RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13259
(345 letters)
>2exn_A Hypothetical protein BOR11; beta barrel containing fold,
autostructure, autoassign, structure, structural
genomics, PSI; NMR {Bordetella bronchiseptica} SCOP:
b.165.1.1
Length = 136
Score = 68.7 bits (168), Expect = 2e-14
Identities = 15/129 (11%), Positives = 40/129 (31%), Gaps = 21/129 (16%)
Query: 37 VSKLLIYPLKSGYYKELDCANCQLRGMEQIPSLSQEYILRDRNFVLFDKSKEKFITAKCY 96
+S P+ Q E + +++ + +++
Sbjct: 1 MSTTAYQPIAE------------CGATTQ-----SEAAAYQKRWLVAN-DAGQWLNRDLC 42
Query: 97 EQLVLVEMSVKDEETVEFNIRHDITPALVINVNKVRSKAQLKSFKMHFNEVVKAFDCGDE 156
+L V + ++ V ++ L I ++ + ++ + + V D G+
Sbjct: 43 PRLAEVSVELRMGYLV---LKAPGMLRLDIPLDVIEDDDSVRYQMLVGEQTVDVVDEGEL 99
Query: 157 ASDWFSMFL 165
A+ W S
Sbjct: 100 AAAWISNHA 108
>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 = 37.9 bits (87), Expect = 0.005
Identities = 40/272 (14%), Positives = 81/272 (29%), Gaps = 88/272 (32%)
Query: 26 ELPERWT-----AIGRVSKLLI-YPLKSGYYKELDCANCQLRGMEQIPSLS----QEYIL 75
+LP + +++ + +K ++C + I S +
Sbjct: 317 DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK-----LTTIIESSLNVLEPAEY 371
Query: 76 RDR--NFVLFDKSKEKFITAKCYE-----------QLVLVEMSVK---DEETVEFNIR-H 118
R +F S I +V+ ++ +++ E I
Sbjct: 372 RKMFDRLSVFPPSAH--IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP 429
Query: 119 DITPALVINVNKVRSKAQL-KSFKMHFNEVVKAFDCGDEASDW----------------- 160
I L + K+ ++ L +S H+N + K FD D +
Sbjct: 430 SIYLELKV---KLENEYALHRSIVDHYN-IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE 485
Query: 161 -------FSM------FLLNK-----TNRNIRLGMCCD------YKRTIANSWDSYTQVY 196
F M FL K T N + YK I ++ Y ++
Sbjct: 486 HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545
Query: 197 NLLSD------EDT--GRFSDITSYMIVNEES 220
N + D E+ +++D+ ++ E+
Sbjct: 546 NAILDFLPKIEENLICSKYTDLLRIALMAEDE 577
Score = 36.4 bits (83), Expect = 0.014
Identities = 54/401 (13%), Positives = 100/401 (24%), Gaps = 151/401 (37%)
Query: 1 MASAG----ALVVGYLYWYRQLQYKRPKYELPER--WTAIGRVSK--LLIYPLKSGYYKE 52
+ +G AL V + + ++ + W + + ++ L+ Y+
Sbjct: 158 VLGSGKTWVALDV--------CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ- 208
Query: 53 LDCANCQL-RGMEQIPSLSQEYILRDRNFVLFDKSKEKFITAKCYEQLVLVEMSVKDEET 111
+D I R L K E C LVL
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRL-LKSKPYEN-----CL--LVL------LN-- 252
Query: 112 VEFNIRHDITPALVINVNKVRSKAQLKSFKMHFNEVVKAFD--C---------------- 153
V++ + AF+ C
