RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17977
(362 letters)
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 367 bits (943), Expect = e-115
Identities = 77/391 (19%), Positives = 139/391 (35%), Gaps = 75/391 (19%)
Query: 17 PGIRSNLKRSLATIDEQVFNTHSLEGAWRKMVFGVCFFHAVIQERKKFGPLGWNILYEFN 76
PG+++NL + I + E ++ F + +FHA+IQER ++ PLGW +EFN
Sbjct: 2757 PGVKANLLHTFIGIPATRMDKQPAE--RSRIYFLLAWFHAIIQERLRYIPLGWTKFFEFN 2814
Query: 77 DSDLECALGTLKMYC----------AQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKTI 126
D+DL AL ++ + D IPW A+ G YGGR+ + +D R L +
Sbjct: 2815 DADLRGALDSIDYWVDLYSKGRSNIDPDKIPWIAVRTILGSTIYGGRIDNEFDMRLLYSF 2874
Query: 127 LLTYFGFHTLAPDYVYSASGTYYCPETEECNTLEMYREFVEELPIIEEPEIFGMHDNANI 186
L F PD+ S P E T + +++E LP I P G+ +NA
Sbjct: 2875 LEQLFTPSAFNPDFPLVPSIGLSVP---EGTTRAHFMKWIEALPEISTPIWLGLPENAES 2931
Query: 187 AFQMKETKNVIQTIMEVQPREGGSSEG----------------KSPDELVLEQCDSVIER 230
+ + +I + ++Q E + + +
Sbjct: 2932 LLLSNKARKMINDLQKMQSSEEDGEDDQVSGSSKKESSSSSSEDKGKAKLRATITEWTKL 2991
Query: 231 IKTKIDKDNAHPSL------------LEKGNRTCQV------------------------ 254
+ + + + G + +
Sbjct: 2992 LPKPLKQLKRTTQNIKDPLFRCFEREISTGGKLVKKITNDLANLLELISGNIKSTNYLRS 3051
Query: 255 ------YLIVPKLWSAKCYPSLKSLGSWIKDLALRIDFIAVWLNHG--PPVSFWISGFFF 306
IVPK W P SL WI D + R+ ++ + W+ G
Sbjct: 3052 LTTSISKGIVPKEWKWYSVPETISLSVWISDFSKRMQQLSEISESSDYSSIQVWLGGLLN 3111
Query: 307 PQGFMTGCLQTHARRHDIAIDTLKIDFQMTN 337
P+ ++T Q+ ++ + +++ L++
Sbjct: 3112 PEAYITATRQSASQLNGWSLENLRLHASSLG 3142
Score = 29.9 bits (67), Expect = 1.5
Identities = 5/16 (31%), Positives = 10/16 (62%)
Query: 3 KDTSNTTPLVFVLSPG 18
K+ +++PL+ PG
Sbjct: 2639 KEVKSSSPLLLCSVPG 2654
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 219 bits (560), Expect = 6e-64
Identities = 36/196 (18%), Positives = 65/196 (33%), Gaps = 11/196 (5%)
Query: 17 PGIRSNLKRSLATIDEQVFNTHSLEGAWRKMVFGVCFFHAVIQERKKFGPLGWNILYEFN 76
PGI +K + F F + +FHA+I R + P G++ Y FN
Sbjct: 2504 PGILDTVKDLWGSQF---FTGKISGVWSVYCTFLLSWFHALITARTRLVPHGFSKKYYFN 2560
Query: 77 DSDLECALGTLKMYC---AQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKTILLTYFGF 133
D D + A L+ + + IPW + + YGG++ + D + + F
Sbjct: 2561 DCDFQFASVYLENVLATNSTNNIPWAQVRDHIATIVYGGKIDEEKDLEVVAKLCAHVFCG 2620
Query: 134 ---HTLAPDYVYSASGTYYCPETEECNTLEMYREFVEELPIIEEPEIFGMHDNANIAFQM 190
+ P E EE L P + + + ++
Sbjct: 2621 SDNLQIVPGVRIPQPL-LQQSEEEERARLTAILS-NTIEPADSLSSWLQLPRESILNYER 2678
Query: 191 KETKNVIQTIMEVQPR 206
+ K V + ++
Sbjct: 2679 LQAKEVASSTEQLLQE 2694
>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 = 40.4 bits (94), Expect = 0.001
Identities = 27/139 (19%), Positives = 45/139 (32%), Gaps = 44/139 (31%)
Query: 7 NTTPLVFVLS--P----GIRSNLKRSLATID-EQVFNTHSLEGAWRKMVFGVCF------ 53
