1xup_O
Length = 506
Score = 103 bits (259), Expect = 4e-27
Identities = 31/79 (39%), Positives = 46/79 (58%), Gaps = 3/79 (3%)
Query: 36 EEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVTLGITNQ 95
+++ S + P+ GW E + EI +VQ+ + A + G+ + I +GITNQ
Sbjct: 27 KKIGSSQKEFPQYFPKSGWVEHNANEIWNSVQSVIAGAFIE---SGIRPEAIAGIGITNQ 83
Query: 96 RETTVVWDLNTGEPLYNAI 114
RETTVVWD TG+P+ NAI
Sbjct: 84 RETTVVWDKTTGQPIANAI 102
>4e1j_A Glycerol kinase; structural genomics, PSI-biology, NEW YORK
structural genomi research consortium, nysgrc,
transferase; 2.33A {Sinorhizobium meliloti}
Length = 520
Score = 103 bits (259), Expect = 4e-27
Identities = 36/67 (53%), Positives = 46/67 (68%), Gaps = 3/67 (4%)
Query: 48 ISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVTLGITNQRETTVVWDLNTG 107
P+ GW E DP EI Q V +T+ AIEK G++ +DI +GITNQRET VVWD TG
Sbjct: 60 HFPKSGWVEHDPEEIWQTVVSTVKEAIEK---SGITANDIAAIGITNQRETVVVWDRETG 116
Query: 108 EPLYNAI 114
+P++NAI
Sbjct: 117 KPIHNAI 123
>3g25_A Glycerol kinase; IDP00743, ATP-binding, glycerol metabolism,
nucleotide-binding, transferase, struct genomics; HET:
MSE; 1.90A {Staphylococcus aureus subsp} PDB: 3ge1_A*
Length = 501
Score = 102 bits (258), Expect = 4e-27
Identities = 32/67 (47%), Positives = 40/67 (59%), Gaps = 3/67 (4%)
Query: 48 ISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVTLGITNQRETTVVWDLNTG 107
PQ GW E D EI +V M I + + + D I +GITNQRETTVVWD +TG
Sbjct: 40 YFPQSGWVEHDANEIWTSVLAVMTEVINE---NDVRADQIAGIGITNQRETTVVWDKHTG 96
Query: 108 EPLYNAI 114
P+Y+AI
Sbjct: 97 RPIYHAI 103
>2p3r_A Glycerol kinase; glycerol metabolism, allosteric regulation,
microfluidics,; 2.00A {Escherichia coli} SCOP: c.55.1.4
c.55.1.4 PDB: 3ezw_A 1gla_G 1bo5_O* 1bot_O 1glb_G*
1glc_G* 1gld_G* 1gle_G* 1glf_O* 1bu6_O 1bwf_Y* 1glj_Y*
1gll_Y*
Length = 510
Score = 103 bits (258), Expect = 4e-27
Identities = 33/67 (49%), Positives = 43/67 (64%), Gaps = 3/67 (4%)
Query: 48 ISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVTLGITNQRETTVVWDLNTG 107
I P+ GW E DPMEI +T+ + K +S D I +GITNQRETT+VW+ TG
Sbjct: 37 IYPKPGWVEHDPMEIWATQSSTLVEVLAK---ADISSDQIAAIGITNQRETTIVWEKETG 93
Query: 108 EPLYNAI 114
+P+YNAI
Sbjct: 94 KPIYNAI 100
>2dpn_A Glycerol kinase; thermus thermophilus HB8, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 2.80A {Thermus thermophilus}
Length = 495
Score = 102 bits (257), Expect = 6e-27
Identities = 28/67 (41%), Positives = 41/67 (61%), Gaps = 3/67 (4%)
Query: 48 ISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVTLGITNQRETTVVWDLNTG 107
+ P+ GW E DP+EI + + + G +++ LGITNQRETT++WD TG
Sbjct: 36 LYPKPGWVEHDPLEIWETTLWAAREVLRR---AGAEAGEVLALGITNQRETTLLWDRKTG 92
Query: 108 EPLYNAI 114
+PL+NAI
Sbjct: 93 KPLHNAI 99
>2zf5_O Glycerol kinase; hyperthermophilic archaeon, ATP-binding, GL
metabolism, nucleotide-binding, transferase; 2.40A
{Thermococcus kodakarensis}
