RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2212
(267 letters)
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV,
RNAse H, reverse transcriptase, transcription; 1.50A
{Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A
3v1r_A* 2hb5_A
Length = 165
Score = 48.7 bits (116), Expect = 2e-07
Identities = 25/93 (26%), Positives = 39/93 (41%), Gaps = 19/93 (20%)
Query: 29 ELIAVLLCLKHLKFLPKEKFVIISDSKSTLLAL------SNPSNINPIVSLIHSCWSDLL 82
ELIA+ LK + +K + +DS+ N N I++L+ L
Sbjct: 67 ELIALTQALKMAE---GKKLNVYTDSRYAFATAHVHSEGREIKNKNEILALL-----KAL 118
Query: 83 CCGKQLAFLWCPSHTG-----IQGNEAVDRAAR 110
K+L+ + CP H +GN D+AAR
Sbjct: 119 FLPKRLSIIHCPGHQKGNSAEARGNRMADQAAR 151
>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 = 43.9 bits (103), Expect = 3e-05
Identities = 59/356 (16%), Positives = 108/356 (30%), Gaps = 140/356 (39%)
Query: 5 CAYIIDKTSIYSF--VLNNVNSVFTSE---------LIAVLLCLKHLKFLPKEKFVIISD 53
+ +++ + + F VLN + F + L A LL L K K +I
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTT-LVKTKELI--- 123
Query: 54 SKSTLLA--LSNPSNINPIVS-LIHSCWSD----LLCCGKQ---------LAFLWCPSHT 97
K+ + A ++ S L + + G Q L L+ H
Sbjct: 124 -KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHV 182
Query: 98 GIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIRKLIKDL--WQQSWSSIPNSNKLKSI 155
+ + + +A +L L + + D + + + ++ W ++ S+ P+ + L SI
Sbjct: 183 LVG--DLIKFSA----ETLSEL-IRTTLDAEKVFTQGL-NILEWLENPSNTPDKDYLLSI 234
Query: 156 K---PIIGPWPSSDRQ-NRYEEVVICR--------MRIGHTRATHGH------------- 190
P+IG Q Y VV + +R + + GH
Sbjct: 235 PISCPLIGVI-----QLAHY--VVTAKLLGFTPGELR-SYLKGATGHSQGLVTAVAIAET 286
Query: 191 ----------------LFK---RA---------PPST------CGCGE---ILSVQHILT 213
LF R PPS G +LS+ ++
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQ 346
Query: 214 CALHGHIR---ASLPT-------------------PPALTDDVESVDSLLSYLKKL 247
+ ++ + LP PP +S+ L L+K
Sbjct: 347 EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP------QSLYGLNLTLRKA 396
Score = 38.5 bits (89), Expect = 0.002
Identities = 45/277 (16%), Positives = 88/277 (31%), Gaps = 116/277 (41%)
Query: 8 IIDKTSIYSF-----VLNNVNSVFTSELIAVLL----CLKHLKFLPKEKFVIISDSK--- 55
I + ++ Y+F +L+ + FT A+ L + LK K +I +D+
Sbjct: 1710 INEHSTSYTFRSEKGLLSA--TQFTQ--PALTLMEKAAFEDLK----SKGLIPADATFAG 1761
Query: 56 -STLL----ALSNPSNINPIVSLIHSCWSDLLCC-GKQLAFLWCPSHTGIQGNEAVDRAA 109
S L AL++ +++ I SL+ +++ G + P G A
Sbjct: 1762 HS--LGEYAALASLADVMSIESLV-----EVVFYRGMTMQVA-VPR--DELGRSNYGMIA 1811
Query: 110 RNPSASLPPLKLCSPEDFKPFIRKLIKDLWQQSWS-SIPNSNKLKSIKPIIGPWPSSDRQ 168
NP S E + + ++ K + W I N N ++Q
Sbjct: 1812 INPGR---VAASFSQEALQYVVERVGK---RTGWLVEIVNYN-------------VENQQ 1852
Query: 169 NRYEEVVICRMRIGHTRATHGHLFKRAPPSTCGCGEILSVQHILTCALHGHIRASLPTPP 228
V A G +RA
Sbjct: 1853 -----YVA--------------------------------------A--GDLRA------ 1861
Query: 229 ALTDDVESVDSLLSYLKKLNLRV----VAVSFEKDEE 261
+++V ++L+++K + + ++S E+ E
Sbjct: 1862 -----LDTVTNVLNFIKLQKIDIIELQKSLSLEEVEG 1893
Score = 30.0 bits (67), Expect = 1.0
Identities = 16/88 (18%), Positives = 20/88 (22%), Gaps = 42/88 (47%)
