RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1865
(152 letters)
>1twf_C B44.5, DNA-directed RNA polymerase II 45 kDa polypeptide;
transcription, mRNA, multiprotein complex; HET: UTP;
2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.1
d.181.1.1 PDB: 1i3q_C 1i6h_C 1k83_C* 1nik_C 1nt9_C
1pqv_C 1r5u_C 1r9s_C* 1r9t_C* 1sfo_C* 1twa_C* 1twc_C*
1i50_C* 1twg_C* 1twh_C* 1wcm_C 1y1v_C 1y1w_C 1y1y_C
1y77_C* ...
Length = 318
Score = 81.2 bits (199), Expect = 3e-19
Identities = 27/141 (19%), Positives = 47/141 (33%), Gaps = 13/141 (9%)
Query: 7 LKYEPCEQDTLQFQLKIKCTKSASFSHSSHADDMYEKHKVFTKDIQWVPIGSQGDMYKSS 66
+ C++ ++ L+ V++KD+ V ++
Sbjct: 87 FCEDHCDKCSVVLTLQAFGES-------------ESTTNVYSKDLVIVSNLMGRNIGHPI 133
Query: 67 DVGPIHDDILIAKLRPGHEIDVTMFAVKSIGRDHAKFSPVATAFYRLLPKITLTQEIEGE 126
+ +LI KLR G E+ +T A K I ++HAK+ P A + P L
Sbjct: 134 IQDKEGNGVLICKLRKGQELKLTCVAKKGIAKEHAKWGPAAAIEFEYDPWNKLKHTDYWY 193
Query: 127 MAQRLQTMFSPGVISIEKKPN 147
+ E PN
Sbjct: 194 EQDSAKEWPQSKNCEYEDPPN 214
>2pa8_D DNA-directed RNA polymerase subunit D; ferredoxin-like Fe-S binding
motif, platform for RNA polymer assembly, transferase;
1.76A {Sulfolobus solfataricus} PDB: 2pmz_D 3hkz_D
2waq_D 2wb1_D 2y0s_D
Length = 265
Score = 69.2 bits (168), Expect = 5e-15
Identities = 27/138 (19%), Positives = 50/138 (36%), Gaps = 29/138 (21%)
Query: 8 KYEPCEQDTLQFQLKIKCTKSASFSHSSHADDMYEKHKVFTKDIQWVPIGSQGDMYKSSD 67
E CE+ + ++ + E +++KDI+ +
Sbjct: 85 CTENCEKCYTKIYIEAEAPN--------------EPRMIYSKDIKS----------EDPS 120
Query: 68 VGPIHDDILIAKLRPGHEIDVTMFAVKSIGRDHAKFSPVATAFYRLLPKITLTQEIEGEM 127
V PI DI I L +I + G++HAKF PV+ + R PK+ +
Sbjct: 121 VVPISGDIPIVLLGTNQKISLEARLRLGYGKEHAKFIPVSLSVVRYYPKVEILAN----- 175
Query: 128 AQRLQTMFSPGVISIEKK 145
++ + GV ++
Sbjct: 176 CEKAVNVCPEGVFELKDG 193
>3h0g_C DNA-directed RNA polymerase II subunit RPB3; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 297
Score = 68.8 bits (167), Expect = 7e-15
Identities = 26/119 (21%), Positives = 42/119 (35%), Gaps = 16/119 (13%)
Query: 8 KYEPCEQDTLQFQLKIKCTKSASFSHSSHADDMYEKHKVFTKDIQWVPIGSQGDMYKSSD 67
+ C + +++ L KCT +++ +D+ S G
Sbjct: 92 CDQYCPKCSVELFLNAKCTGE-------------GTMEIYARDLVVSSNSSLGHPIL--- 135
Query: 68 VGPIHDDILIAKLRPGHEIDVTMFAVKSIGRDHAKFSPVATAFYRLLPKITLTQEIEGE 126
P LI KLR EI + A K I ++HAK+SP + + P L
Sbjct: 136 ADPKSRGPLICKLRKEQEISLRCIAKKGIAKEHAKWSPTSAVAFEYDPWNKLQHTDYWF 194
>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 = 34.3 bits (78), Expect = 0.014
Identities = 25/172 (14%), Positives = 53/172 (30%), Gaps = 69/172 (40%)
Query: 24 KCTKSASFSHSSHADDMYEKHKVFTKDIQWVPI-GSQG----------DMYKSSDVGPIH 72
K + SA F + ++ I G QG D+Y++ +