Length = 497
Score = 98.0 bits (245), Expect = 3e-25
Identities = 29/67 (43%), Positives = 39/67 (58%), Gaps = 4/67 (5%)
Query: 48 ISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVTLGITNQRETTVVWDLNTG 107
P+ GW E +P EI A + AI+ + + I +G+TNQRETT+VWD G
Sbjct: 37 HYPRPGWVEHNPEEIWDAQLRAIKDAIQS---ARIEPNQIAAIGVTNQRETTLVWD-KDG 92
Query: 108 EPLYNAI 114
+PLYNAI
Sbjct: 93 KPLYNAI 99
>3ll3_A Gluconate kinase; xylulose kinase, nysgx, ATP, ADP, xylulose,
transferase, structural genomics, PSI-2, protein
structure initiative; HET: ATP DXP XUL ADP; 2.00A
{Lactobacillus acidophilus} PDB: 3gbt_A*
Length = 504
Score = 81.5 bits (202), Expect = 2e-19
Identities = 20/90 (22%), Positives = 36/90 (40%), Gaps = 8/90 (8%)
Query: 25 SRVLIISALTQEEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSR 84
++ ++ + V S S I + G AE+DP I AVQ + +K
Sbjct: 16 TKGVLYDI-NGKAVASVSKGYPLIQTKVGQAEEDPKLIFDAVQEIIFDLTQK------ID 68
Query: 85 DDIVTLGITNQRETTVVWDLNTGEPLYNAI 114
I + ++Q + + + E L N+I
Sbjct: 69 GKIAAISWSSQMHSLIGLGSD-DELLTNSI 97
>3ifr_A Carbohydrate kinase, FGGY; xylulose kinase, SGX, structural GENO
11200H, transferase, PSI-2; 2.30A {Rhodospirillum
rubrum}
Length = 508
Score = 67.6 bits (166), Expect = 1e-14
Identities = 19/93 (20%), Positives = 32/93 (34%), Gaps = 7/93 (7%)
Query: 24 TS--RVLIISALTQEEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHG 81
T+ +++ V S + SP GWAE+DP + + + G
Sbjct: 16 TTSTIAILVRL-PDTVVAVASRPTTLSSPHPGWAEEDPAQWWDNARAVLAELKTT---AG 71
Query: 82 LSRDDIVTLGITNQRETTVVWDLNTGEPLYNAI 114
S + +T V+ D G L +I
Sbjct: 72 ESDWRPGGICVTGMLPAVVLLDDR-GAVLRPSI 103
>3hz6_A Xylulokinase; xylulose, structural genomic, chromob violaceum,
manolate, transferase, structural genomi 2; HET: ADP
XUL; 1.65A {Chromobacterium violaceum} PDB: 3kzb_A*
Length = 511
Score = 63.8 bits (156), Expect = 3e-13
Identities = 16/81 (19%), Positives = 29/81 (35%), Gaps = 5/81 (6%)
Query: 34 TQEEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVTLGIT 93
S+ + T G EQD + AVQ G+ + + ++
Sbjct: 25 DGGLHFQRSIALETYGDGNGPVEQDAGDWYDAVQR----IASSWWQSGVDARRVSAIVLS 80
Query: 94 NQRETTVVWDLNTGEPLYNAI 114
Q + + D + EPL+ A+
Sbjct: 81 GQMQNFLPLDQD-HEPLHRAV 100
>2uyt_A Rhamnulokinase; rhamnose degradation, IN-LINE phosphoryl transfer,
hexokinas actin superfamily, L-rhamnulose kinase,
rhamnose metabolism kinase; HET: LRH ADP; 1.55A
{Escherichia coli} PDB: 2cgk_A 2cgj_A* 2cgl_A*
Length = 489
Score = 61.9 bits (151), Expect = 2e-12
Identities = 14/85 (16%), Positives = 33/85 (38%), Gaps = 11/85 (12%)
Query: 30 ISALTQEEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVT 89
+LT E+ H + + + Q G+ D + A++ +++ + I +
Sbjct: 27 CRSLTLREI--HRFN-NGLHSQNGYVTWDVDSLESAIRLGLNKV-------CAAGIAIDS 76
Query: 90 LGITNQRETTVVWDLNTGEPLYNAI 114
+GI V+ D G+ + +
Sbjct: 77 IGIDTWGVDFVLLDQQ-GQRVGLPV 100