N V+S P G+ L+++ A +Q + + RK+ F F
Sbjct: 372 NG-AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ----SRIPFSERKLKFSNRFLPVASP 426
Query: 54 FH--------AVIQERKKFGPLGWN-----I-LYEFND-SDL----ECALGTLKMYCAQD 94
FH +I + + +N I +Y+ D SDL + +
Sbjct: 427 FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL 486
Query: 95 TIPWEALTYT-------FG 106
+ WE T FG
Sbjct: 487 PVKWETTTQFKATHILDFG 505
Score = 34.3 bits (78), Expect = 0.082
Identities = 25/130 (19%), Positives = 43/130 (33%), Gaps = 36/130 (27%)
Query: 5 TSNTTPLVFVLSPGIRSNLKRSLATIDEQVFNTHSL-E--------GAWR-----KMVF- 49
T T P + ++ +LK + F HSL E ++VF
Sbjct: 1729 TQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFY 1788
Query: 50 -GVCFFHAVIQERKKFGPLGWNILYEFNDSDLECAL--GTLKMYCAQDTIPW--EALTYT 104
G+ AV R + G + + A+ G + +Q+ + + E +
Sbjct: 1789 RGMTMQVAV--PRDELGRSNYGM----------IAINPGRVAASFSQEALQYVVERVGKR 1836
Query: 105 FGE----VNY 110
G VNY
Sbjct: 1837 TGWLVEIVNY 1846
Score = 33.1 bits (75), Expect = 0.16
Identities = 64/429 (14%), Positives = 118/429 (27%), Gaps = 175/429 (40%)
Query: 23 LKRSLATIDEQVF----NTHSL--------EGAWRKMVFGV-CFFHAVIQERKKFGPLGW 69
L L E + + H+L + K + + A I ++ F
Sbjct: 84 LNLCLTEF-ENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSN 142
Query: 70 NILYEFNDSDLECALGTLKMYCAQDTIPWEALTYTFGEVNYG-GRVTDYWDQRTLKTILL 128
+ L+ G ++ A FG G G DY+++ L+ +
Sbjct: 143 SALFR------AVGEGNAQLV-AI-----------FG----GQGNTDDYFEE--LRDLYQ 178
Query: 129 TYFGF---------------------------HTL-----------APDYVYSASGTYYC 150
TY L PD Y S C
Sbjct: 179 TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC 238
Query: 151 P--------------ETEECNTLEMYREF------VEELP---IIEEP---EIFGMHDNA 184
P + E+ + L I E E F +
Sbjct: 239 PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESF--FVSV 296
Query: 185 N----IAFQM----KET---KNVIQTIMEVQPREGGSSEGK-SPDELVLEQCDSVIERIK 232
+ F + E ++ +I+E E EG SP L + E+++
Sbjct: 297 RKAITVLFFIGVRCYEAYPNTSLPPSILE-DSLENN--EGVPSP-MLSISNLT--QEQVQ 350
Query: 233 TKIDKDNAH-PSLLEKGNRTCQVYLI------V----PKLWSAKCYPSLKSLGSWIKDLA 281
++K N+H P+ + ++ L+ V P+ SL L ++
Sbjct: 351 DYVNKTNSHLPA-----GKQVEISLVNGAKNLVVSGPPQ--------SLYGLNLTLRKAK 397
Query: 282 L-------RI-------DFIAVWLNHGPPVSFWISGFFFPQGFMTGC---LQTHARRHDI 324
RI F +L PV+ S F + + ++++
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFL----PVA---SPFHSH--LLVPASDLINKDLVKNNV 448
Query: 325 AIDT--LKI 331
+ + ++I
Sbjct: 449 SFNAKDIQI 457
>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 = 36.9 bits (84), Expect = 0.003
Identities = 12/43 (27%), Positives = 16/43 (37%), Gaps = 22/43 (51%)
Query: 59 QERKKFGPLGWNILYEFNDSDLECALGTLKMYCAQDTIPWEAL 101
Q KK L+ +LK+Y A D+ P AL
Sbjct: 20 QALKK----------------LQ---ASLKLY-ADDSAP--AL 40