Sbjct: 139 KKSNSALFRA---VGE--GNAQLVA-------IFGGQGNTDDYFEELRDLYQTY--HVLV 184
Query: 73 DDILI---AKLRP------------GHEIDVTMF---AVKSIGRDHAKFSPVATAFYRLL 114
D++ L +++ + + +D+ P++
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS------C 238
Query: 115 PKITLTQ--------EIEG----EMAQRLQ--TMFSPGVISIEKKPNAGVVA 152
P I + Q ++ G E+ L+ T S G+++ A +A
Sbjct: 239 PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT------AVAIA 284
Score = 26.9 bits (59), Expect = 3.9
Identities = 8/17 (47%), Positives = 10/17 (58%), Gaps = 5/17 (29%)
Query: 57 GSQ--G---DMYKSSDV 68
GSQ G D+YK+S
Sbjct: 1625 GSQEQGMGMDLYKTSKA 1641
>3t04_D Monobody 7C12; engineered binding protein, antibody mimic,
protein-protein SH2 domain, ATP-binding, phosphoprotein;
2.10A {Homo sapiens}
Length = 103
Score = 27.8 bits (62), Expect = 0.61
Identities = 11/60 (18%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGRDHAKFSPVATAF 110
I + G + V + I+ L+PG + +T++A + + SP++ +
Sbjct: 43 ITYGETGGDSP-VQEFTVPGYYSTATISGLKPGVDYTITVYAYDTFFPGYEPNSPISINY 101
>3tes_A Tencon; fibronectin type III domain, FN3, consensus design, de
novo; 2.50A {Synthetic}
Length = 98
Score = 27.0 bits (60), Expect = 1.2
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGR 98
IQ+ G+ + V + L+PG E V+++ VK R
Sbjct: 34 IQYQESEKVGE-AINLTVPGSERSYDLTGLKPGTEYTVSIYGVKGGHR 80
>2h41_A Fibronectin; beta sandwich, cell adhesion, structural protein;
NMR {Homo sapiens} PDB: 2h45_A
Length = 95
Score = 27.1 bits (60), Expect = 1.3
Identities = 9/48 (18%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGR 98
+++ GD + D+ + I L PG + V ++ + G
Sbjct: 38 VEYELSEE-GDEPQYLDLPSTATSVNIPDLLPGRKYIVNVYQISEDGE 84
>2ocf_D Fibronectin; estrogen receptor, LBD, monobody, estradiol,
hormone-growth complex; HET: CME EST; 2.95A {Homo
sapiens}
Length = 121
Score = 27.2 bits (60), Expect = 1.3
Identities = 12/60 (20%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGRDHAKFSPVATAF 110
I + G + + V I+ L+PG + +T++AV + A P++ +
Sbjct: 61 ITYGETGGNSPV-QEFTVPGSKSTATISGLKPGVDYTITVYAVTGLRLMLAGSKPISINY 119
>3teu_A Fibcon; FN3 domain, fibronectin TPYE III domain, consensus
design, S de novo protein; HET: DIO; 1.00A {Synthetic}
Length = 98
Score = 26.6 bits (59), Expect = 1.6
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGR 98
I + P G+ K V P + I L PG E V+++A+K
Sbjct: 34 ITYTPSNGPGE-PKELTVPPSSTSVTITGLTPGVEYVVSVYALKDNQE 80
>2ha1_A Fibronectin; beta sandwich, protein-protein complex, rigid BODY
docking, cell adhesion, structural protein; NMR {Homo
sapiens}
Length = 201
Score = 26.9 bits (59), Expect = 2.2
Identities = 11/58 (18%), Positives = 22/58 (37%), Gaps = 1/58 (1%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGRDHAKFSPVAT 108