>2itm_A Xylulose kinase, xylulokinase; ATPase, FGGY kinase, transferase;
HET: XUL; 2.10A {Escherichia coli} PDB: 2nlx_A
Length = 484
Score = 59.9 bits (146), Expect = 7e-12
Identities = 24/93 (25%), Positives = 39/93 (41%), Gaps = 9/93 (9%)
Query: 24 TS--RVLIISALTQEEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHG 81
TS +V++++ E V + + ++ P W+EQDP + QA M ++ S
Sbjct: 9 TSGVKVILLNE-QGEVVAAQTEKLTVSRPHPLWSEQDPEQWWQATDRAMKALGDQHSL-- 65
Query: 82 LSRDDIVTLGITNQRETTVVWDLNTGEPLYNAI 114
D+ LGI Q + D L AI
Sbjct: 66 ---QDVKALGIAGQMHGATLLDAQ-QRVLRPAI 94
>3l0q_A Xylulose kinase; xlylulose kinase, SGX, PSI, structural genomics,
protein structure initiative; HET: MSE XUL EPE; 1.61A
{Yersinia pseudotuberculosis} PDB: 3gg4_A*
Length = 554
Score = 55.8 bits (135), Expect = 2e-10
Identities = 20/85 (23%), Positives = 32/85 (37%), Gaps = 6/85 (7%)
Query: 26 RVLIISALTQEEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRD 85
R + V S +I+ P+ + EQ I QAV + A+ + ++
Sbjct: 18 RAGVFDL-QGRMVGQASREITMFKPKADFVEQSSENIWQAVCNAVRDAVNQ---ADINPI 73
Query: 86 DIVTLGITNQRETTVVWDLNTGEPL 110
+ LG + VV D G PL
Sbjct: 74 QVKGLGFDATC-SLVVLDKE-GNPL 96
>3jvp_A Ribulokinase; PSI-II, NYSGXRC, ribulose kinase, sugar kinase,
crsytal structure, structural genomics, protein
structure initiative; HET: 5RP; 2.31A {Bacillus
halodurans} PDB: 3qdk_A*
Length = 572
Score = 52.8 bits (127), Expect = 2e-09
Identities = 19/103 (18%), Positives = 42/103 (40%), Gaps = 15/103 (14%)
Query: 26 RVLIISALTQEEVVSHSMDI-----------STISPQEGWAEQDPMEILQAVQTTMDRAI 74
R ++I +E+ H + I WA Q P++ ++ + T++ +
Sbjct: 18 RAVLIDLSNGQELADHVTPYRHGVIDQYLPNTNIKLGHEWALQHPLDYVEVLTTSVPAVM 77
Query: 75 EKLSAHGLSRDDIVTLGITNQRETTVVWDLNTGEPLYNAIEQG 117
++ G+ DD++ +G+ T + D G+PL +
Sbjct: 78 KE---SGVDADDVIGIGVDFTACTMLPVD-EEGQPLCLLAQYK 116
>3i8b_A Xylulose kinase; strain ATCC 15703 / DSM 20083, 11200J,,
transferase, structural genomics, PSI-2; 2.00A
{Bifidobacterium adolescentis ATCC15703}
Length = 515
Score = 48.5 bits (116), Expect = 8e-08
Identities = 19/93 (20%), Positives = 31/93 (33%), Gaps = 17/93 (18%)
Query: 24 TS--RVLIISALTQEEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHG 81
T +V + A T E V + DP A Q ++A
Sbjct: 14 TQSCKVRVTDAETGELVRFGQ------AKHPNGTSVDPSYWWSAFQEAAEQAGGL----- 62
Query: 82 LSRDDIVTLGITNQRETTVVWDLNTGEPLYNAI 114
DD+ L + Q+ V+ D G + +A+
Sbjct: 63 ---DDVSALAVGGQQHGMVILDNQ-GNVIRDAM 91
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 47.7 bits (113), Expect = 2e-07
Identities = 32/153 (20%), Positives = 54/153 (35%), Gaps = 48/153 (31%)
Query: 11 PTQIRDRLS-ATYHTSRVL---IIS--------------ALT---------QEEV----V 39
P ++R L AT H+ ++ I+ A+T E +
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL 319
Query: 40 SHSMDISTISPQEGWAEQDPMEILQAV----QTTMDRAIEKLSAHGLSRDDIVTLGITNQ 95
S+ ++ EG PM L ++ Q + + K ++H L V + + N
Sbjct: 320 PPSILEDSLENNEGVP--SPM--L-SISNLTQEQVQDYVNKTNSH-LPAGKQVEISLVNG 373