Sbjct: 253 -------------------VQNA-----------KAWNAFNLSCKILLTTRFKQVTDFLS 282
Query: 154 -----------------GDEASDWFSMFLLNKTNR--------N-IRLGMCCDYKRTIAN 187
DE +L + N RL + + R
Sbjct: 283 AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA 342
Query: 188 SWDSYTQVYNLLSDEDTGRFSDITSYMIVNEESVNDLNTRVTCGEKFTSYH----FRPNI 243
+WD++ V + + + I E S+N L E + F P+
Sbjct: 343 TWDNWKHV-------NCDKLTTI------IESSLNVLEP----AEYRKMFDRLSVFPPS- 384
Query: 244 VVKNCIPYE--EDTWDWMKIGDAIFRVVKPCTRCIAITFNPETAVKNPAL-----EPIRT 296
IP W + D + V K + E+ + P++ +
Sbjct: 385 -AH--IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN 441
Query: 297 LRT-YRRLGDIDH----KAKHLEGHSPVMG---VYAGL-YH 328
+R + +DH K + P Y+ + +H
Sbjct: 442 EYALHRSI--VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH 480
Score = 35.6 bits (81), Expect = 0.025
Identities = 48/340 (14%), Positives = 94/340 (27%), Gaps = 110/340 (32%)
Query: 41 LIYPLKSGYYKELDCANCQ--LRG----------MEQIPSLSQEYILRDRNFVLFDKSKE 88
++ + + DC + Q + + ++S L L K +E
Sbjct: 21 ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW---TLLSKQEE 77
Query: 89 ---KFIT---AKCYEQL---VLVEMSVKDEETVEFNIRHDITPALVINVNKVRSKAQLKS 139
KF+ Y+ L + E T + + D N N+V +K +
Sbjct: 78 MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL----YNDNQVFAKYNVSR 133
Query: 140 FKMHFNEVVKAFDCGDEASDWFSMFLLN-KTNRNIRL-GM------------CCDYKRTI 185
+ + ++ +A LL + +N+ + G+ C YK
Sbjct: 134 LQPY-LKLRQA--------------LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC 178
Query: 186 ANS----W----------DSYTQVYNLLS--DEDTGRFSDITSYMIVNEESVNDLNTRVT 229
W + LL D + SD +S + + S+ R+
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 230 CGEKFTSYHFRPNIVVKNCIPYEEDTWDWMKIGDAIFRVVKPCTRCIAITFNPETAVKNP 289
+ + +NC+ + + K +A F + C
Sbjct: 239 KSKPY-----------ENCLLVLLNVQNA-KAWNA-FNL-----SC-------------- 266
Query: 290 ALEPIRTLRTYRRLGDIDHKAKHLEGHSPVMGVYAGLYHP 329
+ L T R D + H + L
Sbjct: 267 -----KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301
Score = 30.6 bits (68), Expect = 0.97
Identities = 26/123 (21%), Positives = 40/123 (32%), Gaps = 39/123 (31%)
Query: 10 GYLYWYRQLQYKRPKYELPERWTAIGRVSKLLIYPLKSGYYKELDCANCQLRGMEQ---- 65
Y Y + + + E PER T ++ LD R +EQ
Sbjct: 471 QYFYSH--IGHHLKNIEHPERMTLFRM-----VF---------LD-----FRFLEQKIRH 509
Query: 66 --IPSLSQEYILRDRNFVLFD-KSKEKFITAKC--YEQLV--LVEMSVKDEETVEFNIRH 118
+ IL L K + +I YE+LV +++ K EE + I
Sbjct: 510 DSTAWNASGSILNT----LQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL---ICS 562