Query: 211 ILTCALHGHIRASLPTPPAL-----------------------TDD-----VESVDSLLS 242
L+ HG + L P A DD E V L
Sbjct: 10 TLS---HGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG 66
Query: 243 YLKKLN-----------LRVVAVSFEKD 259
Y+ L L + FE
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENC 94
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO
enzyme, structural genomics, protein structure
initiative; NMR {Desulfitobacterium hafniense dcb-2}
PDB: 2kw4_A
Length = 147
Score = 39.6 bits (93), Expect = 2e-04
Identities = 17/102 (16%), Positives = 28/102 (27%), Gaps = 25/102 (24%)
Query: 20 NNVNSVFTSELIAVLLCLKHLKFLPKEKFVIISDSKSTLLALSNPSNINPIVSLIHSCW- 78
E+ A L +K K I+ D I W
Sbjct: 45 AATMRNVAGEIAAALYAVKKAS-QLGVKIRILHDYAG-------------IAFWATGEWK 90
Query: 79 ---------SDLL-CCGKQLAFLWCPSHTGIQGNEAVDRAAR 110
+ L+ +F +H+G + N+ VD A+
Sbjct: 91 AKNEFTQAYAKLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAK 132
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo
sapiens} PDB: 2qk9_A 2qkk_A*
Length = 154
Score = 38.7 bits (91), Expect = 4e-04
Identities = 23/104 (22%), Positives = 36/104 (34%), Gaps = 31/104 (29%)
Query: 29 ELIAVLLCLKHLKFLPKEKFVIISDSKSTLLALSNPSNINPIVSLIHSCWS--------- 79
E+ A ++ K K V+ ++S T IN I + + W
Sbjct: 54 EIHAACKAIEQAKTQNINKLVLYTNSMFT---------INGITNWVQG-WKKNGWKTSAG 103
Query: 80 ------------DLLCCGKQLAFLWCPSHTGIQGNEAVDRAARN 111
+ L G + ++ P H+G GNE DR AR
Sbjct: 104 KEVINKEDFVALERLTQGMDIQWMHVPGHSGFIGNEEADRLARE 147
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI,
nonnucleoside inhibitor, AIDS, HIV, rilpivirine,
diarylpyrimidine, DAPY, DNA recombination; HET: T27;
1.80A {Human immunodeficiency virus 1} PDB: 3is9_A*
3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A
1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A*
2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Length = 557
Score = 39.4 bits (92), Expect = 0.001
Identities = 24/83 (28%), Positives = 40/83 (48%), Gaps = 12/83 (14%)
Query: 28 SELIAVLLCLKHLKFLPKEKFVIISDSKSTL-LALSNPSN-INPIVSLIHSCWSDLLCCG 85
+EL A+ L L+ + I++DS+ L + + P + +V+ I
Sbjct: 479 TELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIE-----QLIK 529
Query: 86 KQLAFL-WCPSHTGIQGNEAVDR 107
K+ +L W P+H GI GNE VD+
Sbjct: 530 KEKVYLAWVPAHKGIGGNEQVDK 552
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug
design, transferase; 2.35A {Human immunodeficiency virus
2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Length = 555
Score = 38.2 bits (89), Expect = 0.002
Identities = 24/83 (28%), Positives = 37/83 (44%), Gaps = 12/83 (14%)
Query: 28 SELIAVLLCLKHLKFLPKEKFVIISDSKSTL-LALSNPSN-INPIVSLIHSCWSDLLCCG 85
+EL A + L K II DS+ + + S P+ + IV+ I
Sbjct: 476 AELEAFAMALTD----SGPKVNIIVDSQYVMGIVASQPTESESKIVNQIIE-----EMIK 526
Query: 86 KQLAFL-WCPSHTGIQGNEAVDR 107
K+ ++ W P+H GI GN+ VD
Sbjct: 527 KEAIYVAWVPAHKGIGGNQEVDH 549
>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 = 38.3 bits (88), Expect = 0.002
Identities = 45/267 (16%), Positives = 76/267 (28%), Gaps = 84/267 (31%)
Query: 18 VLNNVNSVFTSELIAVLLCLKHLK-FLPKEKFVIISDSKSTLLALSNPSNINPIVSLIHS 76