Query: 96 RETTVVWDLNTGEP--LYNAIEQGLRIVDCGSG 126
+ VV +G P LY + LR SG
Sbjct: 374 AKNLVV----SGPPQSLY-GLNLTLRKAKAPSG 401
Score = 31.9 bits (72), Expect = 0.047
Identities = 20/115 (17%), Positives = 35/115 (30%), Gaps = 38/115 (33%)
Query: 19 SATYHTS-----RVLIISALTQEEVV--SHSMDISTISPQEGWAEQDPMEILQAVQTTMD 71
++ +H+ LI L + V + + I +G D L+ + ++
Sbjct: 424 ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG---SD----LRVLSGSIS 476
Query: 72 RAIEKLSAHGLSRDDIVTLGITNQRETTVVWDLNTGEPLYNAIEQGLRIVDCGSG 126
I D I+ L V W+ T I+D G G
Sbjct: 477 ERI---------VDCIIRL--------PVKWETTTQFKA-------THILDFGPG 507
Score = 30.8 bits (69), Expect = 0.11
Identities = 21/144 (14%), Positives = 42/144 (29%), Gaps = 51/144 (35%)
Query: 16 DRLSATYHTSRVLI-----ISALTQEEVVSHSMDISTISPQ----EGW---AEQDPME-- 61
+ L Y T VL+ SA T E++ ++D + Q W P +
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 62 ------------ILQAVQ--TTMDRAIEKLSAHGLSRDDIVTL--GITNQRETTVV---- 101
++Q T G + ++ + G T + V
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVT-------AKLLGFTPGELRSYLKGATGHSQGLVTAVAI 283
Query: 102 -----WDLNTGEPLYNAIEQGLRI 120
W E + ++ + + +
Sbjct: 284 AETDSW-----ESFFVSVRKAITV 302
>3h6e_A Carbohydrate kinase, FGGY; novosphingobium aromaticivorans,strain
12444, SGX, transferase; 2.50A {Novosphingobium
aromaticivorans}
Length = 482
Score = 42.5 bits (100), Expect = 8e-06
Identities = 7/89 (7%), Positives = 20/89 (22%), Gaps = 13/89 (14%)
Query: 26 RVLIISALTQEEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRD 85
+V + + S +G D + + + + R +
Sbjct: 19 KVSLWDL-DGRMLDRQVRP-SIPLEIDGIRRLDAPDTGRWLLDVLSRYADH--------- 67
Query: 86 DIVTLGITNQRETTVVWDLNTGEPLYNAI 114
+ T+ G + +
Sbjct: 68 PVTTIVPVGHGAGIAALT--DGRLAFPPL 94
>2co3_A SAFA pilus subunit; adhesion, pathogenesis, fibril protein, fold
complementation; 1.78A {Salmonella typhimurium} SCOP:
b.2.3.2 PDB: 3cre_B 3crf_B 2co7_A 3cre_A 3crf_A 2cnz_A
2cny_A 2co1_A 2co2_A 2co4_A 2co6_A
Length = 137
Score = 27.8 bits (61), Expect = 0.72
Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 5/74 (6%)
Query: 42 SMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVTLGITNQRE--TT 99
S+DI SPQ+ P+ L+A + I KL + + + GI+N T
Sbjct: 5 SVDIVFSSPQDLTVSLIPVSGLKAGKNAPSAKIAKLVVNSTTLKEFGVRGISNNVVDSTG 64
Query: 100 VVWDL---NTGEPL 110
W + NTG+ +
Sbjct: 65 TAWRVAGKNTGKEI 78
>2etj_A Ribonuclease HII, RNAse HII; TM0915, ribonuclease HII (EC 3.1.26.4)
(RNAse HII), structur genomics, joint center for
structural genomics; 1.74A {Thermotoga maritima} SCOP:
c.55.3.1 PDB: 3o3g_A* 3o3f_A* 3o3h_A*
Length = 250
Score = 27.2 bits (61), Expect = 1.3
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 4/34 (11%)
Query: 45 ISTISPQEGWAEQDPMEILQAVQTTMDRAIEKLS 78
I SP+E D I A + M+RA+E LS
Sbjct: 81 IGIASPEE----IDLYNIFNATKLAMNRALENLS 110
>3awm_A Fatty acid alpha-hydroxylase; cytochrome P450, peroxygenase,