Query: 119 DIT 121
T
Sbjct: 563 KYT 565
>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 = 33.9 bits (77), Expect = 0.10
Identities = 32/162 (19%), Positives = 52/162 (32%), Gaps = 47/162 (29%)
Query: 47 SGYYKELDCANCQLRGMEQIPSLSQEYILRDRNFVLFDKSKEKF------ITAKCYEQLV 100
SG + L N LR + L Q R + F + K KF + + + L
Sbjct: 380 SGPPQSLYGLNLTLRKAKAPSGLDQ-----SR--IPFSERKLKFSNRFLPVASPFHSHL- 431
Query: 101 L---VEMSVKD--EETVEF----------------NIRH---DITPALV--INVNKVRSK 134
L ++ KD + V F ++R I+ +V I V+ +
Sbjct: 432 LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWE 491
Query: 135 AQLKSFKMHFNEVVKAFDCG-DEASDWFSMFLLNKTNRNIRL 175
+ H D G AS + NK +R+
Sbjct: 492 TTTQFKATHI------LDFGPGGASGLGVLTHRNKDGTGVRV 527
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 31.4 bits (71), Expect = 0.55
Identities = 20/116 (17%), Positives = 39/116 (33%), Gaps = 22/116 (18%)
Query: 107 KDEETVEFNIRHDITPALVINVNKVRSKAQLKSFKMHFNEVVKAFDCGDEASDWFSMFLL 166
K E E + D+ P SK + FK + V F+ + +
Sbjct: 919 KKEMIQEVIVEEDLEPF-------EASKETAEQFKHQHGDKVDIFEIPETGEYSVKL--- 968
Query: 167 NKTNRNIRLGMCCDYKRTIA----NSWD--SYTQVYNLLSDEDTGRFSDITSYMIV 216
+ + + R +A W+ +Y +SD+ + IT +++V
Sbjct: 969 -LKGATLYIPKALRFDRLVAGQIPTGWNAKTY-----GISDDIISQVDPITLFVLV 1018
>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 = 30.3 bits (67), Expect = 0.57
Identities = 10/40 (25%), Positives = 14/40 (35%), Gaps = 14/40 (35%)
Query: 88 EKFITAKCYEQLVLVEMSVKDEETVEFNIRHDITPALVIN 127
EK + L ++ S+K D PAL I
Sbjct: 18 EK-------QALKKLQASLKLYAD-------DSAPALAIK 43
>3l0g_A Nicotinate-nucleotide pyrophosphorylase; ssgcid, NIH, niaid, SBRI,
UW, emerald biostructures, ALS collaborative
crystallography; 2.05A {Ehrlichia chaffeensis}
Length = 300
Score = 30.2 bits (69), Expect = 0.87
Identities = 19/75 (25%), Positives = 29/75 (38%), Gaps = 11/75 (14%)
Query: 201 DEDTGRFSDITSYMIVNEESVN-DLNTR---VTCGEKFTSYHFR---PNIVVKNCIPYEE 253
ED G DIT+ I+ E VN +NTR V CG F ++ + +++
Sbjct: 35 KEDLGDKGDITTNSILINEKVNFAINTRENLVVCGIPILEEVFNMNKEHVKYE---IHKK 91
Query: 254 DTWDWMKIGDAIFRV 268
D D +
Sbjct: 92 DG-DITGKNSTLVSG 105
>1fo0_A Protein (BM3.3 T cell receptor alpha-chain); class I MHC, H-2KB,
TCR-PMHC complex, immune system; 2.50A {Mus musculus}
SCOP: b.1.1.1 PDB: 1nam_A*
Length = 116
Score = 28.8 bits (65), Expect = 1.2
Identities = 4/15 (26%), Positives = 8/15 (53%)
Query: 11 YLYWYRQLQYKRPKY 25
+L+WY+Q +
Sbjct: 32 FLFWYKQTASGEIVF 46
>1lp9_E T-cell receptor alpha chain; immunoregulatory complex, class I