+++ +GD + D+ + I L PG + V ++ + G S T
Sbjct: 144 VEYEL-SEEGDEPQYLDLPSTATSVNIPDLLPGRKYIVNVYQISEDGEQSLILSTSQT 200
>3r8q_A Fibronectin; heparin, FNIII, heparin binding, cell adhesion;
2.40A {Homo sapiens} PDB: 1fnh_A
Length = 290
Score = 27.1 bits (60), Expect = 2.2
Identities = 8/48 (16%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGR 98
++ P G K ++ P ++++ L + +V+++A+K
Sbjct: 53 VRVTPKEKTGP-MKEINLAPDSSSVVVSGLMVATKYEVSVYALKDTLT 99
>3qht_C Monobody YSMB-1; fibronectin type III, yeast small ubiquitin-like
modifier, S NOVO protein; 2.40A {Artificial gene}
Length = 97
Score = 26.2 bits (58), Expect = 2.5
Identities = 12/60 (20%), Positives = 23/60 (38%), Gaps = 1/60 (1%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGRDHAKFSPVATAF 110
I + G + V I+ L PG + +T++A S + +SP + +
Sbjct: 37 ITYGETGGNSP-VQEFTVPGSSSTATISGLSPGVDYTITVYAYYSYYDLYYSYSPSSINY 95
>2gee_A Hypothetical protein; fibronectin, EIIIB, cancer,
neovascularization, cell adhesion, protein binding,
oncoprotein; 2.01A {Homo sapiens} PDB: 2fnb_A
Length = 203
Score = 26.7 bits (59), Expect = 2.7
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGR 98
I V G G V + L PG + D++++ VK+ G
Sbjct: 56 ITVVAAGE-GIPIFEDFVDSSVGYYTVTGLEPGIDYDISVYTVKNGGE 102
>2e2r_A Estrogen-related receptor gamma; ERR gamma, BPA, nuclear receptor,
transcription; HET: 2OH; 1.60A {Homo sapiens} SCOP:
a.123.1.1 PDB: 2zas_A* 2zbs_A 2zkc_A* 2p7g_A* 1vjb_A*
1tfc_A 2p7a_A* 2p7z_A* 2gpu_A* 1kv6_A 2gp7_A 2gpp_A*
2gpo_A* 2gpv_A* 1s9q_A* 1s9p_A* 2ewp_A*
Length = 244
Score = 26.6 bits (59), Expect = 3.3
Identities = 5/35 (14%), Positives = 14/35 (40%)
Query: 110 FYRLLPKITLTQEIEGEMAQRLQTMFSPGVISIEK 144
++L + L ++ + Q + G + + K
Sbjct: 199 AGKMLMTLPLLRQTSTKAVQHFYNIKLEGKVPMHK 233
>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 = 26.7 bits (58), Expect = 4.1
Identities = 10/58 (17%), Positives = 20/58 (34%), Gaps = 18/58 (31%)
Query: 17 LQFQLKIKCTKSASFSHSSHADDMYEKHKVFTKDIQWVPIGSQGDMYKSSDVGPIHDD 74
+ +LK+K ++ Y H+ + I + S D+ P + D
Sbjct: 431 IYLELKVKL------------ENEYALHRSI---VDHYNIPKT---FDSDDLIPPYLD 470
Score = 26.0 bits (56), Expect = 7.5
Identities = 17/131 (12%), Positives = 39/131 (29%), Gaps = 37/131 (28%)
Query: 15 DTLQFQLKIKCTK-----SASFSHSSHAD--DMYEKHKVFTKDIQWVPIGSQ------GD 61
T + C K +S + A+ M+++ VF I + D
Sbjct: 342 ATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS---AHIPTILLSLIWFD 398
Query: 62 MYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKS-IGRDHAKFSPVATAFYRLLPKITLT 120
+ SDV + V S + + + + + + ++ +
Sbjct: 399 V-IKSDV----------------MVVVNKLHKYSLVEKQPKEST---ISIPSIYLELKVK 438
Query: 121 QEIEGEMAQRL 131
E E + + +
Sbjct: 439 LENEYALHRSI 449