VL NV + K F K ++ + K LS + + +SL H
Sbjct: 249 VLLNVQNA------------KAWNAFNLSCKILLTTRFKQVTDFLSAATTTH--ISLDHH 294
Query: 77 CWS-------DLLCCGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPP-LKLCSPEDFK 128
+ LL L +L C LP + +P
Sbjct: 295 SMTLTPDEVKSLL-----LKYLDCRPQ------------------DLPREVLTTNPRRLS 331
Query: 129 PFIRKLIKD---LWQQSWSSIPNSNKLKS-IKPIIGPWPSSDRQNRYEEVVI-------- 176
I + I+D W W + N +KL + I+ + ++ + ++ + +
Sbjct: 332 -IIAESIRDGLATWDN-WKHV-NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIP 388
Query: 177 --------------CRMRIGHTRATHGHLFKRAPPSTCGCGEILSVQHILTC------AL 216
M + + + + K+ ST I S+ L AL
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS---IPSIYLELKVKLENEYAL 445
Query: 217 HGHIRASLPTPPALTDDVESVDSLLSY 243
H I P D L Y
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPPYLDQY 472
Score = 29.8 bits (66), Expect = 1.2
Identities = 15/62 (24%), Positives = 21/62 (33%), Gaps = 19/62 (30%)
Query: 7 YIIDKTSIYSFVLNNVNSVFTSELIAVLLCLKHLKFLPKEKFVIISDSKSTLL--ALSNP 64
YI D Y ++N + L FLPK + +I + LL AL
Sbjct: 533 YICDNDPKYERLVNAI-----------------LDFLPKIEENLICSKYTDLLRIALMAE 575
Query: 65 SN 66
Sbjct: 576 DE 577
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase,
hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} PDB:
3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Length = 150
Score = 32.9 bits (76), Expect = 0.040
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 80 DLLCCGKQLAFLWCPSHTGIQGNEAVDRAARN 111
+ L +++ W P+H GI GNE VD+
Sbjct: 112 EQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSA 143
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus
thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Length = 166
Score = 27.9 bits (63), Expect = 2.3
Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 2/52 (3%)
Query: 80 DLLCCGKQLAFLWCPSHTGIQGNEAVDRAARN--PSASLPPLKLCSPEDFKP 129
L ++ F + HTG NE VDR AR S + P +P F
Sbjct: 113 LLAMAPHRVRFHFVKGHTGHPENERVDREARRQAQSQAKTPCPPRAPTLFHE 164
>3btn_A Antizyme inhibitor 1; TIM-like A/B barrel domain and A sheet
domain, structural genomics, israel structural
proteomics center, ISPC; 2.05A {Mus musculus}
Length = 448
Score = 28.4 bits (64), Expect = 2.4
Identities = 6/24 (25%), Positives = 15/24 (62%)
Query: 233 DVESVDSLLSYLKKLNLRVVAVSF 256
+++ LL K+L+++++ V F
Sbjct: 173 TLKNCRHLLECAKELDVQIIGVKF 196
>1f3t_A ODC, ornithine decarboxylase; beta-alpha-barrel, modified greek KEY
beta-sheet, lyase; HET: PLP; 2.00A {Trypanosoma brucei}
SCOP: b.49.2.3 c.1.6.1 PDB: 1qu4_A* 1szr_C* 2tod_A*
1njj_A*
Length = 425
Score = 28.4 bits (64), Expect = 2.5
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 233 DVESVDSLLSYLKKLNLRVVAVSF 256
VE +L KKLN+ V VSF
Sbjct: 173 KVEDCRFILEQAKKLNIDVTGVSF 196
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability,
hydrogen exchange, cooperativity, hydrolase; 1.30A
{Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A
1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A
1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A
3aa5_X 1rbv_A ...