oxidoreductase; HET: HEM PLM; 1.65A {Sphingomonas
paucimobilis} PDB: 3awq_A* 3awp_A*
Length = 415
Score = 26.6 bits (59), Expect = 2.6
Identities = 9/67 (13%), Positives = 23/67 (34%), Gaps = 2/67 (2%)
Query: 26 RVLIISALTQEEVVSHSMDISTISPQ--EGWAEQDPMEILQAVQTTMDRAIEKLSAHGLS 83
+ + + +T E V + + + GW + + + + RA+ + L
Sbjct: 95 KQMFMGLMTPERVRALAQLFEAEWRRAVPGWTRKGEIVFYDELHEPLTRAVCAWAGVPLP 154
Query: 84 RDDIVTL 90
D+
Sbjct: 155 DDEAGNR 161
>3t5a_A Long-chain-fatty-acid--AMP ligase FADD28; acetyl-COA synthetase
like fold, AMP-binding; 2.05A {Mycobacterium
tuberculosis} PDB: 3e53_A
Length = 480
Score = 26.6 bits (59), Expect = 2.6
Identities = 12/71 (16%), Positives = 22/71 (30%), Gaps = 15/71 (21%)
Query: 69 TMDRAIEKLSAHGLSRDDIV--------TLGIT----NQRETTVVWD---LNTGEPLYNA 113
T+ R ++ + L I T+ + Q TV +D L+ G A
Sbjct: 327 TIKRFADRFARFNLQERVIRPSYWLAEATVYVATSKPGQPPETVDFDTESLSAGHAKPCA 386
Query: 114 IEQGLRIVDCG 124
++
Sbjct: 387 GGGATSLISYM 397
>2z1a_A 5'-nucleotidase; metal-binding, nucleotide-binding, hydrolase,
structural genomics, NPPSFA; HET: THM; 1.75A {Thermus
thermophilus} SCOP: d.114.1.1 d.159.1.2
Length = 552
Score = 26.2 bits (58), Expect = 3.9
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 98 TTVVWDLNTGEPLYNAIEQGLRIVDCGSGRF 128
T VV DL G+ + A+E G+ + +GRF
Sbjct: 405 TLVVMDL-KGKEILAALENGVSQWENTAGRF 434
>3k2g_A Resiniferatoxin-binding, phosphotriesterase- related protein; TIM
barrel, binuclear zinc, protein structure initiative II
(PSI II); 1.80A {Rhodobacter sphaeroides 2}
Length = 364
Score = 25.8 bits (56), Expect = 4.5
Identities = 13/78 (16%), Positives = 24/78 (30%), Gaps = 19/78 (24%)
Query: 17 RLSATYHTSRVLIISALTQEEVVSHSMDISTISPQEGWAEQDPMEILQAVQTTMDRAIEK 76
L+ + R+L+ S D+ + + + +
Sbjct: 289 GLADHGYLDRILL------------SHDVFVKMMLTRYGGNGYAFVT-------KHFLPR 329
Query: 77 LSAHGLSRDDIVTLGITN 94
L HGL + TL +TN
Sbjct: 330 LRRHGLDDAALETLMVTN 347
>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 = 5.1
Identities = 7/36 (19%), Positives = 12/36 (33%), Gaps = 6/36 (16%)
Query: 94 NQRETTVVWDLNTGEPLYNAIEQGL----RIVDCGS 125
+V + G+ GL ++VD S
Sbjct: 28 KVYPPKIVERFSEGD--VVCALCGLVLSDKLVDTRS 61
>1k8k_C P40, ARP2/3 complex 41 kDa subunit, P41-ARC; beta-propeller,
structural protein; 2.00A {Bos taurus} SCOP: b.69.4.1
PDB: 1tyq_C* 1u2v_C* 2p9i_C* 2p9k_C* 2p9l_C 2p9n_C*
2p9p_C* 2p9s_C* 2p9u_C* 3rse_C 3dxm_C* 3dxk_C
Length = 372
Score = 25.7 bits (57), Expect = 5.6
Identities = 6/24 (25%), Positives = 11/24 (45%), Gaps = 4/24 (16%)
Query: 98 TTVVWDLNTGEPLYNAIEQGLRIV 121
+WD+ + E + L+IV
Sbjct: 353 GMSIWDVRSLESAL----KDLKIV 372
>3osq_A Maltose-binding periplasmic protein, green fluore protein;
engineered protein, sensor protein, fluorescent protein,
MBP maltose sensor; HET: C12 MAL; 1.90A {Escherichia
coli}
Length = 661
Score = 25.9 bits (56), Expect = 5.7