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 26.6 bits (58), Expect = 4.2
Identities = 7/35 (20%), Positives = 14/35 (40%)
Query: 110 FYRLLPKITLTQEIEGEMAQRLQTMFSPGVISIEK 144
F +LL ++ + I + + L G I+
Sbjct: 420 FAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDT 454
>1tdq_A Tenascin-R; extracellular matrix, lecticans, tenascins,
protein-protein interactions, C-type lectin domain;
2.60A {Rattus norvegicus} SCOP: b.1.2.1 b.1.2.1 b.1.2.1
Length = 283
Score = 26.3 bits (58), Expect = 4.3
Identities = 10/48 (20%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGR 98
+++ +G +G + + P + LRPG +V++ AV+
Sbjct: 47 LKYGLVGGEGG-KTTFRLQPPLSQYSVQALRPGSRYEVSISAVRGTNE 93
>3j0c_A E1 envelope glycoprotein; alphavirus, bioweapon; 4.80A
{Venezuelan equine encephalitis virus}
Length = 442
Score = 26.5 bits (58), Expect = 4.4
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 5 LRLKYEPCEQDTLQFQLKIKCTKSASFSHSSHADDMYEKHKVFT 48
+ L+Y C T IKC S + + D E+ KVFT
Sbjct: 42 VNLEYVTCHYKTGMDSPAIKCCGSQECTPTYRPD---EQCKVFT 82
>3n44_F E1 envelope glycoprotein; viral protein, immature heterodimer,
alphavirus, receptor BI membrane fusion; HET: NAG; 2.35A
{Chikungunya virus} PDB: 3n41_F* 3n42_F* 3n43_F* 2xfc_A
Length = 473
Score = 26.5 bits (58), Expect = 4.8
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 5 LRLKYEPCEQDTLQFQLKIKCTKSASFSHSSHADDMYEKHKVFT 48
L L Y CE T+ +KC +A + D KVFT
Sbjct: 64 LSLDYITCEYKTVIPSPYVKCCGTAECKDKNLPD---YSCKVFT 104
>1fnf_A Fibronectin; RGD, extracellular matrix, cell adhesion protein;
2.00A {Homo sapiens} SCOP: b.1.2.1 b.1.2.1 b.1.2.1
b.1.2.1 PDB: 1mfn_A 2mfn_A 2ck2_A
Length = 368
Score = 26.3 bits (58), Expect = 4.8
Identities = 11/48 (22%), Positives = 15/48 (31%)
Query: 51 IQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKSIGR 98
I P Q V L PG E +V+++ VK
Sbjct: 36 ITTTPTNGQQGNSLEEVVHADQSSCTFDNLSPGLEYNVSVYTVKDDKE 83
>1i9w_A Fusion protein E1; envelope glycoprotein, membrane fusion, viral
protein; 3.00A {Semliki forest virus} SCOP: b.1.18.4
f.10.1.1 PDB: 2ala_A 1rer_A
Length = 390
Score = 26.1 bits (57), Expect = 5.2
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 3/44 (6%)
Query: 5 LRLKYEPCEQDTLQFQLKIKCTKSASFSHSSHADDMYEKHKVFT 48
L L+Y CE T+ +KC ++ S D + KV+T
Sbjct: 42 LNLEYITCEYKTVVPSPYVKCCGASECSTKEKPD---YQCKVYT 82
>3bvx_A Alpha-mannosidase 2; family 38 glycoysl hydrolase, glycosidase,
golgi apparatus, membrane, signal-anchor, transmembrane;
HET: WZ5; 1.10A {Drosophila melanogaster} SCOP: a.8.3.1
b.30.5.6 c.6.2.1 PDB: 3bud_A 3buq_A* 3bvt_A* 3bui_A*
3bvv_A* 3bvw_A* 3bvu_A* 3cv5_A* 3czn_A* 3czs_A* 2ow6_A*
1r33_A* 1r34_A* 1tqs_A* 1tqt_A* 1tqu_A* 1tqv_A* 1tqw_A*
2alw_A* 2f18_A* ...