Length = 155
Score = 27.9 bits (63), Expect = 2.6
Identities = 10/32 (31%), Positives = 12/32 (37%)
Query: 80 DLLCCGKQLAFLWCPSHTGIQGNEAVDRAARN 111
D Q+ + W H G NE D AR
Sbjct: 108 DAALGQHQIKWEWVKGHAGHPENERADELARA 139
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease,
hydrolase, magnesium, metal-binding; 1.60A
{Chlorobaculum tepidum}
Length = 146
Score = 27.5 bits (62), Expect = 3.1
Identities = 7/31 (22%), Positives = 10/31 (32%)
Query: 80 DLLCCGKQLAFLWCPSHTGIQGNEAVDRAAR 110
L ++ F H+ N D AR
Sbjct: 109 LKLTTLHRVTFHKVKGHSDNPYNSRADELAR 139
>2zs0_C Extracellular giant hemoglobin major globin subun; annelida,
magnesium, cooperativity, heme, iron, binding, oxygen
transport, secreted; HET: HEM; 1.60A {Oligobrachia
mashikoi} PDB: 2d2n_C* 2d2m_C* 2zfo_C* 2zs1_C*
Length = 147
Score = 27.3 bits (60), Expect = 3.3
Identities = 8/32 (25%), Positives = 14/32 (43%), Gaps = 5/32 (15%)
Query: 122 CSPEDFKPFIRKLIKDLWQQSWSSIPNSNKLK 153
CS ED R + W +WS+ + ++
Sbjct: 4 CSSED-----RANVMHNWDAAWSAAYSDRRVA 30
>2nva_A Arginine decarboxylase, A207R protein; PLP, TIM barrel, eukaryotic
ODC- like, lyase; HET: PL2; 1.80A {Paramecium bursaria
chlorella virus 1} PDB: 2nv9_A*
Length = 372
Score = 27.9 bits (63), Expect = 3.4
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 233 DVESVDSLLSYLKKLNLRVVAVSF 256
+ + + LL Y K+L++ V+ +SF
Sbjct: 152 NEDEIRHLLEYAKQLDIEVIGISF 175
>1b0z_A Protein (phosphoglucose isomerase); autocrinefactor, neuroleukin,
crystallography motility; 2.30A {Geobacillus
stearothermophilus} SCOP: c.80.1.2 PDB: 1c7q_A* 1c7r_A*
2pgi_A
Length = 445
Score = 27.7 bits (62), Expect = 4.0
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 7/42 (16%)
Query: 17 FVLNNVNSVFTSELIAVLLCLKHLKFLPKEKFVIISDSKSTL 58
F N++S + S L+ V L+ +IS S +T
Sbjct: 110 FAGQNISSTYISHLLDV---LEGKDLS----INVISKSGTTT 144
>7odc_A Protein (ornithine decarboxylase); pyridoxal-5'-phosphate, PLP,
group IV decarboxylase, polyami parasitical,
chemotherapy target, putrescine; HET: PLP; 1.60A {Mus
musculus} SCOP: b.49.2.3 c.1.6.1 PDB: 2on3_A 1d7k_A*
Length = 424
Score = 27.6 bits (62), Expect = 4.1
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 233 DVESVDSLLSYLKKLNLRVVAVSF 256
+++ LL K+LN+ V+ VSF
Sbjct: 173 TLKTSRLLLERAKELNIDVIGVSF 196
>2oo0_A ODC, ornithine decarboxylase; beta-alpha barrel, sheet, lyase; HET:
PLP; 1.90A {Homo sapiens}
Length = 471
Score = 27.7 bits (62), Expect = 4.1
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 233 DVESVDSLLSYLKKLNLRVVAVSF 256
+ + LL K+LN+ VV VSF
Sbjct: 183 TLRTSRLLLERAKELNIDVVGVSF 206
>1lr0_A TOLA protein; domain-swapping, TONB, protein transport; 1.91A
{Pseudomonas aeruginosa} SCOP: d.212.1.1
Length = 129
Score = 26.5 bits (58), Expect = 4.9
Identities = 6/38 (15%), Positives = 13/38 (34%), Gaps = 3/38 (7%)
Query: 101 GNEAVDRAARN---PSASLPPLKLCSPEDFKPFIRKLI 135
G++ D +A +P ++ F R+
Sbjct: 76 GDKPFDSSAVAAVRNVGRIPEMQQLPRATFDSLYRQRR 113
>2zs0_A Extracellular giant hemoglobin major globin subun; annelida,
magnesium, cooperativity, heme, iron, binding, oxygen
transport, secreted; HET: HEM; 1.60A {Oligobrachia
mashikoi} PDB: 2d2n_A* 2d2m_A* 2zfo_A* 2zs1_A*
Length = 140
Score = 26.9 bits (59), Expect = 4.9
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 5/32 (15%)
Query: 121 LCSPEDFKPFIRKLIKDLWQQSWSSIPNSNKL 152