Identities = 7/26 (26%), Positives = 10/26 (38%)
Query: 56 EQDPMEILQAVQTTMDRAIEKLSAHG 81
Q E L+ QT + + HG
Sbjct: 636 RQTVDEDLKDAQTRITKGSHHHHHHG 661
>2pm9_A Protein WEB1, protein transport protein SEC31; beta propeller;
3.30A {Saccharomyces cerevisiae}
Length = 416
Score = 25.4 bits (56), Expect = 6.1
Identities = 3/13 (23%), Positives = 6/13 (46%)
Query: 98 TTVVWDLNTGEPL 110
+WDL + +
Sbjct: 189 FASIWDLKAKKEV 201
>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport
protein; 2.50A {Saccharomyces cerevisiae}
Length = 814
Score = 25.4 bits (56), Expect = 7.2
Identities = 4/15 (26%), Positives = 4/15 (26%)
Query: 97 ETTVVWDLNTGEPLY 111
V L EP
Sbjct: 293 NGFTVLSLGNDEPTL 307
>3iix_A Biotin synthetase, putative; adoMet radical, SAM radical, adoMet
cleavage, Fe4S4 cluster, HYDE, hydrogenase, maturation,
beta barrel; HET: OTY CSO 5AD CPS; 1.25A {Thermotoga
maritima} PDB: 3ciw_A* 3iiz_A* 3cix_A*
Length = 348
Score = 25.3 bits (55), Expect = 7.6
Identities = 5/22 (22%), Positives = 9/22 (40%)
Query: 69 TMDRAIEKLSAHGLSRDDIVTL 90
T +EKL +R+ +
Sbjct: 2 TGREILEKLERREFTREVLKEA 23
>1fhf_A SEED coat peroxidase; oxidoreductase; HET: HEM; 2.80A {Glycine max}
SCOP: a.93.1.1
Length = 304
Score = 25.2 bits (56), Expect = 8.3
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 69 TMDRAIEKLSAHGLSRDDIVTL 90
+ + + GL+ D+VTL
Sbjct: 144 NLTQLKASFAVQGLNTLDLVTL 165
>1q9j_A PAPA5, polyketide synthase associated protein 5; conjugating enzyme
PAPA5, structural genomics, PSI protein structure
initiative; 2.75A {Mycobacterium tuberculosis} SCOP:
c.43.1.2 c.43.1.2
Length = 422
Score = 25.1 bits (55), Expect = 9.4
Identities = 8/68 (11%), Positives = 17/68 (25%)
Query: 55 AEQDPMEILQAVQTTMDRAIEKLSAHGLSRDDIVTLGITNQRETTVVWDLNTGEPLYNAI 114
D +++ + T+ + T +V+ +
Sbjct: 296 PNTDIVDLASDIVATLRADLANGVIQQSGLHFGTAFEGTPPGLPPLVFCTDATSFPTMRT 355
Query: 115 EQGLRIVD 122
GL I D
Sbjct: 356 PPGLEIED 363
>1sch_A PNP, peanut peroxidase, major cationic isozyme; calcium binding,
glycosylation, oxidoreductase; HET: NAG HEM; 2.56A
{Arachis hypogaea} SCOP: a.93.1.1
Length = 294
Score = 24.8 bits (55), Expect = 9.6
Identities = 6/22 (27%), Positives = 10/22 (45%)
Query: 69 TMDRAIEKLSAHGLSRDDIVTL 90
+ I S G + ++VTL
Sbjct: 144 NLSGLISAFSNKGFTTKELVTL 165
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
0.316 0.130 0.371
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,900,240
Number of extensions: 101830
Number of successful extensions: 639
Number of sequences better than 10.0: 1
Number of HSP's gapped: 625
Number of HSP's successfully gapped: 56
Length of query: 129
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 46
Effective length of database: 4,384,350
Effective search space: 201680100
Effective search space used: 201680100
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: 52 (23.9 bits)