MHC:TCR CO-crystal, immune; 2.00A {Mus musculus} SCOP:
b.1.1.1 b.1.1.2 PDB: 2j8u_E 2jcc_E 2uwe_E 1nfd_A*
Length = 194
Score = 28.8 bits (64), Expect = 1.8
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 11 YLYWYRQLQYKRPKY 25
+L+WY Q + PK
Sbjct: 32 FLFWYVQHLNEAPKL 46
>3tjh_C 42F3 alpha; IG MHC, antigen recognition, TCR-PMHC, membrane
receptor, IM system; 2.12A {Mus musculus} PDB: 3tpu_A
3tfk_C 1j8h_D* 1fyt_D* 3rev_A 1mwa_A* 1g6r_A* 1tcr_A*
2ckb_A 1zgl_M 3c5z_A 1i9e_A* 2oi9_B 2e7l_A 2icw_I
3e2h_B 3e3q_D
Length = 226
Score = 28.8 bits (64), Expect = 1.9
Identities = 5/15 (33%), Positives = 8/15 (53%)
Query: 11 YLYWYRQLQYKRPKY 25
YL+WY Q + +
Sbjct: 40 YLFWYVQYPRQGLQM 54
>2ol3_A BM3.3 T-cell receptor alpha-chain; T cell receptor, class I MHC,
H-2KBM8, TCR-PMHC complex, IMM system; HET: NAG; 2.90A
{Mus musculus} SCOP: b.1.1.1
Length = 142
Score = 28.5 bits (64), Expect = 1.9
Identities = 4/15 (26%), Positives = 8/15 (53%)
Query: 11 YLYWYRQLQYKRPKY 25
+L+WY+Q +
Sbjct: 32 FLFWYKQTASGEIVF 46
>1kgc_D T-cell receptor alpha chain; LC13 clone, immune system; 1.50A
{Homo sapiens} SCOP: b.1.1.1 b.1.1.2 PDB: 1mi5_D 3kpr_D
3kps_D 3o6f_C 3t0e_C 3pqy_D 2esv_D 3dxa_D 3dx9_A
Length = 206
Score = 28.8 bits (64), Expect = 2.0
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 11 YLYWYRQLQYKRPKY 25
Y++WYRQL + P+Y
Sbjct: 31 YIHWYRQLPSQGPEY 45
>4ei6_A Valpha1 XV19 type II natural killer T cell recept variable
domain, human constant...; natural killer T cell
receptor, immune system; 1.60A {Mus musculus} PDB:
4ei5_C 4elk_A 4elm_E* 3qeu_A 1ao7_D 3qdj_D 3qdg_D
3qfj_D 1qsf_D 1qse_D* 3d39_D* 3d3v_D* 3h9s_D 3pwp_D
2gj6_D 3utp_D* 3uts_D 1qrn_D 3hg1_D 3rdt_A ...
Length = 208
Score = 28.8 bits (64), Expect = 2.2
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 11 YLYWYRQLQYKRPKY 25
Y +WYRQ + PK
Sbjct: 33 YFWWYRQHSGEGPKA 47
>3c6l_A TCR 2W20 alpha chain; TCR-PMHC complex; 3.40A {Mus musculus}
SCOP: b.1.1.1 b.1.1.2
Length = 185
Score = 28.7 bits (64), Expect = 2.2
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 11 YLYWYRQLQYKRPKY 25
Y WY Q + P
Sbjct: 31 YFPWYHQFPGESPAL 45
>2q86_A Valpha14 TCR; INKT cells, TCR, glycolipid recognition, innate
immunity, IM system; HET: NAG BMA MAN FUC; 1.85A {Mus
musculus} PDB: 3quy_C* 3o9w_C* 3qux_C* 3o8x_C* 3quz_C*
3rtq_C* 3rzc_C* 3ta3_C* 3tvm_C* 3qi9_C* 3ard_C* 3are_C*
3arf_C* 3arg_C* 3he6_C* 3he7_C* 3arb_C* 3scm_C* 3sda_C*
3sdc_C* ...