>1jtp_A Single-domain antibody; immunoglobulin, heavy chain antibody, VHH,
interface, binding, antibody, hydrolase; 1.90A {Camelus
dromedarius} SCOP: b.1.1.1 PDB: 1jto_A 1mel_A 2x89_A
Length = 148
Score = 31.7 bits (73), Expect = 0.14
Identities = 11/36 (30%), Positives = 16/36 (44%)
Query: 90 YCAQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKT 125
YCA D+ + + ++ GG D W Q T T
Sbjct: 95 YCAADSTIYASYYECGHGLSTGGYGYDSWGQGTQVT 130
>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 = 32.5 bits (73), Expect = 0.24
Identities = 38/253 (15%), Positives = 84/253 (33%), Gaps = 64/253 (25%)
Query: 14 VLSPGIRSNLKRSLATIDEQVFN--THSLEGAWRKMVFG-----VCFFH--AVIQERKKF 64
VL P + L+ + T L W ++ V H ++++++ K
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSA-HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 65 GPLGWNILY-EF-----NDSDLECAL----GTLKMYCAQDTIPWEALTYTFGEVNYGGRV 114
+ +Y E N+ L ++ K + + D IP Y + + + +
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483
Query: 115 TDYWDQRTLKTILLTYFGF------HTLAPDYVYSASGTYYCPETEECNTL---EMYREF 165
++ ++ TL ++ F F H T + NTL + Y+ +
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKIRHD----------STAWNASGSILNTLQQLKFYKPY 533
Query: 166 VEELPIIEEPEIFGMHDNANIAFQMK--------ETKNVIQTIMEVQPREGGSSEGKSPD 217
I + + NA + F K + ++++ + + D
Sbjct: 534 -----ICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALM------------AED 576
Query: 218 ELVLEQCDSVIER 230
E + E+ ++R
Sbjct: 577 EAIFEEAHKQVQR 589
Score = 31.7 bits (71), Expect = 0.38
Identities = 45/264 (17%), Positives = 90/264 (34%), Gaps = 92/264 (34%)
Query: 70 NILYEFNDS---DLECALGTLKMYCAQDTIPWEALTYTFGEVNYGGRVTDYWDQ-RTLKT 125
+IL F D+ + +C QD +P L+ E+++ D L
Sbjct: 20 DILSVFEDAFVDNFDC-------KDVQD-MPKSILSKE--EIDHIIMSKDAVSGTLRLFW 69
Query: 126 ILLTY-------FGFHTLAPDYVYSASGTYYCPETEECNTLEM-YREFVEEL-PIIEEPE 176
LL+ F L +Y + S P E M R ++E+ + + +
Sbjct: 70 TLLSKQEEMVQKFVEEVLRINYKFLMS-----PIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 177 IFGMHDNANIAFQMKETKNVIQTIMEVQPRE-------GGSSEGKSPDELVLEQC----- 224
+F + N++ +++ + Q ++E++P + GS GK+ + L+ C
Sbjct: 125 VFAKY---NVS-RLQPYLKLRQALLELRPAKNVLIDGVLGS--GKT--WVALDVCLSYKV 176
Query: 225 -------------------DSVIERIKT---KIDKDNAHPS------------------- 243
++V+E ++ +ID + S
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236
Query: 244 -LLEKGNRTCQVYLIVPKLWSAKC 266
L K C L++ + +AK
Sbjct: 237 LLKSKPYENC--LLVLLNVQNAKA 258
>1rjc_A 1D2L19, camelid heavy chain antibody; beta sandwich, immunoglobulin
fold, protein-protein hetero C alpha-beta orthogonal
bundle, immune system-hydrolase compl; 1.40A {Camelus
dromedarius} SCOP: b.1.1.1 PDB: 1ri8_A 1xfp_A 1jtt_A
2x6m_A 1zmy_A 1f2x_K
Length = 137
Score = 29.0 bits (66), Expect = 1.3