Length = 1045
Score = 26.4 bits (57), Expect = 5.2
Identities = 8/60 (13%), Positives = 17/60 (28%), Gaps = 3/60 (5%)
Query: 36 HADDMYEKHKVFTKDIQWVPIGSQGDMYKSSDVGPIHDDILIAKLRPGHEIDVTMFAVKS 95
++ + K K+ Q + + D H ++ +L G V
Sbjct: 141 LGENKKLQMKSIVKNGQLEFVTG---GWVMPDEANSHWRNVLLQLTEGQTWLKQFMNVTP 197
>3n40_F E1 envelope glycoprotein; viral protein, immature heterodimer,
alphavirus, receptor BI membrane fusion; HET: NAG NDG;
2.17A {Chikungunya virus} PDB: 2xfb_A
Length = 393
Score = 26.1 bits (57), Expect = 5.3
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 5 LRLKYEPCEQDTLQFQLKIKCTKSASFSHSSHADDMYEKHKVFT 48
L L Y CE T+ +KC +A + D KVFT
Sbjct: 44 LSLDYITCEYKTVIPSPYVKCCGTAECKDKNLPD---YSCKVFT 84
>2qbw_A PDZ-fibronectin fusion protein; fibronectin PDZ, unknown function;
1.80A {Homo sapiens} PDB: 3ch8_A
Length = 195
Score = 25.7 bits (55), Expect = 6.0
Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 77 IAKLRPGHEIDVTMFAVKSIGRDHAKFSPVAT 108
I+ L+PG + +T++A H SP++
Sbjct: 161 ISGLKPGVDYTITVYAYSDYYGSHHY-SPISI 191
>3j0f_E E1 envelope glycoprotein; alphavirus, virus assembly; 7.00A
{Sindbis virus} PDB: 1ld4_M 1z8y_I
Length = 439
Score = 26.1 bits (57), Expect = 6.0
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 5 LRLKYEPCEQDTLQFQLKIKCTKSASFSHSSHADDMYEKHKVFT 48
+Y C+ T+ KIKC S ++HAD KVF
Sbjct: 42 TNQEYITCKFTTVVPSPKIKCCGSLECQPAAHAD---YTCKVFG 82
>3muu_A Structural polyprotein; beta barrels, IG-like folds, viral protein;
HET: NAG BMA MAN; 3.29A {Sindbis virus} PDB: 3muw_A
3muw_U 1z8y_A 1z8y_B
Length = 750
Score = 25.8 bits (56), Expect = 7.4
Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 5 LRLKYEPCEQDTLQFQLKIKCTKSASFSHSSHADDMYEKHKVFT 48
+Y C+ T+ KIKC S ++HA KVF
Sbjct: 402 TNQEYITCKFTTVVPSPKIKCCGSLECQPAAHAG---YTCKVFG 442
>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone,
hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*
Length = 310
Score = 25.7 bits (57), Expect = 7.6
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 96 IGRDHAKFSPVATAFYRLLPKITLTQEIEGEMAQRLQTMFSP 137
IG+ AK + VA A ++ L + + E+ + M P
Sbjct: 18 IGQADAKRA-VAIALRNRWRRMQLQEPLRHEVTPKNILMIGP 58
>3k6p_A Steroid hormone receptor ERR1; estrogen related receptor alpha,
DNA-binding, isopeptide BON binding, nucleus,
phosphoprotein, transcription; HET: 5FB; 2.00A {Homo
sapiens} PDB: 1xb7_A 2pjl_A* 3d24_A
Length = 248
Score = 25.4 bits (56), Expect = 8.0
Identities = 7/35 (20%), Positives = 15/35 (42%)
Query: 110 FYRLLPKITLTQEIEGEMAQRLQTMFSPGVISIEK 144
RLL + L ++ G++ + G + + K
Sbjct: 203 AGRLLLTLPLLRQTAGKVLAHFYGVKLEGKVPMHK 237
>3n8h_A Pantothenate synthetase; alpha-beta sandwich, ligase, structural
genomics, structural of infectious diseases; HET: MSE
AMP GOL; 2.00A {Francisella tularensis subsp} PDB:
3qtt_A*
Length = 264
Score = 25.2 bits (56), Expect = 9.9
Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 10/48 (20%)
Query: 42 EKHKVFTKDIQWVPIGSQGDMY-----KSSDVGPIHDDILIAKLRPGH 84
V D+ + P S+ D+Y + +IL K RPGH
Sbjct: 85 ASLDV---DVLFNP--SEKDIYPDGNLLRIEPKLEIANILEGKSRPGH 127
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
0.319 0.134 0.391
Gapped
Lambda K H
0.267 0.0841 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,200,169
Number of extensions: 118158
Number of successful extensions: 300
Number of sequences better than 10.0: 1
Number of HSP's gapped: 299
Number of HSP's successfully gapped: 36
Length of query: 152
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 67
Effective length of database: 4,328,508
Effective search space: 290010036
Effective search space used: 290010036
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 (24.0 bits)