Length = 229
Score = 28.9 bits (64), Expect = 2.3
Identities = 5/15 (33%), Positives = 7/15 (46%)
Query: 11 YLYWYRQLQYKRPKY 25
+L WY+Q K
Sbjct: 32 HLRWYKQDTGKGLVL 46
>2ak4_D SB27 T cell receptor alpha chain; bulged epitopes, PMHC/TCR
complex, immune system; 2.50A {Homo sapiens} SCOP:
b.1.1.1 b.1.1.2 PDB: 3kxf_D 3nfj_I 3ffc_D
Length = 211
Score = 28.5 bits (63), Expect = 2.5
Identities = 5/15 (33%), Positives = 8/15 (53%)
Query: 11 YLYWYRQLQYKRPKY 25
YL+WY+Q +
Sbjct: 35 YLFWYKQPPSGELVF 49
>3rgv_A YAE62 TCR A chain; TCR, MHC, MHC class I, immune system; 2.90A
{Mus musculus} PDB: 3c60_A
Length = 200
Score = 28.4 bits (63), Expect = 2.6
Identities = 5/15 (33%), Positives = 8/15 (53%)
Query: 11 YLYWYRQLQYKRPKY 25
L+WY Q + P+
Sbjct: 31 TLFWYVQYSGEGPQL 45
>3gsn_A RA14 TCR alpha chain (TRAV24, TRAJ49); HLA, human
cytomegalovirus, PP65, T cell receptor (TCR), immune
response, public response; 2.80A {Homo sapiens}
Length = 199
Score = 28.4 bits (63), Expect = 2.6
Identities = 6/15 (40%), Positives = 8/15 (53%)
Query: 11 YLYWYRQLQYKRPKY 25
L+WYR K P+
Sbjct: 31 ALHWYRWETAKSPEA 45
>2nw2_A ELS4 TCR alpha chain; T cell receptor, immune system; 1.40A {Homo
sapiens} PDB: 2nx5_D 4dzb_A
Length = 200
Score = 28.3 bits (63), Expect = 2.7
Identities = 5/15 (33%), Positives = 9/15 (60%)
Query: 11 YLYWYRQLQYKRPKY 25
L+WY+Q + P +
Sbjct: 30 GLFWYQQHAGEAPTF 44
>1h5b_A Murine T cell receptor (TCR) valpha domain; immune response,
immunoglobulin fold; 1.85A {Mus musculus} SCOP: b.1.1.1
PDB: 1h5b_C 1h5b_B
Length = 113
Score = 27.2 bits (61), Expect = 3.0
Identities = 3/15 (20%), Positives = 5/15 (33%)
Query: 11 YLYWYRQLQYKRPKY 25
+ W+RQ
Sbjct: 31 SVQWFRQNSRGSLIS 45
>1ymm_D T cell receptor alpha chain; protein-protein complex, T cell
repertoire, auto-immunity, I system; HET: NAG; 3.50A
{Homo sapiens} SCOP: b.1.1.1
Length = 207
Score = 28.5 bits (63), Expect = 3.0
Identities = 5/15 (33%), Positives = 7/15 (46%)
Query: 11 YLYWYRQLQYKRPKY 25
L WYRQ + +
Sbjct: 31 NLQWYRQNSGRGLVH 45
>2bnu_A TCR alpha chain, T-cell receptor alpha chain C region;
superagonist peptide T-cell vaccines, transmembrane,
immunoglobulin domain; 1.40A {Homo sapiens} PDB: 2bnq_D
2bnr_D 2f54_D 2pyf_A* 2pye_D* 2f53_D 2p5e_D* 2p5w_D*
3mv7_D 3mv8_D 3mv9_D 3utt_D 2cdg_A
Length = 203
Score = 28.4 bits (63), Expect = 3.1
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 11 YLYWYRQLQYKRPKY 25
L W+RQ K
Sbjct: 31 NLQWFRQDPGKGLTS 45
>2i24_N NEW antigen receptor PBLA8; immunoglobulin fold, immune system;
1.35A {Ginglymostoma cirratum} PDB: 2i25_N 2i27_N
2i26_N
Length = 121
Score = 27.3 bits (61), Expect = 3.1
Identities = 6/24 (25%), Positives = 9/24 (37%)
Query: 2 ASAGALVVGYLYWYRQLQYKRPKY 25
V+ YWYR+ R +
Sbjct: 24 VRDSRCVLSTGYWYRKPPGSRNEE 47
>2eys_A NKT15; natural killer T cell receptor, immune system; 2.21A {Homo
sapiens} PDB: 2eyr_A 2eyt_A 3huj_E* 3tyf_A 3tzv_A*
3sdx_E* 2po6_C* 2cde_A 3to4_C*
Length = 210
Score = 28.1 bits (62), Expect = 3.3