Identities = 11/36 (30%), Positives = 12/36 (33%), Gaps = 5/36 (13%)
Query: 90 YCAQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKT 125
YCA DT W + YW Q T T
Sbjct: 95 YCAADTSTWYRGYCGTNPNYF-----SYWGQGTQVT 125
>3g9a_B Minimizer; antibody complex, chromophore, luminescence,
photoprotein, fluorescent protein/immune system complex,
nanobody; HET: GYS; 1.61A {Lama pacos}
Length = 139
Score = 28.6 bits (65), Expect = 1.7
Identities = 10/36 (27%), Positives = 13/36 (36%), Gaps = 1/36 (2%)
Query: 90 YCAQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKT 125
YCA D+ G + DYW + T T
Sbjct: 96 YCAADSGTQLGYVGAVGLSCLDYVM-DYWGKGTQVT 130
>2wzp_D Camelid VHH5; baseplate, viral protein; 2.60A {Lama glama} PDB:
2bse_D
Length = 123
Score = 27.8 bits (63), Expect = 2.4
Identities = 8/36 (22%), Positives = 12/36 (33%), Gaps = 10/36 (27%)
Query: 90 YCAQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKT 125
YCA + + + + D W Q T T
Sbjct: 95 YCAARSGGFSSNRELY----------DGWGQGTQVT 120
>1wwk_A Phosphoglycerate dehydrogenase; riken structural
genomics/proteomics initiative, RSGI, structural
genomics, oxidoreductase; HET: NAD; 1.90A {Pyrococcus
horikoshii}
Length = 307
Score = 29.0 bits (66), Expect = 2.5
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 7/41 (17%)
Query: 212 EGKSPDELV--LEQCDSVIERIKTKIDKDNAHPSLLEKGNR 250
E D LV ++ +++I R K K+ + ++E +
Sbjct: 31 EYPDEDRLVELVKDVEAIIVRSKPKVTRR-----VIESAPK 66
>1kxt_B Immunoglobulin VHH fragment; alpha 8 beta 8, beta barrel,
hydrolase, immune system; 2.00A {Camelus dromedarius}
SCOP: b.1.1.1
Length = 127
Score = 27.8 bits (63), Expect = 2.7
Identities = 8/37 (21%), Positives = 12/37 (32%), Gaps = 5/37 (13%)
Query: 90 YCAQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKTI 126
YCA + + +YW Q T T+
Sbjct: 94 YCAAGPGSGKLVVAGRTCYGP-----NYWGQGTQVTV 125
>1sfn_A Conserved hypothetical protein; structural genomics, nysgxrc target
T1583, PSI, protein STRU initiative; 2.46A {Deinococcus
radiodurans} SCOP: b.82.1.11
Length = 246
Score = 28.8 bits (64), Expect = 2.7
Identities = 10/70 (14%), Positives = 30/70 (42%), Gaps = 1/70 (1%)
Query: 134 HTLAP-DYVYSASGTYYCPETEECNTLEMYREFVEELPIIEEPEIFGMHDNANIAFQMKE 192
TL DYVY +G + + + ++ + + + ++ P ++ ++ N + +
Sbjct: 88 RTLREYDYVYLPAGEKHMLTAKTDARVSVFEKPYQTVEGVQAPGVYWGNERENPGYPFEG 147
Query: 193 TKNVIQTIME 202
++I +
Sbjct: 148 DDHLIARKLL 157
>2d0i_A Dehydrogenase; structural genomics, NPPSFA, national project
protein structural and functional analyses; 1.95A
{Pyrococcus horikoshii}
Length = 333
Score = 28.7 bits (65), Expect = 2.9
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 7/41 (17%)
Query: 212 EGKSPDELV--LEQCDSVIERIKTKIDKDNAHPSLLEKGNR 250
S +EL + + D +I TKI ++ +LE R
Sbjct: 29 LYPSGEELKGVIGRFDGIIVSPTTKITRE-----VLENAER 64