+C+ + + L+K W QS+ N
Sbjct: 1 VCNRLE-----QILVKTQWAQSYGEAENRAAF 27
>1x9f_B Erythrocruorin, globin II, extracellular, globin AIII, globin B;
crystal, dodecamer, allosteric, oxygen storage/transport
complex; HET: HEM; 2.60A {Lumbricus terrestris} SCOP:
a.1.1.2 PDB: 2gtl_B*
Length = 145
Score = 26.9 bits (59), Expect = 5.0
Identities = 5/33 (15%), Positives = 11/33 (33%), Gaps = 5/33 (15%)
Query: 120 KLCSPEDFKPFIRKLIKDLWQQSWSSIPNSNKL 152
K C + +K W +++ S +
Sbjct: 2 KQCGVLE-----GLKVKSEWGRAYGSGHDREAF 29
>3bbo_F Ribosomal protein L3; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 259
Score = 27.2 bits (61), Expect = 5.1
Identities = 5/18 (27%), Positives = 6/18 (33%)
Query: 185 RATHGHLFKRAPPSTCGC 202
+ THG R S
Sbjct: 175 QMTHGSKSHRQLGSIGAG 192
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A
{Shewanella oneidensis} PDB: 2zqb_A
Length = 158
Score = 26.7 bits (60), Expect = 5.8
Identities = 10/32 (31%), Positives = 13/32 (40%)
Query: 80 DLLCCGKQLAFLWCPSHTGIQGNEAVDRAARN 111
D Q+ + W H G NE D+ AR
Sbjct: 110 DKAAQLHQIDWRWVKGHAGHAENERCDQLARA 141
>3pr6_A Trapp-associated protein TCA17; longin fold, vesicle tethering
regulation, trapp complex, TR network, transport
protein; 1.80A {Saccharomyces cerevisiae}
Length = 162
Score = 26.5 bits (58), Expect = 6.4
Identities = 10/37 (27%), Positives = 14/37 (37%)
Query: 47 KFVIISDSKSTLLALSNPSNINPIVSLIHSCWSDLLC 83
K VI + KS A IN I + + + C
Sbjct: 90 KIVIGFEQKSLSGADDEFEAINQIFETVRKIYIRVKC 126
>2plj_A Lysine/ornithine decarboxylase; type IV decarboxylase, beta/alpha
barrel, beta barrel, lyase; HET: P3T; 1.70A {Vibrio
vulnificus} PDB: 2plk_A*
Length = 419
Score = 27.2 bits (61), Expect = 6.6
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 7/44 (15%)
Query: 220 IRASLPTPPALTD-------DVESVDSLLSYLKKLNLRVVAVSF 256
+R S A D E ++ K+ N+R+ +SF
Sbjct: 170 VRLSFRNSEAFADLSKKFGCSPEQALVIIETAKEWNIRIKGLSF 213
>4efz_A Metallo-beta-lactamase family protein; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; 1.60A {Burkholderia pseudomallei}
Length = 298
Score = 27.0 bits (60), Expect = 7.2
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 227 PPALTDDVESVDSLLSYLKKLNLRVVAV 254
P + S D L++ + L RV +
Sbjct: 41 PKSGRTRTASADQLIARVAALGARVRWL 68
>1g03_A HTLV-I capsid protein; beta hairpin loop, helix core, viral
protein; NMR {Human t-lymphotropic virus 1} SCOP:
a.73.1.1
Length = 134
Score = 26.0 bits (56), Expect = 8.5
Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 96 HTGIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIRKLIKDLWQQSWSSIPNSNKLKS 154
+ I E + NP A PL++ + + +R+ + LW +++++P S K S
Sbjct: 76 DSLISEAETRGITSYNPLAG--PLRVQANNPQQQGLRREYQQLWLAAFAALPGSAKDPS 132
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 0.135 0.420
Gapped
Lambda K H
0.267 0.0739 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,031,139
Number of extensions: 226924
Number of successful extensions: 518
Number of sequences better than 10.0: 1
Number of HSP's gapped: 516
Number of HSP's successfully gapped: 38
Length of query: 267
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 175
Effective length of database: 4,133,061
Effective search space: 723285675
Effective search space used: 723285675
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: 56 (25.3 bits)