Identities = 5/15 (33%), Positives = 7/15 (46%)
Query: 11 YLYWYRQLQYKRPKY 25
L WY+Q + P
Sbjct: 34 NLRWYKQDTGRGPVS 48
>1oga_D T-cell receptor alpha chain V region, beta-2-microglobulin;
immune system/receptor, immune system/receptor/complex,
TCR, MHC, immunodominance, FLU, complex; 1.40A {Homo
sapiens} SCOP: b.1.1.1 b.1.1.2 PDB: 2xna_A 2xn9_A
2vlm_D 2vlk_D 2vlj_D 2vlr_D 2cdf_A 2wbj_C* 3qdm_D
3qeq_D
Length = 215
Score = 28.0 bits (62), Expect = 4.0
Identities = 6/15 (40%), Positives = 7/15 (46%)
Query: 11 YLYWYRQLQYKRPKY 25
L WYRQ + P
Sbjct: 31 SLQWYRQEPGEGPVL 45
>3moq_A NEW antigen receptor variable domain, P3(40) PEPT amyloid beta A4
protein; AB-ignar, AB-12Y-2, glycoprotein, membran
protease inhibitor; 2.05A {Orectolobus maculatus} PDB:
2z8w_C 2z8v_C 1ves_A 1ver_A
Length = 126
Score = 27.4 bits (61), Expect = 4.1
Identities = 3/24 (12%), Positives = 6/24 (25%)
Query: 2 ASAGALVVGYLYWYRQLQYKRPKY 25
+ + WYR +
Sbjct: 24 LRDASFELKDTGWYRTKLGSTNEQ 47
>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 = 27.7 bits (61), Expect = 4.3
Identities = 13/60 (21%), Positives = 17/60 (28%), Gaps = 23/60 (38%)
Query: 217 NEESVNDLNTRVTCGE-KFTSYHFRPNIVVKNCIPYEEDTWDWMKIGDAIFRVVKPCTRC 275
+LN +TC E K + P IV GD + C C
Sbjct: 11 AGRRGPNLNIVLTCPECK----VYPPKIV------ERFSE------GDVV------CALC 48
Score = 27.3 bits (60), Expect = 5.4
Identities = 8/46 (17%), Positives = 16/46 (34%), Gaps = 7/46 (15%)
Query: 35 GRVSKLLIYPLKSGYYKELDCANCQLRGMEQIPSLSQEYILRDRNF 80
++ G ++ CA C L +++ E+ R F
Sbjct: 28 KVYPPKIVERFSEG---DVVCALCGLVLSDKLVDTRSEW----RTF 66
>3qjh_A 5C.C7 alpha chain; immunoglobulin domain, T cell receptor, immune
system; 1.90A {Mus musculus} PDB: 3qiu_C* 3qiw_C*
3qjf_A 3qib_C 2ial_A 2iam_C 2ian_D 3rug_E* 3axl_A
Length = 205
Score = 27.7 bits (61), Expect = 4.3
Identities = 2/15 (13%), Positives = 5/15 (33%)
Query: 11 YLYWYRQLQYKRPKY 25
+ W+R+
Sbjct: 33 AVQWFRKNSRGSLIN 47
>1f3r_B FV antibody fragment; IG-fold, immuno complex, antibody-antigen,
beta-turn, immune system; HET: NLE; NMR {Rattus
norvegicus} SCOP: b.1.1.1 b.1.1.1
Length = 257
Score = 27.8 bits (62), Expect = 4.6
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 18/49 (36%)
Query: 3 SAGALVVGYLYWYRQLQYKRPKYELPERWTAIGRVSKLLIYP---LKSG 48
+ YL WY+Q + P KLLIY L++G
Sbjct: 162 KGSQNINNYLAWYQQKLGEAP---------------KLLIYNTNSLQTG 195
>3qib_D 2B4 beta chain; IG domain, immune system; HET: NAG FUC BMA; 2.70A
{Mus musculus}
Length = 270
Score = 27.7 bits (61), Expect = 5.3
Identities = 4/14 (28%), Positives = 8/14 (57%)
Query: 11 YLYWYRQLQYKRPK 24
++WY+Q + K
Sbjct: 57 VVFWYQQNKNNEFK 70
>1oga_E TRBC1, T-cell receptor beta chain C region; immune
system/receptor, immune system/receptor/complex, TCR,
MHC, immunodominance, FLU, complex; 1.40A {Homo
sapiens} SCOP: b.1.1.1 b.1.1.2 PDB: 2vlm_E 2vlk_E
2vlj_E 2vlr_E 2xna_B 2xn9_B 2axh_A 2axj_A 3scm_D*
3sda_D* 3sdc_D* 3sdd_D* 3qi9_D* 3mff_B* 2ak4_E 3he7_D*
2eyr_B 3pqy_E 3kxf_E 2cde_B ...