>3r0m_A Llama VHH A12; IG domain, immune system; 1.50A {Lama glama} PDB:
3rjq_B* 1g9e_A 1hcv_A 1shm_A 3qxw_A 3qxv_A
Length = 143
Score = 27.5 bits (62), Expect = 4.3
Identities = 9/36 (25%), Positives = 9/36 (25%), Gaps = 6/36 (16%)
Query: 90 YCAQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKT 125
YCA P Y W Q T T
Sbjct: 95 YCAAKWRPLRYSDY------PSNSDYYDWGQGTQVT 124
>1ygy_A PGDH, D-3-phosphoglycerate dehydrogenase; oxidoreductase, serine
biosy structural genomics, PSI, protein structure
initiative; HET: TAR; 2.30A {Mycobacterium tuberculosis}
SCOP: c.2.1.4 c.23.12.1 d.58.18.1 d.81.2.2 PDB: 3dc2_A*
3ddn_A*
Length = 529
Score = 28.4 bits (64), Expect = 4.5
Identities = 8/41 (19%), Positives = 19/41 (46%), Gaps = 7/41 (17%)
Query: 212 EGKSPDEL--VLEQCDSVIERIKTKIDKDNAHPSLLEKGNR 250
+G D+L + + D+++ R T +D + +L +
Sbjct: 31 DGPDRDKLLAAVPEADALLVRSATTVDAE-----VLAAAPK 66
>2x1q_A Gelsolin nanobody; contractIle protein; 1.06A {Lama glama} PDB:
2x1p_A 2xa3_A 3k7u_A 3sn6_N* 3stb_A 2x1o_A 3k80_A 1ol0_A
1u0q_A 1qd0_A* 3ezj_B 3p0g_B* 1mvf_A 1t2j_A
Length = 127
Score = 26.6 bits (60), Expect = 6.4
Identities = 11/36 (30%), Positives = 14/36 (38%), Gaps = 6/36 (16%)
Query: 90 YCAQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKT 125
YCA + + + EV DYW Q T T
Sbjct: 95 YCAASSRVF------YTEVLQTTTGYDYWGQGTQVT 124
>3k3q_A Llama AA1 VHH domain; llama, VHH, antibody, BONT, cell junction,
cell membrane, cytoplasm, disulfide bond, hydrolase;
2.60A {Lama glama}
Length = 151
Score = 26.5 bits (59), Expect = 9.0
Identities = 10/37 (27%), Positives = 13/37 (35%), Gaps = 7/37 (18%)
Query: 90 YCAQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKTI 126
YCA D + D+W Q TL T+
Sbjct: 109 YCAADEDVTPRVMGVIPHA-------DHWGQGTLVTV 138
>3eak_A NBBCII10-FGLA; antibody, nanobody, humanization, VHH domain, immune
system; 1.95A {Camelus dromedarius}
Length = 137
Score = 26.3 bits (59), Expect = 9.2
Identities = 10/37 (27%), Positives = 13/37 (35%), Gaps = 8/37 (21%)
Query: 90 YCAQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKTI 126
YCA + L + YW Q TL T+
Sbjct: 98 YCAAVRGYFMRLPSSHN--------FRYWGQGTLVTV 126
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
0.321 0.137 0.430
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,701,125
Number of extensions: 343718
Number of successful extensions: 716
Number of sequences better than 10.0: 1
Number of HSP's gapped: 707
Number of HSP's successfully gapped: 26
Length of query: 362
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 267
Effective length of database: 4,049,298
Effective search space: 1081162566
Effective search space used: 1081162566
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 (26.3 bits)