Length = 252
Score = 27.7 bits (61), Expect = 5.4
Identities = 10/61 (16%), Positives = 20/61 (32%), Gaps = 15/61 (24%)
Query: 11 YLYWYRQLQYKRPKY-------------ELPERWTAIGRVSKLLIYPLKSGYYKELDCAN 57
+YWYRQ + + ++ E ++ K +PL ++ A
Sbjct: 33 AMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAEGYSVSR--EKKESFPLTVTSAQKNPTAF 90
Query: 58 C 58
Sbjct: 91 Y 91
>1tvd_A T cell receptor, ES204 V delta; immunoreceptor, TCR, delta chain,
variable domain; 1.90A {Homo sapiens} SCOP: b.1.1.1
Length = 116
Score = 26.5 bits (59), Expect = 6.2
Identities = 4/15 (26%), Positives = 7/15 (46%)
Query: 11 YLYWYRQLQYKRPKY 25
L+WYR ++
Sbjct: 32 DLFWYRIRPDYSFQF 46
>3pl6_D MBP peptide / T-cell receptor beta chain chimera; TCR-MHC
complex, immunoglobulin fold, immune receptor, membr
immune system; HET: NAG; 2.55A {Homo sapiens}
Length = 268
Score = 27.3 bits (60), Expect = 6.3
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 11 YLYWYRQLQYKRPK 24
LYWYRQ + P+
Sbjct: 56 ALYWYRQSLGQGPE 69
>3q5y_A TCR N15 beta; IG, T cell receptor, antigen peptide/MHC, membrane,
immune S; HET: EPE; 1.90A {Mus musculus} PDB: 1nfd_B*
3q5t_A
Length = 240
Score = 27.3 bits (60), Expect = 6.4
Identities = 5/14 (35%), Positives = 7/14 (50%)
Query: 11 YLYWYRQLQYKRPK 24
+ WY+Q K K
Sbjct: 32 NVVWYQQTLGKELK 45
>3nfj_J T cell receptor beta chain; immunoglobulin family, immune system;
2.68A {Homo sapiens} PDB: 3hg1_E
Length = 245
Score = 27.5 bits (61), Expect = 6.6
Identities = 10/42 (23%), Positives = 13/42 (30%), Gaps = 15/42 (35%)
Query: 11 YLYWYRQLQYKRPKYELPERWTAIGRVSKLLIYPLKSGYYKE 52
LYWYRQ + +LL Y + G
Sbjct: 32 NLYWYRQAAGRGL---------------QLLFYSVGIGQISS 58
>4ei6_B Vbeta16 XV19 type II natural killer T cell recept variable
domain, human constant...; natural killer T cell
receptor, immune system; 1.60A {Mus musculus} PDB:
4ei5_D 4elk_B 4elm_F* 2esv_E 3ffc_E 3utt_E 3utp_E*
3uts_E 3qjf_B 3qjh_B 3qiw_D* 3qiu_D
Length = 245
Score = 27.3 bits (60), Expect = 7.3
Identities = 5/14 (35%), Positives = 10/14 (71%)
Query: 11 YLYWYRQLQYKRPK 24
Y YWY+Q+ ++ +
Sbjct: 32 YFYWYKQILGQQME 45
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
0.322 0.137 0.425
Gapped
Lambda K H
0.267 0.0551 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,362,788
Number of extensions: 313343
Number of successful extensions: 685
Number of sequences better than 10.0: 1
Number of HSP's gapped: 679
Number of HSP's successfully gapped: 43
Length of query: 345
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 251
Effective length of database: 4,077,219
Effective search space: 1023381969
Effective search space used: 1023381969
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 (21.9 bits)
S2: 58 (26.5 bits)